Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 100 of 144
Found at i:30568018 original size:755 final size:755
Alignment explanation
Indices: 30566568--30568077 Score: 3002
Period size: 755 Copynumber: 2.0 Consensus size: 755
30566558 GGAGGGAGAG
*
30566568 CAATACAAGTAGAAGTTGAAGAGGGGTTGAAGTTGAATGAAGGTTTTTTGAGAGCATCGCCATTG
1 CAATACAAGTAGAAGTTGAAGAGGGGTTGAAGTTGAATGAAGGTTTTTCGAGAGCATCGCCATTG
30566633 TTGAGAGGAAAATGGCGATGATGTTGGACAATGAATTGTGCTGCTTAAGCTTAGGTAGAGAGAGA
66 TTGAGAGGAAAATGGCGATGATGTTGGACAATGAATTGTGCTGCTTAAGCTTAGGTAGAGAGAGA
30566698 GGATCCATTCTCAAGATTAGCTAAGATGGGAAGCCTCAAGTGTTTTTTGGGTTTTGTTTCAGCTC
131 GGATCCATTCTCAAGATTAGCTAAGATGGGAAGCCTCAAGTGTTTTTTGGGTTTTGTTTCAGCTC
30566763 TGGATGCCGAGAAGGCATTAAATACAAGTGCAAATGAAGTGACCACCAGAATGTTCCTTGGATTA
196 TGGATGCCGAGAAGGCATTAAATACAAGTGCAAATGAAGTGACCACCAGAATGTTCCTTGGATTA
30566828 TTTGTTTTCAACCTAAAATTTTTCTCTCGGCAAAAAGAAAAACCATAAAATTTTGGATAAACATG
261 TTTGTTTTCAACCTAAAATTTTTCTCTCGGCAAAAAGAAAAACCATAAAATTTTGGATAAACATG
30566893 AAAAAGTATATTATCAAAGTTATTTATAAAATAAAAAATTGAATTCAATCTGAATACTTTATTTT
326 AAAAAGTATATTATCAAAGTTATTTATAAAATAAAAAATTGAATTCAATCTGAATACTTTATTTT
30566958 TATATTAAATAAATTAATTTTGCATGTTAAAACTTTTTATAGGTTCGTGGAATGCAACACTAGGA
391 TATATTAAATAAATTAATTTTGCATGTTAAAACTTTTTATAGGTTCGTGGAATGCAACACTAGGA
30567023 TTTATATTATTATATTTTAAAATGAGATTACGATGTTTGGATTATCAATATTTCAGTCATCTTGT
456 TTTATATTATTATATTTTAAAATGAGATTACGATGTTTGGATTATCAATATTTCAGTCATCTTGT
30567088 AATATCATATTACGAAATAATGCCAAGATACTGTAATCTCATTTCAGCTAATTCCTTAGGTTATC
521 AATATCATATTACGAAATAATGCCAAGATACTGTAATCTCATTTCAGCTAATTCCTTAGGTTATC
30567153 TTAGATTGCATGTGTAATCTTAAATATTGGACCAATTTACCTTTTGTTTTTATTATTTTAATCAA
586 TTAGATTGCATGTGTAATCTTAAATATTGGACCAATTTACCTTTTGTTTTTATTATTTTAATCAA
30567218 TTTAGGTTTTTTCTGTCATAAAGTTTAAGACTAATTAAAAATAAAAAATATTTTTTTCTTAATAG
651 TTTAGGTTTTTTCTGTCATAAAGTTTAAGACTAATTAAAAATAAAAAATATTTTTTTCTTAATAG
30567283 TGAACCAATAGATGTCATAAATTACATTTATATTTATTAT
716 TGAACCAATAGATGTCATAAATTACATTTATATTTATTAT
30567323 CAATACAAGTAGAAGTTGAAGAGGGGTTGAAGTTGAATGAAGGTTTTTCGAGAGCATCGCCATTG
1 CAATACAAGTAGAAGTTGAAGAGGGGTTGAAGTTGAATGAAGGTTTTTCGAGAGCATCGCCATTG
30567388 TTGAGAGGAAAATGGCGATGATGTTGGACAATGAATTGTGCTGCTTAAGCTTAGGTAGAGAGAGA
66 TTGAGAGGAAAATGGCGATGATGTTGGACAATGAATTGTGCTGCTTAAGCTTAGGTAGAGAGAGA
30567453 GGATCCATTCTCAAGATTAGCTAAGATGGGAAGCCTCAAGTGTTTTTTGGGTTTTGTTTCAGCTC
131 GGATCCATTCTCAAGATTAGCTAAGATGGGAAGCCTCAAGTGTTTTTTGGGTTTTGTTTCAGCTC
30567518 TGGATGCCGAGAAGGCATTAAATACAAGTGCAAATGAAGTGACCACCAGAATGTTCCTTGGATTA
196 TGGATGCCGAGAAGGCATTAAATACAAGTGCAAATGAAGTGACCACCAGAATGTTCCTTGGATTA
30567583 TTTGTTTTCAACCTAAAATTTTTCTCTCGGCAAAAAGAAAAACCATAAAATTTTGGATAAACATG
261 TTTGTTTTCAACCTAAAATTTTTCTCTCGGCAAAAAGAAAAACCATAAAATTTTGGATAAACATG
30567648 AAAAAGTATATTATCAAAGTTATTTATAAAATAAAAAATTGAATTCAATCTGAATACTTTATTTT
326 AAAAAGTATATTATCAAAGTTATTTATAAAATAAAAAATTGAATTCAATCTGAATACTTTATTTT
30567713 TATATTAAATAAATTAATTTTGCATGTTAAAACTTTTTATAGGTTCGTGGAATGCAACACTAGGA
391 TATATTAAATAAATTAATTTTGCATGTTAAAACTTTTTATAGGTTCGTGGAATGCAACACTAGGA
30567778 TTTATATTATTATATTTTAAAATGAGATTACGATGTTTGGATTATCAATATTTCAGTCATCTTGT
456 TTTATATTATTATATTTTAAAATGAGATTACGATGTTTGGATTATCAATATTTCAGTCATCTTGT
30567843 AATATCATATTACGAAATAATGCCAAGATACTGTAATCTCATTTCAGCTAATTCCTTAGGTTATC
521 AATATCATATTACGAAATAATGCCAAGATACTGTAATCTCATTTCAGCTAATTCCTTAGGTTATC
30567908 TTAGATTGCATGTGTAATCTTAAATATTGGACCAATTTACCTTTTGTTTTTATTATTTTAATCAA
586 TTAGATTGCATGTGTAATCTTAAATATTGGACCAATTTACCTTTTGTTTTTATTATTTTAATCAA
*
30567973 TTTAGGTTTTTTCTGTCATAAAGTTTAAGACTAATTAAAAATAAAAAATGTTTTTTTCTTAATAG
651 TTTAGGTTTTTTCTGTCATAAAGTTTAAGACTAATTAAAAATAAAAAATATTTTTTTCTTAATAG
30568038 TGAACCAATAGATGTCATAAATTACATTTATATTTATTAT
716 TGAACCAATAGATGTCATAAATTACATTTATATTTATTAT
30568078 ATATTATTGA
Statistics
Matches: 753, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
755 753 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (755 bp):
CAATACAAGTAGAAGTTGAAGAGGGGTTGAAGTTGAATGAAGGTTTTTCGAGAGCATCGCCATTG
TTGAGAGGAAAATGGCGATGATGTTGGACAATGAATTGTGCTGCTTAAGCTTAGGTAGAGAGAGA
GGATCCATTCTCAAGATTAGCTAAGATGGGAAGCCTCAAGTGTTTTTTGGGTTTTGTTTCAGCTC
TGGATGCCGAGAAGGCATTAAATACAAGTGCAAATGAAGTGACCACCAGAATGTTCCTTGGATTA
TTTGTTTTCAACCTAAAATTTTTCTCTCGGCAAAAAGAAAAACCATAAAATTTTGGATAAACATG
AAAAAGTATATTATCAAAGTTATTTATAAAATAAAAAATTGAATTCAATCTGAATACTTTATTTT
TATATTAAATAAATTAATTTTGCATGTTAAAACTTTTTATAGGTTCGTGGAATGCAACACTAGGA
TTTATATTATTATATTTTAAAATGAGATTACGATGTTTGGATTATCAATATTTCAGTCATCTTGT
AATATCATATTACGAAATAATGCCAAGATACTGTAATCTCATTTCAGCTAATTCCTTAGGTTATC
TTAGATTGCATGTGTAATCTTAAATATTGGACCAATTTACCTTTTGTTTTTATTATTTTAATCAA
TTTAGGTTTTTTCTGTCATAAAGTTTAAGACTAATTAAAAATAAAAAATATTTTTTTCTTAATAG
TGAACCAATAGATGTCATAAATTACATTTATATTTATTAT
Found at i:30568812 original size:48 final size:47
Alignment explanation
Indices: 30568741--30568840 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 47
30568731 CATTCCATGA
30568741 GTAAATAAGTTTTAATAAGTGAAAACACCCAAAACAT-TATGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCAAAA-ATGT-TGTGAATTG
**
30568789 GTAAATAAGTTTTAATAAGTGAAAACACCTTAAAATGTTGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCAAAAATGTTGTGAATTG
30568836 GTAAA
1 GTAAA
30568841 GTCGAACATG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 16 0.33
48 33 0.67
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (47 bp):
GTAAATAAGTTTTAATAAGTGAAAACACCCAAAAATGTTGTGAATTG
Found at i:30570353 original size:14 final size:14
Alignment explanation
Indices: 30570334--30570361 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30570324 TGCATCTTCC
30570334 CATGCATGAATCTA
1 CATGCATGAATCTA
30570348 CATGCATGAATCTA
1 CATGCATGAATCTA
30570362 TCCAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:30580236 original size:48 final size:47
Alignment explanation
Indices: 30580165--30580264 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 47
30580155 TATTCCATGA
*
30580165 GTAAATAAGTTTTAATAAGTGAAAACACCC-AAAATATTATGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAAT-GT-TGTGAATTG
*
30580213 GTAAATAAGTTTTTATAAGTGAAAACACCCTAAAATGTTGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTGTGAATTG
30580260 GTAAA
1 GTAAA
30580265 GTCGAACATG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 14 0.29
48 30 0.61
49 5 0.10
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (47 bp):
GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTGTGAATTG
Found at i:30581777 original size:14 final size:14
Alignment explanation
Indices: 30581758--30581784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30581748 TGCATCTTCC
30581758 CATGCATGAATCTA
1 CATGCATGAATCTA
30581772 CATGCATGAATCT
1 CATGCATGAATCT
30581785 GTCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:30585461 original size:132 final size:132
Alignment explanation
Indices: 30585266--30585542 Score: 439
Period size: 132 Copynumber: 2.1 Consensus size: 132
30585256 TGTTGCTCAA
30585266 GGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTT
* * *
30585331 TGATCTGCTCCACTACTGCTTAGGCAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTT
66 TGATCTGCTCCACTACTGCTTAGGCAGATAAGATCTACAATCTTCAACCTACTCCACTGCAACTG
30585396 AG
131 AG
* *
30585398 GGAGACAAGG-TTCGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCT
1 GGAGACAAGGCTT-GGTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCT
* * * * *
30585462 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTTAACCTGCTCCACTGCAACT
65 TTGATCTGCTCCACTACTGCTTAGGCAGATAAGATCTACAATCTTCAACCTACTCCACTGCAACT
30585527 GAG
130 GAG
*
30585530 GGAGGCAAGGCTT
1 GGAGACAAGGCTT
30585543 TGTTTTCAAT
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
131 2 0.02
132 128 0.97
133 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (132 bp):
GGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTT
TGATCTGCTCCACTACTGCTTAGGCAGATAAGATCTACAATCTTCAACCTACTCCACTGCAACTG
AG
Found at i:30585492 original size:44 final size:44
Alignment explanation
Indices: 30585312--30585520 Score: 136
Period size: 44 Copynumber: 4.8 Consensus size: 44
30585302 TATCTTGGAA
* * *
30585312 AGATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGC
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * * *
30585356 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
30585400 AGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-G
*
30585444 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** *
30585488 AGATAAGATCTGCTATCTTTAACCTGCTCCACT
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACT
30585521 GCAACTGAGG
Statistics
Matches: 117, Mismatches: 42, Indels: 12
0.68 0.25 0.07
Matches are distributed among these distances:
42 6 0.05
43 4 0.03
44 99 0.85
45 4 0.03
46 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:30603305 original size:28 final size:28
Alignment explanation
Indices: 30603273--30603369 Score: 149
Period size: 28 Copynumber: 3.5 Consensus size: 28
30603263 ATTTGTCACG
* * ** *
30603273 AAGGCTTCCATTTTCTTAGATCACCAGA
1 AAGGCTTCCATTGTCATAGATTGCCACA
30603301 AAGGCTTCCATTGTCATAGATTGCCACA
1 AAGGCTTCCATTGTCATAGATTGCCACA
30603329 AAGGCTTCCATTGTCATAGATTGCCACA
1 AAGGCTTCCATTGTCATAGATTGCCACA
30603357 AAGGCTTCCATTG
1 AAGGCTTCCATTG
30603370 CCTATCGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
AAGGCTTCCATTGTCATAGATTGCCACA
Found at i:30608727 original size:167 final size:166
Alignment explanation
Indices: 30608451--30608785 Score: 652
Period size: 167 Copynumber: 2.0 Consensus size: 166
30608441 AAGGCATTCC
*
30608451 TGTTAACCAGGAGTATCCTTTTGACCCAAAGAACGAAAGAACTTTACGAAGTAGGCGGAAAGAAC
1 TGTTAACAAGGAGTATCCTTTTGACCCAAAGAACGAAAGAACTTTACGAAGTAGGCGGAAAGAAC
30608516 TACAAAAAAATGGCTAAAAACGGGAATGATCCTAGTCTTAATGATAATCCGAATGGTCAAGATAT
66 TACAAAAAAATGGCTAAAAACGGGAATGATCCTAGTCTTAATGATAATCCGAATGGTCAAGATAT
30608581 TAATTTTCCTATTCGTAGGGTGATACCTAGTCTGAA
131 TAATTTTCCTATTCGTAGGGTGATACCTAGTCTGAA
30608617 NTGTTAACAAGGAGTATCCTTTTGACCCAAAGAACGAAAGAACTTTACGAAGTAGGCGGAAAGAA
1 -TGTTAACAAGGAGTATCCTTTTGACCCAAAGAACGAAAGAACTTTACGAAGTAGGCGGAAAGAA
30608682 CTACAAAAAAATGGCTAAAAACGGGAATGATCCTAGTCTTAATGATAATCCGAATGGTCAAGATA
65 CTACAAAAAAATGGCTAAAAACGGGAATGATCCTAGTCTTAATGATAATCCGAATGGTCAAGATA
30608747 TTAATTTTCCTATTCGTAGGGTGATACCTAGTCTGAA
130 TTAATTTTCCTATTCGTAGGGTGATACCTAGTCTGAA
30608784 TG
1 TG
30608786 ATAATTTGAA
Statistics
Matches: 167, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 2 0.01
167 165 0.99
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (166 bp):
TGTTAACAAGGAGTATCCTTTTGACCCAAAGAACGAAAGAACTTTACGAAGTAGGCGGAAAGAAC
TACAAAAAAATGGCTAAAAACGGGAATGATCCTAGTCTTAATGATAATCCGAATGGTCAAGATAT
TAATTTTCCTATTCGTAGGGTGATACCTAGTCTGAA
Found at i:30613020 original size:20 final size:20
Alignment explanation
Indices: 30612957--30613021 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
30612947 CAGAGAATAG
30612957 GAAATCTATCTAGAAGACAC
1 GAAATCTATCTAGAAGACAC
* * *
30612977 GAAATGC---CTGACAAGAATAG
1 GAAAT-CTATCT-AGAAG-ACAC
30612997 GAAATCTATCTAGAAGACAC
1 GAAATCTATCTAGAAGACAC
30613017 GAAAT
1 GAAAT
30613022 GCCATTGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 19 0.58
21 5 0.15
22 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAATCTATCTAGAAGACAC
Found at i:30615805 original size:15 final size:15
Alignment explanation
Indices: 30615787--30615822 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
30615777 TCAAAATTTA
30615787 TAACATTCCATTACT
1 TAACATTCCATTACT
30615802 TAACATTCCATTACT
1 TAACATTCCATTACT
30615817 TAACAT
1 TAACAT
30615823 AAACTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (15 bp):
TAACATTCCATTACT
Found at i:30617249 original size:49 final size:49
Alignment explanation
Indices: 30617069--30617263 Score: 171
Period size: 51 Copynumber: 3.9 Consensus size: 49
30617059 AAATGATACC
* * *
30617069 CGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACC-ATTTTCAT
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTATCTT--T
* * * * ** *
30617119 CAG-ACACTCGTAGTAGCCTGCACATACTACTACACACGTGATCGAAGCTATT
1 CGGTACA--CATAGTAGCCTACACATAGTACTACACACGTGA-CCTATCT-TT
* * *
30617171 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTT
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTATC-TTT
* *
30617221 CGGTACAC-TAGTAGCCTACACATTGTACTACACACATGACCTA
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTA
30617264 GCAACTTCAC
Statistics
Matches: 116, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
49 33 0.28
50 14 0.12
51 60 0.52
52 4 0.03
53 4 0.03
54 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTATCTTT
Found at i:30619911 original size:16 final size:16
Alignment explanation
Indices: 30619890--30619939 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
30619880 TAAATTCCAA
30619890 TACTTAGCTTCCATTT
1 TACTTAGCTTCCATTT
**
30619906 TACTTA-CTGACA--T
1 TACTTAGCTTCCATTT
30619919 T-CTTAGCTTCCATTT
1 TACTTAGCTTCCATTT
30619934 TACTTA
1 TACTTA
30619940 CTGACATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
15 6 0.23
16 10 0.38
ACGTcount: A:0.22, C:0.24, G:0.06, T:0.48
Consensus pattern (16 bp):
TACTTAGCTTCCATTT
Found at i:30619932 original size:28 final size:28
Alignment explanation
Indices: 30619892--30619947 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30619882 AATTCCAATA
30619892 CTTAGCTTCCATTTTACTTACTGACATT
1 CTTAGCTTCCATTTTACTTACTGACATT
30619920 CTTAGCTTCCATTTTACTTACTGACATT
1 CTTAGCTTCCATTTTACTTACTGACATT
30619948 TATTCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (28 bp):
CTTAGCTTCCATTTTACTTACTGACATT
Found at i:30620075 original size:42 final size:42
Alignment explanation
Indices: 30619995--30620076 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
30619985 CGTTTTCTCT
* **
30619995 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
30620037 ATGCCATAGCCCAACTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
30620077 CACACCGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:30637302 original size:17 final size:18
Alignment explanation
Indices: 30637265--30637302 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
30637255 TTATCTAGAT
* *
30637265 TTTTATCCAACATTTATA
1 TTTTATCCAACACTAATA
30637283 TTTTATCCAAC-CTAATA
1 TTTTATCCAACACTAATA
30637300 TTT
1 TTT
30637303 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTATCCAACACTAATA
Found at i:30638912 original size:50 final size:50
Alignment explanation
Indices: 30638823--30638954 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 50
30638813 AATGCCATAT
* * ** * * * *
30638823 CCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGTC
1 CCTAGACATGGTCTTACGTGGGACCTCTCATATCAGTGCCAACGCCATG-C
* *
30638874 CC-AGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGC
1 CCTAGACATGGTCTTACGTGGGACCTCTCATATCAGTGCCAACGCCATGC
* * *
30638923 CCTAGATAAGGTCTTCCGTGGGACCTCTCATA
1 CCTAGACATGGTCTTACGTGGGACCTCTCATA
30638955 ACCTCAATAA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.05
50 60 0.92
51 2 0.03
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
CCTAGACATGGTCTTACGTGGGACCTCTCATATCAGTGCCAACGCCATGC
Found at i:30643307 original size:50 final size:50
Alignment explanation
Indices: 30643197--30643425 Score: 246
Period size: 50 Copynumber: 4.5 Consensus size: 50
30643187 ACATTAAGTG
* * * *
30643197 AATGAGA--TCCCAAGTAAGAGCATGTCTGGGACATGGCATTGGCATCATTGA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA
*
30643248 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGA
1 -A--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * *
30643301 GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
** * * *
30643351 AATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* **
30643401 TATGAGAACTCCCATGTAAGACCAT
1 AATGAGAGGTCCCATGTAAGACCAT
30643426 ATATAGGATA
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
50 108 0.72
52 1 0.01
53 2 0.01
54 6 0.04
55 1 0.01
56 33 0.22
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:30643445 original size:100 final size:100
Alignment explanation
Indices: 30643252--30643446 Score: 246
Period size: 100 Copynumber: 1.9 Consensus size: 100
30643242 CATTGAGATT
* * * * **
30643252 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAGGTCCCATA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
* * * * *
30643317 TAAGACCATGTCTGGGACATGGCGTTGGCACCAAA
66 TAAGACCATATATAGGACATGACATTGGCACCAAA
* * * *
30643352 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
*
30643417 TAAGACCATATATAGGATATGACATTGGCA
66 TAAGACCATATATAGGACATGACATTGGCA
30643447 GTACAGAAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.21
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
TAAGACCATATATAGGACATGACATTGGCACCAAA
Found at i:30643712 original size:12 final size:12
Alignment explanation
Indices: 30643695--30643733 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30643685 ATGAGTTATT
30643695 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
30643707 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
30643719 TAAGTGAGTAAG
1 TAAGTAAGCAAG
30643731 TAA
1 TAA
30643734 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:30647140 original size:37 final size:37
Alignment explanation
Indices: 30647037--30647131 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 37
30647027 GAATGAAAGA
* *
30647037 TATTTGAAAAGTCATGTTTCTTCACTTGTTCCATGTC
1 TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
* * *
30647074 TAGTTGAAAAGCCATGTCTCTTCACTTGATCCATGTG
1 TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
*
30647111 TATTTGAATAGTCATGTCTCT
1 TATTTGAAAAGTCATGTCTCT
30647132 ATGCTTGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (37 bp):
TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
Found at i:30647526 original size:46 final size:48
Alignment explanation
Indices: 30647469--30647585 Score: 141
Period size: 49 Copynumber: 2.5 Consensus size: 48
30647459 CTTATGCTTG
* *
30647469 AACTTAATTAACATATAAGATGCATAAATGCA-A-GT-CTTAAAATACA
1 AACTTAATTAACATATAAGATGCAT-AATGCAGACATAATTAAAATACA
* * * *
30647515 AACTTATTTAACATATGAGTTTCATAATGCATGACATAATTAAAATACA
1 AACTTAATTAACATATAAGATGCATAATGCA-GACATAATTAAAATACA
30647564 AACTTAATTAACATATAAGATG
1 AACTTAATTAACATATAAGATG
30647586 TTTTTATGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
45 6 0.11
46 21 0.37
47 1 0.02
48 1 0.02
49 28 0.49
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (48 bp):
AACTTAATTAACATATAAGATGCATAATGCAGACATAATTAAAATACA
Found at i:30648629 original size:7 final size:7
Alignment explanation
Indices: 30648617--30648647 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
30648607 CAAATTGCTA
30648617 CACACTC
1 CACACTC
30648624 CACACTC
1 CACACTC
30648631 CACACTC
1 CACACTC
30648638 CACACTC
1 CACACTC
30648645 CAC
1 CAC
30648648 CTTTCTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (7 bp):
CACACTC
Found at i:30650016 original size:33 final size:33
Alignment explanation
Indices: 30649977--30650080 Score: 160
Period size: 33 Copynumber: 3.2 Consensus size: 33
30649967 AAACATATTT
* *
30649977 TTATTATTGTATTTTTATTAAATATTATAGGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
30650010 TTATTATTGTATTATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
30650043 TTATTA-T-TATTATTATTAAAGA-TATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
30650073 TTATTATT
1 TTATTATT
30650081 TAACATATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
30 14 0.21
31 15 0.22
32 1 0.01
33 37 0.55
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (33 bp):
TTATTATTGTATTATTATTAAATATTATAAGTA
Found at i:30650080 original size:3 final size:3
Alignment explanation
Indices: 30650008--30650060 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
30649998 ATATTATAGG
* * * *
30650008 TAT TAT TAT T-G TAT TAT TAT TAAA TAT TAT AAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
30650053 TAT TAT TA
1 TAT TAT TA
30650061 AAGATATAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.93
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:30653039 original size:296 final size:296
Alignment explanation
Indices: 30652505--30653096 Score: 1175
Period size: 296 Copynumber: 2.0 Consensus size: 296
30652495 AGAAACGTTA
*
30652505 CTCTCGTCCTGCTCCTTCAGTGTCGATAATATGTCACGTGGTGTAACATTCTTACTCGTCAAATC
1 CTCTCGTCCTGCTCCTTCAATGTCGATAATATGTCACGTGGTGTAACATTCTTACTCGTCAAATC
30652570 AACCAACAATTTTTTTTCGTTTTCTTTCAACCGCCTTGTATAAGCATGTCCCTTCATATGTTGTG
66 AACCAACAATTTTTTTTCGTTTTCTTTCAACCGCCTTGTATAAGCATGTCCCTTCATATGTTGTG
30652635 TAGGTGGATGGTTATGTTGATCACATATCACCCTCAATGTCCACCCATCATATTGTTTTAAATGC
131 TAGGTGGATGGTTATGTTGATCACATATCACCCTCAATGTCCACCCATCATATTGTTTTAAATGC
30652700 GAACCTACCAATCAAAATTTACAGTTGGCCTTTTTGGTGCAAGACTTTTTACTTGATTCTTTAAT
196 GAACCTACCAATCAAAATTTACAGTTGGCCTTTTTGGTGCAAGACTTTTTACTTGATTCTTTAAT
30652765 TTTTTGTTCACCGCCACGGTCACAAATAAGTGTGAT
261 TTTTTGTTCACCGCCACGGTCACAAATAAGTGTGAT
30652801 CTCTCGTCCTGCTCCTTCAATGTCGATAATATGTCACGTGGTGTAACATTCTTACTCGTCAAATC
1 CTCTCGTCCTGCTCCTTCAATGTCGATAATATGTCACGTGGTGTAACATTCTTACTCGTCAAATC
30652866 AACCAACAATTTTTTTTCGTTTTCTTTCAACCGCCTTGTATAAGCATGTCCCTTCATATGTTGTG
66 AACCAACAATTTTTTTTCGTTTTCTTTCAACCGCCTTGTATAAGCATGTCCCTTCATATGTTGTG
30652931 TAGGTGGATGGTTATGTTGATCACATATCACCCTCAATGTCCACCCATCATATTGTTTTAAATGC
131 TAGGTGGATGGTTATGTTGATCACATATCACCCTCAATGTCCACCCATCATATTGTTTTAAATGC
30652996 GAACCTACCAATCAAAATTTACAGTTGGCCTTTTTGGTGCAAGACTTTTTACTTGATTCTTTAAT
196 GAACCTACCAATCAAAATTTACAGTTGGCCTTTTTGGTGCAAGACTTTTTACTTGATTCTTTAAT
30653061 TTTTTGTTCACCGCCACGGTCACAAATAAGTGTGAT
261 TTTTTGTTCACCGCCACGGTCACAAATAAGTGTGAT
30653097 GTAAGACACC
Statistics
Matches: 295, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 295 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (296 bp):
CTCTCGTCCTGCTCCTTCAATGTCGATAATATGTCACGTGGTGTAACATTCTTACTCGTCAAATC
AACCAACAATTTTTTTTCGTTTTCTTTCAACCGCCTTGTATAAGCATGTCCCTTCATATGTTGTG
TAGGTGGATGGTTATGTTGATCACATATCACCCTCAATGTCCACCCATCATATTGTTTTAAATGC
GAACCTACCAATCAAAATTTACAGTTGGCCTTTTTGGTGCAAGACTTTTTACTTGATTCTTTAAT
TTTTTGTTCACCGCCACGGTCACAAATAAGTGTGAT
Found at i:30653797 original size:18 final size:19
Alignment explanation
Indices: 30653774--30653818 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
30653764 AAATGTACTA
30653774 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
30653792 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
30653811 ATTAATTT
1 ATTAATTT
30653819 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:30661752 original size:16 final size:16
Alignment explanation
Indices: 30661731--30661762 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30661721 ATTTTGTTGC
*
30661731 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
30661747 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
30661763 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:30661961 original size:46 final size:43
Alignment explanation
Indices: 30661886--30661984 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
30661876 AATAATAACA
*
30661886 GATACACGGTGGATTCAGCACACAACAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAACAACCA-CC-TTATAATCAAT
* * *
30661932 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAACAACCACCTTATAATCAAT
30661976 GATACCGGT
1 GATACCGGT
30661985 TCACATAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 13 0.28
45 2 0.04
46 23 0.49
47 4 0.09
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAACAACCACCTTATAATCAAT
Found at i:30662051 original size:51 final size:51
Alignment explanation
Indices: 30661990--30662176 Score: 206
Period size: 51 Copynumber: 3.7 Consensus size: 51
30661980 CCGGTTCACA
*
30661990 TAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTC-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT-ACTATTCTGATACACG
* * * *
30662041 TAGTATCCTGCACATAGTACTACACATGTGATCGA-AGCTATCCTGTATGCA--
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATA-CTATTCTG-ATACACG
* * *
30662092 TAGTAGCCTACACATAGTACTACACATGCGACC-TA-TCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACT-ATTCTGATACACG
*
30662142 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
30662177 CACTTTCACT
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
48 4 0.04
49 5 0.04
50 33 0.29
51 63 0.56
52 3 0.03
53 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACTATTCTGATACACG
Found at i:30662154 original size:101 final size:102
Alignment explanation
Indices: 30661988--30662172 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
30661978 TACCGGTTCA
* * * *
30661988 CATAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTCGATACACGTAGTATCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGCCTGCA
*
30662053 CATAGTACTACACATGTGATCGAAGCTATCCTGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCTGTATG
*
30662090 CATAGTAGCCTACACATAGTACTACACATGCGACC-T-A-TCATTCTGGTACACGTAGTAGCCTG
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACT-ATTC-GATACACGTAGTAGCCTG
30662152 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
30662173 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.07
101 37 0.49
102 32 0.43
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCTGTATG
Found at i:30662195 original size:101 final size:102
Alignment explanation
Indices: 30661983--30662206 Score: 255
Period size: 101 Copynumber: 2.2 Consensus size: 102
30661973 AATGATACCG
* * * *
30661983 GTTCACATAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTCGATACACGTAGTATC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGC
* *
30662048 CTGCACATAGTACTACACATGTGATCGAAGCTATCCT
66 CTGCACATAGTACTACACACGTGATCCAAGCTATCCT
* *
30662085 GTAT-GCATAGTAGCCTACACATAGTACTACACATGCGACC-T-A-TCATTCTGGTACACGTAGT
1 GT-TCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACT-ATTC-GATACACGTAGT
*
30662146 AGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCACT
63 AGCCTGCACATAGTACTACACACGTGATCCA--AGCTATC-CT
*
30662187 -TTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTACACA
30662207 CAGTCCATGC
Statistics
Matches: 104, Mismatches: 11, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
99 1 0.01
100 8 0.08
101 57 0.55
102 37 0.36
103 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCCAAGCTATCCT
Found at i:30666123 original size:27 final size:27
Alignment explanation
Indices: 30666093--30666172 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
30666083 AAATTGTACA
* *
30666093 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
30666120 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
*
30666147 GCACTAAGTGTGCGAATTGACCATGA
1 GCACTAAGTGTGCGAATTGACTATGA
30666173 AATTCATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:30677625 original size:33 final size:33
Alignment explanation
Indices: 30677588--30677669 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
30677578 TGGCCCTGCC
* * * *
30677588 ATGGTCTTA-CATTCGTAGTGCCATAACTCAGTT
1 ATGGTCTTATCA-TCATAATGCCATAACCCAGCT
*
30677621 ATGGTCTTATCATCATAATGCCATAGCCCAGCT
1 ATGGTCTTATCATCATAATGCCATAACCCAGCT
30677654 ATGGTCTT-TCAT-ATAA
1 ATGGTCTTATCATCATAA
30677670 ACACTGCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 4 0.09
32 4 0.09
33 33 0.77
34 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (33 bp):
ATGGTCTTATCATCATAATGCCATAACCCAGCT
Found at i:30680042 original size:46 final size:46
Alignment explanation
Indices: 30679991--30680085 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
30679981 ATAGTGTGGC
*
30679991 GTTCATCATATACTAAGGTTCCTATCATCCTCT-ATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCT-TGATAGTGGGTCGAG
*
30680037 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
30680083 GTT
1 GTT
30680086 TTTTCTTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:30694321 original size:26 final size:26
Alignment explanation
Indices: 30694261--30694322 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
30694251 CATTCCAACC
* * *
30694261 CACAGCTCATGTGAGTAGACTCATTT
1 CACAGCTCGTGTGAGCAGACTCATCT
* *
30694287 CATAGCTCGTGTGAGCATACTCATCT
1 CACAGCTCGTGTGAGCAGACTCATCT
30694313 CACAGCTCGT
1 CACAGCTCGT
30694323 CAAATCGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACTCATCT
Found at i:30697423 original size:251 final size:251
Alignment explanation
Indices: 30696980--30697481 Score: 950
Period size: 251 Copynumber: 2.0 Consensus size: 251
30696970 CAACATAACC
30696980 ATTTAACTCATGTTCGATCTTTTGACCATTTATAACTCAAGCCATTTTGTTCCATTATCATTCAC
1 ATTTAACTCATGTTCGATCTTTTGACCATTTATAACTCAAGCCATTTTGTTCCATTATCATTCAC
*
30697045 ATTTTAAACAATATAATTCACCTCAGTTCATATTTAAACAAATGAAATAGCTACTATACAAATTC
66 ATTTTAAACAATATAATTCACCTCAGTTCATATTTAAACAAATGAAATAGCTACTATACAAATCC
30697110 CTGCTATCAAAATTTCACAGCAACAGGTGAGTTTTTCACACACGAATCATATAACATTTATGGCA
131 CTGCTATCAAAATTTCACAGCAACAGGTGAGTTTTTCACACACGAATCATATAACATTTATGGCA
* *
30697175 TTCCACTGTCATTTATCCAATTTAGATTCGTTTTTCAACATCATTCAAACAATTTT
196 TTCCACTGTCATTTATCCAATTCAGATTCGGTTTTCAACATCATTCAAACAATTTT
*
30697231 ATTTAACTCATGTTCGATCTTTTGACCATTTATAACTCAAGTCATTTTGTTCCATTATCATTCAC
1 ATTTAACTCATGTTCGATCTTTTGACCATTTATAACTCAAGCCATTTTGTTCCATTATCATTCAC
*
30697296 ATTTTAAACAATATAATTCACCTCAGTTCATATTTAAACAAATGAACTAGCTACTATACAAATCC
66 ATTTTAAACAATATAATTCACCTCAGTTCATATTTAAACAAATGAAATAGCTACTATACAAATCC
30697361 CTGCTATCAAAATTTCACAGCAACAGGTGAGTTTTTCACACACGAATCATATAACATTTATGGCA
131 CTGCTATCAAAATTTCACAGCAACAGGTGAGTTTTTCACACACGAATCATATAACATTTATGGCA
*
30697426 TTCCACTGTCATTTATCCAATTCAGATTTGGTTTTCAACATCATTCAAACAATTTT
196 TTCCACTGTCATTTATCCAATTCAGATTCGGTTTTCAACATCATTCAAACAATTTT
30697482 GTTAATAAAA
Statistics
Matches: 245, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 245 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (251 bp):
ATTTAACTCATGTTCGATCTTTTGACCATTTATAACTCAAGCCATTTTGTTCCATTATCATTCAC
ATTTTAAACAATATAATTCACCTCAGTTCATATTTAAACAAATGAAATAGCTACTATACAAATCC
CTGCTATCAAAATTTCACAGCAACAGGTGAGTTTTTCACACACGAATCATATAACATTTATGGCA
TTCCACTGTCATTTATCCAATTCAGATTCGGTTTTCAACATCATTCAAACAATTTT
Found at i:30697635 original size:20 final size:20
Alignment explanation
Indices: 30697612--30697669 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
30697602 CCAAAGTGCA
* * *
30697612 AACAGGGGCATTGATGTGTG
1 AACAAGGGCACTGAAGTGTG
30697632 AACAAGGGCACTGAAGTGTG
1 AACAAGGGCACTGAAGTGTG
** *
30697652 AGTAAGGGCACCGAAGTG
1 AACAAGGGCACTGAAGTG
30697670 CAAACTAGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.38, T:0.17
Consensus pattern (20 bp):
AACAAGGGCACTGAAGTGTG
Found at i:30703592 original size:22 final size:22
Alignment explanation
Indices: 30703562--30703605 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30703552 TTTGGTATTT
30703562 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
30703584 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
30703606 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:30718376 original size:27 final size:27
Alignment explanation
Indices: 30718345--30718522 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30718335 TAAATTGTAC
30718345 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30718372 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30718398 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30718426 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30718454 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30718481 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30718508 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30718523 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30718459 original size:82 final size:81
Alignment explanation
Indices: 30718346--30718501 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30718336 AAATTGTACA
* *
30718346 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30718410 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30718427 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30718492 TGCGAGTTGA
65 TGCGAATTGA
30718502 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30718513 original size:82 final size:81
Alignment explanation
Indices: 30718342--30718522 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30718332 GATTAAATTG
* *
30718342 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30718407 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30718423 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30718487 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30718505 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30718523 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30720231 original size:95 final size:95
Alignment explanation
Indices: 30720068--30720448 Score: 717
Period size: 95 Copynumber: 4.0 Consensus size: 95
30720058 CTATCTAGGG
* * * * *
30720068 AGATAGGAACCTACGGTATGGATGAATGCCACACTCGAAAGTGATATGTTCAAGAATGGAGATTG
1 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
30720133 GATGACGCCACTAGCGATGCTAGATAAGTC
66 GATGACGCCACTAGCGATGCTAGATAAGTC
30720163 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
1 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
30720228 GATGACGCCACTAGCGATGCTAGATAAGTC
66 GATGACGCCACTAGCGATGCTAGATAAGTC
30720258 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
1 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
30720323 GATGACGCCACTAGCGATGCTAGATAAGTC
66 GATGACGCCACTAGCGATGCTAGATAAGTC
30720353 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
1 AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
30720418 GATGACGCCACTAGCGATGCTAGATAAGTC
66 GATGACGCCACTAGCGATGCTAGATAAGTC
30720448 A
1 A
30720449 AATTGAATCA
Statistics
Matches: 281, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 281 1.00
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (95 bp):
AGATAGGAACCTACAGTATGGACGAACGCCACACTCGAAAGTGATAAGTTCAAGAACGGAGATTG
GATGACGCCACTAGCGATGCTAGATAAGTC
Found at i:30723118 original size:20 final size:20
Alignment explanation
Indices: 30723089--30723173 Score: 109
Period size: 20 Copynumber: 4.2 Consensus size: 20
30723079 ATGCGGTTCT
30723089 GCTCACTCGAGCTCAAGTT-A
1 GCTCACTCGAGCTCAA-TTCA
* *
30723109 GCTCATTCGAGCTCAAGTCA
1 GCTCACTCGAGCTCAATTCA
*
30723129 GCTCACACGAGCTCAATTCA
1 GCTCACTCGAGCTCAATTCA
* *
30723149 GCTCACACAAGCTCAATTCA
1 GCTCACTCGAGCTCAATTCA
30723169 GCTCA
1 GCTCA
30723174 TTGAGCTCGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 1 0.02
20 57 0.98
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.22
Consensus pattern (20 bp):
GCTCACTCGAGCTCAATTCA
Found at i:30736077 original size:18 final size:18
Alignment explanation
Indices: 30736054--30736143 Score: 51
Period size: 18 Copynumber: 4.8 Consensus size: 18
30736044 AAAAGAAAAT
30736054 AAAGAAAAGAAAATTGAA
1 AAAGAAAAGAAAATTGAA
* * *
30736072 AAAGAAATTG-AGATTGAG
1 AAAGAAA-AGAAAATTGAA
* *
30736090 AAAGAAATTGAAAA-AGAGA
1 AAAGAAA-AGAAAATTGA-A
30736109 AAATCGAAAA-AGAAATTGAA
1 AAA--GAAAAGA-AAATTGAA
30736129 GAAAGAAAAGAAAAT
1 -AAAGAAAAGAAAAT
30736144 GAGTTAGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
18 25 0.45
19 16 0.29
20 5 0.09
21 9 0.16
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (18 bp):
AAAGAAAAGAAAATTGAA
Found at i:30736079 original size:12 final size:12
Alignment explanation
Indices: 30736058--30736136 Score: 53
Period size: 12 Copynumber: 6.7 Consensus size: 12
30736048 GAAAATAAAG
30736058 AAAAGAAAATTGA
1 AAAAG-AAATTGA
30736071 AAAAGAAATTG-
1 AAAAGAAATTGA
30736082 ---AG--ATTGA
1 AAAAGAAATTGA
*
30736089 GAAAGAAATTGAA
1 AAAAGAAATTG-A
*
30736102 AAAGAGAAAATCGA
1 AAA-AG-AAATTGA
30736116 AAAAGAAATTGA
1 AAAAGAAATTGA
30736128 AGAAAGAAA
1 A-AAAGAAA
30736137 AGAAAATGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
6 4 0.08
8 2 0.04
10 2 0.04
12 17 0.32
13 17 0.32
14 6 0.11
15 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.20, T:0.14
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:30736139 original size:45 final size:44
Alignment explanation
Indices: 30736044--30736143 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
30736034 AAGTGAGAGA
* **
30736044 AAAAGAAAATAAAGAAAAGAAAATTGAAAAAGAAATTGAGATTG
1 AAAAGAAAATAAAGAAAAGAAAATCGAAAAAGAAATTGAGAAAG
* *
30736088 AGAAAGAAATTGAAA-AAGAGAAAATCGAAAAAGAAATTGAAGAAAG
1 A-AAAGAAAAT-AAAGAAAAGAAAATCGAAAAAGAAATTG-AGAAAG
30736134 AAAAGAAAAT
1 AAAAGAAAAT
30736144 GAGTTAGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.02
45 38 0.81
46 8 0.17
ACGTcount: A:0.67, C:0.01, G:0.19, T:0.13
Consensus pattern (44 bp):
AAAAGAAAATAAAGAAAAGAAAATCGAAAAAGAAATTGAGAAAG
Found at i:30740792 original size:45 final size:46
Alignment explanation
Indices: 30740723--30740815 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
30740713 AGTTTAAAGG
*
30740723 ACCTCGACCCATTATCAAGAATGATA-AAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGAAACCTTGGTATATGATGA
* * *
30740768 ACCTCGACCCACTAT-AAGGGATGATAGGAACCTTGGTATATTATGA
1 ACCTCGACCCACTATCAA-GAATGATAGAAACCTTGGTATATGATGA
30740814 AC
1 AC
30740816 GCCACACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.05
45 21 0.50
46 19 0.45
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGAAACCTTGGTATATGATGA
Found at i:30742378 original size:26 final size:28
Alignment explanation
Indices: 30742348--30742415 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
30742338 TTATCTTAAC
**
30742348 AAGACAAATTAAATTCG-GC-ATTCACT
1 AAGACAAATTAAAAACGTGCAATTCACT
* *
30742374 AAGACACATTAAAAACGTGCAATTGACT
1 AAGACAAATTAAAAACGTGCAATTCACT
*
30742402 TAGACAAATTAAAA
1 AAGACAAATTAAAA
30742416 CATGCATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 14 0.41
27 2 0.06
28 18 0.53
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (28 bp):
AAGACAAATTAAAAACGTGCAATTCACT
Found at i:30742588 original size:20 final size:20
Alignment explanation
Indices: 30742563--30742617 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
30742553 AACTAAAGTA
30742563 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
* * *
30742583 AGCTAAGAACGAGCTTATTG
1 AGCTAAAAATGAGCTCATTG
*
30742603 AGCTAAAATTGAGCT
1 AGCTAAAAATGAGCT
30742618 GAATTGAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (20 bp):
AGCTAAAAATGAGCTCATTG
Found at i:30745516 original size:40 final size:39
Alignment explanation
Indices: 30745472--30745696 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
30745462 GCTCCTCGTT
* *
30745472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
30745512 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
* *
30745552 CAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCA
*
30745592 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
* ** * * * *
30745632 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGG-TTTAGTAAC-TCGCA
*
30745673 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
30745697 ATATCATTCA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 147 0.90
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:30745584 original size:80 final size:79
Alignment explanation
Indices: 30745472--30745698 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 79
30745462 GCTCCTCGTT
* *
30745472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
30745537 ATTTAGTAACTGGCA
65 ATTTAGTAACTCGCA
* *
30745552 CAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
30745617 ATTTAGTATCTCGCA
65 ATTTAGTAACTCGCA
* * * * * * *
30745632 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
30745695 GGAT
63 GGAT
30745699 ATCATTCAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.02
80 112 0.88
81 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:30745685 original size:120 final size:120
Alignment explanation
Indices: 30745472--30745695 Score: 301
Period size: 120 Copynumber: 1.9 Consensus size: 120
30745462 GCTCCTCGTT
* *
30745472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAAGGCCTTCGGGACTTAACCCGG
* *
30745537 ATTTAGTAACTGGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
* * **
30745592 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAAGGCCTTCGGGA-CTTAACCC
* * *
30745655 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
30745696 GATATCATTC
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
119 3 0.03
120 77 0.86
121 10 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAAGGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
Found at i:30747468 original size:21 final size:21
Alignment explanation
Indices: 30747442--30747482 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30747432 TACACACATT
30747442 TTTTTTTTGTATTCATCATAC
1 TTTTTTTTGTATTCATCATAC
*
30747463 TTTTTTTTGTTTTCATCATA
1 TTTTTTTTGTATTCATCATA
30747483 TTCCCTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTTTTTGTATTCATCATAC
Found at i:30754379 original size:40 final size:40
Alignment explanation
Indices: 30754194--30754420 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
30754184 GCTCCTCGTT
* *
30754194 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
30754234 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
30754274 CAAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30754314 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * *
30754354 CAAAGGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30754395 CAAA-GCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAACCCGGAT
30754421 ATCATTCAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 149 0.90
41 13 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30758726 original size:537 final size:537
Alignment explanation
Indices: 30757713--30758789 Score: 1902
Period size: 537 Copynumber: 2.0 Consensus size: 537
30757703 AATTTTTTGC
30757713 TCTCGCTCATTCTGTTTTGATTTTTCAATAGAACTTCTCATTTTAAGTTGATCTTCATACACTTG
1 TCTCGCTCATTCTGTTTTGATTTTTCAATAGAACTTCTCATTTTAAGTTGATCTTCATACACTTG
*
30757778 TTTGGGTGTTAGCGGAGCTAATGTCACCATTCATCCCAAATGTTTGAAGGTAAATCGGTTTGTGT
66 TTTGGGTGTTAGCGGAGCTAATGTCACCATTCATCCCAAATGTTTGAAGGTAAATCAGTTTGTGT
* *
30757843 ATCCGTCATGAATTGCTTGTTTGTCGAATTACCAAGGACGCCCCAAAAGAAGATGCCCCGCATGC
131 ATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCCCCACATGC
30757908 ATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATAAGCACTTG
196 ATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATAAGCACTTG
*
30757973 CTTTGTTACCTTAAATTCTCCACCATCGTTAAGCCATTGGAGTTTATACGGATGGGGATGTTTAA
261 CTTTGTTACCTTAAATTCTCCACCATAGTTAAGCCATTGGAGTTTATACGGATGGGGATGTTTAA
* * * *
30758038 TGGTGGCCAATCCGAGTTTCTCCACCATCATTGAACTTGCCACATTTGTACAACTTCCCCCATCA
326 TGGTGGCCAATCCAAGTTTCTCCACCATCATCGAACTAGCCACATTCGTACAACTTCCCCCATCA
* *
30758103 ATTATAACGCAACAAATCTTACCTTGCACTTGACATCGCGTATGAAAAATGTTTTCGCGTTGTTG
391 ATTATAACACAACAAATCTTACCTTGCACTTGACATCGCGTATGAAAAATATTTTCGCGTTGTTG
* *
30758168 ATCGTTTTCGGCACCTTGCAAAGTAAGGCTTCTCTTCACCACCAATATTTCTCCATTTTCGGCTT
456 ATCATTTTCGGCACCTTGCAAAGTAAGGCTCCTCTTCACCACCAATATTTCTCCATTTTCGGCTT
*
30758233 GTTCAACATCTTCTTCA
521 GTTCAACATCTTCCTCA
30758250 TCTCGCTCATTCTGTTTTGATTTTTCAATAGAACTTCTCATTTTAAGTTGATCTTCATACACTTG
1 TCTCGCTCATTCTGTTTTGATTTTTCAATAGAACTTCTCATTTTAAGTTGATCTTCATACACTTG
30758315 TTTGGGTGTTAGCGGAGCTAATGTCACCATTCATCCCAAATGTTTGAAGGTAAATCAGTTTGTGT
66 TTTGGGTGTTAGCGGAGCTAATGTCACCATTCATCCCAAATGTTTGAAGGTAAATCAGTTTGTGT
* *
30758380 ATCCGTCATGAATTGCTTGTTTGTAGAATTGCCAAGGCCGCCCCAAAAGAAGATGCCCCACATGC
131 ATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCCCCACATGC
*
30758445 ATTGGTACAATGTTACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATAAGCACTTG
196 ATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATAAGCACTTG
**
30758510 CTTTGTTACCTTAAATTCTCCACCATAGTTAAGCCATTGGAGTTTATACGGATGGGGATGTTTGG
261 CTTTGTTACCTTAAATTCTCCACCATAGTTAAGCCATTGGAGTTTATACGGATGGGGATGTTTAA
*
30758575 TGGTGGCCAATCCAAGTTTCTCCACCATCATCGAACTAGCCACGTTCGTACAACTTCCCCCATCA
326 TGGTGGCCAATCCAAGTTTCTCCACCATCATCGAACTAGCCACATTCGTACAACTTCCCCCATCA
* * * * *
30758640 ATTATAACACAACAAATCTTACCTTGCACTTGACATTGTGTATGGAAGATATTTTCGTGTTGTTG
391 ATTATAACACAACAAATCTTACCTTGCACTTGACATCGCGTATGAAAAATATTTTCGCGTTGTTG
* *
30758705 ATCATTTTCGGCACCTTGCAAAGTAATGCTCCTTTTCACCACCAATATTTCTCCATTTTCGGCTT
456 ATCATTTTCGGCACCTTGCAAAGTAAGGCTCCTCTTCACCACCAATATTTCTCCATTTTCGGCTT
* *
30758770 GTTCCACTTCTTCCTCA
521 GTTCAACATCTTCCTCA
30758787 TCT
1 TCT
30758790 TCGGTTTGTT
Statistics
Matches: 512, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
537 512 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (537 bp):
TCTCGCTCATTCTGTTTTGATTTTTCAATAGAACTTCTCATTTTAAGTTGATCTTCATACACTTG
TTTGGGTGTTAGCGGAGCTAATGTCACCATTCATCCCAAATGTTTGAAGGTAAATCAGTTTGTGT
ATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCCCCACATGC
ATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATAAGCACTTG
CTTTGTTACCTTAAATTCTCCACCATAGTTAAGCCATTGGAGTTTATACGGATGGGGATGTTTAA
TGGTGGCCAATCCAAGTTTCTCCACCATCATCGAACTAGCCACATTCGTACAACTTCCCCCATCA
ATTATAACACAACAAATCTTACCTTGCACTTGACATCGCGTATGAAAAATATTTTCGCGTTGTTG
ATCATTTTCGGCACCTTGCAAAGTAAGGCTCCTCTTCACCACCAATATTTCTCCATTTTCGGCTT
GTTCAACATCTTCCTCA
Found at i:30761032 original size:45 final size:46
Alignment explanation
Indices: 30760963--30761055 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
30760953 AGTTTAAAGG
*
30760963 ACCTCGACCCATTATCAAGAATGATA-AAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGAAACCTTGGTATATGATGA
* * *
30761008 ACCTCGACCCACTAT-AAGGGATGATAGGAACCTTGGTATATTATGA
1 ACCTCGACCCACTATCAA-GAATGATAGAAACCTTGGTATATGATGA
30761054 AC
1 AC
30761056 GCCACACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.05
45 21 0.50
46 19 0.45
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGAAACCTTGGTATATGATGA
Found at i:30762828 original size:20 final size:20
Alignment explanation
Indices: 30762803--30762857 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
30762793 AACTAAAGTA
30762803 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
* * *
30762823 AGCTAAGAACGAGCTTATTG
1 AGCTAAAAATGAGCTCATTG
*
30762843 AGCTAAAATTGAGCT
1 AGCTAAAAATGAGCT
30762858 GAATTGAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (20 bp):
AGCTAAAAATGAGCTCATTG
Found at i:30763015 original size:20 final size:19
Alignment explanation
Indices: 30762972--30763018 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
30762962 AGGTTCACCG
*
30762972 TTTCAATTTGATGTGACAA
1 TTTCAATTTGATATGACAA
30762991 TTTCAATTTGATATAGACACA
1 TTTCAATTTGATAT-GACA-A
30763012 -TTCAATT
1 TTTCAATT
30763019 CAACTAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
20 11 0.44
21 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTCAATTTGATATGACAA
Found at i:30770063 original size:20 final size:20
Alignment explanation
Indices: 30770040--30770082 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
30770030 AACTAAAGTA
*
30770040 AGCTAACAATGAGCTCATTG
1 AGCTAACAACGAGCTCATTG
*
30770060 AGCTAAGAACGAGCTCATTG
1 AGCTAACAACGAGCTCATTG
30770080 AGC
1 AGC
30770083 GAAAATTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (20 bp):
AGCTAACAACGAGCTCATTG
Found at i:30770093 original size:20 final size:20
Alignment explanation
Indices: 30770047--30770094 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30770037 GTAAGCTAAC
*
30770047 AATGAGCTCATTGAGCTAAG
1 AATGAGCTCATTGAGCGAAG
*
30770067 AACGAGCTCATTGAGCGAA-
1 AATGAGCTCATTGAGCGAAG
30770086 AATTGAGCT
1 AA-TGAGCT
30770095 GAATTGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (20 bp):
AATGAGCTCATTGAGCGAAG
Found at i:30771761 original size:28 final size:27
Alignment explanation
Indices: 30771711--30771770 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
30771701 GCTAGAGCAT
*
30771711 ATTAAAAACATGTAATAGCTTAAGACAC
1 ATTAAAAACATGTAATAACTTAA-ACAC
* * * *
30771739 ATTAAACACATGTACTAATTTAAACAT
1 ATTAAAAACATGTAATAACTTAAACAC
30771766 ATTAA
1 ATTAA
30771771 TTCTTGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAACATGTAATAACTTAAACAC
Found at i:30774938 original size:15 final size:14
Alignment explanation
Indices: 30774918--30774974 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
30774908 ACTCTCATCA
30774918 TTCTTTTCTCTCTTT
1 TTCTTTT-TCTCTTT
*
30774933 TTCTTTTTAATCTTT
1 TTCTTTTT-CTCTTT
*
30774948 TTGTTTTTTCTCTTTT
1 TT-CTTTTTCTC-TTT
30774964 TTCTTTTTCTC
1 TTCTTTTTCTC
30774975 GCTCAATGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.03
15 24 0.69
16 10 0.29
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:30774957 original size:22 final size:22
Alignment explanation
Indices: 30774930--30774971 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30774920 CTTTTCTCTC
30774930 TTTTTCT-TTTTAATCTTTTTGT
1 TTTTTCTCTTTT-ATCTTTTTGT
*
30774952 TTTTTCTCTTTTTTCTTTTT
1 TTTTTCTCTTTTATCTTTTT
30774972 CTCGCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTCTTTTATCTTTTTGT
Found at i:30778800 original size:46 final size:46
Alignment explanation
Indices: 30778748--30778835 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
30778738 ACAGTGTGGT
*
30778748 GTTCATCATATACCAAGGTTCTTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
30778794 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGT
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGT
30778836 AAGGTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:30789076 original size:28 final size:27
Alignment explanation
Indices: 30789041--30789102 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
30789031 TATTTTCATG
30789041 CATGCATTTAATATGTCTTAG-TTAGTA
1 CATGCA-TTAATATGTCTTAGCTTAGTA
* *
30789068 CATGACATTAATTTGTCTTAGCTTATTA
1 CATG-CATTAATATGTCTTAGCTTAGTA
30789096 CAT-CATT
1 CATGCATT
30789103 TTATTGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 17 0.55
28 10 0.32
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
CATGCATTAATATGTCTTAGCTTAGTA
Found at i:30791359 original size:18 final size:17
Alignment explanation
Indices: 30791336--30791380 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
30791326 TGTAATTGAA
30791336 AAAAAAAATTGGAAGTAT
1 AAAAAAAATTGG-AGTAT
*
30791354 AAAAAAAAGTTTGAGTAT
1 AAAAAAAA-TTGGAGTAT
30791372 AAAAAAAAT
1 AAAAAAAAT
30791381 GAAGTGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (17 bp):
AAAAAAAATTGGAGTAT
Found at i:30792311 original size:24 final size:25
Alignment explanation
Indices: 30792279--30792375 Score: 83
Period size: 24 Copynumber: 3.9 Consensus size: 25
30792269 ATCTCAATCG
*
30792279 AATGAAAAAGAAAAAAACG-AAGAA
1 AATGAAAAAGAAAAAAAAGAAAGAA
*
30792303 AATGAAAAATAAAAAAAAGAAAGAA
1 AATGAAAAAGAAAAAAAAGAAAGAA
* * **
30792328 AA-CAATAAA-AAGAAAGTGAAAAGAA
1 AATGAA-AAAGAAAAAAAAG-AAAGAA
*
30792353 AATGAGAAAAGAAAAACAAGAAA
1 AATGA-AAAAGAAAAAAAAGAAA
30792376 ATATAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
24 25 0.45
25 18 0.32
26 7 0.12
27 6 0.11
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.06
Consensus pattern (25 bp):
AATGAAAAAGAAAAAAAAGAAAGAA
Found at i:30792317 original size:25 final size:24
Alignment explanation
Indices: 30792279--30792375 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 24
30792269 ATCTCAATCG
*
30792279 AATGAAAAAGAAAAAAACG-AAGAA
1 AATGAAAAAAAAAAAAA-GAAAGAA
30792303 AATGAAAAATAAAAAAAAGAAAGAA
1 AATGAAAAA-AAAAAAAAGAAAGAA
* * **
30792328 AA-CAATAAAAAGAAAGTGAAAAGAA
1 AATGAA-AAAAAAAAAAAG-AAAGAA
*
30792353 AATGAGAAAAGAAAAACAAGAAA
1 AATGA-AAAA-AAAAAAAAGAAA
30792376 ATATAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
24 18 0.32
25 25 0.45
26 7 0.12
27 6 0.11
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.06
Consensus pattern (24 bp):
AATGAAAAAAAAAAAAAGAAAGAA
Found at i:30792329 original size:18 final size:18
Alignment explanation
Indices: 30792308--30792343 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30792298 AAGAAAATGA
*
30792308 AAAATAAAAAAAAGAAAG
1 AAAACAAAAAAAAGAAAG
*
30792326 AAAACAATAAAAAGAAAG
1 AAAACAAAAAAAAGAAAG
30792344 TGAAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAACAAAAAAAAGAAAG
Found at i:30797000 original size:27 final size:27
Alignment explanation
Indices: 30796970--30797147 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
30796960 ATATTGAGCC
* *
30796970 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
30796997 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30797024 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30797052 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30797079 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30797106 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
30797133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30797148 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30797082 original size:55 final size:54
Alignment explanation
Indices: 30796970--30797147 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
30796960 ATATTGAGCC
* * * * *
30796970 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
30797024 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
30797079 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
30797133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30797148 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:30804106 original size:27 final size:26
Alignment explanation
Indices: 30804068--30804124 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
30804058 CTTCACATCC
* *
30804068 TTTT-TCAATCTCAATTTCTTTTTTCT
1 TTTTCTCAATCTCAATCTC-ATTTTCT
* *
30804094 TTTTCTCACTCTCACTCTCATTTTCT
1 TTTTCTCAATCTCAATCTCATTTTCT
30804120 TTTTC
1 TTTTC
30804125 AATTTCTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTCTCAATCTCAATCTCATTTTCT
Found at i:30804173 original size:24 final size:23
Alignment explanation
Indices: 30804114--30804174 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
30804104 CTCACTCTCA
*
30804114 TTTTCTTTTTCAATTTCTTGTTT
1 TTTTCTTTTTCACTTTCTTGTTT
* *
30804137 TCTTTCATGTTCACTTTCTT-TTCGT
1 T-TTTCTTTTTCACTTTCTTGTT--T
30804162 TTTTCTTTTTCAC
1 TTTTCTTTTTCAC
30804175 ATGCTATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 3 0.10
24 25 0.83
25 2 0.07
ACGTcount: A:0.08, C:0.20, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTCTTTTTCACTTTCTTGTTT
Found at i:30807444 original size:18 final size:18
Alignment explanation
Indices: 30807421--30807455 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30807411 TTTTTCTGTT
30807421 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
30807439 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
30807456 TTTCTTTTCT
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:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:30807545 original size:15 final size:16
Alignment explanation
Indices: 30807525--30807554 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30807515 CAATTTCTTT
30807525 TTCTTTTTC-TTTTTC
1 TTCTTTTTCATTTTTC
30807540 TTCTTTTTCATTTTT
1 TTCTTTTTCATTTTT
30807555 ATTACAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTTTTCATTTTTC
Found at i:30807553 original size:6 final size:6
Alignment explanation
Indices: 30807443--30807541 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
30807433 TCAATCTCAA
* * ** **
30807443 TTTCTT TTTCAAT TTTC-T TTTCTT CGTTTGCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTCTT TTTCTT --TTT-CTT TTTCTT TTTCTT TTTCTT
* **
30807494 TTTCTT TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
30807542 CTTTTTCATT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
5 5 0.07
6 52 0.73
7 8 0.11
8 3 0.04
9 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:30808436 original size:10 final size:11
Alignment explanation
Indices: 30808415--30808439 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30808405 TTTTTTTATA
30808415 TACGATTTTTT
1 TACGATTTTTT
30808426 TACGATTTTTT
1 TACGATTTTTT
30808437 TAC
1 TAC
30808440 AAATCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (11 bp):
TACGATTTTTT
Found at i:30813712 original size:30 final size:30
Alignment explanation
Indices: 30813678--30813737 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
30813668 GCTAAATAAA
30813678 GGGTCTC-AGTTTTATTCATATTCATTCCTT
1 GGGTCTCGA-TTTTATTCATATTCATTCCTT
30813708 GGGTCTCGATTTTATTCATATTCATTCCTT
1 GGGTCTCGATTTTATTCATATTCATTCCTT
30813738 TTTCTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (30 bp):
GGGTCTCGATTTTATTCATATTCATTCCTT
Found at i:30818205 original size:40 final size:41
Alignment explanation
Indices: 30818055--30818210 Score: 174
Period size: 40 Copynumber: 3.9 Consensus size: 41
30818045 TATAACCACA
* * ** * *
30818055 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* * *
30818095 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* *
30818135 CGCACAAATGCCTTCAGGTCTTAGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
* *
30818175 AGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
30818211 TCAAATGCTC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 97 0.96
41 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACT
Found at i:30835121 original size:16 final size:16
Alignment explanation
Indices: 30835100--30835137 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
30835090 AGTTAAATTT
30835100 GTTGTTTTGGGTTCTC
1 GTTGTTTTGGGTTCTC
30835116 GTTGTTTTGGGTTCTC
1 GTTGTTTTGGGTTCTC
*
30835132 ATTGTT
1 GTTGTT
30835138 AGATTCAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.03, C:0.11, G:0.29, T:0.58
Consensus pattern (16 bp):
GTTGTTTTGGGTTCTC
Found at i:30841627 original size:13 final size:14
Alignment explanation
Indices: 30841609--30841639 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30841599 CAAAAAGTAT
30841609 AAAAAAAGAAGAGA
1 AAAAAAAGAAGAGA
*
30841623 AAAAAAAGAAGTGA
1 AAAAAAAGAAGAGA
30841637 AAA
1 AAA
30841640 GTCTTGCGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAGAGA
Found at i:30844399 original size:15 final size:16
Alignment explanation
Indices: 30844375--30844404 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30844365 ATATTGTAAT
30844375 AAAAATGAAAAAGAAG
1 AAAAATGAAAAAGAAG
30844391 AAAAA-GAAAAAGAA
1 AAAAATGAAAAAGAA
30844405 ATCGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAATGAAAAAGAAG
Found at i:30845302 original size:32 final size:32
Alignment explanation
Indices: 30845256--30845319 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
30845246 CTGGTGTTTA
* **
30845256 ATCACCTTTGTTTTGGTGTGGTGTTCAACCTT
1 ATCACCTTTATTTTGGTGTGGCATTCAACCTT
30845288 ATCACCTTTATTTTGGTGTGGCATTCAACCTT
1 ATCACCTTTATTTTGGTGTGGCATTCAACCTT
30845320 TCTACAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (32 bp):
ATCACCTTTATTTTGGTGTGGCATTCAACCTT
Found at i:30846086 original size:18 final size:18
Alignment explanation
Indices: 30846063--30846114 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
30846053 CGAAGAGGAA
**
30846063 GAAAAAGAAATAGAAAGT
1 GAAAAAGAAATAGAAAAC
30846081 GAAAAAGAAATAGAAAAC
1 GAAAAAGAAATAGAAAAC
*
30846099 GAAAAAGAAAAAGAAA
1 GAAAAAGAAATAGAAA
30846115 TTGCAAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (18 bp):
GAAAAAGAAATAGAAAAC
Found at i:30846132 original size:6 final size:6
Alignment explanation
Indices: 30846061--30846114 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
30846051 AACGAAGAGG
* ** * *
30846061 AAGAAA AAGAAA TAGAAA GTGAAA AAGAAA TAGAAA ACGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
30846109 AAGAAA
1 AAGAAA
30846115 TTGCAAGTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:30846138 original size:24 final size:24
Alignment explanation
Indices: 30846099--30846157 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
30846089 AATAGAAAAC
* *
30846099 GAAAAAGAAAAAGAAATTGCAAGT
1 GAAAAAGAAAAAGAAAATGCAAGA
** **
30846123 GAAAAAGAAATCGAAAATGTGAGA
1 GAAAAAGAAAAAGAAAATGCAAGA
30846147 GAAAAAGAAAA
1 GAAAAAGAAAA
30846158 CAAAGAAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.22, T:0.10
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGCAAGA
Found at i:30848024 original size:34 final size:34
Alignment explanation
Indices: 30847980--30848055 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
30847970 GAGTTAGTTT
* *
30847980 ATTAACTTTAGTTCAACTCAAATAAGTGTTTGTA
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
*
30848014 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
30848048 ATTAATTT
1 ATTAATTT
30848056 GTTTAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:30850697 original size:40 final size:40
Alignment explanation
Indices: 30850666--30850995 Score: 502
Period size: 40 Copynumber: 8.3 Consensus size: 40
30850656 GGACTAAGAT
* * * *
30850666 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
30850706 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30850746 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30850786 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30850826 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30850866 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
30850906 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
30850946 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30850985 CCGAAGGCATT
1 CCGAAGGCATT
30850996 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:30850750 original size:80 final size:80
Alignment explanation
Indices: 30850613--30850995 Score: 504
Period size: 80 Copynumber: 4.8 Consensus size: 80
30850603 TTGAATGCTG
* * * * * * **
30850613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
30850676 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
30850692 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
30850757 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
30850773 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
30850838 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
30850853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
30850918 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
30850933 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
30850996 TGAACGAGGA
Statistics
Matches: 276, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
79 35 0.13
80 231 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:30850829 original size:120 final size:120
Alignment explanation
Indices: 30850613--30850995 Score: 504
Period size: 120 Copynumber: 3.2 Consensus size: 120
30850603 TTGAATGCTG
* * * * * **
30850613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
30850676 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
30850733 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
30850798 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
30850853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
30850918 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
30850972 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30850996 TGAACGAGGA
Statistics
Matches: 234, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 189 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:30858764 original size:40 final size:40
Alignment explanation
Indices: 30858681--30858943 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30858671 TTGAATGCTG
* * * * * *
30858681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30858721 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30858761 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30858801 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30858841 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30858881 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30858920 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30858944 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30858963 original size:79 final size:80
Alignment explanation
Indices: 30858720--30858978 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30858710 AAGTGAATAT
* * * * * *
30858720 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30858784 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30858800 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30858865 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30858880 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30858944 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30858959 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30858979 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30860772 original size:42 final size:42
Alignment explanation
Indices: 30860725--30860809 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
30860715 ACCTACACAA
*
30860725 GGCTGATGGGCTGCCGTTCATTCATCTACATTCAAGAGCTAT
1 GGCTGATGGGCTGCCGTTCATTCATCCACATTCAAGAGCTAT
30860767 GGCTGATGGGCTGCCGTTCATTCATCCACATTCAAGAGCTAT
1 GGCTGATGGGCTGCCGTTCATTCATCCACATTCAAGAGCTAT
30860809 G
1 G
30860810 TTTGCTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (42 bp):
GGCTGATGGGCTGCCGTTCATTCATCCACATTCAAGAGCTAT
Found at i:30862645 original size:18 final size:18
Alignment explanation
Indices: 30862622--30862664 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
30862612 GTTTCAAACT
30862622 TGACACGTCCCTGTTACC
1 TGACACGTCCCTGTTACC
30862640 TGACACGTCCCTGTTACC
1 TGACACGTCCCTGTTACC
*
30862658 TTACACG
1 TGACACG
30862665 ATTGCTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.16, T:0.28
Consensus pattern (18 bp):
TGACACGTCCCTGTTACC
Found at i:30881960 original size:10 final size:10
Alignment explanation
Indices: 30881945--30881975 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
30881935 CGTAACGTGA
30881945 AAAAAAAATC
1 AAAAAAAATC
30881955 AAAAAAAAT-
1 AAAAAAAATC
30881964 AAAAAAAATC
1 AAAAAAAATC
30881974 AA
1 AA
30881976 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:30885034 original size:20 final size:20
Alignment explanation
Indices: 30885009--30885053 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30884999 CATGTGGTTC
*
30885009 AGCTCACTT-GAGCTCAAGTT
1 AGCTCA-TTCGAGCTCAAGTG
*
30885029 AGCTCATTCGAGGTCAAGTG
1 AGCTCATTCGAGCTCAAGTG
30885049 AGCTC
1 AGCTC
30885054 CCACGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTG
Found at i:30890459 original size:40 final size:40
Alignment explanation
Indices: 30890414--30890490 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
30890404 AGAAAAAGAG
30890414 AATGAAAAAGAGAAAAAAGAGATTGAGAGTGAAAAGGGAT
1 AATGAAAAAGAGAAAAAAGAGATTGAGAGTGAAAAGGGAT
*
30890454 AATGAAAAAGAGCAAAAAGAGATTGAGAGTGAAAAGG
1 AATGAAAAAGAGAAAAAAGAGATTGAGAGTGAAAAGG
30890491 AATGTGAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.57, C:0.01, G:0.30, T:0.12
Consensus pattern (40 bp):
AATGAAAAAGAGAAAAAAGAGATTGAGAGTGAAAAGGGAT
Found at i:30893215 original size:13 final size:12
Alignment explanation
Indices: 30893199--30893293 Score: 58
Period size: 12 Copynumber: 7.8 Consensus size: 12
30893189 CTCATTTTCT
30893199 TTTCTTTGTTCAA
1 TTTCTTT-TTCAA
*
30893212 TTTCTTTTTCGATT
1 TTTCTTTTTC-A-A
30893226 TTCTCTTTTTCAA
1 TT-TCTTTTTCAA
*
30893239 TTTCTTTCTCAA
1 TTTCTTTTTCAA
30893251 --TC---TT-AA
1 TTTCTTTTTCAA
30893257 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
30893269 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
30893284 TTTCTTTTTC
1 TTTCTTTTTC
30893294 TCTCACTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 25
0.68 0.05 0.26
Matches are distributed among these distances:
6 2 0.03
7 1 0.02
8 2 0.03
10 2 0.03
11 2 0.03
12 17 0.26
13 17 0.26
14 10 0.15
15 12 0.18
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:30893239 original size:27 final size:29
Alignment explanation
Indices: 30893201--30893277 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 29
30893191 CATTTTCTTT
*
30893201 TCTTTGTTCAATTTCTTTTTCGAT-TT-TC
1 TCTTT-TTCAATTTCTTTTTCAATCTTATC
* *
30893229 TCTTTTTCAATTTCTTTCTCAATCTTAATT
1 TCTTTTTCAATTTCTTTTTCAATCTT-ATC
30893259 TCTTTTTCAATTTTCTTTT
1 TCTTTTTCAA-TTTCTTTT
30893278 CTTCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 16 0.39
28 7 0.17
30 11 0.27
31 7 0.17
ACGTcount: A:0.14, C:0.18, G:0.03, T:0.65
Consensus pattern (29 bp):
TCTTTTTCAATTTCTTTTTCAATCTTATC
Found at i:30893278 original size:18 final size:18
Alignment explanation
Indices: 30893192--30893280 Score: 56
Period size: 18 Copynumber: 4.7 Consensus size: 18
30893182 TTTCTAACTC
30893192 ATTTTCTTTTCTTTGTTCA
1 ATTTTCTTTTCTTT-TTCA
30893211 A-TTTCTTTTTCGATTTTCTC-
1 ATTTTC-TTTTC--TTTT-TCA
* * *
30893231 TTTTTCAATTTCTTTCTCA
1 ATTTTC-TTTTCTTTTTCA
* **
30893250 ATCTTAATTTCTTTTTCA
1 ATTTTCTTTTCTTTTTCA
30893268 ATTTTCTTTTCTT
1 ATTTTCTTTTCTT
30893281 CATTTTCTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
18 27 0.51
19 12 0.23
20 1 0.02
21 13 0.25
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTCTTTTCTTTTTCA
Found at i:30893287 original size:27 final size:26
Alignment explanation
Indices: 30893198--30893293 Score: 79
Period size: 27 Copynumber: 3.4 Consensus size: 26
30893188 ACTCATTTTC
30893198 TTTTCTTTGTTCAATTTC-TTT-TTCGA
1 TTTTCTTT-TTCAATTTCTTTTCTTC-A
*
30893224 TTTTCTCTTTTTCAATTTCTTTCTCAATCTTA
1 -TTT-TCTTTTTCAATTTCTTT-TC--T-TCA
*
30893256 ATTTCTTTTTCAATTTTCTTTTCTTCA
1 TTTTCTTTTTCAA-TTTCTTTTCTTCA
30893283 TTTTCTTTTTC
1 TTTTCTTTTTC
30893294 TCTCACTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
27 24 0.42
28 8 0.14
29 1 0.02
30 12 0.21
31 9 0.16
32 2 0.04
33 1 0.02
ACGTcount: A:0.12, C:0.19, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTCTTTTTCAATTTCTTTTCTTCA
Found at i:30897544 original size:24 final size:25
Alignment explanation
Indices: 30897517--30897563 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
30897507 TTAAAACTAC
30897517 TTCTCAAGA-AAACTC-AAGAGAAAA
1 TTCT-AAGAGAAACTCAAAGAGAAAA
*
30897541 TTCTTAGAGAAACTCAAAGAGAA
1 TTCTAAGAGAAACTCAAAGAGAA
30897564 TTTTCACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 10 0.50
25 7 0.35
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (25 bp):
TTCTAAGAGAAACTCAAAGAGAAAA
Found at i:30897965 original size:732 final size:732
Alignment explanation
Indices: 30896380--30899060 Score: 4795
Period size: 732 Copynumber: 3.7 Consensus size: 732
30896370 CTTCCCTAAA
* *
30896380 CCGAATGTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTAA
1 CCGAATCTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
* *
30896445 ATCTGAGTTAGGATGATAGAACGGCAAGATTAATTAAAAAGGATGACTAAGGAACGTTTCTTGCT
66 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
* *
30896510 GCCAAGAAGGGTGCCGAGCAGATTCTTGAATAGGACAATGGCTAGAATCACAACAAAGAGATCAA
131 GCCAAGAAGGGTGCCGAGCAGATTCTTGAAGAGGACAATGGCTAGAAACACAACAAAGAGATCAA
30896575 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
196 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
*
30896640 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACTCCCTTCAAACGGCTCTA
261 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
* *
30896705 ATTTCCCCTCCAATGTGGAACAATGGCAAGAAGAAAGCTGAAGATGGCTCCCACAATCAAAAAGA
326 ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
30896770 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
391 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
* * * *
30896835 ACTAGAAAAAAAATCTAACTTTAATGTATATTCAATGATACCGAATGAGAGGGGGTTGCGCGCGG
456 ACT--CAAAAAAATCTGACTTTAATGTATATTCAATGATACCGAATGATAGGGGGTTGCGCGTGG
* * *** * *
30896900 CCCAATATCGAGTTGCCAAGTCACCGAAAACTCTTACGAAAATGCTAGATGCTCGAATCTGAAAA
519 ACCAAGATCGAGTTTTTAAGTGACCGAAAACTCTTACGAAAATGCTAGATGCTCGGATCTGAAAA
* * *
30896965 TGGAACAGAAAATTAAACTTAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGA
584 TGAAATAGAAAATTAAACATAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGA
*
30897030 TCATCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATT
649 TCAGCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATT
30897095 CAAGAGAGACTCCAAACAG
714 CAAGAGAGACTCCAAACAG
*
30897114 CCGAATGTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
1 CCGAATCTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
*
30897179 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACGTTTCTTGCT
66 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
* *
30897244 GCCAAGAAGGGTGCCGAGCAGATTCTTGAATAGGACAATGGCTAGAATCACAACAAAGAGATCAA
131 GCCAAGAAGGGTGCCGAGCAGATTCTTGAAGAGGACAATGGCTAGAAACACAACAAAGAGATCAA
30897309 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
196 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
*
30897374 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACTCCCTTCAAACGGCTCTA
261 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
30897439 ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
326 ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
*
30897504 TTGTTAAAACTACTTCTCAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
391 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
*
30897569 ACTCAAAAAAATCTGACTTTAATATATATTCAATGATACCGAATGATAGGGGGTTGCGCGTGGAC
456 ACTCAAAAAAATCTGACTTTAATGTATATTCAATGATACCGAATGATAGGGGGTTGCGCGTGGAC
30897634 CAAGATCGAGTTTTTAAGTGACCGAAAACTCTTACGAAAATGCTAGATGCTCGGATCTGAAAATG
521 CAAGATCGAGTTTTTAAGTGACCGAAAACTCTTACGAAAATGCTAGATGCTCGGATCTGAAAATG
30897699 AAATAGAAAATTAAACATAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGATC
586 AAATAGAAAATTAAACATAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGATC
*
30897764 AGCCAAGAACCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATTCA
651 AGCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATTCA
30897829 AGAGAGACTCCAAACAG
716 AGAGAGACTCCAAACAG
* ** *
30897846 CCGAATCTGAAAAGAATAACACCAAAAATAGCAAATTTAATTCAAAGTCCAGCAAAATGAATTGA
1 CCGAATCTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
30897911 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
66 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
* *
30897976 GCCAAGAAGGGTGCCGATCAGATTCTTGAAGAGGACAATGGCTGGAAACACAACAAAGAGATCAA
131 GCCAAGAAGGGTGCCGAGCAGATTCTTGAAGAGGACAATGGCTAGAAACACAACAAAGAGATCAA
*
30898041 AACAAGTTAATCAATAGATCGGCACAAGAAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
196 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
30898106 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
261 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
* *
30898171 ATCTGCCCTCTAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
326 ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
* *
30898236 TTGTTAAAACTACTTCTCAAGAAAACTCAAGAGAAAATTCTTAGAGGAACTCAAAGAGAATTTTC
391 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
* *
30898301 ACTCAAAAAAATCTGACTTTAATGTATATTCAATGATGCCGAATGATAGGGGGTTGCGCGTAGAC
456 ACTCAAAAAAATCTGACTTTAATGTATATTCAATGATACCGAATGATAGGGGGTTGCGCGTGGAC
* ** * *
30898366 CAAGATCGAGTTTTTAAGTGACCAAAAACTCTTACGAAAATGCTAGACACTCTGATCTAAAAATG
521 CAAGATCGAGTTTTTAAGTGACCGAAAACTCTTACGAAAATGCTAGATGCTCGGATCTGAAAATG
*
30898431 AAATAGAAAATTAAACATAGAATCAGTTAGATCTGAAACGAAAATACCCAAAACAATAAAGGATC
586 AAATAGAAAATTAAACATAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGATC
30898496 AGCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATTCA
651 AGCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATTCA
30898561 AGAGAGACTCCAAACAG
716 AGAGAGACTCCAAACAG
* ** *
30898578 CCGAATCTGAAAAGAATAACACCAAAAATAGCAAATTTAATTCAAAGTCCAGCAAAATGAATTGA
1 CCGAATCTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
30898643 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
66 ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
* *
30898708 GCCAAGAAGGGTGCCGATCAGATTCTTGAAGAGGACAATGGCTGGAAACACAACAAAGAGATCAA
131 GCCAAGAAGGGTGCCGAGCAGATTCTTGAAGAGGACAATGGCTAGAAACACAACAAAGAGATCAA
30898773 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
196 AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
30898838 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
261 TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
* * *
30898903 ATCTGCCCTCTAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATAAAAAAGA
326 ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
*
30898968 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAGTTCTTAGAGAAACTCAAAGAGAATTTTC
391 TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
30899033 ACTCAAAAAAATCTGACTTTAATGTATA
456 ACTCAAAAAAATCTGACTTTAATGTATA
30899061 AGCAATGTAT
Statistics
Matches: 1895, Mismatches: 52, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
732 1442 0.76
734 453 0.24
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (732 bp):
CCGAATCTGAAAAGAATAACACCAAAAACAAAAAATTTAATTCAAAGTCCACCAAAATGAATTGA
ATCTGAGTTAGGATGATAGAACGGCAAGATCAATTAAAAAGGATGACTAAGGAACATTTCTTGCT
GCCAAGAAGGGTGCCGAGCAGATTCTTGAAGAGGACAATGGCTAGAAACACAACAAAGAGATCAA
AACAAGTTAATCAATAGATCGGCACAAGCAGAAAAATTTAAAGAGAAATAAACAGCAAGAAAAAA
TAAAGAAAAGTCCTAAGAAGCCTTGAAATCGATAAAGATTTCACAACGCCCTTCAAACGGCTCTA
ATCTCCCCTCCAATGTGGAACAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAAGA
TTGTTAAAACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTAGAGAAACTCAAAGAGAATTTTC
ACTCAAAAAAATCTGACTTTAATGTATATTCAATGATACCGAATGATAGGGGGTTGCGCGTGGAC
CAAGATCGAGTTTTTAAGTGACCGAAAACTCTTACGAAAATGCTAGATGCTCGGATCTGAAAATG
AAATAGAAAATTAAACATAGAATCAATTAGATCTGAAACGAAAATACCCAAAACAATAAAGGATC
AGCCAAGAATCAAAAACACTTATGAATAACTATTCTTGGAAGCCAAGAACACGAAATTGAATTCA
AGAGAGACTCCAAACAG
Found at i:30899720 original size:14 final size:14
Alignment explanation
Indices: 30899701--30899727 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30899691 TTTCTCGGTT
30899701 TAAAGATAAAATAA
1 TAAAGATAAAATAA
30899715 TAAAGATAAAATA
1 TAAAGATAAAATA
30899728 TAAGATATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
TAAAGATAAAATAA
Found at i:30907202 original size:17 final size:18
Alignment explanation
Indices: 30907173--30907216 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
30907163 ACCCACATAG
*
30907173 TATTTTTT-TTATTGTTC
1 TATTTTTTCATATTGTTC
*
30907190 T-TTTTTTCATATTTTTC
1 TATTTTTTCATATTGTTC
30907207 TATTTTTTCA
1 TATTTTTTCA
30907217 CTTCTTCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (18 bp):
TATTTTTTCATATTGTTC
Found at i:30907789 original size:27 final size:25
Alignment explanation
Indices: 30907737--30907789 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
30907727 AAACTCTTCT
*
30907737 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
*
30907762 AAAAGAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAACTC-AAGAGAAATTATTA
30907789 A
1 A
30907790 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:30910454 original size:51 final size:51
Alignment explanation
Indices: 30910336--30910572 Score: 205
Period size: 51 Copynumber: 4.7 Consensus size: 51
30910326 TCGATACATG
* * * * * * *
30910336 TAGTAGCCTTCATATAGTACTACACACGTGATCA--AACTTTTCGGTTCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGGTACACA
* *
30910386 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTGATACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGGTACACA
* * **
30910437 TAGTAGCCTGCACATAGTACTACACACGTGA-TA-GAAGCTATCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAA--TATCCGGTACACA
* * * * * * * *
30910488 TAGTAGCTTGCACGTAGTACTACATATGCGACCTTTCAT-TCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGGTACACA
* *
30910538 TAGTAGCCTACACATAGTACAACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
30910573 CACTTTCACT
Statistics
Matches: 146, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.01
50 67 0.46
51 74 0.51
52 2 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGGTACACA
Found at i:30910468 original size:101 final size:101
Alignment explanation
Indices: 30910327--30910568 Score: 258
Period size: 101 Copynumber: 2.4 Consensus size: 101
30910317 TATTATCATT
** * * * *
30910327 CGATACATGTAGTAGCCTTCATATAGTACTACACACGTGATCA-AA-CTTTTCGGT-T-CACGTA
1 CGATACACATAGTAGCCTACACATAGTACTACACACGTGAT-AGAAGCTATCCGGTATGCA--TA
*
30910388 GTAGCCTGCACATAGTACTACACACGTGACCATTAATATC
63 GTAGCCTGCACATAGTACTACACACGCGACCATTAAT-TC
* *
30910428 TGATACACATAGTAGCCTGCACATAGTACTACACACGTGATAGAAGCTATCCGGTATGCATAGTA
1 CGATACACATAGTAGCCTACACATAGTACTACACACGTGATAGAAGCTATCCGGTATGCATAGTA
* * * * * *
30910493 GCTTGCACGTAGTACTACATATGCGACCTTTCATTC
66 GCCTGCACATAGTACTACACACGCGACCATTAATTC
* * *
30910529 CGGTACACGTAGTAGCCTACACATAGTACAACACACGTGA
1 CGATACACATAGTAGCCTACACATAGTACTACACACGTGA
30910569 CCATCACTTT
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 1 0.01
101 75 0.64
102 39 0.33
103 1 0.01
104 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
CGATACACATAGTAGCCTACACATAGTACTACACACGTGATAGAAGCTATCCGGTATGCATAGTA
GCCTGCACATAGTACTACACACGCGACCATTAATTC
Found at i:30913122 original size:22 final size:22
Alignment explanation
Indices: 30913070--30913123 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
30913060 TTTCATTCCA
*
30913070 AAAACCCAAACCATTTCGTACCT
1 AAAA-CCAAACCAATTCGTACCT
* *
30913093 ACACCCAAATCCAATTCGTA-CT
1 AAAACCAAA-CCAATTCGTACCT
30913115 AAAACCAAA
1 AAAACCAAA
30913124 ACCATTCCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAACCAAACCAATTCGTACCT
Found at i:30913498 original size:15 final size:14
Alignment explanation
Indices: 30913466--30913505 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
30913456 CATATACGAA
30913466 ATTTAAAAAAAGTG
1 ATTTAAAAAAAGTG
* *
30913480 ATTTAAAAAATCGTT
1 ATTTAAAAAA-AGTG
30913495 ATTTAAAAAAA
1 ATTTAAAAAAA
30913506 AGTGTTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (14 bp):
ATTTAAAAAAAGTG
Found at i:30916736 original size:72 final size:73
Alignment explanation
Indices: 30916654--30916808 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 73
30916644 CTCCTCTCTT
* * * *
30916654 AATGCCGTCCCAAGTCCCATGCACACATTAAATTTGGCAGCTTGGAAAAAGGCAGCAGTAACC-T
1 AATGTCGTCCCAAGTCCCATGCACACATTAAATTCGGCAGCTTGGAAAAAGACAGCAGCAACCTT
*
30916718 TCTCTTGA
66 TCACTTGA
* * *
30916726 AATGTCGTCCCAAGTCCCATGCACACATTAAATTCGGTAGCTTGGAAAAATACAGTAGCAACCTT
1 AATGTCGTCCCAAGTCCCATGCACACATTAAATTCGGCAGCTTGGAAAAAGACAGCAGCAACCTT
*
30916791 TCACTTTA
66 TCACTTGA
30916799 AATGTCGTCC
1 AATGTCGTCC
30916809 ATGTACCTGC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 56 0.77
73 17 0.23
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (73 bp):
AATGTCGTCCCAAGTCCCATGCACACATTAAATTCGGCAGCTTGGAAAAAGACAGCAGCAACCTT
TCACTTGA
Found at i:30925966 original size:50 final size:50
Alignment explanation
Indices: 30925907--30926125 Score: 354
Period size: 50 Copynumber: 4.4 Consensus size: 50
30925897 GGGGCCTAAT
30925907 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
*
30925957 TGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
30926007 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
* * *
30926057 CGATGTGATGAATGTGAAAGTG--TATATATGTG-ACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
* * *
30926104 CAACGTGATGGATGTGAAAGTG
1 CGATGTGATGAATGTGAAAGTG
30926126 CATAAATGTG
Statistics
Matches: 161, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
47 31 0.19
48 10 0.06
50 120 0.75
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (50 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGAATAGGGCCTAATGGC
Found at i:30926315 original size:37 final size:37
Alignment explanation
Indices: 30926261--30926336 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
30926251 GAGTTCTAAG
* * *
30926261 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
30926298 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
30926335 GA
1 GA
30926337 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:30930205 original size:18 final size:18
Alignment explanation
Indices: 30930184--30930221 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30930174 CGATTTTACC
*
30930184 TCACT-TTTTCTTTCTTTT
1 TCACTCTTTT-TTTATTTT
30930202 TCACTCTTTTTTTATTTT
1 TCACTCTTTTTTTATTTT
30930220 TC
1 TC
30930222 TATCTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
TCACTCTTTTTTTATTTT
Found at i:30933542 original size:28 final size:28
Alignment explanation
Indices: 30933494--30933550 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
30933484 ATGTGGCTGG
* *
30933494 ACTTGGACAACATTAAGACATGCATTAA
1 ACTTAGACAACATTAAAACATGCATTAA
30933522 ACTTAGACAA-ATTAATAACATGCATTAA
1 ACTTAGACAACATTAA-AACATGCATTAA
30933550 A
1 A
30933551 AAAATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (28 bp):
ACTTAGACAACATTAAAACATGCATTAA
Found at i:30939294 original size:9 final size:9
Alignment explanation
Indices: 30939280--30939307 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30939270 AAGACTTTGA
30939280 TTTATTTAT
1 TTTATTTAT
30939289 TTTATTTAT
1 TTTATTTAT
30939298 TTTATTTAT
1 TTTATTTAT
30939307 T
1 T
30939308 ATAATATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTAT
Found at i:30939460 original size:50 final size:52
Alignment explanation
Indices: 30939397--30939514 Score: 177
Period size: 50 Copynumber: 2.3 Consensus size: 52
30939387 TAATAAAGTT
* * *
30939397 ATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGAC
1 ATGCATTATGTAACTCCCATGTTAGTTCAAGTCTGCATCATTAAATTAAGAC
*
30939447 ATGCATTATGTAACTCCCATGTTAGTTCAAGTCTGCATCATTAAATTAAGTC
1 ATGCATTATGTAACTCCCATGTTAGTTCAAGTCTGCATCATTAAATTAAGAC
*
30939499 ATGCATTAAGTAACTC
1 ATGCATTATGTAACTC
30939515 ATTTGTTCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 26 0.43
51 11 0.18
52 24 0.39
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (52 bp):
ATGCATTATGTAACTCCCATGTTAGTTCAAGTCTGCATCATTAAATTAAGAC
Found at i:30939512 original size:52 final size:51
Alignment explanation
Indices: 30939383--30939514 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
30939373 ATGTGTTCAG
* * * * *
30939383 CATTTAATAAAGTTATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTGCAT
* *
30939434 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTCAAGTCTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTCTGCAT
*
30939485 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
30939515 ATTTGTTCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 32 0.46
51 13 0.19
52 24 0.35
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTGCAT
Found at i:30941615 original size:12 final size:12
Alignment explanation
Indices: 30941598--30941628 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30941588 AGTGATTGTG
30941598 AAAAAAAATTTC
1 AAAAAAAATTTC
*
30941610 AAAAAAATTTTC
1 AAAAAAAATTTC
30941622 AAAAAAA
1 AAAAAAA
30941629 CATCTCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAAAATTTC
Done.