Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 82 of 133
Found at i:16116544 original size:101 final size:100
Alignment explanation
Indices: 16116405--16116603 Score: 256
Period size: 102 Copynumber: 2.0 Consensus size: 100
16116395 TCTTTTTTTT
* * * * **
16116405 GTGATACAGATGTGAATGCATATGTTTTTCTTAAGATGC-CATGCAAGTATGAATACAAGTGATG
1 GTGATACAAATGTGAATGCAAATGTCTTTCTCAAGATGCACATGCAAGTACAAATACAAGTGATG
* ** *
16116469 CAAATGTGAATGTCCTTTCTTTGTGATATAGATGTAA
66 AAAATGCAAATGTCCTTTC--TATGATATAGATGTAA
* * *
16116506 GTGATGCAAATGTTAATGCAAATGTCTTTCTCATGATGCACATGCAAGTACAAATACAAGTGATG
1 GTGATACAAATGTGAATGCAAATGTCTTTCTCAAGATGCACATGCAAGTACAAATACAAGTGATG
16116571 AAAATGCAAATGTCCTTTCTATGATATAGATGT
66 AAAATGCAAATGTCCTTTCTATGATATAGATGT
16116604 GAATGCGAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 13 0.15
101 32 0.38
102 39 0.46
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (100 bp):
GTGATACAAATGTGAATGCAAATGTCTTTCTCAAGATGCACATGCAAGTACAAATACAAGTGATG
AAAATGCAAATGTCCTTTCTATGATATAGATGTAA
Found at i:16116758 original size:85 final size:86
Alignment explanation
Indices: 16116507--16116759 Score: 312
Period size: 85 Copynumber: 3.0 Consensus size: 86
16116497 TAGATGTAAG
* * * *
16116507 TGATGCAAATGTTAATGCAAATGTCTTTCTCATGATGCACATGCAAGTACAAATACAAGTGATGA
1 TGATGCAAATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATAAATGCAAGTGATGC
* *
16116572 AAATGCAAATGTC-CTTTCTA
66 AAATGCAAATGTCTTTTTATA
** * * * *
16116592 TGATATAGATGTGAATGCGAATGTCTTTCTTATTATGCACATGCAAGTATAAATGCAAGTGATGC
1 TGATGCAAATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATAAATGCAAGTGATGC
*
16116657 AAATGCAAATGCCTTTTTATA
66 AAATGCAAATGTCTTTTTATA
* * * * * *
16116678 TGATGCAAATGTGAATAC-AATGTCTTTCTCAAGATGCACATACAAGTATGAATGCGAGTAATGC
1 TGATGCAAATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATAAATGCAAGTGATGC
*
16116742 AAATGCGAATGTCTTTTT
66 AAATGCAAATGTCTTTTT
16116760 TCTTTTTTTT
Statistics
Matches: 141, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
85 122 0.87
86 19 0.13
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (86 bp):
TGATGCAAATGTGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTATAAATGCAAGTGATGC
AAATGCAAATGTCTTTTTATA
Found at i:16118074 original size:16 final size:15
Alignment explanation
Indices: 16118042--16118082 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
16118032 ATTTCAACAG
16118042 TTTTTTATTTT---A
1 TTTTTTATTTTGGCA
16118054 TTTTTTAGTTTTGGCA
1 TTTTTTA-TTTTGGCA
16118070 TTTTTTATTTTGG
1 TTTTTTATTTTGG
16118083 GTTTTCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
13 4 0.16
15 6 0.24
16 8 0.32
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (15 bp):
TTTTTTATTTTGGCA
Found at i:16118226 original size:18 final size:18
Alignment explanation
Indices: 16118197--16118241 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
16118187 TCACTTCATC
*
16118197 TTTTTTTCTTTTTTTATT-
1 TTTTTTT-TTTTGTTATTA
16118215 TGTTTTTTTTTTGTTATTA
1 T-TTTTTTTTTTGTTATTA
16118234 TTTTTTTT
1 TTTTTTTT
16118242 ACATGCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.07, C:0.02, G:0.04, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTGTTATTA
Found at i:16118385 original size:24 final size:24
Alignment explanation
Indices: 16118342--16118387 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16118332 AGTTATTACA
* **
16118342 AGAAAAGGTTATATGGAATGAATG
1 AGAAAAGGTCATATAAAATGAATG
16118366 AGAAAAGGTCATATAAAATGAA
1 AGAAAAGGTCATATAAAATGAA
16118388 CCCATTTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (24 bp):
AGAAAAGGTCATATAAAATGAATG
Found at i:16119130 original size:23 final size:19
Alignment explanation
Indices: 16119067--16119115 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
16119057 ACTCAAATTC
*
16119067 TTTTTTTCATTTTTTTTGTTA
1 TTTTTTTCA-CTTTTTT-TTA
16119088 TTTTTTTCACTTTTTTTTA
1 TTTTTTTCACTTTTTTTTA
16119107 TTTTTTTCA
1 TTTTTTTCA
16119116 GAGCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.44
20 6 0.22
21 9 0.33
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTCACTTTTTTTTA
Found at i:16123192 original size:3 final size:3
Alignment explanation
Indices: 16123184--16123223 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
16123174 AGAGATTATC
* *
16123184 ACT ACT ACT ACT ATT ACT ACT ACT ACT ATT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
16123224 TTAGAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (3 bp):
ACT
Found at i:16123204 original size:15 final size:15
Alignment explanation
Indices: 16123184--16123223 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
16123174 AGAGATTATC
16123184 ACTACTACTACTATT
1 ACTACTACTACTATT
16123199 ACTACTACTACTATT
1 ACTACTACTACTATT
16123214 ACTACTACTA
1 ACTACTACTA
16123224 TTAGAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (15 bp):
ACTACTACTACTATT
Found at i:16125747 original size:36 final size:36
Alignment explanation
Indices: 16125706--16125844 Score: 129
Period size: 36 Copynumber: 3.7 Consensus size: 36
16125696 GCTCTTTTTT
* * * * *
16125706 TTTTTTTTTACGTTGGTTTTTTTCTTTTGTCTAACCC
1 TTTTTTTTTA-ATTGGCTTCTTTCTTTTCTCCAACCC
*
16125743 TTTTTTTTTAATTGGCTTCTTTCTTTTCTCCAGCCC
1 TTTTTTTTTAATTGGCTTCTTTCTTTTCTCCAACCC
16125779 TTTTTTTTTTACATTGGCTT-TTT-TTTTCTCCAACCC
1 -TTTTTTTTTA-ATTGGCTTCTTTCTTTTCTCCAACCC
*
16125815 TTCCTTTTATTTCACATTGGCTTCATTCTT
1 TT--TTTT-TTT-A-ATTGGCTTCTTTCTT
16125845 CTCTAGCCCT
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
35 2 0.02
36 32 0.37
37 27 0.31
38 11 0.13
39 10 0.12
40 2 0.02
41 2 0.02
ACGTcount: A:0.10, C:0.22, G:0.08, T:0.60
Consensus pattern (36 bp):
TTTTTTTTTAATTGGCTTCTTTCTTTTCTCCAACCC
Found at i:16125786 original size:39 final size:41
Alignment explanation
Indices: 16125743--16125866 Score: 138
Period size: 39 Copynumber: 3.2 Consensus size: 41
16125733 TGTCTAACCC
16125743 TTTTTTTTTA-ATTGGCTTCTTTCTTTTCTCCAG-CC--CT
1 TTTTTTTTTACATTGGCTTCTTTCTTTTCTCCAGCCCTTCT
* *
16125780 TTTTTTTTTACATTGGCTT-TTT-TTTTCTCCAACCCTTCC
1 TTTTTTTTTACATTGGCTTCTTTCTTTTCTCCAGCCCTTCT
* * * *
16125819 TTTTATTTCACATTGGCTTCATTC--TTCTCTAGCCCTTCT
1 TTTTTTTTTACATTGGCTTCTTTCTTTTCTCCAGCCCTTCT
16125858 TTTTTTTTT
1 TTTTTTTTT
16125867 TACGTTTGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
36 9 0.13
37 15 0.21
38 8 0.11
39 37 0.52
40 2 0.03
ACGTcount: A:0.10, C:0.24, G:0.06, T:0.60
Consensus pattern (41 bp):
TTTTTTTTTACATTGGCTTCTTTCTTTTCTCCAGCCCTTCT
Found at i:16125865 original size:77 final size:73
Alignment explanation
Indices: 16125705--16125864 Score: 182
Period size: 74 Copynumber: 2.1 Consensus size: 73
16125695 GGCTCTTTTT
* * * * *
16125705 TTTTTTTTTTACGTTGGTTTTTTTCTTTTGTCTAACCCTTTTTTTTTAATTGGCTTCTTTCTTTT
1 TTTTTTTTTTACATTGGTCTTTTTCTTTTCTCCAACCCTTTTTTTTTAATTGGCTTCATTC-TTT
16125770 CTCCAGCCC
65 CTCCAGCCC
16125779 TTTTTTTTTTACATTGG-CTTTTT-TTTTCTCCAACCCTTCCTTTTATTTCACATTGGCTTCATT
1 TTTTTTTTTTACATTGGTCTTTTTCTTTTCTCCAACCCTT--TTTT-TTT-A-ATTGGCTTCATT
*
16125842 C-TTCTCTAGCCC
61 CTTTCTCCAGCCC
16125854 TTCTTTTTTTT
1 TT-TTTTTTTT
16125865 TTTACGTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
72 13 0.18
73 5 0.07
74 20 0.27
75 15 0.20
76 9 0.12
77 12 0.16
ACGTcount: A:0.09, C:0.23, G:0.07, T:0.61
Consensus pattern (73 bp):
TTTTTTTTTTACATTGGTCTTTTTCTTTTCTCCAACCCTTTTTTTTTAATTGGCTTCATTCTTTC
TCCAGCCC
Found at i:16126710 original size:145 final size:144
Alignment explanation
Indices: 16126446--16126844 Score: 539
Period size: 145 Copynumber: 2.7 Consensus size: 144
16126436 AATTTTAAAA
* * * ** * * * *
16126446 CACCAAAAATCATGAAGTATTATAAAACTGGGATCT-AGAAAGTTTTATGAAAATTCAAGCTCGA
1 CACCAAAAATCATGAAATATTATGAAATTAAGATATGA-AAAGTTTCATGAAAATCCAAGCTCAA
* * *
16126510 GAAGTTTAGATTACGAAAATACCTTTATAAGGGTATTTTGGTAATTTCACACTTCTTGGGGTATT
65 GAAGGTCAAATTACGAAAATACCTTTAT-AGGGTATTTTGGTAATTTCACACTTCTTGGGGTATT
16126575 GCTATGATTTCAAATG
129 GCTATGATTTCAAATG
* *
16126591 TACCAAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGAAAATCCAAGCTCAAA
1 CACCAAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGAAAATCCAAGCTCAAG
* *
16126656 AAGGTCAAATTACAAAAATACCCTTATGAGGGTATTTTGGTAATTTCACACTTCTTGGGGTATTG
66 AAGGTCAAATTACGAAAATACCTTTAT-AGGGTATTTTGGTAATTTCACACTTCTTGGGGTATTG
16126721 CTATGATTTCAAATG
130 CTATGATTTCAAATG
* * * * *
16126736 CACTAAAAATCATGAAATATTATGAAATTAATATATGAAAAGTTTCATAAAAATCTAAACTCAAG
1 CACCAAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGAAAATCCAAGCTCAAG
* *
16126801 AAGGCCAAATTATGAAAATATCCTTTATAGGGGTATTTTGGTAA
66 AAGGTCAAATTACGAAAATA-CCTTTATA-GGGTATTTTGGTAA
16126845 CTTTGTACTT
Statistics
Matches: 223, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
145 202 0.91
146 21 0.09
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (144 bp):
CACCAAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGAAAATCCAAGCTCAAG
AAGGTCAAATTACGAAAATACCTTTATAGGGTATTTTGGTAATTTCACACTTCTTGGGGTATTGC
TATGATTTCAAATG
Found at i:16132017 original size:20 final size:20
Alignment explanation
Indices: 16131979--16132017 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16131969 GGTAAGGCTT
*
16131979 TTATATAAAATTTTATTTTG
1 TTATATAAAATGTTATTTTG
16131999 TTATATAAAAATGTT-TTTT
1 TTATAT-AAAATGTTATTTT
16132018 TTAAGATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTATATAAAATGTTATTTTG
Found at i:16132660 original size:12 final size:12
Alignment explanation
Indices: 16132638--16132671 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16132628 CACTCATTTT
16132638 TTTTATTTCTCTC
1 TTTT-TTTCTCTC
*
16132651 TTTTTTTCTCTT
1 TTTTTTTCTCTC
16132663 TTTTTTTCT
1 TTTTTTTCT
16132672 TTGAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:16133149 original size:66 final size:67
Alignment explanation
Indices: 16133079--16133228 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 67
16133069 ATTTGGACCT
*
16133079 AGTCAAGATACAAAATGAATGACCA-T-GG-TCGAACCACGAGTCAAAAAAGT-AAAATAATCTA
1 AGTCAAGAT-CAAAATGAA-G-CCATTGGGATCGAACCACAAGTCAAAAAAGTAAAAATAATCTA
16133140 GACTA
63 GACTA
* * *
16133145 AGTCAAGATCAAAATCG-AGCGATTGGGATCGAACCACAAGTCAAAAAATTAAAAATGATCTAGA
1 AGTCAAGATCAAAAT-GAAGCCATTGGGATCGAACCACAAGTCAAAAAAGTAAAAATAATCTAGA
16133209 CTA
65 CTA
* *
16133212 AGCCGAGATCAAAATGA
1 AGTCAAGATCAAAATGA
16133229 GTAACTAGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
63 2 0.03
64 2 0.03
65 9 0.12
66 31 0.43
67 28 0.39
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (67 bp):
AGTCAAGATCAAAATGAAGCCATTGGGATCGAACCACAAGTCAAAAAAGTAAAAATAATCTAGAC
TA
Found at i:16133245 original size:66 final size:66
Alignment explanation
Indices: 16133107--16133246 Score: 174
Period size: 66 Copynumber: 2.1 Consensus size: 66
16133097 ATGACCATGG
* * * * *
16133107 TCGAACCACGAGTCAAAAAAGTAAAATAATCTAGACTAAGTCAAGATCAAAATCGAGCGATTGGG
1 TCGAACCACAAGTCAAAAAAGTAAAATAATCTAGACTAAGCCAAGATCAAAATCGAGCAACTAGG
16133172 A
66 A
* * * *
16133173 TCGAACCACAAGTCAAAAAATTAAAAATGATCTAGACTAAGCCGAGATCAAAAT-GAGTAACTAG
1 TCGAACCACAAGTCAAAAAAGT-AAAATAATCTAGACTAAGCCAAGATCAAAATCGAGCAACTAG
16133237 GA
65 GA
*
16133239 TTGAACCA
1 TCGAACCA
16133247 TAGGTTTGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 35 0.56
67 28 0.44
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (66 bp):
TCGAACCACAAGTCAAAAAAGTAAAATAATCTAGACTAAGCCAAGATCAAAATCGAGCAACTAGG
A
Found at i:16133385 original size:64 final size:64
Alignment explanation
Indices: 16133217--16133396 Score: 173
Period size: 64 Copynumber: 2.8 Consensus size: 64
16133207 GACTAAGCCG
* * * * * *
16133217 AGATCAAAATGAGTAACTAGGATTGAACCATAGGTTTGAAAACAAAATGATTTGGACTGAGCAA
1 AGATCAAAATGAATGACCAAGATTGAACCACAGGTTTGAAAATAAAATGATTTGGACTGAGCAA
* * * * * *
16133281 AGATCAAAATGATTGACCAAGACTGAATCGCATGTTTGAAAATAAAATGATTTGGATTGAGTC-A
1 AGATCAAAATGAATGACCAAGATTGAACCACAGGTTTGAAAATAAAATGATTTGGACTGAG-CAA
* *** * *
16133345 AGATCGAAATGAATGATGGAGATTGAACCACGGGTGTGAAAAATAAAATGAT
1 AGATCAAAATGAATGACCAAGATTGAACCACAGGTTTG-AAAATAAAATGAT
16133397 CTAGATCAAG
Statistics
Matches: 92, Mismatches: 22, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
64 78 0.85
65 14 0.15
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (64 bp):
AGATCAAAATGAATGACCAAGATTGAACCACAGGTTTGAAAATAAAATGATTTGGACTGAGCAA
Found at i:16133774 original size:65 final size:65
Alignment explanation
Indices: 16133662--16133923 Score: 192
Period size: 64 Copynumber: 4.1 Consensus size: 65
16133652 GATCTCAACC
* ** *
16133662 AAGCTGAGATTGAAATGGATGACTAGG-ATTGAACCGCATATCAGAAAAATAAAATGATTTGGA-
1 AAGCTGAGATTGAAATGAATGACT-GGAATTGAACCGCAGGTCTGAAAAATAAAATGATTTGGAC
16133725 T
65 T
* * * * *
16133726 CAAGCTGAGATCGAAATGAATGACTGGAATTGAATCGTAGGTCTG-AAAATACAATAATTTGGAC
1 -AAGCTGAGATTGAAATGAATGACTGGAATTGAACCGCAGGTCTGAAAAATAAAATGATTTGGAC
16133790 T
65 T
* * * * ** * ** * * * *
16133791 GAGCTGAGATAGAAACGAGTGACCAGAAGTGAATTGTAGGCCT-AAAAATAAAATGATCTAGACT
1 AAGCTGAGATTGAAATGAATGACTGGAATTGAACCGCAGGTCTGAAAAATAAAATGATTTGGACT
** * * * * * *
16133855 AAGCCAAGATTGAAATGAGTGA-TTGAGATTGAACCGCAGGTTTGAAAAATAAAATAATCTAGAC
1 AAGCTGAGATTGAAATGAATGACTGGA-ATTGAACCGCAGGTCTGAAAAATAAAATGATTTGGAC
16133919 T
65 T
16133920 AAGC
1 AAGC
16133924 CAAGATAAAA
Statistics
Matches: 156, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
63 2 0.01
64 95 0.61
65 59 0.38
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (65 bp):
AAGCTGAGATTGAAATGAATGACTGGAATTGAACCGCAGGTCTGAAAAATAAAATGATTTGGACT
Found at i:16133875 original size:64 final size:65
Alignment explanation
Indices: 16133797--16133930 Score: 146
Period size: 65 Copynumber: 2.1 Consensus size: 65
16133787 GACTGAGCTG
** * *
16133797 AGATAGAAACGAGTGACCAGA-AGTGAATTGTAGGCCT-AAAAATAAAATGATCTAGACTAAGCC
1 AGATAGAAACGAGTGA-CAGAGAGTGAACCGCAGGCCTGAAAAATAAAATAATCTAGACTAAGCC
16133860 A
65 A
* * ** * **
16133861 AGATTGAAATGAGTGATTGAGATTGAACCGCAGGTTTGAAAAATAAAATAATCTAGACTAAGCCA
1 AGATAGAAACGAGTGACAGAGAGTGAACCGCAGGCCTGAAAAATAAAATAATCTAGACTAAGCCA
16133926 AGATA
1 AGATA
16133931 AAAAAAAAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
63 2 0.04
64 24 0.43
65 30 0.54
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (65 bp):
AGATAGAAACGAGTGACAGAGAGTGAACCGCAGGCCTGAAAAATAAAATAATCTAGACTAAGCCA
Found at i:16134064 original size:67 final size:67
Alignment explanation
Indices: 16133899--16134076 Score: 175
Period size: 67 Copynumber: 2.7 Consensus size: 67
16133889 CGCAGGTTTG
* * * *
16133899 AAAAATAAAATAATCTAGACTAAGCCAAGATAAAAAAAAAAG-GACTAGGATCGAATCATGAGTC
1 AAAAATAAAATGATCTAGACTAAGCCAAGAT-CAAAAATAAGTGACTAGGATCGAATCACGAGTC
16133963 AAA
65 AAA
* ** *
16133966 AAAAATAAAATGATCT-GAACTGAGCTGAGATCAAAAATAAGTGAGC-AGGATTGAATCACGAGT
1 AAAAATAAAATGATCTAG-ACTAAGCCAAGATCAAAAATAAGTGA-CTAGGATCGAATCACGAGT
*
16134029 TAAA
64 CAAA
* * * *
16134033 AAGAAATAAAATGGTTTAGACT-AGCCAAGATCAAAGATGAGTGA
1 AA-AAATAAAATGATCTAGACTAAGCCAAGATCAAAAATAAGTGA
16134077 TTGGGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 9 0.10
67 65 0.71
68 16 0.18
69 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (67 bp):
AAAAATAAAATGATCTAGACTAAGCCAAGATCAAAAATAAGTGACTAGGATCGAATCACGAGTCA
AA
Found at i:16134337 original size:18 final size:17
Alignment explanation
Indices: 16134263--16134337 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
16134253 ATTCACAAAG
*
16134263 GTTTGCAAGAATTCCAA
1 GTTTGCAAGAATTTCAA
***
16134280 GTTTCGCAAGAATTTTTT
1 GTTT-GCAAGAATTTCAA
* * *
16134298 CTTTACAAGAATTTCTA
1 GTTTGCAAGAATTTCAA
*
16134315 TTTTGCAAGAATTTTCAA
1 GTTTGCAAGAA-TTTCAA
16134333 GTTTG
1 GTTTG
16134338 TAAGGATTCG
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
17 23 0.52
18 21 0.48
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (17 bp):
GTTTGCAAGAATTTCAA
Found at i:16142345 original size:68 final size:68
Alignment explanation
Indices: 16142261--16142391 Score: 176
Period size: 68 Copynumber: 1.9 Consensus size: 68
16142251 TCAAACATTC
* *
16142261 TTCTATAAATACAAATATGAAATTTA-TAAATCCAAATTATGT-TGTCATTCACACAATTACGAT
1 TTCTATAAATACAAATATGAAA-TTAGTAAATACAAA-TATGTATGTCATTCACACAAGTACGAT
16142324 TTTTG
64 TTTTG
* * * *
16142329 TTCTTTAAATACAAATATGAAATTAGTTAATACAAATATTTATTTCATTCACACAAGTACGAT
1 TTCTATAAATACAAATATGAAATTAGTAAATACAAATATGTATGTCATTCACACAAGTACGAT
16142392 ATCCGATCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 7 0.13
68 48 0.87
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (68 bp):
TTCTATAAATACAAATATGAAATTAGTAAATACAAATATGTATGTCATTCACACAAGTACGATTT
TTG
Found at i:16146439 original size:13 final size:14
Alignment explanation
Indices: 16146412--16146440 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16146402 ATAATAATAC
16146412 ATTATAGATTATAA
1 ATTATAGATTATAA
16146426 ATTATAGA-TATAA
1 ATTATAGATTATAA
16146439 AT
1 AT
16146441 AAATTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTATAGATTATAA
Found at i:16153972 original size:17 final size:17
Alignment explanation
Indices: 16153950--16154003 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
16153940 TCATTATTCC
*
16153950 TATTTTGATTTAGGAAT
1 TATTTTGATTTAGAAAT
**
16153967 TATTTT-A-TT-GTTAT
1 TATTTTGATTTAGAAAT
*
16153981 TATTTTGATTCAGAAAT
1 TATTTTGATTTAGAAAT
16153998 TATTTT
1 TATTTT
16154004 AAGGTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 9 0.31
15 3 0.10
16 2 0.07
17 15 0.52
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (17 bp):
TATTTTGATTTAGAAAT
Found at i:16154284 original size:21 final size:21
Alignment explanation
Indices: 16154260--16154299 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16154250 ATTTTACATG
*
16154260 AACACTAATTGATCCTAATGT
1 AACACTAATTGACCCTAATGT
* *
16154281 AACATTAATTTACCCTAAT
1 AACACTAATTGACCCTAAT
16154300 TGACCCTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
AACACTAATTGACCCTAATGT
Found at i:16158463 original size:20 final size:21
Alignment explanation
Indices: 16158440--16158488 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
16158430 GCTCATCCCA
*
16158440 TTCAACCCTTA-TCTCTT-TCT
1 TTCAACCCTTAGTATCTTCT-T
16158460 TTCAACCCTTAGTATCTTCTT
1 TTCAACCCTTAGTATCTTCTT
16158481 TTCAACCC
1 TTCAACCC
16158489 CTAGCTCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 14 0.54
22 1 0.04
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (21 bp):
TTCAACCCTTAGTATCTTCTT
Found at i:16158483 original size:21 final size:20
Alignment explanation
Indices: 16158440--16158488 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
16158430 GCTCATCCCA
*
16158440 TTCAACCCTTATCTCTTTCT
1 TTCAACCCTTATATCTTTCT
16158460 TTCAACCCTTAGTATC-TTCTT
1 TTCAACCCTTA-TATCTTTC-T
16158481 TTCAACCC
1 TTCAACCC
16158489 CTAGCTCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (20 bp):
TTCAACCCTTATATCTTTCT
Found at i:16158504 original size:21 final size:21
Alignment explanation
Indices: 16158421--16158506 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
16158411 TTTTATATGG
16158421 CAACCCCTAGCTCATCCCA-TT
1 CAACCCCTAGCTCAT-CCATTT
* * * *
16158442 CAACCCTTATCTCTTTC-TTT
1 CAACCCCTAGCTCATCCATTT
* *
16158462 CAACCCTTAG-T-ATCTTCTTTT
1 CAACCCCTAGCTCATC--CATTT
16158483 CAACCCCTAGCTCATCCATTT
1 CAACCCCTAGCTCATCCATTT
16158504 CAA
1 CAA
16158507 ACTCTTTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 13 0.26
21 31 0.62
22 1 0.02
23 3 0.06
ACGTcount: A:0.22, C:0.38, G:0.03, T:0.36
Consensus pattern (21 bp):
CAACCCCTAGCTCATCCATTT
Found at i:16162850 original size:5 final size:5
Alignment explanation
Indices: 16162821--16162902 Score: 55
Period size: 5 Copynumber: 15.8 Consensus size: 5
16162811 AAAAAATGGG
*
16162821 AAAGA AAATG- AAAGA AATGAGA AAAGAA AAATGAA AAAGA AAA-A GAA-A
1 AAAGA AAA-GA AAAGA AA--AGA AAAG-A AAA-G-A AAAGA AAAGA AAAGA
*
16162869 AAAGA AGAACA AAAGA AAA-A AAAGA AAAGA AAAG
1 AAAGA A-AAGA AAAGA AAAGA AAAGA AAAGA AAAG
16162903 GAAATAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
4 11 0.17
5 32 0.50
6 10 0.16
7 11 0.17
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:16162851 original size:6 final size:6
Alignment explanation
Indices: 16162842--16162906 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
16162832 AAGAAATGAG
*
16162842 AAAAGA AAAATGA AAAAGA AAAAGAA AAAAGA AGAACA-A AAGAAAA AAAAG-
1 AAAAGA AAAA-GA AAAAGA AAAAG-A AAAAGA A-AA-AGA AA-AAGA AAAAGA
*
16162893 AAAAGA AAAGGA AA
1 AAAAGA AAAAGA AA
16162907 TAAAATGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.10
6 24 0.48
7 20 0.40
8 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:16162851 original size:35 final size:35
Alignment explanation
Indices: 16162783--16162868 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 35
16162773 AAAGAAAAGG
*
16162783 AAAAGAAAATGTGAAAGAATGAAAAAATAAAAAATGG
1 AAAAGAAAA--TGAAAGAATGAAAAAATAAAAAATGA
* * *
16162820 GAAAGAAAATGAAAGAAATGAGAAAA-GAAAAATGA
1 AAAAGAAAATGAAAG-AATGAAAAAATAAAAAATGA
*
16162855 AAAAGAAAAAGAAA
1 AAAAGAAAATGAAA
16162869 AAAGAAGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 25 0.60
36 9 0.21
37 8 0.19
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (35 bp):
AAAAGAAAATGAAAGAATGAAAAAATAAAAAATGA
Found at i:16162860 original size:13 final size:13
Alignment explanation
Indices: 16162835--16162870 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16162825 AAAATGAAAG
16162835 AAATGAGAAAAGAA
1 AAATGA-AAAAGAA
16162849 AAATGAAAAAGAA
1 AAATGAAAAAGAA
16162862 AAA-GAAAAA
1 AAATGAAAAA
16162871 AGAAGAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (13 bp):
AAATGAAAAAGAA
Found at i:16162864 original size:19 final size:18
Alignment explanation
Indices: 16162842--16162902 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
16162832 AAGAAATGAG
*
16162842 AAAAGAAAAATGAAAAAGA
1 AAAAGAAAAAAGAAAAA-A
* *
16162861 AAAAGAAAAAAGAAGAAC
1 AAAAGAAAAAAGAAAAAA
16162879 AAAAGAAAAAA-AAGAAAA
1 AAAAGAAAAAAGAA-AAAA
16162897 GAAAAG
1 -AAAAG
16162903 GAAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.06
18 13 0.37
19 20 0.57
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAA
Found at i:16162871 original size:13 final size:13
Alignment explanation
Indices: 16162842--16162896 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
16162832 AAGAAATGAG
16162842 AAAAGAAAAATG-A
1 AAAAGAAAAA-GAA
16162855 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
* *
16162868 AAAAGAAGAACAA
1 AAAAGAAAAAGAA
*
16162881 AAGAAAAAAAAGAA
1 AA-AAGAAAAAGAA
16162895 AA
1 AA
16162897 GAAAAGGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 1 0.03
13 24 0.69
14 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:16162893 original size:17 final size:18
Alignment explanation
Indices: 16162842--16162894 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
16162832 AAGAAATGAG
* * *
16162842 AAAAGAAAAATGAAAAAGA
1 AAAAGAAAAAAGAAGAA-C
16162861 AAAAGAAAAAAGAAGAAC
1 AAAAGAAAAAAGAAGAAC
16162879 AAAAGAAAAAA-AAGAA
1 AAAAGAAAAAAGAAGAA
16162895 AAGAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 5 0.16
18 11 0.35
19 15 0.48
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAGAAC
Found at i:16162901 original size:13 final size:13
Alignment explanation
Indices: 16162821--16162901 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 13
16162811 AAAAAATGGG
16162821 AAAGAAAATGAAAGA
1 AAAGAAAA-GAAA-A
16162836 AATGAGAAAAG-AAA
1 AA--AGAAAAGAAAA
* *
16162850 AATGAAAA-AGAA
1 AAAGAAAAGAAAA
16162862 AAAGAAAA-AAGAA
1 AAAGAAAAGAA-AA
* *
16162875 GAACAAAAGAAAAA
1 AAAGAAAAG-AAAA
16162889 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
16162902 GGAAATAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 15 0.29
13 12 0.23
14 12 0.23
15 6 0.12
16 1 0.02
17 6 0.12
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (13 bp):
AAAGAAAAGAAAA
Found at i:16164551 original size:87 final size:87
Alignment explanation
Indices: 16164453--16164636 Score: 280
Period size: 87 Copynumber: 2.1 Consensus size: 87
16164443 ATTGTAAGGA
* * *
16164453 GCATTTGCATTGCTCAAAAACAATTGAATTTGCAAATTTGCATTTATATCTTGGGGACATTCGTA
1 GCATTTGCATTGCTCAAAAACAATTGAATTTGCAAATTTGCATTTACATATTGGGAACATTCGTA
16164518 TCCTGTATGAGCATTAGCATTT
66 TCCTGTATGAGCATTAGCATTT
* * * *
16164540 GCATTTGCATTGTTGAAAAACAATTGAATTTGCAAATTTGCATTTACATATTTGGAACATTTGTA
1 GCATTTGCATTGCTCAAAAACAATTGAATTTGCAAATTTGCATTTACATATTGGGAACATTCGTA
*
16164605 TCCTGTATGAGCATTGGCATTT
66 TCCTGTATGAGCATTAGCATTT
16164627 GC-TATTGCAT
1 GCAT-TTGCAT
16164637 CATGAAAAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 87 0.99
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (87 bp):
GCATTTGCATTGCTCAAAAACAATTGAATTTGCAAATTTGCATTTACATATTGGGAACATTCGTA
TCCTGTATGAGCATTAGCATTT
Found at i:16165029 original size:10 final size:10
Alignment explanation
Indices: 16165004--16165037 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16164994 CAAAAAAGCC
*
16165004 AAAAAAAGAGG
1 AAAAAAAGA-A
16165015 AAAAAAAGAA
1 AAAAAAAGAA
16165025 AAAAAAAGAA
1 AAAAAAAGAA
16165035 AAA
1 AAA
16165038 GATAAGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:16165543 original size:32 final size:31
Alignment explanation
Indices: 16165470--16165683 Score: 187
Period size: 32 Copynumber: 6.7 Consensus size: 31
16165460 CACTGATGAT
* * * *
16165470 ATTTAAACCTAGTTTAGTTGGTATCGATAAG
1 ATTTAAGCCTAGTTTAGTTGGCATTGATAAA
*
16165501 ATTTAAGCCTAGTTTAATTGGCATTGATAAA
1 ATTTAAGCCTAGTTTAGTTGGCATTGATAAA
* * *
16165532 ATTTTAAGCCTAGTTTTGTTGGCATTTATGAGA
1 A-TTTAAGCCTAGTTTAGTTGGCATTGAT-AAA
* * * *
16165565 TTTTAAGCCTAGTTTGGTTGGCACCTAGATGAA
1 ATTTAAGCCTAGTTTAGTTGGCA--TTGATAAA
* * *
16165598 ATTTAAGCCCAGTTTAGCTAGCATTGATAAA
1 ATTTAAGCCTAGTTTAGTTGGCATTGATAAA
* * *
16165629 ATTTAAGCTTA-TTCTAGCTGGCACTGATAAA
1 ATTTAAGCCTAGTT-TAGTTGGCATTGATAAA
* *
16165660 ATTTTAAGCCCAGTTTAGTAGGCA
1 A-TTTAAGCCTAGTTTAGTTGGCA
16165684 CCAATGCACC
Statistics
Matches: 146, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
30 2 0.01
31 58 0.40
32 60 0.41
33 23 0.16
34 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (31 bp):
ATTTAAGCCTAGTTTAGTTGGCATTGATAAA
Found at i:16165684 original size:96 final size:97
Alignment explanation
Indices: 16165501--16165685 Score: 221
Period size: 96 Copynumber: 1.9 Consensus size: 97
16165491 TATCGATAAG
* * * * * * * * *
16165501 ATTTAAGCCTAGTTTAATTGGCATTGATAAAATTTTAAGCCTAGTTTTGTTGGCATTTATGAGAT
1 ATTTAAGCCCAGTTTAACTAGCATTGATAAAATTTTAAGCCTAGTTTAGCTGGCACTGATAAAAT
* * *
16165566 TTTAAGCCTAGTTTGGTTGGCACCTAGATGAA
66 TTTAAGCCCAGTTTAGTAGGCACCTAGATGAA
* *
16165598 ATTTAAGCCCAGTTTAGCTAGCATTGATAAAA-TTTAAGCTTA-TTCTAGCTGGCACTGATAAAA
1 ATTTAAGCCCAGTTTAACTAGCATTGATAAAATTTTAAGCCTAGTT-TAGCTGGCACTGATAAAA
16165661 TTTTAAGCCCAGTTTAGTAGGCACC
65 TTTTAAGCCCAGTTTAGTAGGCACC
16165686 AATGCACCAA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
95 2 0.03
96 43 0.59
97 28 0.38
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (97 bp):
ATTTAAGCCCAGTTTAACTAGCATTGATAAAATTTTAAGCCTAGTTTAGCTGGCACTGATAAAAT
TTTAAGCCCAGTTTAGTAGGCACCTAGATGAA
Found at i:16165951 original size:33 final size:32
Alignment explanation
Indices: 16165911--16165985 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
16165901 TTTCTTCTTG
* *
16165911 ATGGTGATATCTAAAGTCATCTACATTCACTC
1 ATGGTGATATCCAAAGCCATCTACATTCACTC
* * * *
16165943 GGTGGTGATATCCAAAGCCATTTGCATTTACTC
1 -ATGGTGATATCCAAAGCCATCTACATTCACTC
16165976 ATGGTGATAT
1 ATGGTGATAT
16165986 TTGAGTATCC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
32 9 0.26
33 26 0.74
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (32 bp):
ATGGTGATATCCAAAGCCATCTACATTCACTC
Found at i:16166402 original size:46 final size:46
Alignment explanation
Indices: 16166320--16166425 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 46
16166310 TTTCAATTAT
* * *
16166320 ATTTATTTTCAAAAGCTATGGAGCCTCTAATGAAATGAGCTTTTAC
1 ATTTATTTTCAAAAGCTATAGAGCCTCTAATAAAATGAGCATTTAC
* * * *
16166366 ATTTATTTTCAAAAGTTATAGAGCTTCTATTAAAATGAGCATTTAG
1 ATTTATTTTCAAAAGCTATAGAGCCTCTAATAAAATGAGCATTTAC
16166412 ATTTATTTTCAAAA
1 ATTTATTTTCAAAA
16166426 ATTGTCAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (46 bp):
ATTTATTTTCAAAAGCTATAGAGCCTCTAATAAAATGAGCATTTAC
Found at i:16166446 original size:46 final size:46
Alignment explanation
Indices: 16166320--16166446 Score: 130
Period size: 46 Copynumber: 2.8 Consensus size: 46
16166310 TTTCAATTAT
** * * * * *
16166320 ATTTATTTTCAAAAGCTATGGAGCCTCTAATGAAATGAGCTTTTAC
1 ATTTATTTTCAAAAATTATAGAGCTTCTACTAAAATGAGCATTTAC
* * *
16166366 ATTTATTTTCAAAAGTTATAGAGCTTCTATTAAAATGAGCATTTAG
1 ATTTATTTTCAAAAATTATAGAGCTTCTACTAAAATGAGCATTTAC
* *
16166412 ATTTATTTTCAAAAATTGTCA-AGCTTCTGCTAAAA
1 ATTTATTTTCAAAAATTAT-AGAGCTTCTACTAAAA
16166447 AATGTTGGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 68 0.99
47 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (46 bp):
ATTTATTTTCAAAAATTATAGAGCTTCTACTAAAATGAGCATTTAC
Found at i:16166533 original size:46 final size:45
Alignment explanation
Indices: 16166459--16166637 Score: 209
Period size: 46 Copynumber: 3.9 Consensus size: 45
16166449 TGTTGGATCT
16166459 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTGTGGAGGC
1 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTGTGGA-GC
* * * * *
16166505 TCTAATGAAAGGAGCTTTTAAATTTATTTTCAAAAATTATGGAACC
1 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTGTGG-AGC
* *
16166551 TCTAATGAGAGGAGCTTTTAGATCTATTTTCAAAAGTTACT-GAGC
1 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTT-GTGGAGC
* * *
16166596 TTCTAATGATAA-GAGTTTTTATATTTATTTTCAAAAGTTGTG
1 -TCTAATGA-AAGGAGCTTTTAGATCTATTTTCAAAAGTTGTG
16166638 AAGCCTTTAG
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.03
46 106 0.95
47 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (45 bp):
TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTGTGGAGC
Found at i:16166601 original size:92 final size:92
Alignment explanation
Indices: 16166459--16166631 Score: 262
Period size: 92 Copynumber: 1.9 Consensus size: 92
16166449 TGTTGGATCT
*
16166459 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTGTGGAGGCTCTAATGA-AAGGAGCTTT
1 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTCTGGAGGCTCTAATGATAA-GAGCTTT
16166523 TAAATTTATTTTCAAAAATTATGGAACC
65 TAAATTTATTTTCAAAAATTATGGAACC
* *
16166551 TCTAATGAGAGGAGCTTTTAGATCTATTTTCAAAAGTTACT-GA-GCTTCTAATGATAAGAGTTT
1 TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTT-CTGGAGGC-TCTAATGATAAGAGCTT
*
16166614 TTATATTTATTTTCAAAA
64 TTAAATTTATTTTCAAAA
16166632 GTTGTGAAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
91 2 0.03
92 69 0.93
93 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (92 bp):
TCTAATGAAAGGAGCTTTTAGATCTATTTTCAAAAGTTCTGGAGGCTCTAATGATAAGAGCTTTT
AAATTTATTTTCAAAAATTATGGAACC
Found at i:16166656 original size:46 final size:46
Alignment explanation
Indices: 16166470--16166661 Score: 165
Period size: 46 Copynumber: 4.2 Consensus size: 46
16166460 CTAATGAAAG
* * *
16166470 GAGCTTTTAGATCTATTTTCAAAAGTTGTGGAGGCTCTAATGAA-AG
1 GAGCTTTTAGATCTATTTTCAAAAGTTGTGAAGCCTCTAAT-AAGAA
* * * * * *
16166516 GAGCTTTTAAATTTATTTTCAAAAATTATGGAA-CCTCTAATGAGAG
1 GAGCTTTTAGATCTATTTTCAAAAGTTGT-GAAGCCTCTAATAAGAA
* * * *
16166562 GAGCTTTTAGATCTATTTTCAAAAGTTACTG-AGCTTCTAATGATAA
1 GAGCTTTTAGATCTATTTTCAAAAGTT-GTGAAGCCTCTAATAAGAA
* * * * *
16166608 GAGTTTTTATATTTATTTTCAAAAGTTGTGAAGCCTTTAGTAAGAA
1 GAGCTTTTAGATCTATTTTCAAAAGTTGTGAAGCCTCTAATAAGAA
*
16166654 GAGTTTTT
1 GAGCTTTT
16166662 CAAAAATTCA
Statistics
Matches: 118, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 4 0.03
46 111 0.94
47 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (46 bp):
GAGCTTTTAGATCTATTTTCAAAAGTTGTGAAGCCTCTAATAAGAA
Found at i:16166682 original size:6 final size:6
Alignment explanation
Indices: 16166671--16166714 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
16166661 TCAAAAATTC
*
16166671 AAAACA AAAACA AAAA-A AAACCA AAAACA AAAAC- AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
16166715 AAATTTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 9 0.26
6 25 0.74
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:16166690 original size:11 final size:11
Alignment explanation
Indices: 16166670--16166715 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
16166660 TTCAAAAATT
*
16166670 CAAAACAAAAA
1 CAAAAAAAAAA
*
16166681 CAAAAAAAAAC
1 CAAAAAAAAAA
16166692 CAAAAACAAAAA
1 CAAAAA-AAAAA
16166704 CAAAACAAAAAA
1 CAAAA-AAAAAA
16166716 AATTTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 15 0.50
12 14 0.47
13 1 0.03
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:16166697 original size:17 final size:17
Alignment explanation
Indices: 16166670--16166714 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
16166660 TTCAAAAATT
16166670 CAAAACAAAAACAAAAA
1 CAAAACAAAAACAAAAA
16166687 -AAAACCAAAAACAAAAA
1 CAAAA-CAAAAACAAAAA
16166704 CAAAACAAAAA
1 CAAAACAAAAA
16166715 AAATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAACAAAAACAAAAA
Found at i:16177995 original size:8 final size:8
Alignment explanation
Indices: 16177970--16178010 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
16177960 GCCAATAACT
16177970 AAACTAAA
1 AAACTAAA
16177978 GAAA-TAAAA
1 -AAACT-AAA
16177987 AAACTAAA
1 AAACTAAA
16177995 AAACT-AA
1 AAACTAAA
16178002 AAACTAAA
1 AAACTAAA
16178010 A
1 A
16178011 GAGAAAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
9 7 0.24
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (8 bp):
AAACTAAA
Found at i:16178002 original size:17 final size:17
Alignment explanation
Indices: 16177970--16178004 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16177960 GCCAATAACT
16177970 AAACTAAAGAAATAAAA
1 AAACTAAAGAAATAAAA
16177987 AAACTAAA-AAACTAAAA
1 AAACTAAAGAAA-TAAAA
16178004 A
1 A
16178005 CTAAAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.77, C:0.09, G:0.03, T:0.11
Consensus pattern (17 bp):
AAACTAAAGAAATAAAA
Found at i:16185732 original size:61 final size:61
Alignment explanation
Indices: 16185636--16185768 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
16185626 ATGTCCAAAT
* * * * * *
16185636 TTACTATAATACATTTTCACCATAATTACGAAAATA-CTTTTCTTCTTATAATTGACTAAAA
1 TTACTATAATACATCTTCACAATAATTAAGAAAATACCCTTTCTAC-TATAATTAACTAAAA
16185697 TTACTATAATAC-TCTTCTACAATAATTATAG-AAATACCCTTTCTACTATAATTAACTAAAA
1 TTACTATAATACATCTTC-ACAATAATTA-AGAAAATACCCTTTCTACTATAATTAACTAAAA
*
16185758 TTACTAAAATA
1 TTACTATAATA
16185769 GCCCTCCAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 4 0.06
61 50 0.81
62 8 0.13
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (61 bp):
TTACTATAATACATCTTCACAATAATTAAGAAAATACCCTTTCTACTATAATTAACTAAAA
Found at i:16186147 original size:126 final size:123
Alignment explanation
Indices: 16185920--16186200 Score: 300
Period size: 125 Copynumber: 2.2 Consensus size: 123
16185910 ATAATATTTT
* * * * *
16185920 TATTAAATTATATATTAAATTCTAATATAATAAAAATTAACCAAATATTAAATTATTAATATCCT
1 TATTAAATTACATATAAAATT-TAA-ATAATAAAAATCAACCAAATATTAAATTACTAAAAT-CT
*
16185985 TGCAATTACTTTATAAAAATTTAACATGTGACATTTTATTTAAAAATATACTATAATAC-CTC
63 TGCAATTACTTTATAAAAATTTAACATGTGACATTTTATTT-AAAATATACTACAATACAC-C
* *
16186047 TATTAAATTACATATAAAAATTTAACATAATATAAAATCAACTATATATTAAATTACTAAAAT-T
1 TATTAAATTACATAT-AAAATTTAA-ATAATA-AAAATCAACCAAATATTAAATTACTAAAATCT
* * * * *
16186111 TGTC-ATTACTTTATAACAATTTGATATGTGGA-ATTTTATTTGAAATTTACTACAATACACC
63 TG-CAATTACTTTATAAAAATTTAACATGT-GACATTTTATTTAAAATATACTACAATACACC
* *
16186172 TATTAAACTACTTATTAAAATTTAAATAA
1 TATTAAATTACATA-TAAAATTTAAATAA
16186201 CATATATTGA
Statistics
Matches: 132, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
124 4 0.03
125 36 0.27
126 36 0.27
127 26 0.20
128 30 0.23
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (123 bp):
TATTAAATTACATATAAAATTTAAATAATAAAAATCAACCAAATATTAAATTACTAAAATCTTGC
AATTACTTTATAAAAATTTAACATGTGACATTTTATTTAAAATATACTACAATACACC
Found at i:16186350 original size:61 final size:59
Alignment explanation
Indices: 16186280--16186472 Score: 210
Period size: 61 Copynumber: 3.2 Consensus size: 59
16186270 ATATCTAAAT
*
16186280 TTATTATAATGTCTTTTTACCATAATTATGTAAATATTCATTTTCTCATAATTAATCAAAA
1 TTATTATAATGTCTTTTTACCATAATTATG-AAATATTC-TTTTCTCATAATTAGTCAAAA
* *
16186341 TTATTATAAT-TCTTTTCTACCATAATTATAGAAATACTCCTCTTACT-ATAATTAGTCAAAA
1 TTATTATAATGTCTTTT-TACCATAATTAT-GAAATA-TTCT-TTTCTCATAATTAGTCAAAA
* * ** * * *
16186402 TTATTATAATGTCATTTTATCATAATTACAAAAATACTTCTCTTATCATAATTTGTCAAAA
1 TTATTATAATGTCTTTTTACCATAATTA-TGAAATA-TTCTTTTCTCATAATTAGTCAAAA
16186463 TTATTATAAT
1 TTATTATAAT
16186473 ATCTCTCATA
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
60 8 0.07
61 93 0.82
62 12 0.11
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (59 bp):
TTATTATAATGTCTTTTTACCATAATTATGAAATATTCTTTTCTCATAATTAGTCAAAA
Found at i:16186555 original size:62 final size:60
Alignment explanation
Indices: 16186327--16186565 Score: 207
Period size: 61 Copynumber: 3.9 Consensus size: 60
16186317 TCATTTTCTC
* * * * * * *
16186327 ATAATTAATCAAAATTATTATAATTCTTTTCTACCATAATTATAGAAATACTCCTCTTACT
1 ATAATTGATCAAAATTATTATAATACTTTTATACCATAATTACAAAAATAC-CTTCTTATT
* * *
16186388 ATAATT-AGTCAAAATTATTATAATGTCATTTTAT--CATAATTACAAAAATACTTCTCTTATC
1 ATAATTGA-TCAAAATTATTATAAT-AC-TTTTATACCATAATTACAAAAATACCT-TCTTATT
* * * *
16186449 ATAATTTG-TCAAAATTATTATAATATCTCTCATACCATACTTACAAAAATAACCTTCATATT
1 ATAA-TTGATCAAAATTATTATAATA-CTTTTATACCATAATTACAAAAAT-ACCTTCTTATT
* * * *
16186511 ATAATTGATCAAAATTAATATAATACATTTTATATCATAATTACATAAATGCCTT
1 ATAATTGATCAAAATTATTATAATAC-TTTTATACCATAATTACAAAAATACCTT
16186566 TACGAATGTT
Statistics
Matches: 145, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
60 5 0.03
61 71 0.49
62 61 0.42
63 8 0.06
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.41
Consensus pattern (60 bp):
ATAATTGATCAAAATTATTATAATACTTTTATACCATAATTACAAAAATACCTTCTTATT
Found at i:16186830 original size:21 final size:22
Alignment explanation
Indices: 16186791--16186834 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
16186781 TTTATTAAAA
* *
16186791 TAAAATTAAATAATTTTTATTT
1 TAAAATTAAAAAATATTTATTT
16186813 TAAAA-TAAAAAATATTTATTT
1 TAAAATTAAAAAATATTTATTT
16186834 T
1 T
16186835 CCGACGCGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATTAAAAAATATTTATTT
Found at i:16190222 original size:17 final size:18
Alignment explanation
Indices: 16190202--16190236 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16190192 AAAAATTTAT
16190202 AATA-TTTTAAAAAATAA
1 AATACTTTTAAAAAATAA
*
16190219 AATACTTTTTAAAAATAA
1 AATACTTTTAAAAAATAA
16190237 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATACTTTTAAAAAATAA
Found at i:16192753 original size:11 final size:11
Alignment explanation
Indices: 16192737--16192761 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16192727 TTTTTAAAAG
16192737 AAATTATTTTT
1 AAATTATTTTT
16192748 AAATTATTTTT
1 AAATTATTTTT
16192759 AAA
1 AAA
16192762 AAAGCTAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:16192815 original size:18 final size:17
Alignment explanation
Indices: 16192786--16192834 Score: 89
Period size: 17 Copynumber: 2.8 Consensus size: 17
16192776 TTTCTTGTTA
16192786 TTATTTTTAAAAATTAT
1 TTATTTTTAAAAATTAT
16192803 TTATTTTTAAAAATTAT
1 TTATTTTTAAAAATTAT
16192820 TTAATTTTTAAAAAT
1 TT-ATTTTTAAAAAT
16192835 ATAACACATG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTTAAAAATTAT
Found at i:16194662 original size:63 final size:63
Alignment explanation
Indices: 16194559--16194686 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
16194549 ATTATAGACA
* * * *
16194559 TAGTTTAAACACAAAAATCATTCAAGAATAGGCTTTTTTCCAATTGTAATTTTCATGTGTGTG
1 TAGTTTAAAAACAAAAATCATTCAAGAATAAGCTTATTTCCAATTGCAATTTTCATGTGTGTG
*
16194622 TAGTTTAAAAACAAAAATCTTTCAAGAATAAGCTTATTTCCAATTGCAATTTTCATGTGTGTG
1 TAGTTTAAAAACAAAAATCATTCAAGAATAAGCTTATTTCCAATTGCAATTTTCATGTGTGTG
16194685 TA
1 TA
16194687 TAATCTATCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (63 bp):
TAGTTTAAAAACAAAAATCATTCAAGAATAAGCTTATTTCCAATTGCAATTTTCATGTGTGTG
Found at i:16195141 original size:22 final size:22
Alignment explanation
Indices: 16195113--16195161 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
16195103 TATTTTCAGC
*
16195113 TTTTCTTTATTTGCAAACAAAA
1 TTTTCTTTATTTACAAACAAAA
16195135 TTTTCTTTATTTACAAACAAAA
1 TTTTCTTTATTTACAAACAAAA
16195157 TTTTC
1 TTTTC
16195162 ACATTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTCTTTATTTACAAACAAAA
Found at i:16201129 original size:26 final size:25
Alignment explanation
Indices: 16201088--16201136 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
16201078 TATCAAAATT
16201088 AAATTTATTCTAA-TTTGATGAACC
1 AAATTTATTCTAATTTTGATGAACC
16201112 AAATTTGATTTCTAATTTTGATGAA
1 AAATTT-A-TTCTAATTTTGATGAA
16201137 ATGGGTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
26 6 0.27
27 9 0.41
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (25 bp):
AAATTTATTCTAATTTTGATGAACC
Found at i:16208125 original size:16 final size:17
Alignment explanation
Indices: 16208095--16208144 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
16208085 TTTCCTTTGG
*
16208095 ACCATTTTA-ATAAGTT
1 ACCATTTTAGAAAAGTT
* * *
16208111 ACTATTTT-GGAAAGTC
1 ACCATTTTAGAAAAGTT
16208127 ACCATTTTAGAAAAGTT
1 ACCATTTTAGAAAAGTT
16208144 A
1 A
16208145 AATTATGATA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
ACCATTTTAGAAAAGTT
Found at i:16209927 original size:18 final size:20
Alignment explanation
Indices: 16209896--16209932 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
16209886 CAAACTTGAT
16209896 AAATAATTAAAAAA-AAATC
1 AAATAATTAAAAAATAAATC
*
16209915 AAAT-ATTAGAAAATAAAT
1 AAATAATTAAAAAATAAAT
16209933 GATTCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAATAATTAAAAAATAAATC
Found at i:16213019 original size:17 final size:16
Alignment explanation
Indices: 16212994--16213039 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
16212984 ATTGTTTAAT
16212994 TTTCTATTTTTAGCAA
1 TTTCTATTTTTAGCAA
*
16213010 TTTCTCATTTTTAGTAA
1 TTTCT-ATTTTTAGCAA
*
16213027 TTTCTATATTTAG
1 TTTCTATTTTTAG
16213040 TAAGCTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.59
Consensus pattern (16 bp):
TTTCTATTTTTAGCAA
Found at i:16213038 original size:16 final size:16
Alignment explanation
Indices: 16212994--16213042 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
16212984 ATTGTTTAAT
*
16212994 TTTCTATTTTTAGCAA
1 TTTCTATTTTTAGTAA
16213010 TTTCTCATTTTTAGTAA
1 TTTCT-ATTTTTAGTAA
*
16213027 TTTCTATATTTAGTAA
1 TTTCTATTTTTAGTAA
16213043 GCTTTAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTCTATTTTTAGTAA
Found at i:16214567 original size:11 final size:9
Alignment explanation
Indices: 16214529--16214577 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
16214519 GCAAAGCTGA
*
16214529 TTTTTTTAG
1 TTTTTTTAT
*
16214538 TTTTTTAAT
1 TTTTTTTAT
16214547 TTTTTTTAT
1 TTTTTTTAT
16214556 TTTATTTCTAT
1 TTT-TTT-TAT
*
16214567 TTTTTGTAT
1 TTTTTTTAT
16214576 TT
1 TT
16214578 AAGTTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 23 0.68
10 5 0.15
11 6 0.18
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:16214714 original size:102 final size:103
Alignment explanation
Indices: 16214592--16214782 Score: 260
Period size: 102 Copynumber: 1.9 Consensus size: 103
16214582 TAATTTATTG
* * * * *
16214592 AAAAAATATTTTTTAATCCTACCAAACTTTTTGAGA-ATTTAAATCTCAAATTTAACCTTACCAA
1 AAAAAATATTTTTTAATCCTACCAAA-GTATTGAAAGATTTAAATATCAAATTGAACCTTACCAA
16214656 ACTATTAAAGGGTTTAATTATTTTTTAGAAAGGTAAATT
65 ACTATTAAAGGGTTTAATTATTTTTTAGAAAGGTAAATT
* * *
16214695 AAAAAATA-TTTTTAATCCTACTAAAGTATTGAAAGATTTAAATATCAAATTGAATCTTTCCAAA
1 AAAAAATATTTTTTAATCCTACCAAAGTATTGAAAGATTTAAATATCAAATTGAACCTTACCAAA
* * *
16214759 CTGTTAGAGGGTTTAGTTATTTTT
66 CTATTAAAGGGTTTAATTATTTTT
16214783 ATTTTAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 6 0.08
102 62 0.82
103 8 0.11
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (103 bp):
AAAAAATATTTTTTAATCCTACCAAAGTATTGAAAGATTTAAATATCAAATTGAACCTTACCAAA
CTATTAAAGGGTTTAATTATTTTTTAGAAAGGTAAATT
Found at i:16222827 original size:31 final size:31
Alignment explanation
Indices: 16222771--16222910 Score: 113
Period size: 31 Copynumber: 4.5 Consensus size: 31
16222761 TGAAAGATAT
* *
16222771 GAGAATTAAGCCCAGAT-TAGTTGGCACCAAAG
1 GAGAATTAAGCCTAG-TCTAGCTGGCA-CAAAG
* * *
16222803 GA-AATTAAGCCTCGTCTAGCTGGCACTTATG
1 GAGAATTAAGCCTAGTCTAGCTGGCAC-AAAG
* * * *
16222834 GATAAGTAAACCTAGTCTAGCTGGCACTAAG
1 GAGAATTAAGCCTAGTCTAGCTGGCACAAAG
* * * *
16222865 AAAAATTAAGCCTATTTTAGCTGGCACAAAG
1 GAGAATTAAGCCTAGTCTAGCTGGCACAAAG
*
16222896 GAGTATTAAGCCTAG
1 GAGAATTAAGCCTAG
16222911 ATAGGGAAAT
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
30 2 0.02
31 60 0.71
32 23 0.27
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (31 bp):
GAGAATTAAGCCTAGTCTAGCTGGCACAAAG
Found at i:16223076 original size:30 final size:31
Alignment explanation
Indices: 16223009--16223081 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
16222999 TGACACTGAT
* *
16223009 GAGAATTAAGCCCAGATTAATTAGCATCAAG
1 GAGAATTAAGCCCAGATTAACTAGCAACAAG
* * *
16223040 GAGAATTAAGCCCCGTTTAACTGGCAACAA-
1 GAGAATTAAGCCCAGATTAACTAGCAACAAG
16223070 GAGAATTAAGCC
1 GAGAATTAAGCC
16223082 TAATCAAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (31 bp):
GAGAATTAAGCCCAGATTAACTAGCAACAAG
Found at i:16223170 original size:31 final size:30
Alignment explanation
Indices: 16223135--16223214 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
16223125 GTGCAAATGA
***
16223135 AAATTAAGCCTAGATTAGCAAGCATTGAGT
1 AAATTAAGCCTAGATTAGCAAGCACAAAGT
* * *
16223165 GAAATTAAGCCCAGTTTAGCTAGCACAAAGT
1 -AAATTAAGCCTAGATTAGCAAGCACAAAGT
16223196 AGAATTAAGCCTAGATTAG
1 A-AATTAAGCCTAGATTAG
16223215 TTGGCATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (30 bp):
AAATTAAGCCTAGATTAGCAAGCACAAAGT
Found at i:16223222 original size:62 final size:60
Alignment explanation
Indices: 16223010--16223223 Score: 184
Period size: 62 Copynumber: 3.5 Consensus size: 60
16223000 GACACTGATG
* * * * * *
16223010 AGAATTAAGCCCAGATTAATTAGCATCAAGGAGAATTAAGCCCCGTTTAACTGGCA-ACAAG-
1 AGAATTAAGCCTAGATTAGTTAGCAT-TAGGA-AATTAAGCCCAGTTTAGCTAGCACA-AAGT
* * **
16223071 AGAATTAAGCCTA-ATCAAGTTAGCACTTAGGAAGATTTAAGCCCAATTTAGCTAGTGCAAA-T
1 AGAATTAAGCCTAGAT-TAGTTAGCA-TTAGGAA-A-TTAAGCCCAGTTTAGCTAGCACAAAGT
* **
16223133 GAAAATTAAGCCTAGATTAGCAAGCATTGAGTGAAATTAAGCCCAGTTTAGCTAGCACAAAGT
1 -AGAATTAAGCCTAGATTAGTTAGCATT-AG-GAAATTAAGCCCAGTTTAGCTAGCACAAAGT
*
16223196 AGAATTAAGCCTAGATTAGTTGGCATTA
1 AGAATTAAGCCTAGATTAGTTAGCATTA
16223224 AAAGAGATTT
Statistics
Matches: 121, Mismatches: 21, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
60 3 0.02
61 25 0.21
62 65 0.54
63 23 0.19
64 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (60 bp):
AGAATTAAGCCTAGATTAGTTAGCATTAGGAAATTAAGCCCAGTTTAGCTAGCACAAAGT
Found at i:16223404 original size:51 final size:51
Alignment explanation
Indices: 16223231--16223433 Score: 186
Period size: 51 Copynumber: 4.1 Consensus size: 51
16223221 TTAAAAGAGA
* ** ** * *
16223231 TTTTTAAAGTTTATTGCTTATTTTCATAAAACCTCTTTC--CAAAAAGACTT
1 TTTTTAAAGTTCATTATTTATTTTCATATGAGCTCTTTCTAGAAAAAGA-TT
* * *
16223281 TTTTTGAAGTTCATTATCTATTTTTATATGA-CTCTTTCTAGAAAAAGA--
1 TTTTTAAAGTTCATTATTTATTTTCATATGAGCTCTTTCTAGAAAAAGATT
* * * *
16223329 TTTTTAAAGTTCGTTACTTATTTTCATAGGAGCTCTTTCTA-AAAAGATATT
1 TTTTTAAAGTTCATTATTTATTTTCATATGAGCTCTTTCTAGAAAA-AGATT
* *
16223380 TTTTTAAAGTTCTTTATTTGTTTTCATATGAG-TCTTTTCTAGAAAAAGATT
1 TTTTTAAAGTTCATTATTTATTTTCATATGAGCTC-TTTCTAGAAAAAGATT
16223431 TTT
1 TTT
16223434 AAAGTTTCCA
Statistics
Matches: 124, Mismatches: 21, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
48 29 0.23
49 18 0.15
50 25 0.20
51 48 0.39
52 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (51 bp):
TTTTTAAAGTTCATTATTTATTTTCATATGAGCTCTTTCTAGAAAAAGATT
Found at i:16223528 original size:49 final size:49
Alignment explanation
Indices: 16223472--16223575 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
16223462 GTTCGAACCT
16223472 ATTTTCATA-GATACCCTTTCTAGAAAGAGATTTTT-AAGATTCATTGCCC
1 ATTTTCATATGA-ACCCTTTCTAGAAAGAGATTTTTAAAG-TTCATTGCCC
* * * * *
16223521 ATTTTCATATGAGCCCTTTTTATAAAGAGATTTTTAAAGTTCGTTGCCT
1 ATTTTCATATGAACCCTTTCTAGAAAGAGATTTTTAAAGTTCATTGCCC
16223570 ATTTTC
1 ATTTTC
16223576 GTCAAAGCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 43 0.90
50 5 0.10
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (49 bp):
ATTTTCATATGAACCCTTTCTAGAAAGAGATTTTTAAAGTTCATTGCCC
Found at i:16225810 original size:7 final size:7
Alignment explanation
Indices: 16225798--16225836 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
16225788 TCTCATGATA
16225798 CCTAAAC
1 CCTAAAC
16225805 CCTAAAC
1 CCTAAAC
*
16225812 CCT-AAT
1 CCTAAAC
16225818 CCTAAAC
1 CCTAAAC
16225825 CCTAAAC
1 CCTAAAC
16225832 CCTAA
1 CCTAA
16225837 TCATAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:16225823 original size:13 final size:13
Alignment explanation
Indices: 16225805--16225829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16225795 ATACCTAAAC
16225805 CCTAAACCCTAAT
1 CCTAAACCCTAAT
16225818 CCTAAACCCTAA
1 CCTAAACCCTAA
16225830 ACCCTAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
CCTAAACCCTAAT
Found at i:16225823 original size:20 final size:20
Alignment explanation
Indices: 16225798--16225843 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16225788 TCTCATGATA
16225798 CCTAAACCCTAAACCCTAAT
1 CCTAAACCCTAAACCCTAAT
16225818 CCTAAACCCTAAACCCTAAT
1 CCTAAACCCTAAACCCTAAT
*
16225838 CATAAA
1 CCTAAA
16225844 GATTAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (20 bp):
CCTAAACCCTAAACCCTAAT
Found at i:16225876 original size:19 final size:19
Alignment explanation
Indices: 16225848--16225895 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
16225838 CATAAAGATT
*
16225848 AAATCTTAAACCACTTTCA
1 AAATCCTAAACCACTTTCA
16225867 AAATCCTAAACCACTTTCA
1 AAATCCTAAACCACTTTCA
*
16225886 AAACCCTAAA
1 AAATCCTAAA
16225896 GCAACCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATCCTAAACCACTTTCA
Found at i:16230106 original size:15 final size:15
Alignment explanation
Indices: 16230086--16230117 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16230076 GGGTGAGGCA
16230086 TACTCTTGAGAGCCT
1 TACTCTTGAGAGCCT
16230101 TACTCTTGAGAGCCT
1 TACTCTTGAGAGCCT
16230116 TA
1 TA
16230118 TGGTAAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (15 bp):
TACTCTTGAGAGCCT
Found at i:16231237 original size:52 final size:53
Alignment explanation
Indices: 16231140--16231266 Score: 159
Period size: 52 Copynumber: 2.4 Consensus size: 53
16231130 CTCCCATAAC
* * * *
16231140 GATCCTTTTGTTTGTATATGAAACTATTGACATGCACAAATCTCTTGAAGTAAAA
1 GATCCTTTTGTTTATATATG-TACTACTGACATGCACAAAGCTCTTGAAG-AAAA
*
16231195 -ATCCTTTTGTTTATATATGTA-TACTGCCATGCACAAAGCTCTTGAAGAAAA
1 GATCCTTTTGTTTATATATGTACTACTGACATGCACAAAGCTCTTGAAGAAAA
* *
16231246 GATCCTTTGGTCTATATATGT
1 GATCCTTTTGTTTATATATGT
16231267 TTATCTACTG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 4 0.06
52 41 0.64
53 1 0.02
54 18 0.28
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (53 bp):
GATCCTTTTGTTTATATATGTACTACTGACATGCACAAAGCTCTTGAAGAAAA
Found at i:16231293 original size:56 final size:52
Alignment explanation
Indices: 16231175--16231297 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 52
16231165 ATTGACATGC
* * * **
16231175 ACAAATCTCTTGAAGTAAAAATCCTTTTGTTTATATATGTATACTGCCATGC
1 ACAAAACTCTTGAAGTAAAAATCCTTTGGTCTATATATGTATACTGCCATAA
* *
16231227 ACAAAGCTCTTGAAG-AAAAGATCCTTTGGTCTATATATGTTTATCTACTGCTATAA
1 ACAAAACTCTTGAAGTAAAA-ATCCTTTGGTCTATATATG--TA--TACTGCCATAA
16231283 ACAAAACTCTTGAAG
1 ACAAAACTCTTGAAG
16231298 GGATTGAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
51 4 0.07
52 31 0.53
54 2 0.03
56 22 0.37
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (52 bp):
ACAAAACTCTTGAAGTAAAAATCCTTTGGTCTATATATGTATACTGCCATAA
Found at i:16234689 original size:3 final size:3
Alignment explanation
Indices: 16234681--16234714 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16234671 ATACATGTAT
16234681 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16234715 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16248452 original size:236 final size:232
Alignment explanation
Indices: 16247930--16248627 Score: 850
Period size: 236 Copynumber: 3.0 Consensus size: 232
16247920 ATAACACCAT
* * *
16247930 AGTTTATGACATTTATTCTATTATTATATAACACTATACATTGATGTGATAAAATTACGATGTTA
1 AGTTTATGACATTTATT-TATCATTATATAACAC-ATACATTGATGTGACAAAATTACAATGTTA
* * * *
16247995 TTAATAATTAACTAAAATATTTAATTTGTGACAAAAATTAATAA-CGTCACCTAAAATCTATAAA
64 TTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAAGC-TCACCTAAAATCTATAAA
* * *
16248059 AAAAATTCGTCACAGATAAAATTTTAAATTAGTGACAAAA-TTATAACATCACTTAAAATAAAGA
128 AAAAATTCGTCACAGATAAAATTTTAAATTAGTGACAAAATTTA-AACGTCACCTAAAATAAAAA
* *
16248123 AAGTCACAAAAAAGTTTTCACCAAATAAAATTGACAATAAA
192 AAGTCACAAAAAAATTTTCACCAAATAAATTTGACAATAAA
* * * * * ** * *
16248164 AGTTTGTAACATTTATGTTATCGTTATATAATACCATAAAATAAAAGTGACAAAATTGCAATGTT
1 AGTTTATGACATTTAT-TTATCATTATATAACA-CAT-ACATTGATGTGACAAAATTACAATGTT
* * * * * *
16248229 ATTAATAGTTAACTAAAGTGTTCCATTTTTAACAAAAATTGATAATGCT-ATCTTAAATCTATTA
63 ATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAA-GCTCACCTAAAATCTA-TA
* *
16248293 GAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTTAAACGTCACCTAAAATAAAA
126 AAAAAAATTCGTCACAGATAAAATTTTAAATTAGTGACAAAATTTAAACGTCACCTAAAATAAAA
*
16248358 AAAATCACAAAAAAATTTTCCACCAAATAAATTTGACAATAAA
191 AAAGTCACAAAAAAATTTT-CACCAAATAAATTTGACAATAAA
* * *
16248401 AGTTTATGATATTTATATTATCATCATATAACATCATACATTGATGTGACAAAATTACAATGTCA
1 AGTTTATGACATTTAT-TTATCATTATATAACA-CATACATTGATGTGACAAAATTACAATGTTA
*
16248466 TTAATAGTTAACTAAAGTGTTCAATTTGTGA-TAAAATTAATAA-CATCACCTAAAATCTATAAA
64 TTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAAGC-TCACCTAAAATCTATAAA
* * * * *
16248529 AAAAATTCGTTACAAATAAAATTTCAAATTGGTGACAAAATTGT-AATGTCACCTAAAATGAAAA
128 AAAAATTCGTCACAGATAAAATTTTAAATTAGTGACAAAATT-TAAACGTCACCTAAAAT-AAAA
*
16248593 AAATGTCACAAAAATATTTTCACCAAATAAATTTG
191 AAA-GTCACAAAAAAATTTTCACCAAATAAATTTG
16248628 TTGGTAAAAT
Statistics
Matches: 391, Mismatches: 60, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
233 1 0.00
234 83 0.21
235 112 0.29
236 140 0.36
237 55 0.14
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (232 bp):
AGTTTATGACATTTATTTATCATTATATAACACATACATTGATGTGACAAAATTACAATGTTATT
AATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAAGCTCACCTAAAATCTATAAAAAA
AATTCGTCACAGATAAAATTTTAAATTAGTGACAAAATTTAAACGTCACCTAAAATAAAAAAAGT
CACAAAAAAATTTTCACCAAATAAATTTGACAATAAA
Found at i:16250100 original size:2 final size:2
Alignment explanation
Indices: 16250093--16250128 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16250083 GCCATTCTTC
16250093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16250129 CTACTTAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16250257 original size:23 final size:23
Alignment explanation
Indices: 16250231--16250275 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16250221 TATTTTTACC
* *
16250231 TTTTTATCTTTATTACTATTTTG
1 TTTTTATATTTACTACTATTTTG
*
16250254 TTTTTATATTTACTATTATTTT
1 TTTTTATATTTACTACTATTTT
16250276 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTATATTTACTACTATTTTG
Found at i:16250268 original size:20 final size:19
Alignment explanation
Indices: 16250243--16250292 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16250233 TTTATCTTTA
16250243 TTACTATTTTGTTTTTATAT
1 TTACTATTTT-TTTTTATAT
*
16250263 TTACTATTATTTTTTTATTT
1 TTACTATT-TTTTTTTATAT
16250283 TTA-TATTTTT
1 TTACTATTTTT
16250293 ACATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 4 0.14
20 19 0.68
21 2 0.07
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTACTATTTTTTTTTATAT
Found at i:16250270 original size:26 final size:26
Alignment explanation
Indices: 16250241--16250290 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16250231 TTTTTATCTT
*
16250241 TATTACTATTTTGTTTTTATATTTAC
1 TATTACTATTTTATTTTTATATTTAC
* *
16250267 TATTATTTTTTTATTTTTATATTT
1 TATTACTATTTTATTTTTATATTT
16250291 TTACATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (26 bp):
TATTACTATTTTATTTTTATATTTAC
Found at i:16250347 original size:7 final size:7
Alignment explanation
Indices: 16250335--16250366 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
16250325 TTCTAATTTT
16250335 TTTAATG
1 TTTAATG
16250342 TTTAATG
1 TTTAATG
16250349 TTTAATG
1 TTTAATG
16250356 TTTAAT-
1 TTTAATG
16250362 TTTAA
1 TTTAA
16250367 ATTTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (7 bp):
TTTAATG
Found at i:16250352 original size:14 final size:13
Alignment explanation
Indices: 16250334--16250392 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
16250324 TTTCTAATTT
16250334 TTTTAATGTTTAA
1 TTTTAATGTTTAA
16250347 TGTTTAATGTTTAA
1 T-TTTAATGTTTAA
*
16250361 TTTTAAAT-TTTTA
1 TTTT-AATGTTTAA
*
16250374 TTTTAGT-TTTAAA
1 TTTTAATGTTT-AA
16250387 TTTTAA
1 TTTTAA
16250393 AATTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.13
13 18 0.46
14 16 0.41
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTAATGTTTAA
Found at i:16250512 original size:19 final size:19
Alignment explanation
Indices: 16250488--16250524 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16250478 TTAGACCTCA
*
16250488 TACGAAGCATTTAAAAGTT
1 TACGAAACATTTAAAAGTT
16250507 TACGAAACATTTAAAAGT
1 TACGAAACATTTAAAAGT
16250525 GGGTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (19 bp):
TACGAAACATTTAAAAGTT
Found at i:16250806 original size:36 final size:36
Alignment explanation
Indices: 16250759--16250959 Score: 140
Period size: 36 Copynumber: 5.6 Consensus size: 36
16250749 TTAGTTAAGT
** *
16250759 AATAAAGAATGATCGAGATGACACCACAAGTCAAAA
1 AATAAAGAACAATCGAGATGACACCATAAGTCAAAA
** * * *
16250795 AATAAAGAATGATCGGGATGATACCATAAGTCAAGTA
1 AATAAAGAACAATCGAGATGACACCATAAGTCAA-AA
* **
16250832 ATTAAA-AACAATCGAGCCA-G-CACTGTAAGTCAAAA
1 AATAAAGAACAATCGAG--ATGACACCATAAGTCAAAA
* * *
16250867 AATAAAGAACAACCAAGAGGACACCATAAGTCAAAA
1 AATAAAGAACAATCGAGATGACACCATAAGTCAAAA
* * ** **
16250903 AATAAAGAACAA-CCAGGATGGCACTGTAAGTCAAGT
1 AATAAAGAACAATCGA-GATGACACCATAAGTCAAAA
* *
16250939 AATTAAGAATAATCGAGATGA
1 AATAAAGAACAATCGAGATGA
16250960 TATCGCAAGT
Statistics
Matches: 129, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
34 1 0.01
35 9 0.07
36 109 0.84
37 9 0.07
38 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.16
Consensus pattern (36 bp):
AATAAAGAACAATCGAGATGACACCATAAGTCAAAA
Found at i:16251390 original size:14 final size:14
Alignment explanation
Indices: 16251371--16251400 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16251361 CACCTTTCGA
16251371 TATCATAATATTAT
1 TATCATAATATTAT
16251385 TATCATAATATTAT
1 TATCATAATATTAT
16251399 TA
1 TA
16251401 GGTGAAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TATCATAATATTAT
Found at i:16255303 original size:9 final size:9
Alignment explanation
Indices: 16255289--16255313 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16255279 TATATCAATC
16255289 TAAATAACA
1 TAAATAACA
16255298 TAAATAACA
1 TAAATAACA
16255307 TAAATAA
1 TAAATAA
16255314 ATTATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAATAACA
Found at i:16258765 original size:19 final size:19
Alignment explanation
Indices: 16258738--16258781 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16258728 TTTTTTAATG
*
16258738 TTTAATTTTAAATTTTAAA
1 TTTAATTTTAAATTTAAAA
*
16258757 TTTAGTTTTAAATTTAAAA
1 TTTAATTTTAAATTTAAAA
16258776 TTTAAT
1 TTTAAT
16258782 ATATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAATTTTAAATTTAAAA
Found at i:16260798 original size:17 final size:17
Alignment explanation
Indices: 16260753--16260804 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
16260743 CATTCCTCAT
*
16260753 TTCTTTTCTTTCTTTTAG
1 TTCTTTTATTTC-TTTAG
*
16260771 TT-TTTCA-TTCTTTAG
1 TTCTTTTATTTCTTTAG
16260786 TTCTTTTATTTCTTTAG
1 TTCTTTTATTTCTTTAG
16260803 TT
1 TT
16260805 TAGTTATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 13 0.45
18 2 0.07
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (17 bp):
TTCTTTTATTTCTTTAG
Found at i:16266775 original size:21 final size:21
Alignment explanation
Indices: 16266751--16266794 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16266741 GGACTAAGTT
16266751 AATGTTGGGTTTGTTACCTAA
1 AATGTTGGGTTTGTTACCTAA
16266772 AATGTTGGGTTTGTTACCTAA
1 AATGTTGGGTTTGTTACCTAA
16266793 AA
1 AA
16266795 CCAAGGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (21 bp):
AATGTTGGGTTTGTTACCTAA
Found at i:16267410 original size:34 final size:34
Alignment explanation
Indices: 16267326--16267486 Score: 110
Period size: 34 Copynumber: 4.7 Consensus size: 34
16267316 TATGAATTTC
** *
16267326 AAGATTCACAAAAATTTTAGA-TTAAAAAAATTG
1 AAGATTCACAAAAATTTTAGATTTGTAAGAATTG
* * *
16267359 AGAGATTCATAAGATTTTTAGATTTGTAAGAATTG
1 A-AGATTCACAAAAATTTTAGATTTGTAAGAATTG
* * * * * *
16267394 AAGATTCAC-AATATTTTCATATTTGCATGATTTT
1 AAGATTCACAAAAATTTT-AGATTTGTAAGAATTG
* * * *
16267428 AAGATTCACAAAAATTTAAGATTCGTAAGATTTT
1 AAGATTCACAAAAATTTTAGATTTGTAAGAATTG
** * *
16267462 AAGATTTGCAAGAATTTTATATTTG
1 AAGATTCACAAAAATTTTAGATTTG
16267487 CAAAACTCAG
Statistics
Matches: 97, Mismatches: 27, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
33 6 0.06
34 75 0.77
35 16 0.16
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (34 bp):
AAGATTCACAAAAATTTTAGATTTGTAAGAATTG
Found at i:16267474 original size:17 final size:17
Alignment explanation
Indices: 16267369--16267489 Score: 73
Period size: 17 Copynumber: 7.1 Consensus size: 17
16267359 AGAGATTCAT
* *
16267369 AAGATTTTTAGATTTGT
1 AAGATTTTAAGATTTGC
* * **
16267386 AAGAATTGAAGATTCAC
1 AAGATTTTAAGATTTGC
* * *
16267403 AATATTTTCATATTTGC
1 AAGATTTTAAGATTTGC
* **
16267420 ATGATTTTAAGATTCAC
1 AAGATTTTAAGATTTGC
* * * *
16267437 AAAAATTTAAGATTCGT
1 AAGATTTTAAGATTTGC
16267454 AAGATTTTAAGATTTGC
1 AAGATTTTAAGATTTGC
*
16267471 AAGAATTTT-ATATTTGC
1 AAG-ATTTTAAGATTTGC
16267488 AA
1 AA
16267490 AACTCAGGGA
Statistics
Matches: 74, Mismatches: 29, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
17 69 0.93
18 5 0.07
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (17 bp):
AAGATTTTAAGATTTGC
Found at i:16267668 original size:45 final size:45
Alignment explanation
Indices: 16267606--16267877 Score: 187
Period size: 45 Copynumber: 6.0 Consensus size: 45
16267596 AAACTTTAGG
* *
16267606 GATTCACATTCAAAATTTCAAAGATTCTCATTGAAAAATTTTAAA
1 GATTTACATCCAAAATTTCAAAGATTCTCATTGAAAAATTTTAAA
* * ** *
16267651 AATTTACATCTAAAATTTCAAAGACACTCATTTG-AAAATTTTAAG
1 GATTTACATCCAAAATTTCAAAGATTCTCA-TTGAAAAATTTTAAA
* * * *
16267696 GATTCACAT-AAAAATTTTCAAAG-TTCACATTCAATAAATTTTAAA
1 GATTTACATCCAAAA-TTTCAAAGATTCTCATTGAA-AAATTTTAAA
* * * * * *
16267741 GATTCACATCCAAAAATTCAAAAATTCTGATTCAATAAGTTTTAGAA
1 GATTTACATCCAAAATTTCAAAGATTCTCATTGAA-AAATTTTA-AA
* * * ** * ** * *
16267788 -ATTTACAT-CTAAA-GTCAAAGGTTCAAATTAAAAAAAAATCAAG
1 GATTTACATCCAAAATTTCAAAGATTCTCATT-GAAAAATTTTAAA
*
16267831 GGTTTACATCCAAAATTTCAAAGATTCTCATTTGAAAAATTTTAAA
1 GATTTACATCCAAAATTTCAAAGATTCTCA-TTGAAAAATTTTAAA
16267877 G
1 G
16267878 GTTCAGAACT
Statistics
Matches: 170, Mismatches: 45, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
43 3 0.02
44 30 0.18
45 83 0.49
46 50 0.29
47 4 0.02
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (45 bp):
GATTTACATCCAAAATTTCAAAGATTCTCATTGAAAAATTTTAAA
Found at i:16267699 original size:90 final size:90
Alignment explanation
Indices: 16267595--16267762 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
16267585 TTCATTCGAA
* * * * *
16267595 AAAACTTTAGGGATTCACATTCAAAA-TTTCAAAGATTCTCATTGAA-AAATTTTAAAAATTTAC
1 AAAACTTTAAGGATTCACA-TAAAAATTTTCAAAG-TTCACATTCAATAAATTTTAAAAATTCAC
* *
16267658 ATCTAAAATTTCAAAGACACTCATTTG
64 ATCCAAAAATTCAAAGACACTCATTTG
* *
16267685 AAAATTTTAAGGATTCACATAAAAATTTTCAAAGTTCACATTCAATAAATTTTAAAGATTCACAT
1 AAAACTTTAAGGATTCACATAAAAATTTTCAAAGTTCACATTCAATAAATTTTAAAAATTCACAT
16267750 CCAAAAATTCAAA
66 CCAAAAATTCAAA
16267763 AATTCTGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 14 0.21
90 53 0.79
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (90 bp):
AAAACTTTAAGGATTCACATAAAAATTTTCAAAGTTCACATTCAATAAATTTTAAAAATTCACAT
CCAAAAATTCAAAGACACTCATTTG
Found at i:16267757 original size:23 final size:23
Alignment explanation
Indices: 16267606--16267758 Score: 127
Period size: 23 Copynumber: 6.8 Consensus size: 23
16267596 AAACTTTAGG
*
16267606 GATTCACATTC-AAAATTTCAAA
1 GATTCACATTCAAAAATTTTAAA
* *
16267628 GATTCTCATTGAAAAATTTTAAA
1 GATTCACATTCAAAAATTTTAAA
* * * *
16267651 AATTTACA-TCTAAAATTTCAAA
1 GATTCACATTCAAAAATTTTAAA
** * ** *
16267673 GACACTCATTTGAAAATTTTAAG
1 GATTCACATTCAAAAATTTTAAA
16267696 GATTCACA-T-AAAAATTTTCAAA
1 GATTCACATTCAAAAATTTT-AAA
16267718 G-TTCACATTCAATAAATTTTAAA
1 GATTCACATTCAA-AAATTTTAAA
*
16267741 GATTCACATCCAAAAATT
1 GATTCACATTCAAAAATT
16267759 CAAAAATTCT
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
21 14 0.14
22 28 0.28
23 41 0.41
24 17 0.17
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (23 bp):
GATTCACATTCAAAAATTTTAAA
Found at i:16268938 original size:6 final size:6
Alignment explanation
Indices: 16268916--16268981 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
16268906 CCCATTTGGG
*
16268916 TTTTCAA TTTT-A GTTTTCC TTTTCA TTTTCA TTTT-- TTTTCA TTTTTTCA
1 TTTTC-A TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA --TTTTCA
16268965 TTTTCA TTTTTCA TTTT
1 TTTTCA -TTTTCA TTTT
16268982 TCACATTTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.08
5 1 0.02
6 29 0.58
7 10 0.20
8 6 0.12
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:16268960 original size:7 final size:7
Alignment explanation
Indices: 16268950--16268984 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
16268940 ATTTTCATTT
16268950 TTTTTCA
1 TTTTTCA
16268957 TTTTTTCA
1 -TTTTTCA
16268965 -TTTTCA
1 TTTTTCA
16268971 TTTTTCA
1 TTTTTCA
16268978 TTTTTCA
1 TTTTTCA
16268985 CATTTCCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:16268982 original size:14 final size:15
Alignment explanation
Indices: 16268950--16269006 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
16268940 ATTTTCATTT
16268950 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
16268965 -TTTTCA-TTTTTCA
1 TTTTTCATTTTTTCA
**
16268978 TTTTTCACATTTCCTCA
1 TTTTT--CATTTTTTCA
16268995 TTTTT-ATTTTTT
1 TTTTTCATTTTTT
16269007 TCTTCTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.21
14 15 0.44
16 2 0.06
17 10 0.29
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:16268989 original size:30 final size:31
Alignment explanation
Indices: 16268929--16269005 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
16268919 TCAATTTTAG
* **
16268929 TTTTCCTTTTCA-TTTTCATTTTTTTTCATT
1 TTTTCATTTTCATTTTTCATTTTTTCACATT
16268959 TTTTCATTTTCATTTTTCA-TTTTTCACATT
1 TTTTCATTTTCATTTTTCATTTTTTCACATT
** *
16268989 TCCTCATTTTTATTTTT
1 TTTTCATTTTCATTTTT
16269006 TTCTTCTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 34 0.85
31 6 0.15
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTTCATTTTCATTTTTCATTTTTTCACATT
Found at i:16269449 original size:2 final size:2
Alignment explanation
Indices: 16269442--16269472 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16269432 GGTTTTTCTT
16269442 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16269473 TTTTACTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16278074 original size:2 final size:2
Alignment explanation
Indices: 16278067--16278093 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16278057 ATAACTTAAG
16278067 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16278094 CAAGGTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16284137 original size:31 final size:31
Alignment explanation
Indices: 16284109--16284172 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
16284099 AGTATTATTC
* *
16284109 ATAATTTGAAAGTTTAGAGTATAAATTATAT
1 ATAATTTAAAAGTTTAGAGTACAAATTATAT
* *
16284140 GTTATTTAAAAGTTTAGAGTACAAATTATAT
1 ATAATTTAAAAGTTTAGAGTACAAATTATAT
16284171 AT
1 AT
16284173 CATATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (31 bp):
ATAATTTAAAAGTTTAGAGTACAAATTATAT
Found at i:16285406 original size:21 final size:20
Alignment explanation
Indices: 16285382--16285428 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
16285372 GATTTACTAA
*
16285382 TTGGGATCAAAATTTTAGGTT
1 TTGGGATCAAAA-TTTAGGGT
*
16285403 TTGGAATCAAAATTTAGGGT
1 TTGGGATCAAAATTTAGGGT
16285423 TTGGGA
1 TTGGGA
16285429 AAGCTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (20 bp):
TTGGGATCAAAATTTAGGGT
Found at i:16285429 original size:21 final size:21
Alignment explanation
Indices: 16285382--16285429 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16285372 GATTTACTAA
16285382 TTGGG-ATCAAAATTTTAGGT
1 TTGGGAATCAAAATTTTAGGT
*
16285402 TTTGGAATCAAAA-TTTAGGGT
1 TTGGGAATCAAAATTTTA-GGT
16285423 TTGGGAA
1 TTGGGAA
16285430 AGCTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (21 bp):
TTGGGAATCAAAATTTTAGGT
Found at i:16287448 original size:49 final size:50
Alignment explanation
Indices: 16287362--16287490 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 50
16287352 GAGGCTTTGA
* * *
16287362 AACTTTCAAAAATCTCCTCTTGGAAAAAAGTTCCTTTAAACAAAGG-TTTCAC
1 AACTTT-AAAAATCTCATCTT-GAAAAAAGTTCCTTTAAAAAAAGGCTCT-AC
* *
16287414 AACTTTAAAAATCTCATCTT-TAAAAGGTTCCTTTAAAAAAAGGCTCTAC
1 AACTTTAAAAATCTCATCTTGAAAAAAGTTCCTTTAAAAAAAGGCTCTAC
16287463 AACTTTAAAAATCTCATCTTAGAAAAAA
1 AACTTTAAAAATCTCATCTT-GAAAAAA
16287491 ACTTTATAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
49 42 0.63
50 2 0.03
51 17 0.25
52 6 0.09
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (50 bp):
AACTTTAAAAATCTCATCTTGAAAAAAGTTCCTTTAAAAAAAGGCTCTAC
Found at i:16287933 original size:32 final size:31
Alignment explanation
Indices: 16287855--16287938 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
16287845 CACTCATTAT
* *
16287855 TTTTATTTTCTTTCTTTCCTTCTTTTCTTTACA
1 TTTTATTTTC-TT-TTTCTTTCTTTTCTTCACA
* *
16287888 TTTTTTTTTCTTTTTCTTTCTTTCTCTTCCCA
1 TTTTATTTTCTTTTTCTTTCTTT-TCTTCACA
* *
16287920 TTTTATTTGCTTTTGCTTT
1 TTTTATTTTCTTTTTCTTT
16287939 TATTTTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 10 0.23
32 24 0.56
33 9 0.21
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (31 bp):
TTTTATTTTCTTTTTCTTTCTTTTCTTCACA
Found at i:16290453 original size:36 final size:37
Alignment explanation
Indices: 16290396--16290495 Score: 89
Period size: 36 Copynumber: 2.7 Consensus size: 37
16290386 ACTTTGTGAG
* *
16290396 ATTAGAAGTTGCT-TCCATAGCCTAGAAATG-TAAGAA
1 ATTAGAAGTTGCTAT-CTTAGCCTAGAAAGGATAAGAA
* * *
16290432 ATTAGAGGTTGCTATCTTAGCCTA-AAAGGATAGGGA
1 ATTAGAAGTTGCTATCTTAGCCTAGAAAGGATAAGAA
* * *
16290468 GTGAGATGTTGCTATCTTGAGCCTAGAA
1 ATTAGAAGTTGCTATCTT-AGCCTAGAA
16290496 GAGATAGGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 4 0.08
36 39 0.75
37 7 0.13
38 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (37 bp):
ATTAGAAGTTGCTATCTTAGCCTAGAAAGGATAAGAA
Found at i:16292235 original size:29 final size:29
Alignment explanation
Indices: 16292203--16292259 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
16292193 GAAAAATATG
16292203 AGCTTAATTTGAGTATGTATTTATTTTTT
1 AGCTTAATTTGAGTATGTATTTATTTTTT
16292232 AGCTTAATTTGAGTATGTATTTATTTTT
1 AGCTTAATTTGAGTATGTATTTATTTTT
16292260 GCTCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.58
Consensus pattern (29 bp):
AGCTTAATTTGAGTATGTATTTATTTTTT
Found at i:16294002 original size:15 final size:15
Alignment explanation
Indices: 16293967--16294002 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
16293957 ATGTTGCACC
*
16293967 CTTTTGATCATATGA
1 CTTTTGATCAGATGA
16293982 -TTTTGATCAGATGA
1 CTTTTGATCAGATGA
16293996 CTTTTGA
1 CTTTTGA
16294003 CATTTGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (15 bp):
CTTTTGATCAGATGA
Found at i:16294033 original size:19 final size:20
Alignment explanation
Indices: 16294005--16294046 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16293995 ACTTTTGACA
* *
16294005 TTTGATCTTTAACTTTTAAT
1 TTTGATCTTTAACCTTCAAT
16294025 TTTGA-CTTTAACCTTCAAT
1 TTTGATCTTTAACCTTCAAT
16294044 TTT
1 TTT
16294047 TCAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTGATCTTTAACCTTCAAT
Found at i:16299164 original size:21 final size:21
Alignment explanation
Indices: 16299122--16299178 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
16299112 TTTTACCAAA
* *
16299122 ATACAAATGAAAATG-TCTTT
1 ATACAAATGCAAATGCCCTTT
16299142 ATACAAATGCAAATGCCCTTT
1 ATACAAATGCAAATGCCCTTT
*
16299163 ATA-AAGATGCATATGC
1 ATACAA-ATGCAAATGC
16299179 AAAAATCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (21 bp):
ATACAAATGCAAATGCCCTTT
Found at i:16301018 original size:22 final size:22
Alignment explanation
Indices: 16300976--16301020 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16300966 CCATTCATTT
* *
16300976 TTCTTTTCTTTTCTTTTTTTAG
1 TTCTTTTCTTTTCGTTCTTTAG
16300998 TTCTTTTC-TTTCAGTTCTTTAG
1 TTCTTTTCTTTTC-GTTCTTTAG
16301020 T
1 T
16301021 CCTAGGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.71
Consensus pattern (22 bp):
TTCTTTTCTTTTCGTTCTTTAG
Found at i:16308913 original size:18 final size:19
Alignment explanation
Indices: 16308878--16308918 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
16308868 TGCTTAAGCA
*
16308878 ATTTTTTGCTTATCCAAAG
1 ATTTTATGCTTATCCAAAG
16308897 ATTTTATGCTTAT-CAAAG
1 ATTTTATGCTTATCCAAAG
16308915 ATTT
1 ATTT
16308919 GAAGCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTTTATGCTTATCCAAAG
Found at i:16317632 original size:19 final size:18
Alignment explanation
Indices: 16317591--16317635 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16317581 GTTTTGTGGG
*
16317591 TTTTT-TTTTTCTTTTTC
1 TTTTTGTTTTTCTTTTCC
*
16317608 TCTTTGTTTTTCTTTTCCC
1 TTTTTGTTTTTCTTTT-CC
16317627 TTTTTGTTT
1 TTTTTGTTT
16317636 CCTTTTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTTGTTTTTCTTTTCC
Done.