Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 50 of 141
Found at i:15981121 original size:41 final size:41
Alignment explanation
Indices: 15981063--15981290 Score: 366
Period size: 41 Copynumber: 5.6 Consensus size: 41
15981053 TTGGGGCTTC
*
15981063 AGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGCCTTT
1 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
*
15981104 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGACTTT
1 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
*
15981145 AGCGGCGTTTTTAAAGAAGCACCGCTAATGCTCGGGCCTTT
1 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
* * *
15981186 AGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGAGTCTTT
1 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
* ** *
15981227 AGCGGCGTTTTTAAAGAAGCACCGCTAATTATCGGGTCTTT
1 AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
15981268 AGCGGCGTTTTTAAAGAAGCGCC
1 AGCGGCGTTTTTAAAGAAGCGCC
15981291 ACAAAAAATA
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 173 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
AGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTT
Found at i:15986839 original size:42 final size:41
Alignment explanation
Indices: 15986768--15986908 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 41
15986758 AGATTATGTT
* * * * * *
15986768 TTTAGTGGCGTTTTTGTTAGAAGCGCCGCTAAATGTTTGTTC
1 TTTAGCGGCGTTTTT-ATAAAAGCTCCGCTAAAGGTTTGGTC
*
15986810 TTTCGCGGCGTTTTTCATAAAAGCTCCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTTT-ATAAAAGCTCCGCTAAAGGTT-TGGTC
* *
15986853 TATAGCGGCGATTGTTATAAAAGCGT-CGCTAAAGGTCTTGGTC
1 TTTAGCGGCG-TTTTTATAAAAGC-TCCGCTAAAGGT-TTGGTC
15986896 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
15986909 GTGGGAAAAG
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
42 32 0.39
43 44 0.54
44 6 0.07
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATAAAAGCTCCGCTAAAGGTTTGGTC
Found at i:15986873 original size:43 final size:43
Alignment explanation
Indices: 15986826--15986929 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
15986816 GGCGTTTTTC
15986826 ATAAAAGC-TCCGCTAAAGGT-TATGGTCTATAGCGGCGATTGTT
1 ATAAAAGCGT-CGCTAAAGGTCT-TGGTCTATAGCGGCGATTGTT
* * *
15986869 ATAAAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTG
1 ATAAAAGCGTCGCTAAAGGTCTTGGTCTATAGCGGCGATTGTT
** *
15986912 GGAAAAGCGACGCTAAAG
1 ATAAAAGCGTCGCTAAAG
15986930 TTAGCGACGC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 51 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (43 bp):
ATAAAAGCGTCGCTAAAGGTCTTGGTCTATAGCGGCGATTGTT
Found at i:15987032 original size:22 final size:21
Alignment explanation
Indices: 15986999--15987043 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
15986989 TTTAGCAGCG
*
15986999 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
15987020 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
15987042 CT
1 CT
15987044 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:15993168 original size:38 final size:38
Alignment explanation
Indices: 15993125--15993202 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
15993115 TAATTTTGAT
15993125 TTAATCATACATATTTAAAAAATAAATACATCAATTTA
1 TTAATCATACATATTTAAAAAATAAATACATCAATTTA
* *
15993163 TTAATCATATATATTTAAAAAATAAGTACATCAATTTA
1 TTAATCATACATATTTAAAAAATAAATACATCAATTTA
15993201 TT
1 TT
15993203 TTTATATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (38 bp):
TTAATCATACATATTTAAAAAATAAATACATCAATTTA
Found at i:15993588 original size:57 final size:56
Alignment explanation
Indices: 15993483--15993592 Score: 123
Period size: 57 Copynumber: 1.9 Consensus size: 56
15993473 AATAATTAGA
* * * * * *
15993483 AAAACATTACAAAAATTAATAAAACATTATAAAGTTCTAATAATTTCAGTAAATCCT
1 AAAACATGACAAAAATTAATAAAACATAACAAAATTCTAAGAAATTCAG-AAATCCT
* *
15993540 AAAACATGAC-AAAATTACTGAAAACATAACAAAATTTTAAGAAATTCAGAAAT
1 AAAACATGACAAAAATTAAT-AAAACATAACAAAATTCTAAGAAATTCAGAAAT
15993593 TAGTAGAAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
56 12 0.27
57 32 0.73
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.27
Consensus pattern (56 bp):
AAAACATGACAAAAATTAATAAAACATAACAAAATTCTAAGAAATTCAGAAATCCT
Found at i:15994164 original size:14 final size:14
Alignment explanation
Indices: 15994145--15994172 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15994135 TAATTTCGAG
15994145 TTGACGTTTCTGAT
1 TTGACGTTTCTGAT
15994159 TTGACGTTTCTGAT
1 TTGACGTTTCTGAT
15994173 AAAATAATAT
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:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGACGTTTCTGAT
Found at i:15994380 original size:125 final size:125
Alignment explanation
Indices: 15994158--15994885 Score: 1035
Period size: 125 Copynumber: 5.9 Consensus size: 125
15994148 ACGTTTCTGA
** * *
15994158 TTTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGGAATTTG
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAA-GAATTTG
*
15994223 T-AAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
65 TGAAATCGCGCCCTCATAGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
* * *
15994283 TTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
* * * **
15994348 GAAATTGCGGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAGAAAT-A-T-TTTT
66 GAAATCGCGCCCTCAT-AGACGCGCTTTTGCTACAGTAGGTCA-CAAAGAAATAATTATTTT
* *
15994406 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
*
15994471 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
66 GAAATCGCGCCCTCATAGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
* * *
15994531 TTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
* * * **
15994596 GAAATTGCGGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAGAAAT-A-T-TTTT
66 GAAATCGCGCCCTCAT-AGACGCGCTTTTGCTACAGTAGGTCA-CAAAGAAATAATTATTTT
* *
15994654 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
*
15994719 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
66 GAAATCGCGCCCTCATAGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
* * *
15994779 TTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
* * *
15994844 GAAATTGCGGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCA
66 GAAATCGCGCCCTCAT-AGACGCGCTTTTGCTACAGTAGGTCA
15994886 TGGACTCATC
Statistics
Matches: 534, Mismatches: 55, Indels: 28
0.87 0.09 0.05
Matches are distributed among these distances:
122 16 0.03
123 202 0.38
124 11 0.02
125 288 0.54
126 17 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (125 bp):
TTTGACGTTTCTGAGCAAATAATATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
GAAATCGCGCCCTCATAGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTT
Found at i:15994596 original size:248 final size:248
Alignment explanation
Indices: 15994158--15994887 Score: 1426
Period size: 248 Copynumber: 2.9 Consensus size: 248
15994148 ACGTTTCTGA
**
15994158 TTTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGGAATTTG
1 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAA-GAATTTG
15994223 T-AAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTG
65 TGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTG
15994287 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAA
130 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAA
15994352 TTGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTT
195 TTGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTT
15994406 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
15994471 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTGA
66 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTGA
15994536 CGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAAT
131 CGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAAT
15994601 TGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTT
196 TGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTT
15994654 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
1 TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
15994719 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTGA
66 GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTGA
15994784 CGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAAT
131 CGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAAT
15994849 TGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATG
196 TGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATG
15994888 GACTCATCTT
Statistics
Matches: 479, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
247 8 0.02
248 471 0.98
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (248 bp):
TTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGT
GAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCACAAAGAAATAATTATTTTTTTGA
CGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCGGGATGCTATTTGAGAAGCATTTGTGAAAT
TGCGGCCTCGTCAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTT
Found at i:15997749 original size:116 final size:116
Alignment explanation
Indices: 15997541--15997758 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
15997531 TGATAAATTG
* *
15997541 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
15997606 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
15997657 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTAT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
*
15997722 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
15997759 CGTTAAGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTAT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:15997878 original size:51 final size:51
Alignment explanation
Indices: 15997808--15998363 Score: 463
Period size: 51 Copynumber: 11.1 Consensus size: 51
15997798 TTTAATTAAA
*
15997808 TTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
*
15997859 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATT-AA--A--
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
15997905 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGGTTTTTAATT-AA--A--
1 TTAGGCTAGGGTTTTTAATT-AA--A--TTAGGCTAGGGTTTTTAATTAAATTAGG
*
15997956 TTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
*
15998007 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGT
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
* * * *
15998058 TTAGGGTTTTTAAAGGGTTTTTAATTAAATTAGGTTAGGATTTTAAATT-AA--A--
1 TTA-GG---CT--AGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
*
15998110 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTA-G---GGTTTTTAATTAAATTAGG
* * *
15998165 TTAGGC-----TTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTGAATTAGG
1 TTAGGCTAGGGTTTTTAA-TTAAATTAGG-CTAGGGTTTTTAATTAAATTAGG
* * * *
15998210 TTAGGGTTAGGGTTTTTAATT-AA--GGGTTTAAGGTTTTTAATTAAATTAGG
1 TTA-GGCTAGGGTTTTTAATTAAATTAGG-CTAGGGTTTTTAATTAAATTAGG
*
15998260 -T----TAGGGTTTTTAATTAAATTAGGCTAAGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
** * ** * ****
15998306 TTATGATTTTGGGTTTTTAATTATTTTAGGTTAGGGTTTAGGGTTAAATTAGG
1 TTA-G-GCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
15998359 TTAGG
1 TTAGG
15998364 GTTTTTATTA
Statistics
Matches: 432, Mismatches: 30, Indels: 86
0.79 0.05 0.16
Matches are distributed among these distances:
44 14 0.03
45 23 0.05
46 88 0.20
47 8 0.02
48 6 0.01
49 6 0.01
50 51 0.12
51 147 0.34
52 6 0.01
53 40 0.09
54 1 0.00
55 7 0.02
56 2 0.00
57 33 0.08
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (51 bp):
TTAGGCTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
Found at i:15997886 original size:74 final size:74
Alignment explanation
Indices: 15997791--15998370 Score: 598
Period size: 74 Copynumber: 7.8 Consensus size: 74
15997781 ATTAAGGGTT
15997791 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
15997856 AGGTTAGGC
66 AGGTTAGGC
15997865 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
15997930 AGGTTAGGC
66 AGGTTAGGC
15997939 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
15998004 AGGTTAGGC
66 AGGTTAGGC
* **
15998013 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAAGGGTTT
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTT-AA-----T
* ** *
15998078 TTAATTAAATTAGGT
60 TAAATTAGGTTAGGC
* * * *
15998093 TAGGATTTTAAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGTTTTTAATTA
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTA-G---GGTTTTTAATTA
15998158 AATTAGGTTAGGC
62 AATTAGGTTAGGC
* * * *
15998171 -----TTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTA
1 TAGGGTTTTTAA-TTAAATTAGG-CTAGGGTTTGTAATT-AA--A--TTA-GGCTAGGGTTTTTA
*
15998228 ATT-AA--GGGTT----
58 ATTAAATTAGGTTAGGC
* * * *
15998238 TAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGCTAAGGTTTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
**
15998303 AGGTTATGATT
66 AGGTTA-G-GC
* ** * ** *
15998314 TTGGGTTTTTAATTATTTTAGGTTAGGGTTTAG-GGTTAAATTAGGTTAGGGTTTTTA
1 TAGGGTTTTTAATTAAATTAGGCTAGGGTTT-GTAATTAAATTAGGCTAGGGTTTTTA
15998371 TTACATCAAA
Statistics
Matches: 439, Mismatches: 31, Indels: 70
0.81 0.06 0.13
Matches are distributed among these distances:
67 15 0.03
68 5 0.01
70 5 0.01
71 8 0.02
72 25 0.06
73 27 0.06
74 216 0.49
75 3 0.01
76 47 0.11
77 4 0.01
78 17 0.04
80 57 0.13
81 1 0.00
83 2 0.00
84 7 0.02
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (74 bp):
TAGGGTTTTTAATTAAATTAGGCTAGGGTTTGTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
AGGTTAGGC
Found at i:15998080 original size:34 final size:34
Alignment explanation
Indices: 15998037--15998101 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
15998027 AAATTAGGCT
* *
15998037 AGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAA
1 AGGGTTTTTAATTAAATTAGGTTAGGATTTTTAA
15998071 AGGGTTTTTAATTAAATTAGGTTAGGATTTT
1 AGGGTTTTTAATTAAATTAGGTTAGGATTTT
15998102 AAATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (34 bp):
AGGGTTTTTAATTAAATTAGGTTAGGATTTTTAA
Found at i:15998207 original size:50 final size:50
Alignment explanation
Indices: 15998153--15998267 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
15998143 CTAGGTTTTT
* *
15998153 AATTAAATTA-GGTTAGGCTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTG
1 AATTAAATTAGGGTTAGGCTTTTTAA-TTAAGGGTTTAAGGTTTTTAATTA
** *
15998203 AATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGTTTTTAATTA
1 AATTAAATTAGGGTTAGGCTTTTTAATTAAGGGTTTAAGGTTTTTAATTA
**
15998253 AATTAGGTTAGGGTT
1 AATTAAATTAGGGTT
15998268 TTTAATTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 45 0.76
51 14 0.24
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (50 bp):
AATTAAATTAGGGTTAGGCTTTTTAATTAAGGGTTTAAGGTTTTTAATTA
Found at i:15998315 original size:23 final size:23
Alignment explanation
Indices: 15997791--15998305 Score: 448
Period size: 23 Copynumber: 21.0 Consensus size: 23
15997781 ATTAAGGGTT
15997791 TAGGGTTTTTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
*
15997814 TAGGGTTTGTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
15997837 TAGGGTTTTTAATTAAATTAGGTTAGGC
1 TAGGGTTTTTAATT-AA--A--TTAGGC
15997865 TAGGGTTTTTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
*
15997888 TAGGGTTTGTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
15997911 TAGGGTTTTTAATTAAATTAGGTTAGGC
1 TAGGGTTTTTAATT-AA--A--TTAGGC
15997939 TAGGGTTTTTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
*
15997962 TAGGGTTTGTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
15997985 TAGGGTTTTTAATTAAATTAGGTTAGGC
1 TAGGGTTTTTAATT-AA--A--TTAGGC
15998013 TAGGGTTTTTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
**
15998036 TAGGGTTTTTAATTAAATTAGTT
1 TAGGGTTTTTAATTAAATTAGGC
* ***
15998059 TAGGGTTTTTAAAGGGTTTTTAATTAAAT
1 TAGGGTTTTT-AA-----TTAAATTAGGC
*
15998088 TAGGTTAGGATTTTAAATTAAATTAGGC
1 TA-G---GG-TTTTTAATTAAATTAGGC
*
15998116 TAGGGTTTTTAATTAAATTAGGT
1 TAGGGTTTTTAATTAAATTAGGC
*
15998139 TAGGCTAGGTTTTTAATTAAATTAGGT
1 TA-G---GGTTTTTAATTAAATTAGGC
* * *
15998166 TAGGCTTTTTAAGTT-AA--GGGTT
1 TAGGGTTTTTAA-TTAAATTAGG-C
*
15998188 TAGGGTTTTTAATTGAATTAGGTTAGGGT
1 TAGGGTTTTTAATT-AA--A--TTA-GGC
* *
15998217 TAGGGTTTTTAATT-AA--GGGTT
1 TAGGGTTTTTAATTAAATTAGG-C
* *
15998238 TAAGGTTTTTAATTAAATTAGGT
1 TAGGGTTTTTAATTAAATTAGGC
15998261 TAGGGTTTTTAATTAAATTAGGC
1 TAGGGTTTTTAATTAAATTAGGC
*
15998284 TAAGGTTTTTAATTAAATTAGG
1 TAGGGTTTTTAATTAAATTAGG
15998306 TTATGATTTT
Statistics
Matches: 419, Mismatches: 28, Indels: 90
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.00
21 18 0.04
22 14 0.03
23 226 0.54
24 15 0.04
25 5 0.01
26 4 0.01
27 30 0.07
28 69 0.16
29 25 0.06
30 3 0.01
33 4 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (23 bp):
TAGGGTTTTTAATTAAATTAGGC
Found at i:15998350 original size:30 final size:30
Alignment explanation
Indices: 15998287--15998350 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
15998277 ATTAGGCTAA
* *
15998287 GGTTTTTAATTAAATTAGGTTATGATTTTG
1 GGTTTTTAATTAAATTAGGTTAGGATTTAG
** *
15998317 GGTTTTTAATTATTTTAGGTTAGGGTTTAG
1 GGTTTTTAATTAAATTAGGTTAGGATTTAG
15998347 GGTT
1 GGTT
15998351 AAATTAGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (30 bp):
GGTTTTTAATTAAATTAGGTTAGGATTTAG
Found at i:15998450 original size:43 final size:43
Alignment explanation
Indices: 15998376--15998473 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
15998366 TTTTATTACA
* *
15998376 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAT
1 TCAAA-AAATTTCTATTTTATTACATAAAATAATATCAAAAT-AT
15998421 TCAAAAAATTTCTATTTT-TTACATAAAATAATATCAAAATAT
1 TCAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATAT
*
15998463 TCAAAATATTT
1 TCAAAAAATTT
15998474 GTACAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 12 0.24
43 21 0.42
44 12 0.24
45 5 0.10
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (43 bp):
TCAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATAT
Found at i:15998916 original size:18 final size:18
Alignment explanation
Indices: 15998893--15998927 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15998883 CGGAAAAGGA
*
15998893 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
15998911 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
15998928 AACGCACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:15999582 original size:7 final size:7
Alignment explanation
Indices: 15999572--15999603 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
15999562 ATACATACAT
15999572 AATACTA
1 AATACTA
15999579 AATACTA
1 AATACTA
15999586 AATACTA
1 AATACTA
15999593 AATACTA
1 AATACTA
15999600 AATA
1 AATA
15999604 TCAATCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:16001560 original size:20 final size:20
Alignment explanation
Indices: 16001535--16001595 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
16001525 GAAATTCAAT
16001535 AATTACTGAAAATAATACAA
1 AATTACTGAAAATAATACAA
* *
16001555 AATTACTAAAAAAAATTA-AA
1 AATTACTGAAAATAA-TACAA
*
16001575 AATTACTGAAAATATTACAA
1 AATTACTGAAAATAATACAA
16001595 A
1 A
16001596 GTTGTAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTACTGAAAATAATACAA
Found at i:16002881 original size:19 final size:19
Alignment explanation
Indices: 16002843--16002881 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16002833 CATTATTTTC
* * *
16002843 ATTAAAAATATTTTGTAAA
1 ATTAAAAAAAATTTGAAAA
16002862 ATTAAAAAAAATTTGAAAA
1 ATTAAAAAAAATTTGAAAA
16002881 A
1 A
16002882 AAGCTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAAAAAAAATTTGAAAA
Found at i:16004574 original size:8 final size:8
Alignment explanation
Indices: 16004561--16004610 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
16004551 ATAATAAATA
16004561 TTTATTTT
1 TTTATTTT
16004569 TTTATTTT
1 TTTATTTT
16004577 TTTATTTT
1 TTTATTTT
**
16004585 AAAATATTTT
1 --TTTATTTT
16004595 TTTA-TTT
1 TTTATTTT
16004602 TTTATTTT
1 TTTATTTT
16004610 T
1 T
16004611 AAAATGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.20
8 22 0.63
10 6 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTATTTT
Found at i:16004602 original size:25 final size:27
Alignment explanation
Indices: 16004563--16004623 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
16004553 AATAAATATT
16004563 TATTTTTTTATTTTTTTA-TTTTAAAA
1 TATTTTTTTATTTTTTTATTTTTAAAA
16004589 TATTTTTTTA-TTTTTTATTTTTAAAA
1 TATTTTTTTATTTTTTTATTTTTAAAA
16004615 TGATTTTTT
1 T-ATTTTTT
16004624 GGTGTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.21
26 19 0.58
27 7 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (27 bp):
TATTTTTTTATTTTTTTATTTTTAAAA
Found at i:16004631 original size:26 final size:26
Alignment explanation
Indices: 16004563--16004633 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
16004553 AATAAATATT
* *
16004563 TATTTTTTTA-TTTTTTTATTTTAAAA
1 TATTTTTTTAGTGTTTAT-TTTTAAAA
* *
16004589 TATTTTTTTATTTTTTATTTTTAAAA
1 TATTTTTTTAGTGTTTATTTTTAAAA
*
16004615 TGA-TTTTTTGGTGTTTATT
1 T-ATTTTTTTAGTGTTTATT
16004634 AAAAAATGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 32 0.82
27 7 0.18
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (26 bp):
TATTTTTTTAGTGTTTATTTTTAAAA
Found at i:16006201 original size:43 final size:43
Alignment explanation
Indices: 16006146--16006506 Score: 530
Period size: 43 Copynumber: 8.5 Consensus size: 43
16006136 GCGGCGTTTA
* *
16006146 TTTTTA-A-AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCAC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
*
16006187 TTTCTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
** *
16006230 TACTTCCACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
* * * *
16006273 TTTATACACAAATGCCGCTAAAGTTCATGTTCTTTAACGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
* *
16006316 TTTTTACACAAACGCCGCTAAAGACCATGCTCTTTAGCGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
*
16006359 TTTTTACACAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
* * * *
16006402 TTTATACACAAATGCCGCTAAAGTTCATGTTCTTTAACGGCGC
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
**
16006445 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCAA
1 TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
16006488 TTTTT-CACAAACGCCGCTA
1 TTTTTACACAAACGCCGCTA
16006507 GTTGTTTGGT
Statistics
Matches: 285, Mismatches: 33, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
41 5 0.02
42 15 0.05
43 265 0.93
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
TTTTTACACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
Found at i:16006985 original size:88 final size:88
Alignment explanation
Indices: 16006835--16007006 Score: 263
Period size: 88 Copynumber: 2.0 Consensus size: 88
16006825 TCTGTTCTGC
* * *
16006835 TCTGCTTCTCTCGCTGCAGCCTCTGCTTCTCTGGATGCCGCATCAGCTTTAAGTTGTCGCTGGAG
1 TCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTGTAGCTGGAG
* *
16006900 TTCTTCATATTTCTTTTGAGACT
66 TCCTTCATATTTCCTTTGAGACT
* * * *
16006923 TCTGCTTCTCTCGTTGTAGCCTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAG
1 TCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTGTAGCTGGAG
16006988 TCCTTCATATTTCCTTTGA
66 TCCTTCATATTTCCTTTGA
16007007 ACCTCAACTG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (88 bp):
TCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTGTAGCTGGAG
TCCTTCATATTTCCTTTGAGACT
Found at i:16009537 original size:6 final size:6
Alignment explanation
Indices: 16009528--16009558 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
16009518 GTTTTTCATT
16009528 TTAAAC TTAAAC TTAAAC TTAAAC TTAAAC T
1 TTAAAC TTAAAC TTAAAC TTAAAC TTAAAC T
16009559 AGATTCATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAC
Found at i:16011139 original size:41 final size:41
Alignment explanation
Indices: 16011085--16011350 Score: 347
Period size: 41 Copynumber: 6.5 Consensus size: 41
16011075 GCGTTTTTTA
* * * *
16011085 AAAAAGCGCCGCTAAAGGCCTGAGA-ATTAGCGGCGCATCCAT
1 AAAAA-CGCCGCTAAAGCCCAGA-ACATTAGCGGCGCTTACAT
* * * *
16011127 AAAAACGTCGCTAAATCCCAGAATATTAGCGGCGCAT-CAAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC-AT
16011168 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
*
16011209 AAAAACGCCGCTAAAGCCCAAAACATTAGCGGCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
*** * *
16011250 AAAATTACCGCTAAAGCCCAGAATATTAGCAGCGCTTACAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
* *
16011291 AAAAATGCCGCTAAAGCCCAGAACATTAGCGGCGCTTCCAT
1 AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
16011332 AAAAACGCCGCTAAAGCCC
1 AAAAACGCCGCTAAAGCCC
16011351 CAAAAAAGTC
Statistics
Matches: 200, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.01
41 192 0.96
42 6 0.03
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACAT
Found at i:16011777 original size:126 final size:125
Alignment explanation
Indices: 16011530--16011813 Score: 451
Period size: 126 Copynumber: 2.3 Consensus size: 125
16011520 TGGTGTAGTG
* * * *
16011530 GCAATAGTACTAAAAGAAGCTCCCATGTGGAAGCGTTTTTGCTACAGTAACTCCTGAAAAATAAT
1 GCAATAGTACTGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAACTCCTAAAAAATAAT
* *
16011595 TTCGAATAGACGTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCA
66 TTCGAATAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCA
*
16011655 GCAATAGTACTGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAA
1 GCAATAGTACTGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAACTCCT-AAAAAATAA
* * * *
16011720 TTTCGAGTAGATGTTTCTGAGCCAATTGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCA
65 TTTCGAATAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCA
*
16011781 GCAATAGTACTGAAAGAAGCTCCCACGTGGACG
1 GCAATAGTACTGAAAGAAGCTCCCATGTGGACG
16011814 TCGCAAACCA
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
125 51 0.35
126 95 0.65
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (125 bp):
GCAATAGTACTGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAACTCCTAAAAAATAAT
TTCGAATAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCA
Found at i:16012703 original size:18 final size:18
Alignment explanation
Indices: 16012677--16012719 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16012667 GACTAGAAAA
* * *
16012677 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
16012695 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
16012713 AGGATAC
1 AGGATAC
16012720 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:16013384 original size:7 final size:7
Alignment explanation
Indices: 16013374--16013406 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
16013364 CATAATACAT
16013374 AATACTA
1 AATACTA
16013381 AATACTA
1 AATACTA
16013388 AATACTA
1 AATACTA
16013395 AATACTA
1 AATACTA
*
16013402 CATAC
1 AATAC
16013407 CAATCGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:16020437 original size:18 final size:18
Alignment explanation
Indices: 16020414--16020449 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16020404 TGGAGAAAGA
16020414 ATAAAATTTCAAGTCACT
1 ATAAAATTTCAAGTCACT
16020432 ATAAAATTTCAAGTCACT
1 ATAAAATTTCAAGTCACT
16020450 GGATAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAAAATTTCAAGTCACT
Found at i:16022248 original size:10 final size:10
Alignment explanation
Indices: 16022233--16022258 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16022223 TAATCAAGGA
16022233 AAAAAAAATT
1 AAAAAAAATT
16022243 AAAAAAAATT
1 AAAAAAAATT
16022253 AAAAAA
1 AAAAAA
16022259 GAAATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:16022249 original size:12 final size:11
Alignment explanation
Indices: 16022232--16022264 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
16022222 ATAATCAAGG
16022232 AAAAAAAAATT
1 AAAAAAAAATT
16022243 -AAAAAAAATT
1 AAAAAAAAATT
16022253 AAAAAAGAAATT
1 AAAAAA-AAATT
16022265 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:16024680 original size:13 final size:13
Alignment explanation
Indices: 16024655--16024696 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
16024645 CTCATATCAA
16024655 TTTTTATATAATT
1 TTTTTATATAATT
16024668 TTTTTGATA-AATT
1 TTTTT-ATATAATT
16024681 TTTTTATATAATT
1 TTTTTATATAATT
16024694 TTT
1 TTT
16024697 AAATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.11
13 21 0.78
14 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTATATAATT
Found at i:16024703 original size:13 final size:12
Alignment explanation
Indices: 16024655--16024696 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
16024645 CTCATATCAA
16024655 TTTTTATATAAT
1 TTTTTATATAAT
16024667 TTTTT-TGATAAATT
1 TTTTTAT-AT-AA-T
16024681 TTTTTATATAAT
1 TTTTTATATAAT
16024693 TTTT
1 TTTT
16024697 AAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.04
12 12 0.46
13 4 0.15
14 8 0.31
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:16029608 original size:30 final size:30
Alignment explanation
Indices: 16029572--16029632 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
16029562 ACTGCAGGGG
*
16029572 TCACACGGCTGTGTTGCCAGGCCGTGTGCC
1 TCACACGGCTGTGTGGCCAGGCCGTGTGCC
*
16029602 TCACACGGCTGTGTGGCTAGGCCGTGTGCC
1 TCACACGGCTGTGTGGCCAGGCCGTGTGCC
16029632 T
1 T
16029633 TACATGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.10, C:0.31, G:0.34, T:0.25
Consensus pattern (30 bp):
TCACACGGCTGTGTGGCCAGGCCGTGTGCC
Found at i:16032840 original size:22 final size:24
Alignment explanation
Indices: 16032812--16032855 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16032802 ACGCGAGCCA
16032812 TTGGAGAA-G-ACTGGAAGAAATC
1 TTGGAGAATGTACTGGAAGAAATC
*
16032834 TTGGAGAATGTAGTGGAAGAAA
1 TTGGAGAATGTACTGGAAGAAA
16032856 AGATAAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.34, T:0.20
Consensus pattern (24 bp):
TTGGAGAATGTACTGGAAGAAATC
Found at i:16039373 original size:12 final size:12
Alignment explanation
Indices: 16039356--16039383 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16039346 AATAACAATC
16039356 TACTATTACCTT
1 TACTATTACCTT
16039368 TACTATTACCTT
1 TACTATTACCTT
16039380 TACT
1 TACT
16039384 CGTAAGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (12 bp):
TACTATTACCTT
Found at i:16041635 original size:15 final size:15
Alignment explanation
Indices: 16041615--16041643 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16041605 CCTGTAGAAA
16041615 TTAAATAAAACTAAG
1 TTAAATAAAACTAAG
16041630 TTAAATAAAACTAA
1 TTAAATAAAACTAA
16041644 TCGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
TTAAATAAAACTAAG
Found at i:16041652 original size:19 final size:17
Alignment explanation
Indices: 16041613--16041658 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 17
16041603 AACCTGTAGA
16041613 AATTAAATAAAACTAAG
1 AATTAAATAAAACTAAG
16041630 --TTAAATAAAACTAATCG
1 AATTAAATAAAACTAA--G
*
16041647 AATTAAGTAAAA
1 AATTAAATAAAA
16041659 TAACAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 14 0.58
17 1 0.04
19 9 0.38
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (17 bp):
AATTAAATAAAACTAAG
Found at i:16044464 original size:21 final size:21
Alignment explanation
Indices: 16044439--16044508 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
16044429 ATATATCTAT
16044439 TTATACTATGAATAACACAAG
1 TTATACTATGAATAACACAAG
* * * * *
16044460 TTATA-AATAAATCATATATCTAT
1 TTATACTATGAAT-A-ACA-CAAG
16044483 TTATACTATGAATAACACAAG
1 TTATACTATGAATAACACAAG
16044504 TTATA
1 TTATA
16044509 AATAAATCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 4 0.11
23 8 0.23
24 5 0.14
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (21 bp):
TTATACTATGAATAACACAAG
Found at i:16044470 original size:44 final size:44
Alignment explanation
Indices: 16044407--16044539 Score: 266
Period size: 44 Copynumber: 3.0 Consensus size: 44
16044397 CAAAACATAC
16044407 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
1 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
16044451 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
1 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
16044495 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
1 TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
16044539 T
1 T
16044540 TTACCTACAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (44 bp):
TAACACAAGTTATAAATAAATCATATATCTATTTATACTATGAA
Found at i:16046021 original size:14 final size:14
Alignment explanation
Indices: 16045998--16046029 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16045988 TTTAAGATAC
16045998 TTTTCCAAGTTATG
1 TTTTCCAAGTTATG
*
16046012 TTTTCTAAGTTATG
1 TTTTCCAAGTTATG
16046026 TTTT
1 TTTT
16046030 AAATATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTTCCAAGTTATG
Found at i:16055324 original size:24 final size:24
Alignment explanation
Indices: 16055297--16055345 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16055287 CCATATTGTA
16055297 ATTCTTTATTCTATTACAGTATTT
1 ATTCTTTATTCTATTACAGTATTT
16055321 ATTCTTTATTCTATTACAGTATTT
1 ATTCTTTATTCTATTACAGTATTT
16055345 A
1 A
16055346 CACTTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTCTTTATTCTATTACAGTATTT
Found at i:16055351 original size:24 final size:24
Alignment explanation
Indices: 16055300--16055351 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
16055290 TATTGTAATT
**
16055300 CTTTATTCTATTACAGTATTTATT
1 CTTTATTCTATTACAGTATTTACA
16055324 CTTTATTCTATTACAGTATTTACA
1 CTTTATTCTATTACAGTATTTACA
16055348 CTTT
1 CTTT
16055352 GTTGGCCCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.04, T:0.56
Consensus pattern (24 bp):
CTTTATTCTATTACAGTATTTACA
Found at i:16066523 original size:12 final size:12
Alignment explanation
Indices: 16066506--16066535 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16066496 AGCCACACGC
16066506 CCATGTGCAAGG
1 CCATGTGCAAGG
*
16066518 CCATGTGCTAGG
1 CCATGTGCAAGG
16066530 CCATGT
1 CCATGT
16066536 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (12 bp):
CCATGTGCAAGG
Found at i:16069911 original size:41 final size:41
Alignment explanation
Indices: 16069853--16069956 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
16069843 GACCTTTCAA
* ** * *
16069853 CCTAGCAGGCTTTATGCCGGTGAATTATTTCAGGCTTTACG
1 CCTAGCAGGCTTAATGCCGGTGAACCATATCAGGCTTTAAG
*
16069894 CCTAGCAGGCTTAATGCCGGTGTACCATATCAGGCTTTAAG
1 CCTAGCAGGCTTAATGCCGGTGAACCATATCAGGCTTTAAG
* **
16069935 CCTAGTAGGCTTCCTGCCGGTG
1 CCTAGCAGGCTTAATGCCGGTG
16069957 TATCATGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (41 bp):
CCTAGCAGGCTTAATGCCGGTGAACCATATCAGGCTTTAAG
Found at i:16076924 original size:5 final size:6
Alignment explanation
Indices: 16076901--16076962 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
16076891 AGTGACCAAG
*
16076901 AGAAAA A-AAAA ATGAAAA AGAAAA AGAAAA AG-AAA AGAAATC AGAAAA
1 AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAA-A AGAAAA
16076949 A-AATAA AGGAAAA A
1 AGAA-AA A-GAAAA A
16076963 ATAATTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
5 12 0.26
6 20 0.43
7 13 0.28
8 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:16076924 original size:18 final size:17
Alignment explanation
Indices: 16076901--16076940 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
16076891 AGTGACCAAG
16076901 AGAAAAA-AAAAATGAAAA
1 AGAAAAAGAAAAA-G-AAA
16076919 AGAAAAAGAAAAAGAAA
1 AGAAAAAGAAAAAGAAA
16076936 AGAAA
1 AGAAA
16076941 TCAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAA
Found at i:16100487 original size:16 final size:16
Alignment explanation
Indices: 16100466--16100497 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16100456 CAAAACTTTG
16100466 GGGCGTACTCTTTCTT
1 GGGCGTACTCTTTCTT
*
16100482 GGGCGTATTCTTTCTT
1 GGGCGTACTCTTTCTT
16100498 CACCTGAAGA
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:0.06, C:0.22, G:0.25, T:0.47
Consensus pattern (16 bp):
GGGCGTACTCTTTCTT
Found at i:16114667 original size:51 final size:51
Alignment explanation
Indices: 16114504--16114676 Score: 206
Period size: 50 Copynumber: 3.4 Consensus size: 51
16114494 CCCATGGTAT
* * *
16114504 TGTCTAGGACATGGCGTTGGCACCGAGATGA-AAGGTCCCATGTAATACCA
1 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGGTCCCACGTAAGACCA
* * * *
16114554 TGTCTGAGACATGGTGTTGGCACCGAGATGAG-AGGTCCCCCATAAGACCA
1 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGGTCCCACGTAAGACCA
* * ** * *
16114604 TGTCTGGGACATGGCATGGGCACCGAGATGAGAACATCCTAGGTAAGACCA
1 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGGTCCCACGTAAGACCA
*
16114655 TGTCTGGGACATGGCTTTGGCA
1 TGTCTGGGACATGGCGTTGGCA
16114677 TGTTATTATC
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
50 70 0.69
51 32 0.31
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (51 bp):
TGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGGTCCCACGTAAGACCA
Found at i:16131684 original size:18 final size:18
Alignment explanation
Indices: 16131658--16131693 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16131648 TAGTTACTTA
*
16131658 AGTTTAAACATCATTAAT
1 AGTTCAAACATCATTAAT
16131676 AGTTCAAACATCATTAAT
1 AGTTCAAACATCATTAAT
16131694 TTTTGTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (18 bp):
AGTTCAAACATCATTAAT
Found at i:16137703 original size:66 final size:67
Alignment explanation
Indices: 16137595--16137719 Score: 198
Period size: 66 Copynumber: 1.9 Consensus size: 67
16137585 ATTGCTTATT
16137595 TTTTGCGACGTTTTTATTCATTCCGTTACCTTTTAGTCAAAAAAATAAAAGTAACTAAAAGTATC
1 TTTTGCGACGTTTTTATTCATTCCGTTACCTTTTAGTCAAAAAAATAAAAGTAACTAAAAGTATC
16137660 CC
66 CC
* * * * *
16137662 TTTTGTGATGTTTTTATTC-TTTCGTTACCTTTTAGTTAAAAAAATAAAAGTGACTAAA
1 TTTTGCGACGTTTTTATTCATTCCGTTACCTTTTAGTCAAAAAAATAAAAGTAACTAAA
16137720 GTGTCTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 36 0.68
67 17 0.32
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (67 bp):
TTTTGCGACGTTTTTATTCATTCCGTTACCTTTTAGTCAAAAAAATAAAAGTAACTAAAAGTATC
CC
Found at i:16138452 original size:20 final size:20
Alignment explanation
Indices: 16138427--16138466 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16138417 AGGACAATTA
16138427 ATCCAATATTAATGTTTTTT
1 ATCCAATATTAATGTTTTTT
*
16138447 ATCCAATGTTAATGTTTTTT
1 ATCCAATATTAATGTTTTTT
16138467 TTTGTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (20 bp):
ATCCAATATTAATGTTTTTT
Found at i:16150883 original size:19 final size:20
Alignment explanation
Indices: 16150854--16150902 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
16150844 CACTTCGTGA
* *
16150854 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
16150873 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
16150893 AAATG-AATGC
1 AAATGTAATGC
16150903 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:16152508 original size:21 final size:22
Alignment explanation
Indices: 16152480--16152537 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
16152470 TTATATGCAT
16152480 AATG-GAATAATAAACATG-AC-
1 AATGTGAATAATAAA-ATGAACA
16152500 AATGTGAATAA-AAAATGAACA
1 AATGTGAATAATAAAATGAACA
**
16152521 AAAATGAATAATAAAAT
1 AATGTGAATAATAAAAT
16152538 AAATCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 9 0.28
21 15 0.47
22 5 0.16
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (22 bp):
AATGTGAATAATAAAATGAACA
Found at i:16152926 original size:17 final size:17
Alignment explanation
Indices: 16152904--16152960 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
16152894 TATATATGCA
16152904 TTTATACATACTTATAT
1 TTTATACATACTTATAT
* *
16152921 TTTATATTTATAATT-TA-
1 TTTATA--CATACTTATAT
*
16152938 TCTATACATACTTATAT
1 TTTATACATACTTATAT
16152955 TTTATA
1 TTTATA
16152961 TTTATAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 5 0.17
16 2 0.07
17 16 0.53
18 2 0.07
19 5 0.17
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATACATACTTATAT
Found at i:16152945 original size:34 final size:34
Alignment explanation
Indices: 16152906--16152988 Score: 150
Period size: 34 Copynumber: 2.4 Consensus size: 34
16152896 TATATGCATT
16152906 TATACATACTTATATTTTATATTTATAATTTATC
1 TATACATACTTATATTTTATATTTATAATTTATC
16152940 TATACATACTTATATTTTATATTTATAATTTATC
1 TATACATACTTATATTTTATATTTATAATTTATC
16152974 TATACAT-CTATATAT
1 TATACATACT-TATAT
16152989 ATACCTATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 2 0.04
34 46 0.96
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (34 bp):
TATACATACTTATATTTTATATTTATAATTTATC
Found at i:16153368 original size:21 final size:21
Alignment explanation
Indices: 16153317--16153374 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
16153307 TGATTGATTT
**
16153317 ATTTTATTATTCATTTTTGTTC
1 ATTTTATTATTCA-CATTGTTC
16153339 ATTTT-TTATTCACATTG-TC
1 ATTTTATTATTCACATTGTTC
16153358 ATGTTTATTATTC-CATT
1 AT-TTTATTATTCACATT
16153375 ATGCATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 13 0.41
22 5 0.16
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTTATTATTCACATTGTTC
Found at i:16153608 original size:109 final size:109
Alignment explanation
Indices: 16153416--16153725 Score: 385
Period size: 109 Copynumber: 2.9 Consensus size: 109
16153406 ATTTTTTTTT
*
16153416 AAATTGAGGTAATATTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATTGAGGTAATA-TTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* *
16153481 TTTTCTCGTTCAACCAAATAGCTAAATATCCTT-TCAAAAATTTC
65 TTTTCTCATTCAACCAAATAGCTAAATATCATTCTCAAAAATTTC
* *
16153525 TAATTGAGGTAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATTGAGGTAATATTT-GCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* * * *
16153590 TTTTTTCATTCAACCAAATGGCTTAATATCATTCTTAAAAATTTC
65 TTTTCTCATTCAACCAAATAGCTAAATATCATTCTCAAAAATTTC
* * * * * * *
16153635 AAAATAAGGCAATGTGTTGCGTCTGGAAATTCGAG-GAACATGCCCTAAGGTGCTGGGTTTCGA-
1 AAATTGAGGTAATAT-TTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* * * *
16153698 -TTTCTCGTTTAACCAAATTGCCAAATAT
65 TTTTCTCATTCAACCAAATAGCTAAATAT
16153726 ACTATTGAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
107 22 0.13
108 3 0.02
109 112 0.64
110 35 0.20
111 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATTGAGGTAATATTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCATTCAACCAAATAGCTAAATATCATTCTCAAAAATTTC
Found at i:16157600 original size:69 final size:68
Alignment explanation
Indices: 16157416--16157601 Score: 243
Period size: 66 Copynumber: 2.7 Consensus size: 68
16157406 AATCGGTCAC
* * *
16157416 CTAGCTTGTGCTACAAGTGTGGTGAAGGAGGGCACTTTGCACATGAATGCACTACTGGTACTGCA
1 CTAGCTTATGCTACAAGTGTGG-GAAGGAGGACACTTTGCACATGAATGCACCACTGGTACTGCA
*
16157481 TCAT
65 GCAT
* * *
16157485 CTAGTTTATACTACAAGTGT-GG-AGGAGGACACTTTGCACGA-CAATGCACCACTGGTACTGCA
1 CTAGCTTATGCTACAAGTGTGGGAAGGAGGACACTTTGCAC-ATGAATGCACCACTGGTACTGCA
16157547 GCAT
65 GCAT
* *
16157551 CTAGCTTATGCTACAAGTGTGGAGAAGGAGAACACTTTGCTCATGAATGCA
1 CTAGCTTATGCTACAAGTGTGG-GAAGGAGGACACTTTGCACATGAATGCA
16157602 GTTCCGCTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
66 56 0.56
67 3 0.03
68 3 0.03
69 38 0.38
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (68 bp):
CTAGCTTATGCTACAAGTGTGGGAAGGAGGACACTTTGCACATGAATGCACCACTGGTACTGCAG
CAT
Found at i:16173318 original size:41 final size:38
Alignment explanation
Indices: 16173273--16173366 Score: 91
Period size: 41 Copynumber: 2.3 Consensus size: 38
16173263 CAACAAAGAG
*
16173273 AAAAACCAAAAATTCTATTTCCTTCTATTTTAATCTTTGC
1 AAAAACCAAAAATT-AATTT-CTTCTATTTTAATCTTTGC
**
16173313 AAAAAACATTCAACCA-TAATTTCTTCTATTTTAATCTTTGC
1 -AAAAAC---CAAAAATTAATTTCTTCTATTTTAATCTTTGC
*
16173354 AAAAACAAAAAAT
1 AAAAACCAAAAAT
16173367 CCAGAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
37 3 0.07
40 6 0.14
41 25 0.58
42 4 0.09
43 1 0.02
44 4 0.09
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (38 bp):
AAAAACCAAAAATTAATTTCTTCTATTTTAATCTTTGC
Found at i:16175340 original size:68 final size:71
Alignment explanation
Indices: 16175217--16175350 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 71
16175207 TCAACTTAAT
* * *
16175217 CACTTTAACATTAAATTAATAGAATATTTATCTACAAGATAAAAATTAAATTAAATTAAATATTA
1 CACTTTAACATTAAATTAATAAAATATCTATCTA-AAGATAAAAATTAAATTAAATAAAATATTA
16175282 AGATAAC
65 AGATAAC
* *
16175289 CACTTTAATATTAAATTAATAAAATA-CTAT-T-AAGATAAATATTAAATTAAATAAAATATTAA
1 CACTTTAACATTAAATTAATAAAATATCTATCTAAAGATAAAAATTAAATTAAATAAAATATTAA
16175351 ATCTATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 29 0.51
70 1 0.02
71 3 0.05
72 24 0.42
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (71 bp):
CACTTTAACATTAAATTAATAAAATATCTATCTAAAGATAAAAATTAAATTAAATAAAATATTAA
GATAAC
Found at i:16175363 original size:17 final size:17
Alignment explanation
Indices: 16175255--16175352 Score: 73
Period size: 17 Copynumber: 5.8 Consensus size: 17
16175245 TATCTACAAG
16175255 ATAAAA-ATTAAATTAA
1 ATAAAATATTAAATTAA
*
16175271 ATTAAATATTAAGA-TAA
1 ATAAAATATTAA-ATTAA
**
16175288 CCACTTTAATATTAAATT-A
1 --A-TAAAATATTAAATTAA
*
16175307 ATAAAATACT--ATTAA
1 ATAAAATATTAAATTAA
16175322 GAT-AAATATTAAATTAA
1 -ATAAAATATTAAATTAA
16175339 ATAAAATATTAAAT
1 ATAAAATATTAAAT
16175353 CTATTAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
14 3 0.05
15 7 0.11
16 15 0.23
17 25 0.38
18 1 0.02
19 3 0.05
20 11 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAAATATTAAATTAA
Found at i:16178113 original size:12 final size:12
Alignment explanation
Indices: 16178096--16178123 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16178086 AGGATGTTTT
16178096 ATAAAAATTTGC
1 ATAAAAATTTGC
16178108 ATAAAAATTTGC
1 ATAAAAATTTGC
16178120 ATAA
1 ATAA
16178124 TTGTTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (12 bp):
ATAAAAATTTGC
Found at i:16182752 original size:13 final size:13
Alignment explanation
Indices: 16182736--16182760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16182726 TATCGTGGGT
16182736 TCTTAAACGAACA
1 TCTTAAACGAACA
16182749 TCTTAAACGAAC
1 TCTTAAACGAAC
16182761 TAACAATTTT
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (13 bp):
TCTTAAACGAACA
Found at i:16195753 original size:17 final size:20
Alignment explanation
Indices: 16195731--16195769 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
16195721 GCCCTGCATC
16195731 AATAATTA-AT-TAGG-TAA
1 AATAATTAGATCTAGGCTAA
16195748 AATAATTAGATCTAGGCTAA
1 AATAATTAGATCTAGGCTAA
16195768 AA
1 AA
16195770 AGAACTCGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 4 0.21
20 5 0.26
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (20 bp):
AATAATTAGATCTAGGCTAA
Found at i:16216173 original size:29 final size:29
Alignment explanation
Indices: 16216131--16216304 Score: 151
Period size: 29 Copynumber: 6.1 Consensus size: 29
16216121 TCCAACGGCT
**
16216131 ATAGCTTTTGCTATCGATTATGAAAAGGG
1 ATAGCTTCGGCTATCGATTATGAAAAGGG
*
16216160 ATAGCTTTGGCTATCGATTATGAAAAGGG
1 ATAGCTTCGGCTATCGATTATGAAAAGGG
* * * * *
16216189 AT-GGTGAT-GACCATCAACTATGAAAA-GG
1 ATAGCT--TCGGCTATCGATTATGAAAAGGG
* * * * *
16216217 AT-GGTACGACCATCGAATATGAAAAGGG
1 ATAGCTTCGGCTATCGATTATGAAAAGGG
16216245 ATAG-TCTCGGCTATCGATTATGAAAAGGG
1 ATAGCT-TCGGCTATCGATTATGAAAAGGG
* *
16216274 ATAGCTTCGGCTATCAATTATGAAAAAGG
1 ATAGCTTCGGCTATCGATTATGAAAAGGG
16216303 AT
1 AT
16216305 GGTGACGACC
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
27 16 0.13
28 14 0.11
29 91 0.74
30 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (29 bp):
ATAGCTTCGGCTATCGATTATGAAAAGGG
Found at i:16216290 original size:85 final size:86
Alignment explanation
Indices: 16216143--16216364 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 86
16216133 AGCTTTTGCT
* * *
16216143 ATCGATTATGAAAAGGGATAG-CTTTGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAAC
1 ATCGAATATGAAAAGGGATAGTC-TCGGCTATCGATTATGAAAAGGGATGCT-ATGACCATCAAC
16216207 TATG-AAAAGGATGGT-ACGACC
64 TATGAAAAAGGATGGTGACGACC
* * *
16216228 ATCGAATATGAAAAGGGATAGTCTCGGCTATCGATTATGAAAAGGGATAGCT-TCGGCTATCAAT
1 ATCGAATATGAAAAGGGATAGTCTCGGCTATCGATTATGAAAAGGGAT-GCTAT-GACCATCAAC
16216292 TATGAAAAAGGATGGTGACGACC
64 TATGAAAAAGGATGGTGACGACC
* ** * *
16216315 ATC-AACTATGAAAAGGGATGGTGACGACTATCGATTAATGAAAGGGGATG
1 ATCGAA-TATGAAAAGGGATAGTCTCGGCTATCGATT-ATGAAAAGGGATG
16216365 GTTTCGACAA
Statistics
Matches: 119, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
84 1 0.01
85 55 0.46
86 16 0.13
87 36 0.30
88 11 0.09
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (86 bp):
ATCGAATATGAAAAGGGATAGTCTCGGCTATCGATTATGAAAAGGGATGCTATGACCATCAACTA
TGAAAAAGGATGGTGACGACC
Found at i:16216318 original size:29 final size:29
Alignment explanation
Indices: 16216176--16216406 Score: 175
Period size: 29 Copynumber: 8.0 Consensus size: 29
16216166 TTGGCTATCG
*
16216176 ATTATGAAAAGGGATGGTGATGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
16216205 ACTATGAAAA-GGATGGT-ACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* ** * * *
16216233 A-TATGAAAAGGGATAGTCTCGGCTATCG
1 ATTATGAAAAGGGATGGTGACGACCATCA
* * * *
16216261 ATTATGAAAAGGGATAGCT-TCGGCTATCA
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
*
16216290 ATTATGAAAAAGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
* * *
16216319 ACTATGAAAAGGGATGGTGACGACTATCG
1 ATTATGAAAAGGGATGGTGACGACCATCA
* ** * *
16216348 ATTAATGAAAGGGGATGGTTTCGACAATTGA
1 ATT-ATGAAAAGGGATGGTGACGACCA-TCA
** *
16216379 A-TATGAAAAGGGACAGTTACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
16216407 TTTAGCACAC
Statistics
Matches: 162, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
27 16 0.10
28 20 0.12
29 103 0.64
30 21 0.13
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:16216346 original size:58 final size:57
Alignment explanation
Indices: 16216170--16216366 Score: 200
Period size: 58 Copynumber: 3.4 Consensus size: 57
16216160 ATAGCTTTGG
* *
16216170 CTATCGATTATGAAAAGGGATGGTGATGACCATCAACTATGAAAA-GGATGGTACGA
1 CTATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTACGA
* * ** * * * * * * *
16216226 CCATCGAA-TATGAAAAGGGATAGTCTCGGCTATCGATTATGAAAAGGGATAGCTTCGG
1 CTATC-AATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGAT-GGTACGA
*
16216284 CTATCAATTATGAAAAAGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGA
1 CTATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT-ACGA
* *
16216342 CTATCGATTAATGAAAGGGGATGGT
1 CTATCAATT-ATGAAAAGGGATGGT
16216367 TTCGACAATT
Statistics
Matches: 107, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
56 33 0.31
57 9 0.08
58 52 0.49
59 13 0.12
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (57 bp):
CTATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTACGA
Found at i:16216388 original size:87 final size:85
Alignment explanation
Indices: 16216143--16216389 Score: 234
Period size: 85 Copynumber: 2.9 Consensus size: 85
16216133 AGCTTTTGCT
* ** * * *
16216143 ATCGATTATGAAAAGGGATAG-CTTTGGCTATCGATTATGAAAAGGGAT-GGTGAT-GACCATCA
1 ATCGAATATGAAAAGGGATAGTC-ACGACTATCGATTATGAAAAGGGATAGCT--TCGACAATCA
*
16216205 ACTATGAAAAGGATGGTACGACC
63 ATTATGAAAAGGATGGTACGACC
* * * *
16216228 ATCGAATATGAAAAGGGATAGTCTCGGCTATCGATTATGAAAAGGGATAGCTTCGGCTATCAATT
1 ATCGAATATGAAAAGGGATAGTCACGACTATCGATTATGAAAAGGGATAGCTTCGACAATCAATT
16216293 ATGAAAAAGGATGGTGACGACC
66 ATG-AAAAGGATGGT-ACGACC
* * * * * *
16216315 ATC-AACTATGAAAAGGGATGGTGACGACTATCGATTAATGAAAGGGGATGGTTTCGACAATTGA
1 ATCGAA-TATGAAAAGGGATAGTCACGACTATCGATT-ATGAAAAGGGATAGCTTCGACAA-TCA
16216379 A-TATGAAAAGG
63 ATTATGAAAAGG
16216390 GACAGTTACG
Statistics
Matches: 138, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.01
85 55 0.40
86 16 0.12
87 41 0.30
88 22 0.16
89 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (85 bp):
ATCGAATATGAAAAGGGATAGTCACGACTATCGATTATGAAAAGGGATAGCTTCGACAATCAATT
ATGAAAAGGATGGTACGACC
Found at i:16219341 original size:17 final size:17
Alignment explanation
Indices: 16219319--16219352 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16219309 ATTACGAACT
16219319 GTGTCCACCAAGCAATA
1 GTGTCCACCAAGCAATA
* *
16219336 GTGTCCGCCAGGCAATA
1 GTGTCCACCAAGCAATA
16219353 TTGTTTATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (17 bp):
GTGTCCACCAAGCAATA
Found at i:16228851 original size:16 final size:17
Alignment explanation
Indices: 16228830--16228863 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16228820 AAAATTTTTA
16228830 TCAAAA-CAGAATATTT
1 TCAAAATCAGAATATTT
16228846 TCAAAATCAGAATATTT
1 TCAAAATCAGAATATTT
16228863 T
1 T
16228864 TAACTTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
TCAAAATCAGAATATTT
Found at i:16240131 original size:26 final size:26
Alignment explanation
Indices: 16240100--16240154 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
16240090 TCAAATCTAT
16240100 TATCTAATGCAGTTATTAAAACTAAG
1 TATCTAATGCAGTTATTAAAACTAAG
16240126 TATCTAATGCAGTTATTAAAACTAAG
1 TATCTAATGCAGTTATTAAAACTAAG
16240152 TAT
1 TAT
16240155 ATACTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (26 bp):
TATCTAATGCAGTTATTAAAACTAAG
Found at i:16243102 original size:137 final size:138
Alignment explanation
Indices: 16242854--16243128 Score: 394
Period size: 137 Copynumber: 2.0 Consensus size: 138
16242844 GAGCTATAAA
* **
16242854 ATGGGTCTGCTCACACAAGCTGATGGTCAGAATGTAAGCTACACGATGTTGCTCACACAAGCTGA
1 ATGGGTCTGCTCACACAAGCTGATGGTCAGAATGTAAGCTACACAATGCCGCTCACACAAGCTGA
* * * * * * * *
16242919 TGAGTATCCGCAACTAATGTCAGACCTCAGCCATCGATAGGCCATTCAGGTCTAGCACCCAAAAG
66 CGAGTATCCGCAACTAATGTCAAAACTCAGCCATCGATAGGACATTCAAGACCAGCACCCAAAAC
16242984 ATGGTAAC
131 ATGGTAAC
* *
16242992 ATGGGTCTGCTCACACAAGCTGATGGTCAGAATGT-AGCTACGCAATGCCGCTCACACAAGCTTA
1 ATGGGTCTGCTCACACAAGCTGATGGTCAGAATGTAAGCTACACAATGCCGCTCACACAAGCTGA
16243056 CGAGTATCCGCAAC-ACATGTCAAAACTCAGCCATC-AGTAGGACATTCAAGACCAGCACCCAAA
66 CGAGTATCCGCAACTA-ATGTCAAAACTCAGCCATCGA-TAGGACATTCAAGACCAGCACCCAAA
16243119 ACATGGTAAC
129 ACATGGTAAC
16243129 CCTAATGACA
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
136 2 0.02
137 85 0.70
138 35 0.29
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (138 bp):
ATGGGTCTGCTCACACAAGCTGATGGTCAGAATGTAAGCTACACAATGCCGCTCACACAAGCTGA
CGAGTATCCGCAACTAATGTCAAAACTCAGCCATCGATAGGACATTCAAGACCAGCACCCAAAAC
ATGGTAAC
Found at i:16246657 original size:87 final size:87
Alignment explanation
Indices: 16246497--16246664 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 87
16246487 CATGTTTGCA
* * * * * * *
16246497 AAAAAACATAAGACATAGCGTGAGCTTGTAATGCCCTAAAATTTTAGATGTTGGGGTTTGCACGG
1 AAAAAACAAAAGACATAGAGCGAGCTTGTAACGCCCTAAAATTTTAGATGTTGAGATTGGCACGG
*
16246562 TTCTGAGATTTCAACCGCGATC
66 TTCTGAGATATCAACCGCGATC
* *
16246584 AAAAAACAAAAGACATAGAGCGAGCTTGTAACGCCCTAAAATTTTTGATGTTGAGATTGGCATGG
1 AAAAAACAAAAGACATAGAGCGAGCTTGTAACGCCCTAAAATTTTAGATGTTGAGATTGGCACGG
16246649 TT-TCGAGATATCAACC
66 TTCT-GAGATATCAACC
16246665 ACGAGAAATT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 69 0.99
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (87 bp):
AAAAAACAAAAGACATAGAGCGAGCTTGTAACGCCCTAAAATTTTAGATGTTGAGATTGGCACGG
TTCTGAGATATCAACCGCGATC
Found at i:16247166 original size:96 final size:97
Alignment explanation
Indices: 16247043--16247237 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 97
16247033 ATAATTATTC
16247043 TTTATTAAATTTAACTTGAAATTAATAATAAATTAAATTAAATTTTATAGAAAAAATTTTGAATA
1 TTTATTAAATTTAACTTGAAATTAATAATAAATTAAATTAAATTTTATAGAAAAAATTTTGAATA
16247108 CATCAAAGAAAGAGAACAATAAATTCAGTTTA
66 CATCAAAGAAAGAGAACAATAAATTCAGTTTA
16247140 TTTATTAAA-TTAACTTGAAATTAATAATAAATTAAATTAAATTTTATAGAAAAAATTTTGAATA
1 TTTATTAAATTTAACTTGAAATTAATAATAAATTAAATTAAATTTTATAGAAAAAATTTTGAATA
16247204 CATCAAAGAAAGAGAACAATAAATTCAGTTTA
66 CATCAAAGAAAGAGAACAATAAATTCAGTTTA
16247236 TT
1 TT
16247238 ATAATAAAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 89 0.91
97 9 0.09
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (97 bp):
TTTATTAAATTTAACTTGAAATTAATAATAAATTAAATTAAATTTTATAGAAAAAATTTTGAATA
CATCAAAGAAAGAGAACAATAAATTCAGTTTA
Found at i:16247227 original size:46 final size:46
Alignment explanation
Indices: 16247081--16247228 Score: 108
Period size: 46 Copynumber: 3.1 Consensus size: 46
16247071 TAAATTAAAT
16247081 TAAATTTTATAGAAAAAATTTTGAATACATCAAAGAAAGAGAACAA
1 TAAATTTTATAGAAAAAATTTTGAATACATCAAAGAAAGAGAACAA
** ** * ** *
16247127 TAAATTCAGTTTATTTATTAAATTAACTTGAAATTA-AT--AATAAA-TTAA-AT
1 TAAA-T---TTTATAGAAAAAATT---TTG-AA-TACATCAAAGAAAGAGAACAA
16247177 TAAATTTTATAGAAAAAATTTTGAATACATCAAAGAAAGAGAACAA
1 TAAATTTTATAGAAAAAATTTTGAATACATCAAAGAAAGAGAACAA
16247223 TAAATT
1 TAAATT
16247229 CAGTTTATTA
Statistics
Matches: 72, Mismatches: 16, Indels: 28
0.62 0.14 0.24
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 3 0.04
44 5 0.07
45 2 0.03
46 22 0.31
47 1 0.01
49 1 0.01
50 16 0.22
51 2 0.03
52 5 0.07
53 3 0.04
54 4 0.06
55 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (46 bp):
TAAATTTTATAGAAAAAATTTTGAATACATCAAAGAAAGAGAACAA
Found at i:16249565 original size:24 final size:25
Alignment explanation
Indices: 16249517--16249565 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
16249507 TTATTTCATT
* *
16249517 CATACATACGCATATTTTATGTATAA
1 CATACATA-GCATATTTAATATATAA
16249543 CATACAT-GCATATTTAATATATA
1 CATACATAGCATATTTAATATATA
16249566 TTTTAAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (25 bp):
CATACATAGCATATTTAATATATAA
Found at i:16250152 original size:14 final size:14
Alignment explanation
Indices: 16250133--16250171 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16250123 TGGTACATTG
16250133 TATTTGTATATATA
1 TATTTGTATATATA
* *
16250147 TATTTGTAAATATT
1 TATTTGTATATATA
*
16250161 TATTCGTATAT
1 TATTTGTATAT
16250172 GCTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:16259441 original size:7 final size:7
Alignment explanation
Indices: 16259429--16259453 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16259419 AGTCGATTGA
16259429 TATTTAG
1 TATTTAG
16259436 TATTTAG
1 TATTTAG
16259443 TATTTAG
1 TATTTAG
16259450 TATT
1 TATT
16259454 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:16260131 original size:18 final size:18
Alignment explanation
Indices: 16260104--16260143 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16260094 CAGGTGCGTT
*
16260104 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
16260122 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
16260140 TCCT
1 TCCT
16260144 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:16260436 original size:21 final size:21
Alignment explanation
Indices: 16260402--16260441 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16260392 TGTCGTACCA
* *
16260402 GAAGAACCAGAATCCCCGCTT
1 GAAGAACAACAATCCCCGCTT
*
16260423 GAAGAACAACAATCGCCGC
1 GAAGAACAACAATCCCCGC
16260442 CGAAAGCTAG
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:0.38, C:0.33, G:0.20, T:0.10
Consensus pattern (21 bp):
GAAGAACAACAATCCCCGCTT
Found at i:16260590 original size:23 final size:23
Alignment explanation
Indices: 16260564--16260607 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16260554 TATTTTTATA
16260564 TTATTTGATGTAATAAAATAGGT
1 TTATTTGATGTAATAAAATAGGT
16260587 TTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAG
16260608 AAATTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
TTATTTGATGTAATAAAATAGGT
Found at i:16260616 original size:23 final size:23
Alignment explanation
Indices: 16260563--16260618 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
16260553 ATATTTTTAT
*
16260563 ATTATTTGATGTAATAAAATAGG
1 ATTATTTGATGTAATAAAATAGA
*
16260586 TTTATTTGATGTAATAAAATAGAA
1 ATTATTTGATGTAATAAAATAG-A
16260610 ATT-TTTGAT
1 ATTATTTGAT
16260619 ATTATTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTATTTGATGTAATAAAATAGA
Found at i:16260683 original size:23 final size:23
Alignment explanation
Indices: 16260652--16261137 Score: 294
Period size: 23 Copynumber: 21.6 Consensus size: 23
16260642 ATTAATACCC
*
16260652 TTAACTTAAAAATCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
* * *
16260676 TTAATTAAAAATCTTAAACC---C
1 TTAATTAAAAACCCT-AACCTAAT
**
16260697 TTAACTTAAAAACTATAACCTAA-
1 TTAA-TTAAAAACCCTAACCTAAT
16260720 TTAACTTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
*
16260744 TAAATTAAAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCTAAT
*
16260767 TTAATTAAAAACCCTAAACTAAT
1 TTAATTAAAAACCCTAACCTAAT
* *
16260790 TAAATTAAAAACCCTAACC---C
1 TTAATTAAAAACCCTAACCTAAT
16260810 TTAACTTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
*
16260834 TTAATTAAAACCCCTAAACCTTAA-
1 TTAATTAAAAACCCT-AACC-TAAT
* ***
16260858 --ACTTAAAAACCCTAACC-CCC
1 TTAATTAAAAACCCTAACCTAAT
*
16260878 TTAACTTAAAATCCCTAACCTAA-
1 TTAA-TTAAAAACCCTAACCTAAT
16260901 TTAACTTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
* *
16260925 TAAATTAAAAACCCTAACATAAT
1 TTAATTAAAAACCCTAACCTAAT
*
16260948 TAAATTAAAAACCCTAAACCCTAA-
1 TTAATTAAAAACCCT-AA-CCTAAT
* **
16260972 --ACTTAAAAACCCTAACC--CC
1 TTAATTAAAAACCCTAACCTAAT
*
16260991 TTAACTTAAAAACCACTAACC---C
1 TTAA-TTAAAAACC-CTAACCTAAT
*
16261013 TTAACTTAAAAACACTAAACC---T
1 TTAA-TTAAAAACCCT-AACCTAAT
* ***
16261035 TTAACTTAAAAACCCAAACC-CCC
1 TTAA-TTAAAAACCCTAACCTAAT
* *
16261058 TTAACTTAAAAACCCAAACC---C
1 TTAA-TTAAAAACCCTAACCTAAT
* *
16261079 TTAACTTAAAAACACTAAACC---C
1 TTAA-TTAAAAACCCT-AACCTAAT
16261101 TTAACTTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
16261125 TTAATTAAAAACC
1 TTAATTAAAAACC
16261138 NNNNNNNNNN
Statistics
Matches: 390, Mismatches: 40, Indels: 65
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.01
21 55 0.14
22 93 0.24
23 202 0.52
24 28 0.07
25 7 0.02
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAATTAAAAACCCTAACCTAAT
Found at i:16260861 original size:158 final size:154
Alignment explanation
Indices: 16260648--16261120 Score: 546
Period size: 158 Copynumber: 3.0 Consensus size: 154
16260638 AACCATTAAT
* ** *
16260648 ACCCTTAACTTAAAAATCCTAACCTAATTTAATTAAAAATCTTAAACCCTTAACTTAAAAACTAT
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAA-CCTTAACTTAAAAAC-AT
*
16260713 AACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
64 AACCT--TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTTAATTAAAAA
16260778 CCCTAAACTAATTAAATTAAAAACCCTA
127 CCCTAAACTAATTAAATTAAAAACCCTA
*
16260806 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCTTAAACTTAAAAACCCT
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCTT-AACTTAAAAA-CAT
* * *
16260871 AACCCCCTTAACTTAAAATCCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAA
64 AA--CCTTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTTAATTAAAAA
16260936 CCCT-AACATAATTAAATTAAAAACCCTAA
127 CCCTAAAC-TAATTAAATTAAAAACCCT-A
* ** * *
16260965 ACCCTAAACTTAAAAACCCTAACC--CCTTAACTTAAAAACCACTAACCCTTAACTTAAAAACAC
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAA-TT-AAAACCCCTAAACCTTAACTTAAAAACA-
* *** * *
16261028 TAAACCTTTAACTTAAAAACCCAAACCCCCTTAACTTAAAAACCCAAACC---CTTAACTTAAAA
63 T-AACCTTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTTAA-TTAAAA
* ** *
16261090 ACACTAAAC-CCTTAACTTAAAAACCCTA
126 ACCCTAAACTAATTAAATTAAAAACCCTA
16261118 ACC
1 ACC
16261121 TAATTTAATT
Statistics
Matches: 275, Mismatches: 28, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
153 4 0.01
154 18 0.07
155 10 0.04
156 3 0.01
157 51 0.19
158 146 0.53
159 41 0.15
160 2 0.01
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (154 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCTTAACTTAAAAACATAA
CCTTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCT
AAACTAATTAAATTAAAAACCCTA
Found at i:16260994 original size:181 final size:179
Alignment explanation
Indices: 16260694--16261137 Score: 623
Period size: 181 Copynumber: 2.5 Consensus size: 179
16260684 AAATCTTAAA
**
16260694 CCCTTAACTTAAAAACTATAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
1 CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
*
16260759 AACCTAATTTAATTAAAAACCCTAAACTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACC
66 AACCTAATTTAATTAAAAACCCTAAAC-AACTAAATTAAAAACCCTAACCCTTAACTTAAAAACC
* * * *
16260824 -CTAACCTAATTTAA-TTAAAACCCCTAAACCTTAAACTTAAAAACCCTAACC
130 ACTAACC---CTTAACTTAAAAACACTAAACCTTAAACTTAAAAACCCAAACC
*
16260875 CCCTTAACTTAAAATCCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
1 CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
* * *
16260940 AACATAATTAAATTAAAAACCCTAAAC-CCTAAACTTAAAAACCCTAACCCCTTAACTTAAAAAC
66 AACCTAATTTAATTAAAAACCCTAAACAACTAAA-TTAAAAACCCTAA-CCCTTAACTTAAAAAC
*
16261004 CACTAACCCTTAACTTAAAAACACTAAACCTTTAACTTAAAAACCCAAACC
129 CACTAACCCTTAACTTAAAAACACTAAACCTTAAACTTAAAAACCCAAACC
* * * * *
16261055 CCCTTAACTTAAAAACCCAAACC--CTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCC
1 CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCT-AACCTAATTAAATTAAAAACCC
16261116 TAACCTAATTTAATTAAAAACC
65 TAACCTAATTTAATTAAAAACC
16261138 NNNNNNNNNN
Statistics
Matches: 238, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
177 34 0.14
178 15 0.06
179 12 0.05
180 67 0.28
181 104 0.44
182 6 0.03
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (179 bp):
CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
AACCTAATTTAATTAAAAACCCTAAACAACTAAATTAAAAACCCTAACCCTTAACTTAAAAACCA
CTAACCCTTAACTTAAAAACACTAAACCTTAAACTTAAAAACCCAAACC
Found at i:16261134 original size:45 final size:46
Alignment explanation
Indices: 16260648--16261137 Score: 429
Period size: 45 Copynumber: 10.9 Consensus size: 46
16260638 AACCATTAAT
* * *
16260648 ACCCTTAACTTAAAAATCCTAACCTAATTTAA-TTAAAAATCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
**
16260693 ACCCTTAACTTAAAAACTATAACCTAA-TTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
* *
16260737 ACCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
** * *
16260784 ACTAATTAAATTAAAAACCCTAACC---CTTAACTTAAAAACCCT-A
1 AC-CCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
* * *
16260827 ACCTAATTTAA-TTAAAACCCCTAAACC---TTAAACTTAAAAACCCTAA
1 ACC---CTTAACTTAAAAACCCT-AACCTAATTTAACTTAAAAACCCTAA
* *
16260873 CCCCCTTAACTTAAAATCCCTAACCTAA-TTAACTTAAAAACCCT-A
1 -ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
* * * *
16260918 ACCTAATTAAATTAAAAACCCTAACATAA-TTAAATTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
* **
16260965 ACCCTAAACTTAAAAACCCTAACC--CCTTAACTTAAAAACCACT-A
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACC-CTAA
*
16261009 ACCCTTAACTTAAAAACACTAAACC---TTTAACTTAAAAACCC-AA
1 ACCCTTAACTTAAAAACCCT-AACCTAATTTAACTTAAAAACCCTAA
* * *
16261052 ACCCCCTTAACTTAAAAACCCAAACC---CTTAACTTAAAAACACTAA
1 A--CCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
16261097 ACCCTTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACC
1 ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACC
16261138 NNNNNNNNNN
Statistics
Matches: 373, Mismatches: 42, Indels: 60
0.79 0.09 0.13
Matches are distributed among these distances:
43 32 0.09
44 103 0.28
45 118 0.32
46 107 0.29
47 13 0.03
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (46 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAA
Found at i:16264110 original size:23 final size:23
Alignment explanation
Indices: 16264084--16264129 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
16264074 AATTGGGGTA
16264084 AATAAAAATTAAGTAATTCAAGG
1 AATAAAAATTAAGTAATTCAAGG
16264107 AATAAAAATTAAGTAATTCAAGG
1 AATAAAAATTAAGTAATTCAAGG
16264130 GAAGCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (23 bp):
AATAAAAATTAAGTAATTCAAGG
Found at i:16264454 original size:24 final size:24
Alignment explanation
Indices: 16264434--16264487 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16264424 TCAAAAAGTT
**
16264434 TAAAAATATTTTTTTATAAAATTA
1 TAAAAATATAATTTTATAAAATTA
* **
16264458 TAAAATTATAATTTTATAATTTTA
1 TAAAAATATAATTTTATAAAATTA
16264482 TAAAAA
1 TAAAAA
16264488 AATATTGTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAAATATAATTTTATAAAATTA
Found at i:16264814 original size:7 final size:7
Alignment explanation
Indices: 16264800--16264849 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
16264790 TATTTAAATA
16264800 TTTA-AT
1 TTTATAT
16264806 TTTATAT
1 TTTATAT
16264813 TTTATAT
1 TTTATAT
*
16264820 TTT-TAA
1 TTTATAT
*
16264826 TTTAAAT
1 TTTATAT
*
16264833 TTAATAT
1 TTTATAT
16264840 TTT-TAT
1 TTTATAT
16264846 TTTA
1 TTTA
16264850 AATAAACTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
6 15 0.43
7 20 0.57
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTATAT
Found at i:16264814 original size:20 final size:20
Alignment explanation
Indices: 16264784--16264841 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
16264774 NNNNAAGATT
16264784 TTTTAATATTTAAATATTTAA
1 TTTT-ATATTTAAATATTTAA
* *
16264805 TTTTATATTTTATATTTTTAA
1 TTTTATA-TTTAAATATTTAA
*
16264826 -TTTAAATTT-AATATTT
1 TTTTATATTTAAATATTT
16264842 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.16
19 3 0.10
20 8 0.26
21 15 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATATTTAAATATTTAA
Found at i:16264842 original size:20 final size:20
Alignment explanation
Indices: 16264785--16264852 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
16264775 NNNAAGATTT
*
16264785 TTTAATATTTAA-ATATTTAA
1 TTTAA-ATTTAATATTTTTAA
* *
16264805 TTTTATATTTTATATTTTTAA
1 -TTTAAATTTAATATTTTTAA
*
16264826 TTTAAATTTAATATTTTTAT
1 TTTAAATTTAATATTTTTAA
16264846 TTTAAAT
1 TTTAAAT
16264853 AAACTTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
20 29 0.73
21 11 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAAATTTAATATTTTTAA
Found at i:16265218 original size:29 final size:29
Alignment explanation
Indices: 16265169--16265228 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
16265159 GGGTCAATCA
* *
16265169 AATTAGTCAATATATTATT-AAATGGATC
1 AATTAGTCAATATACTATTAAAAAGGATC
* *
16265197 AATTCAGTCATTATACTCTTAAAAAGGATC
1 AATT-AGTCAATATACTATTAAAAAGGATC
16265227 AA
1 AA
16265229 ATAAGACCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 12 0.46
30 10 0.38
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (29 bp):
AATTAGTCAATATACTATTAAAAAGGATC
Found at i:16265896 original size:24 final size:23
Alignment explanation
Indices: 16265845--16265896 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16265835 AGATTCTTAA
16265845 AAAAATACTCATATTTATTGTAT
1 AAAAATACTCATATTTATTGTAT
* *
16265868 TAAAATATTCATATTTTATAT-TAT
1 AAAAATACTCATA-TTTAT-TGTAT
16265892 AAAAA
1 AAAAA
16265897 AATTATAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.46
24 12 0.50
25 1 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAAATACTCATATTTATTGTAT
Found at i:16267126 original size:23 final size:23
Alignment explanation
Indices: 16267100--16267143 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
16267090 GGGTTAAGGC
16267100 TTTTATTGTT-TTAGGGTTAGGAT
1 TTTTATT-TTATTAGGGTTAGGAT
16267123 TTTTATTTTATTAGGGTTAGG
1 TTTTATTTTATTAGGGTTAGG
16267144 GTTAGGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (23 bp):
TTTTATTTTATTAGGGTTAGGAT
Found at i:16279325 original size:20 final size:21
Alignment explanation
Indices: 16279300--16279339 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16279290 TTAAAACAAG
16279300 TGAAAAAAAG-AAAAAGAGAA
1 TGAAAAAAAGAAAAAAGAGAA
*
16279320 TGAAAAAGAGAAAAAAGAGA
1 TGAAAAAAAGAAAAAAGAGA
16279340 TTGAGAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (21 bp):
TGAAAAAAAGAAAAAAGAGAA
Found at i:16279380 original size:17 final size:18
Alignment explanation
Indices: 16279348--16279386 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16279338 GATTGAGAGT
* *
16279348 GAAAAGGAATGTGAAACA
1 GAAAAGGAAAGTGAAAAA
16279366 GAAAA-GAAAGTGAAAAA
1 GAAAAGGAAAGTGAAAAA
16279383 GAAA
1 GAAA
16279387 TTTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.64, C:0.03, G:0.26, T:0.08
Consensus pattern (18 bp):
GAAAAGGAAAGTGAAAAA
Found at i:16280802 original size:16 final size:16
Alignment explanation
Indices: 16280781--16280817 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
16280771 TGTCAAAGGG
16280781 GTTTTCTTTAGAAGTT
1 GTTTTCTTTAGAAGTT
16280797 GTTTTCTTTAGAAGTT
1 GTTTTCTTTAGAAGTT
16280813 GTTTT
1 GTTTT
16280818 AACAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.59
Consensus pattern (16 bp):
GTTTTCTTTAGAAGTT
Found at i:16292234 original size:16 final size:16
Alignment explanation
Indices: 16292213--16292244 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16292203 CAAAAAAATT
16292213 AATAAAAGTCCATTTA
1 AATAAAAGTCCATTTA
16292229 AATAAAAGTCCATTTA
1 AATAAAAGTCCATTTA
16292245 CAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
AATAAAAGTCCATTTA
Found at i:16298646 original size:45 final size:44
Alignment explanation
Indices: 16298551--16298732 Score: 206
Period size: 45 Copynumber: 4.1 Consensus size: 44
16298541 AACAGATACA
* * * * *
16298551 CGGTGG-ATCAGAACATAGC-ACCACCCTTATAGTCAATGATACT
1 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG-TACC
* ** *
16298594 CGGTGGAATCAGCACATAGCAATGACCTTCATAATCAATAGTACC
1 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT-GTACC
*
16298639 CGGTGGAACCAGCACACAGCAACCACCTTTATAATCAATGATACC
1 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG-TACC
* *
16298684 CGGTGGAATCAGCTCACAGCAACCACCTTTATAATCACTGGTACC
1 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT-GTACC
16298729 CGGT
1 CGGT
16298733 AGACGTAGTA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
43 6 0.05
44 13 0.11
45 98 0.82
46 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (44 bp):
CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGTACC
Found at i:16300697 original size:41 final size:41
Alignment explanation
Indices: 16300651--16300731 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
16300641 TGTAGGCCAT
16300651 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
1 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
16300692 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAA
1 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAA
16300732 TTAACCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.36, G:0.07, T:0.15
Consensus pattern (41 bp):
TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
Found at i:16301214 original size:18 final size:19
Alignment explanation
Indices: 16301180--16301221 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16301170 ATGGATTTTC
16301180 TTTTTCTTCTCTGTTTA-T
1 TTTTTCTTCTCTGTTTACT
*
16301198 TTTTTCTTTTTCT-TTTACT
1 TTTTTC-TTCTCTGTTTACT
16301217 TTTTT
1 TTTTT
16301222 ACATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTCTTCTCTGTTTACT
Found at i:16302683 original size:108 final size:108
Alignment explanation
Indices: 16302494--16302802 Score: 453
Period size: 108 Copynumber: 2.8 Consensus size: 108
16302484 TTTCTAATTG
*
16302494 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTCT
* **
16302559 CGTTTAACCAAATGGCTTAATATCCTTT-TAAAATTTTAAAATA
65 CGTTTAACCAAATGGCTTAATATCCTTTAAAAAATTACAAAATA
16302602 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTCTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT-TTCT
*
16302667 CGTTCAACCAAATGGCTTAATATCCTTTCCAAAAAAAATTACAAAATA
65 CGTTTAACCAAATGGCTTAATATCCTTT----AAAAAATTACAAAATA
* * *
16302715 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAAGGTGCTGGGTATC-AATTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTCTC
**
16302778 GTTTAACCAAATGGCCAAATATCCT
66 GTTTAACCAAATGGCTTAATATCCT
16302803 CTTGAATTTT
Statistics
Matches: 184, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
107 2 0.01
108 88 0.48
110 27 0.15
111 2 0.01
112 24 0.13
113 41 0.22
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTCTC
GTTTAACCAAATGGCTTAATATCCTTTAAAAAATTACAAAATA
Found at i:16313465 original size:22 final size:22
Alignment explanation
Indices: 16313440--16313488 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
16313430 ATATATAAAT
* *
16313440 TAATTACGAAATAATATTTCTA
1 TAATTACAAAATAATATTTCCA
16313462 TAATTACAAAATAATATTTCCA
1 TAATTACAAAATAATATTTCCA
16313484 TAATT
1 TAATT
16313489 TCCCTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATTACAAAATAATATTTCCA
Found at i:16316907 original size:19 final size:19
Alignment explanation
Indices: 16316883--16316919 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16316873 AAAAGCCTTA
16316883 TAGTTTCATCTTATTTTTT
1 TAGTTTCATCTTATTTTTT
* *
16316902 TAGTTTTATTTTATTTTT
1 TAGTTTCATCTTATTTTT
16316920 AGTTTAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TAGTTTCATCTTATTTTTT
Found at i:16320177 original size:16 final size:16
Alignment explanation
Indices: 16320156--16320187 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16320146 GTTTTGTTGC
*
16320156 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
16320172 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
16320188 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:16320230 original size:37 final size:38
Alignment explanation
Indices: 16320176--16320247 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
16320166 TTTTCATAAT
* *
16320176 TTCACTTTTTCACTTTCAA-TCACTATTCAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
16320213 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCA
16320248 GTTCTACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:16320562 original size:101 final size:102
Alignment explanation
Indices: 16320439--16320631 Score: 298
Period size: 101 Copynumber: 1.9 Consensus size: 102
16320429 ACTTTTATCA
* * ** *
16320439 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATGTTTTA-CGGTTCACGTAG
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTATCGATTCACGTAG
*
16320503 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * *
16320540 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTATCGATTCACGTAG
16320605 TAGCCTTCACACAGTACTACACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
16320632 TTCATCGATA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 45 0.55
102 37 0.45
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:16320576 original size:51 final size:50
Alignment explanation
Indices: 16320439--16320631 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 50
16320429 ACTTTTATCA
* *
16320439 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
16320488 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
16320540 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* *
16320590 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
16320632 TTCATCGATA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
49 4 0.03
50 42 0.34
51 74 0.60
52 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:16326201 original size:16 final size:17
Alignment explanation
Indices: 16326176--16326208 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16326166 ATTTGTCTTG
*
16326176 TTATTAATAAATCATTC
1 TTATTAATAAAGCATTC
16326193 TTATT-ATAAAGCATTC
1 TTATTAATAAAGCATTC
16326209 ACATGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
TTATTAATAAAGCATTC
Found at i:16327775 original size:41 final size:41
Alignment explanation
Indices: 16327697--16327964 Score: 382
Period size: 41 Copynumber: 6.6 Consensus size: 41
16327687 TAACAGGTTA
** **
16327697 GGCCTTAGCCCATCTTAGTA--AGTATCAAATACACAGTAG
1 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
16327736 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
1 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
*
16327777 GGCCTTAGCCCATCACAATATCAGTATCAAATATGCAGTAG
1 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
**
16327818 GGCCTTAGCTTATCACAGTAT-AGTATCAAATATGCAGTAG
1 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
*
16327858 GGCCTTAGCCCATCACAATATCAGTATCAAATATGCAGTAG
1 GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
* * *
16327899 GGCCTTAGCCCATCACA-TAATTAGTTTCAAATATGCAGTAA
1 GGCCTTAGCCCATCACAGT-ATCAGTATCAAATATGCAGTAG
* *
16327940 GGCCTTAGCCAATCACAGAATCAGT
1 GGCCTTAGCCCATCACAGTATCAGT
16327965 TTGGGTCTTA
Statistics
Matches: 207, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
39 18 0.09
40 38 0.18
41 151 0.73
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
GGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAG
Found at i:16327865 original size:122 final size:121
Alignment explanation
Indices: 16327696--16327957 Score: 400
Period size: 122 Copynumber: 2.2 Consensus size: 121
16327686 GTAACAGGTT
* ** *
16327696 AGGCCTTAGCCCATCTTAGTAAGTATCAAATACACAGTAGGGCCTTAGCCCATCACAGTATCAGT
1 AGGCCTTAGCCAATCACAGTAAGTATCAAATACACAGTAGGGCCTTAGCCCATCACAATATCAGT
16327761 ATCAAATATGCAGTAGGGCCTTAGCCCATCACA-ATATCAGTATCAAATATGCAGTA
66 ATCAAATATGCAGTAGGGCCTTAGCCCATCACATA-ATCAGTATCAAATATGCAGTA
* ** **
16327817 GGGCCTTAGCTTATCACAGTATAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAATATCAG
1 AGGCCTTAGCCAATCACAGTA-AGTATCAAATACACAGTAGGGCCTTAGCCCATCACAATATCAG
* *
16327882 TATCAAATATGCAGTAGGGCCTTAGCCCATCACATAATTAGTTTCAAATATGCAGTA
65 TATCAAATATGCAGTAGGGCCTTAGCCCATCACATAATCAGTATCAAATATGCAGTA
16327939 AGGCCTTAGCCAATCACAG
1 AGGCCTTAGCCAATCACAG
16327958 AATCAGTTTG
Statistics
Matches: 126, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
121 16 0.13
122 109 0.87
123 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (121 bp):
AGGCCTTAGCCAATCACAGTAAGTATCAAATACACAGTAGGGCCTTAGCCCATCACAATATCAGT
ATCAAATATGCAGTAGGGCCTTAGCCCATCACATAATCAGTATCAAATATGCAGTA
Found at i:16327874 original size:81 final size:81
Alignment explanation
Indices: 16327717--16327964 Score: 383
Period size: 81 Copynumber: 3.0 Consensus size: 81
16327707 CATCTTAGTA
**
16327717 AGTATCAAATACACAGTAGGGCCTTAGCCCATCACAGTATCAGTATCAAATATGCAGTAGGGCCT
1 AGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAGTAT-AGTATCAAATATGCAGTAGGGCCT
16327782 TAGCCCATCACAATATC
65 TAGCCCATCACAATATC
**
16327799 AGTATCAAATATGCAGTAGGGCCTTAGCTTATCACAGTATAGTATCAAATATGCAGTAGGGCCTT
1 AGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAGTATAGTATCAAATATGCAGTAGGGCCTT
16327864 AGCCCATCACAATATC
66 AGCCCATCACAATATC
* *
16327880 AGTATCAAATATGCAGTAGGGCCTTAGCCCATCACA-TAATTAGTTTCAAATATGCAGTAAGGCC
1 AGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAGT-A-TAGTATCAAATATGCAGTAGGGCC
*
16327944 TTAGCCAATCACAGA-ATC
64 TTAGCCCATCACA-ATATC
16327962 AGT
1 AGT
16327965 TTGGGTCTTA
Statistics
Matches: 154, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
80 1 0.01
81 76 0.49
82 76 0.49
83 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (81 bp):
AGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAGTATAGTATCAAATATGCAGTAGGGCCTT
AGCCCATCACAATATC
Found at i:16331045 original size:15 final size:15
Alignment explanation
Indices: 16331025--16331056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16331015 CATTTCACTA
*
16331025 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
16331040 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16331055 TT
1 TT
16331057 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16337905 original size:19 final size:19
Alignment explanation
Indices: 16337883--16337937 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
16337873 TATTTTATTA
16337883 ATTTAATATTAAAGTGAAC
1 ATTTAATATTAAAGTGAAC
* * *
16337902 ATTTTATTATTTTAA-T-AAG
1 A-TTTAATA-TTAAAGTGAAC
16337921 ATTTAATATTAAAGTGA
1 ATTTAATATTAAAGTGA
16337938 TTAAGTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 5 0.19
20 7 0.26
21 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (19 bp):
ATTTAATATTAAAGTGAAC
Found at i:16342594 original size:20 final size:22
Alignment explanation
Indices: 16342564--16342609 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
16342554 AATTTTATTA
16342564 AAATCATTTATT-TATTGTT-TT
1 AAATCATTTATTAT-TTGTTCTT
16342585 AAAT-ATTTATTATTTGTTCTT
1 AAATCATTTATTATTTGTTCTT
16342606 AAAT
1 AAAT
16342610 TTCTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (22 bp):
AAATCATTTATTATTTGTTCTT
Done.