Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 58 of 202
Found at i:17131074 original size:45 final size:44
Alignment explanation
Indices: 17131011--17131102 Score: 157
Period size: 45 Copynumber: 2.1 Consensus size: 44
17131001 ACAGATACTT
*
17131011 GGTGGATCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
*
17131055 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTC
1 GGTGG-ATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
17131100 GGT
1 GGT
17131103 TCACATAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 5 0.11
45 40 0.89
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (44 bp):
GGTGGATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:17131166 original size:51 final size:50
Alignment explanation
Indices: 17131108--17131294 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 50
17131098 TCGGTTCACA
* *
17131108 TAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * *
17131159 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCC-A-GCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATACACG
** * * * * *
17131208 CATAGTAGCCTGTGCATAGTACTACACATGCGACC-TATCATTCTGGTACACG
1 --TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
17131260 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
17131295 CACTTTCACT
Statistics
Matches: 108, Mismatches: 21, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
49 6 0.06
50 33 0.31
51 63 0.58
52 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:17131276 original size:101 final size:101
Alignment explanation
Indices: 17131106--17131290 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
17131096 GTTCGGTTCA
* *
17131106 CATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
17131171 CATAGTACTACACACGTGATCGAAACTATCCAGCACG
65 CATAGTACTACACACGTGATCGAAACTATCCAGCACG
** * * *
17131208 CATAGTAGCCTGTGCATAGTACTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
17131272 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
17131291 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 31 0.41
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCAGCACG
Found at i:17133132 original size:11 final size:11
Alignment explanation
Indices: 17133099--17133132 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17133089 TTGGCCTCTC
17133099 CTTTTTCTTTTT
1 CTTTTT-TTTTT
*
17133111 CTTATTTTTTT
1 CTTTTTTTTTT
17133122 CTTTTTTTTTT
1 CTTTTTTTTTT
17133133 TTAAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:17133562 original size:19 final size:19
Alignment explanation
Indices: 17133512--17133553 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
17133502 CCAGTAGAGG
*
17133512 TTTTTAT-TATTTTGTTTT
1 TTTTTATATTTTTTGTTTT
17133530 TTTTTATATTTTTTGTTTT
1 TTTTTATATTTTTTGTTTT
17133549 TTTTT
1 TTTTT
17133554 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.86
Consensus pattern (19 bp):
TTTTTATATTTTTTGTTTT
Found at i:17133565 original size:11 final size:10
Alignment explanation
Indices: 17133521--17133563 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
17133511 GTTTTTATTA
17133521 TTTTGTTTTT
1 TTTTGTTTTT
* *
17133531 TTTT-ATATT
1 TTTTGTTTTT
17133540 TTTTGTTTTT
1 TTTTGTTTTT
17133550 TTTTGTTTTT
1 TTTTGTTTTT
17133560 TTTT
1 TTTT
17133564 TGCCTCCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:17149890 original size:14 final size:14
Alignment explanation
Indices: 17149873--17149923 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
17149863 AATAGTAATC
17149873 AAATTTATTTAGTT
1 AAATTTATTTAGTT
*
17149887 AAATTTAATTA-TT
1 AAATTTATTTAGTT
17149900 AATCAATTTATTTAGTT
1 -A--AATTTATTTAGTT
17149917 AAATTTA
1 AAATTTA
17149924 ATTATTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (14 bp):
AAATTTATTTAGTT
Found at i:17149910 original size:30 final size:30
Alignment explanation
Indices: 17149868--17149938 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
17149858 CAAATAATAG
17149868 TAATCAAATTTATTTAGTTAAATTTAATTAT
1 TAATC-AATTTATTTAGTTAAATTTAATTAT
17149899 TAATCAATTTATTTAGTTAAATTTAATTAT
1 TAATCAATTTATTTAGTTAAATTTAATTAT
17149929 TAATC-ATTTA
1 TAATCAATTTA
17149939 CTATAAGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 5 0.12
30 30 0.75
31 5 0.12
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (30 bp):
TAATCAATTTATTTAGTTAAATTTAATTAT
Found at i:17154682 original size:7 final size:8
Alignment explanation
Indices: 17154663--17154692 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
17154653 TACTTTAAAA
17154663 AATTTTAT
1 AATTTTAT
17154671 AATTTT-T
1 AATTTTAT
17154678 AATTTTAT
1 AATTTTAT
17154686 AATTTTA
1 AATTTTA
17154693 CTTTATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:17154683 original size:15 final size:15
Alignment explanation
Indices: 17154663--17154691 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17154653 TACTTTAAAA
17154663 AATTTTATAATTTTT
1 AATTTTATAATTTTT
17154678 AATTTTATAATTTT
1 AATTTTATAATTTT
17154692 ACTTTATTTC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTATAATTTTT
Found at i:17154978 original size:27 final size:28
Alignment explanation
Indices: 17154927--17154980 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
17154917 ACATGAATTT
* *
17154927 TTTCATAAATTTTGTCATGCTAAATAAA
1 TTTCATAAAATTTATCATGCTAAATAAA
17154955 TTTCATAAAATTTAT-ATGCTAAATAA
1 TTTCATAAAATTTATCATGCTAAATAA
17154981 CATAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTCATAAAATTTATCATGCTAAATAAA
Found at i:17155148 original size:44 final size:45
Alignment explanation
Indices: 17155100--17155215 Score: 164
Period size: 44 Copynumber: 2.6 Consensus size: 45
17155090 TCCCCTCTTC
*
17155100 TTCTTCTTCTTTTTTTTTTTC-TCTTCTCATTTCCTTTTCTTTCA
1 TTCTTTTTCTTTTTTTTTTTCTTCTTCTCATTTCCTTTTCTTTCA
* * *
17155144 TTCTTTTTC-TTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTTTCTTTTTTTTTTTCTTCTTCTCATTTCCTTTTCTTTCA
* *
17155188 TTCTTTTTCTTTCTTTCTTTCTTCTTCT
1 TTCTTTTTCTTTTTTTTTTTCTTCTTCT
17155216 TTCCCTCTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 10 0.16
44 38 0.60
45 15 0.24
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.72
Consensus pattern (45 bp):
TTCTTTTTCTTTTTTTTTTTCTTCTTCTCATTTCCTTTTCTTTCA
Found at i:17155153 original size:14 final size:14
Alignment explanation
Indices: 17155100--17155218 Score: 100
Period size: 14 Copynumber: 8.2 Consensus size: 14
17155090 TCCCCTCTTC
*
17155100 TTCTTCTTCTTT-T
1 TTCTTTTTCTTTCT
*
17155113 TTTTTTTCTCTTCTCAT
1 TTCTTTT-TCTT-TC-T
* *
17155130 TTCCTTTTCTTTCA
1 TTCTTTTTCTTTCT
17155144 TTCTTTTTCTTTCT
1 TTCTTTTTCTTTCT
17155158 TT-TTTCTTCTTCTCCT
1 TTCTTT-TTCTT-T-CT
* *
17155174 TTCCTTTTCTTTCC
1 TTCTTTTTCTTTCT
17155188 TTCTTTTTCTTTCT
1 TTCTTTTTCTTTCT
17155202 TTCTTTCTTC-TTCT
1 TTCTTT-TTCTTTCT
17155216 TTC
1 TTC
17155219 CCTCTCCTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
13 8 0.09
14 49 0.57
15 8 0.09
16 13 0.15
17 8 0.09
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTTTCTTTCT
Found at i:17155227 original size:48 final size:44
Alignment explanation
Indices: 17155067--17155215 Score: 155
Period size: 44 Copynumber: 3.4 Consensus size: 44
17155057 AAAATTACCT
* * * *
17155067 TTTCTTTTTTTCTTTTTCCTTCCTCCCCTCTTC-TTC-TTCTTCTT-
1 TTTC-TTTTTTCTTCTT-C-TCCTCTCCTTTTCTTTCATTCTTTTTC
* *
17155111 TTT-TTTTTTC-TCTTCTCATTTCCTTTTCTTTCATTCTTTTTC
1 TTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCATTCTTTTTC
* *
17155153 TTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTC
1 TTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCATTCTTTTTC
17155197 TTTCTTTCTTTCTTCTTCT
1 TTTCTTT-TTTCTTCTTCT
17155216 TTCCCTCTCC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 9 0.10
40 4 0.04
41 10 0.11
42 10 0.11
43 7 0.08
44 40 0.44
45 11 0.12
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (44 bp):
TTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCATTCTTTTTC
Found at i:17161543 original size:7 final size:7
Alignment explanation
Indices: 17161531--17161555 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17161521 AGTCGATTGA
17161531 TATTTAG
1 TATTTAG
17161538 TATTTAG
1 TATTTAG
17161545 TATTTAG
1 TATTTAG
17161552 TATT
1 TATT
17161556 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:17162700 original size:25 final size:25
Alignment explanation
Indices: 17162672--17162719 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17162662 TATTTTGATA
17162672 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
17162697 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
17162720 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:17162791 original size:23 final size:23
Alignment explanation
Indices: 17162765--17163356 Score: 534
Period size: 23 Copynumber: 26.1 Consensus size: 23
17162755 AATACCCTTA
*
17162765 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
17162788 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
17162810 ACTTAAAAACCCTAA-CTCCCTT
1 AATTAAAAACCCTAACCTAATTT
*
17162832 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
17162856 AATTAACAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
17162879 AATTTAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
17162902 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
17162924 ACTTAAAAACCCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
17162946 AACTTAAAAACCCTCAACCCTAA---
1 AA-TTAAAAACCCT-AA-CCTAATTT
* *
17162969 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
17162991 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
17163015 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17163038 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
17163060 ACTTAAAAACCCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
* * *
17163082 AAATAACAACCCTAACCAAATTT
1 AATTAAAAACCCTAACCTAATTT
17163105 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17163128 AATTAAAAACCCTAAACCTAA---
1 AATTAAAAACCCT-AACCTAATTT
* **
17163149 ACTTAAAAACCCTAAGTTAATTT
1 AATTAAAAACCCTAACCTAATTT
17163172 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
17163194 ATTTAAAAACCCTCACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
17163217 AATTAAAAATCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
17163240 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * ***
17163262 ATTTAAAAACACTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
17163284 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
17163308 AATTATAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
17163331 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
17163354 AAT
1 AAT
17163357 AATTTTACTT
Statistics
Matches: 471, Mismatches: 59, Indels: 78
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.00
20 27 0.06
21 23 0.05
22 88 0.19
23 273 0.58
24 30 0.06
25 28 0.06
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:17162927 original size:91 final size:89
Alignment explanation
Indices: 17162762--17163356 Score: 588
Period size: 91 Copynumber: 6.6 Consensus size: 89
17162752 ATTAATACCC
* * *
17162762 TTAAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAA
* *
17162825 CTCCCTTAACTTAAAAACCCTAACCTAA
63 -ACCCTAAACTTAAAAACCCTAACCTAA
* * *
17162853 TTAAATTAACAACCCTAACCTAATTTAATTTAAAACCCTAACCTAATTTAATTAAAAACCTTAAA
1 TTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAAA
17162918 CCCTAAACTTAAAAACCCTAACCTAA
64 CCCTAAACTTAAAAACCCTAACCTAA
* * *
17162944 TTAACTTAAAAACCCTCAACCCTAA--ACTTAAAAACCCTAACCTAATGAACTTAAAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAACCTAATTAA-TTAAAAACCCTAA
*
17163006 A-CCTAATTAAATTAAAAACCCTAACCTAA
63 ACCCT-A--AACTTAAAAACCCTAACCTAA
* * * *
17163035 TTTAATTAAAAACCCTAAACCCTAA--ACTTAAAAACCCTAACCTAATTAAATAACAACCCT-AA
1 TTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAACCTAATTAATTAAAAACCCTAAA
* *
17163097 -CCAAATTTAATTAAAAACCCTAACCTAA
64 CCCTAA---ACTTAAAAACCCTAACCTAA
* * **
17163125 TTTAATTAAAAACCCTAAACCTAA--ACTTAAAAACCCTAAGTTAATTTAATTAAAAACCCTAAA
1 TTAAATTAAAAACCCT-AACCTAATTAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAAA
* *
17163188 CCCTAAATTTAAAAACCCTCACCTAA
64 CCCTAAACTTAAAAACCCTAACCTAA
* * *
17163214 TTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA--ATTTAAAAACACTAA
1 TTAAATTAAAAACCCTAACCTAATT-AATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAA
* *
17163277 CCCCCTTAACTTAAAAACCCTAACCTAA
63 -ACCCTAAACTTAAAAACCCTAACCTAA
* *
17163305 TTAAATTATAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 TTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCT-AATTAAT
17163357 AATTTTACTT
Statistics
Matches: 435, Mismatches: 44, Indels: 49
0.82 0.08 0.09
Matches are distributed among these distances:
87 1 0.00
88 10 0.02
89 69 0.16
90 112 0.26
91 210 0.48
92 25 0.06
93 8 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.27
Consensus pattern (89 bp):
TTAAATTAAAAACCCTAACCTAATTAATTAAAAACCCTAACCTAATTAATTAAAAACCCTAAACC
CTAAACTTAAAAACCCTAACCTAA
Found at i:17162956 original size:68 final size:68
Alignment explanation
Indices: 17162809--17163322 Score: 554
Period size: 68 Copynumber: 7.6 Consensus size: 68
17162799 TTAAACCCTA
*** * *
17162809 AACTTAAAAACCCTAA-CTCCCTTAACTTAAAAACCCT-AA-CCTAATTAAATTAACAACCCTAA
1 AACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAA
17162871 CCTAATTT
62 CCTAA-TT
* *
17162879 AA-TTTAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCTA
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
17162943 ATT
66 ATT
*
17162946 AACTTAAAAACCCTCAACCCTAA---ACTTAAAAACCCT-AA-CCTAATGAACTTAAAAACCCTA
1 AACTTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTA
17163006 ACCTAATT
61 ACCTAATT
*
17163014 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
17163079 ATT
66 ATT
* * * *
17163082 AA-ATAACAACCCTAACCAAATTTAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAAA
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA---ACTTAAAAACCCT-AA
17163144 CCT-A--
62 CCTAATT
** * *
17163148 AACTTAAAAACCCTAAGTTAATTTAATTAAAAACCCTAAACCCTAAATTTAAAAACCCTCACCTA
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
17163213 ATT
66 ATT
* * * * * **
17163216 AAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAATTTAAAAACACTAACCCC
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
*
17163281 CTT
66 ATT
* *
17163284 AACTTAAAAACCCTAACCTAATTAAATTATAAACCCTAA
1 AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
17163323 CCTAATTTAA
Statistics
Matches: 384, Mismatches: 36, Indels: 50
0.82 0.08 0.11
Matches are distributed among these distances:
65 12 0.03
66 25 0.07
67 77 0.20
68 199 0.52
69 46 0.12
70 19 0.05
71 6 0.02
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.26
Consensus pattern (68 bp):
AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTA
ATT
Found at i:17163477 original size:116 final size:116
Alignment explanation
Indices: 17163350--17163593 Score: 420
Period size: 116 Copynumber: 2.1 Consensus size: 116
17163340 CCCTAAACTA
* **
17163350 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
*
17163415 TAATAATTTT-CTATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTAC-ATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
17163466 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
17163531 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
17163582 AATTAATAATTT
1 AATTAATAATTT
17163594 CACAAACTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
115 40 0.33
116 82 0.67
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:17166976 original size:124 final size:124
Alignment explanation
Indices: 17166603--17166977 Score: 615
Period size: 124 Copynumber: 3.0 Consensus size: 124
17166593 CCCAAACATG
* *
17166603 CTACTGTAGCAAAAACGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* *
17166668 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTGAAAAAAAATTATTTCTTTCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
17166727 CGACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGC
17166792 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* *
17166851 CTACTGTAGCAAAAGCGTGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* **** *
17166916 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
17166975 CTA
1 CTA
17166978 AAAACCCTAA
Statistics
Matches: 233, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 233 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:17168071 original size:22 final size:22
Alignment explanation
Indices: 17168045--17168091 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17168035 AACCTCTACC
*
17168045 TCCGGCACCGATCCACCTCCAG
1 TCCGGCACCAATCCACCTCCAG
* * *
17168067 TCCGGTAGCAATCCACCTCCGG
1 TCCGGCACCAATCCACCTCCAG
17168089 TCC
1 TCC
17168092 TCCATGGCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.47, G:0.19, T:0.17
Consensus pattern (22 bp):
TCCGGCACCAATCCACCTCCAG
Found at i:17170044 original size:24 final size:24
Alignment explanation
Indices: 17170016--17170063 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17170006 GAATTTTTAA
* *
17170016 GTTTTAAATTTTTTAAACTGAATT
1 GTTTTAAATTGTTTAAACTCAATT
17170040 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
17170064 TTTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:17178796 original size:7 final size:7
Alignment explanation
Indices: 17178784--17178810 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17178774 TTTCATAACT
17178784 ACCCACA
1 ACCCACA
17178791 ACCCACA
1 ACCCACA
17178798 ACCCACA
1 ACCCACA
17178805 ACCCAC
1 ACCCAC
17178811 TATATCCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCCACA
Found at i:17183328 original size:40 final size:39
Alignment explanation
Indices: 17183252--17183328 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
17183242 GAATCAGTTT
**
17183252 GAGCCTTAGCCCATTTAGATACAGTCTCAGAAATACATTA
1 GAGCCTTAGCCCATTTAGATACAGAATCAG-AATACATTA
*
17183292 GAGCCTTAGCCCATATTAGATATAGAATGCAG-ATACA
1 GAGCCTTAGCCCAT-TTAGATACAGAAT-CAGAATACA
17183329 GTAAATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.59
41 10 0.31
42 3 0.09
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (39 bp):
GAGCCTTAGCCCATTTAGATACAGAATCAGAATACATTA
Found at i:17186620 original size:16 final size:15
Alignment explanation
Indices: 17186599--17186639 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
17186589 AAAGTTGATA
17186599 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
17186615 ATAATTGATATAATT
1 ATAATTAATATAATT
17186630 ATATATTAAT
1 ATA-ATTAAT
17186640 GATTATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:17199295 original size:26 final size:23
Alignment explanation
Indices: 17199249--17199295 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
17199239 TATTGTAAGC
*
17199249 AAATTCTTGGTTTGATGTTTATT
1 AAATTCTTGGTTTGATATTTATT
17199272 AAATTCTGTGTGTTATGATATTTA
1 AAATTCT-TG-GTT-TGATATTTA
17199296 CATTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 3 0.15
26 8 0.40
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (23 bp):
AAATTCTTGGTTTGATATTTATT
Found at i:17199373 original size:34 final size:34
Alignment explanation
Indices: 17199335--17199403 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
17199325 GAAAGAATTG
*
17199335 ATTTAACTTAAAGTAGTTATATGGAATTGATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
* * *
17199369 ATTTATCTTGAAGTATTTATATGGAATTCATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
17199403 A
1 A
17199404 ATAATAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (34 bp):
ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
Found at i:17199534 original size:23 final size:22
Alignment explanation
Indices: 17199459--17199541 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
17199449 GTAACATTTG
* *
17199459 ATATGCTTTAAATGCTGGCAAA
1 ATATGTTTTAAATGCTGTCAAA
* *
17199481 AGCATGTTTCAAATGCTGTCAAA
1 A-TATGTTTTAAATGCTGTCAAA
* * *
17199504 GTAGGTTTTAAATGTTGTCCAAA
1 ATATGTTTTAAATGCTGT-CAAA
17199527 ATATGTTTTAAATGC
1 ATATGTTTTAAATGC
17199542 CATCCAAAGC
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 14 0.30
23 33 0.70
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (22 bp):
ATATGTTTTAAATGCTGTCAAA
Found at i:17202175 original size:21 final size:23
Alignment explanation
Indices: 17202138--17202185 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
17202128 TGTTACATTT
17202138 AAATGCTAGCAAAAGTATG-TTC
1 AAATGCTAGCAAAAGTATGTTTC
*
17202160 AAATGCTATC-AAAGTATGTTTC
1 AAATGCTAGCAAAAGTATGTTTC
17202182 AAAT
1 AAAT
17202186 CTTGTCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (23 bp):
AAATGCTAGCAAAAGTATGTTTC
Found at i:17202239 original size:23 final size:23
Alignment explanation
Indices: 17202169--17202240 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
17202159 CAAATGCTAT
* *
17202169 CAAAGTATGTTTCAAATCTTGTC
1 CAAAGTATGTTTTAAATGTTGTC
* **
17202192 CAAAATATGTTTTAAATGTCATC
1 CAAAGTATGTTTTAAATGTTGTC
* *
17202215 CAAAGCATGTTTTAAGTGTTGTC
1 CAAAGTATGTTTTAAATGTTGTC
17202238 CAA
1 CAA
17202241 GTTGGACATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (23 bp):
CAAAGTATGTTTTAAATGTTGTC
Found at i:17202360 original size:105 final size:105
Alignment explanation
Indices: 17202227--17202660 Score: 710
Period size: 105 Copynumber: 4.2 Consensus size: 105
17202217 AAGCATGTTT
* *
17202227 TAAGTG-TTGTCC-AAGTTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* ***
17202290 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGTGGA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAAGCAAA
* * *
17202330 TAAGTGATTTTGCAAAGCTGGACATTTCTATTATGATTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* *
17202395 AAGTGTTTATGTCGATTTTAATGCTGATATTATAAGAAAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAAGCAAA
17202435 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
*
17202500 AAGTGTTTATGTCGATTTTAATGCTGATATTATAAGCAAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAAGCAAA
* *
17202540 TAAGTGTTTTTCCAATGCTGGACATTTCTATCATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* *
17202605 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCGAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAAGCAAA
17202645 TAAGTGTTTTTCCAAA
1 TAAGTGTTTTTCCAAA
17202661 ACAAACTATA
Statistics
Matches: 310, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
103 6 0.02
104 4 0.01
105 300 0.97
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (105 bp):
TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
AAGTGTTTATGTCGATTTTAATGCTAATATTATAAGCAAA
Found at i:17205435 original size:49 final size:49
Alignment explanation
Indices: 17205379--17205477 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
17205369 TGCGACAGCT
* * *
17205379 AATGTCTGCTTTGTTGAACTTCATGATATGGCAATACCTCAACATGTAA
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAATACCCCAACAAGTAA
* * *
17205428 AATGTCTGCTTTGTTGAACGTCATGATGTGGTAGTACCCCAACAAGTAA
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAATACCCCAACAAGTAA
17205477 A
1 A
17205478 TAAATATCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (49 bp):
AATGTCTGCTTTGTTGAACGTCATGATATGGCAATACCCCAACAAGTAA
Found at i:17209608 original size:98 final size:98
Alignment explanation
Indices: 17209439--17209616 Score: 347
Period size: 98 Copynumber: 1.8 Consensus size: 98
17209429 TTCCATAGGT
17209439 TTATCAACACAAATGTACATACTAATATGTTTTCAGCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTCAGCCAAATACATTATTTAATTATAAAACCTA
17209504 CTATAGAAATATAAACCATAATACATTATTTAA
66 CTATAGAAATATAAACCATAATACATTATTTAA
*
17209537 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTCAGCCAAATACATTATTTAATTATAAAACCTA
17209602 CTATAGAAATATAAA
66 CTATAGAAATATAAA
17209617 AAAGTCAATC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (98 bp):
TTATCAACACAAATGTACATACTAATATGTTTTCAGCCAAATACATTATTTAATTATAAAACCTA
CTATAGAAATATAAACCATAATACATTATTTAA
Found at i:17225281 original size:32 final size:32
Alignment explanation
Indices: 17225240--17225304 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
17225230 ATAGACACCG
17225240 AAGAGAAGGATAGTGAGGAAAATAAGAAAGAA
1 AAGAGAAGGATAGTGAGGAAAATAAGAAAGAA
17225272 AAGAGAAGGATAGTGAGGAAAATAAGAAAGAA
1 AAGAGAAGGATAGTGAGGAAAATAAGAAAGAA
17225304 A
1 A
17225305 TGGAAGTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (32 bp):
AAGAGAAGGATAGTGAGGAAAATAAGAAAGAA
Found at i:17228049 original size:15 final size:14
Alignment explanation
Indices: 17228029--17228060 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
17228019 CACATCCCAA
17228029 AAATTGGGTTAGTAG
1 AAATTGGGTTAGT-G
17228044 AAATTGGGTTAGTG
1 AAATTGGGTTAGTG
17228058 AAA
1 AAA
17228061 CCCAGAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (14 bp):
AAATTGGGTTAGTG
Found at i:17235268 original size:16 final size:16
Alignment explanation
Indices: 17235247--17235277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17235237 GGCGAAAATA
*
17235247 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
17235263 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
17235278 AGAAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:17235401 original size:30 final size:31
Alignment explanation
Indices: 17235362--17235421 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17235352 AGAGGTGTGA
*
17235362 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
17235393 TGGG-AGGGACTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
17235422 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:17235649 original size:9 final size:9
Alignment explanation
Indices: 17235635--17235689 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
17235625 TATAGTTTAA
17235635 TATTCGAAT
1 TATTCGAAT
17235644 TATTCGAAT
1 TATTCGAAT
*
17235653 TATTCGAGT
1 TATTCGAAT
17235662 TATTCGAAT
1 TATTCGAAT
*
17235671 TATTCGAGT
1 TATTCGAAT
17235680 TATTCGAAT
1 TATTCGAAT
17235689 T
1 T
17235690 CGAAAATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17239033 original size:23 final size:23
Alignment explanation
Indices: 17239007--17239054 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17238997 AGAAAGAAGA
17239007 AAGTGGGGATTACAAAAGGGATG
1 AAGTGGGGATTACAAAAGGGATG
17239030 AAGTGGGGATTACAAAAGGGATG
1 AAGTGGGGATTACAAAAGGGATG
17239053 AA
1 AA
17239055 TGAGTTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.38, T:0.17
Consensus pattern (23 bp):
AAGTGGGGATTACAAAAGGGATG
Found at i:17244095 original size:15 final size:15
Alignment explanation
Indices: 17244071--17244100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17244061 CACCCCAGTC
*
17244071 ACAGATACAGAAATA
1 ACAGACACAGAAATA
17244086 ACAGACACAGAAATA
1 ACAGACACAGAAATA
17244101 TCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (15 bp):
ACAGACACAGAAATA
Found at i:17244322 original size:18 final size:18
Alignment explanation
Indices: 17244299--17244335 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17244289 TTTAAAATTA
*
17244299 TGGGCTCACATGCTCGTG
1 TGGGCTCACATGCCCGTG
17244317 TGGGCTCACATGCCCGTG
1 TGGGCTCACATGCCCGTG
17244335 T
1 T
17244336 AGGCCCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.30, G:0.32, T:0.27
Consensus pattern (18 bp):
TGGGCTCACATGCCCGTG
Found at i:17245061 original size:5 final size:5
Alignment explanation
Indices: 17245051--17245076 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17245041 TGAAAACGAA
17245051 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
17245077 TGTTATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:17257966 original size:27 final size:27
Alignment explanation
Indices: 17257878--17257968 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
17257868 CCTCACGTGC
**
17257878 TAAAATGGGTATTATGCCCCTA-AGTTA
1 TAAAATGACTATTATGCCCCTATA-TTA
* ** * *
17257905 TAAAACGACGGTTATGCCCCAATGTTA
1 TAAAATGACTATTATGCCCCTATATTA
17257932 TAAAATGACTATTATGCCCCTATATTA
1 TAAAATGACTATTATGCCCCTATATTA
17257959 TAAAATGACT
1 TAAAATGACT
17257969 TATGCTTAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCCTATATTA
Found at i:17258293 original size:34 final size:34
Alignment explanation
Indices: 17258240--17258304 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
17258230 GCATGTCTGA
* * *
17258240 ACTGTTACTGTCACTGTAATGGGCTAGGGCCTAC
1 ACTGATACTATCACTGTAATGGGCTAAGGCCTAC
17258274 ACTGATACTATCACTGTAATGGGCTAAGGCC
1 ACTGATACTATCACTGTAATGGGCTAAGGCC
17258305 CAACTGAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGATACTATCACTGTAATGGGCTAAGGCCTAC
Found at i:17264284 original size:33 final size:33
Alignment explanation
Indices: 17264247--17264311 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
17264237 TAGGAGGAGT
*
17264247 TAATTAAGGAATTTTAGAGGTTATCAGAAAATC
1 TAATTAAGGAATTCTAGAGGTTATCAGAAAATC
17264280 TAATTAAGGAATTCTAGAGGTTATCAGAAAAT
1 TAATTAAGGAATTCTAGAGGTTATCAGAAAAT
17264312 TTGGTAGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.32
Consensus pattern (33 bp):
TAATTAAGGAATTCTAGAGGTTATCAGAAAATC
Found at i:17265442 original size:27 final size:27
Alignment explanation
Indices: 17265380--17265581 Score: 275
Period size: 27 Copynumber: 7.5 Consensus size: 27
17265370 ACCCCCAAAG
* *
17265380 TGTTCTAAAATGACTGTTATG-CCCTCA
1 TGTTATAAAATGACTATTATGCCCCT-A
* ** * *
17265407 CGTGGTAAAATAACTATTATGCTCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
*
17265434 TGTTATAAAATGAATATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
*
17265461 TGTTATAAAATGA-TGGTTATGCCCCTA
1 TGTTATAAAATGACT-ATTATGCCCCTA
17265488 TGTTATAAAATGAC-AGTTATGCCCCTA
1 TGTTATAAAATGACTA-TTATGCCCCTA
17265515 TGTTATAAAATGACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
17265542 TGTTATAAAATGACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
17265569 TGTTATAAAATGA
1 TGTTATAAAATGA
17265582 TTGTATGCTT
Statistics
Matches: 156, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
26 1 0.01
27 151 0.97
28 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (27 bp):
TGTTATAAAATGACTATTATGCCCCTA
Found at i:17265906 original size:34 final size:34
Alignment explanation
Indices: 17265858--17265922 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
17265848 GCATGTCTGA
* *
17265858 ACTGTTACTGTCACTGTAATAGGCTAGGGCCTAC
1 ACTGATACTGTCACTGTAATAGGCTAAGGCCTAC
*
17265892 ACTGATACTGTCACTGTAATGGGCTAAGGCC
1 ACTGATACTGTCACTGTAATAGGCTAAGGCC
17265923 CAACTGAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGATACTGTCACTGTAATAGGCTAAGGCCTAC
Found at i:17270784 original size:22 final size:22
Alignment explanation
Indices: 17270720--17270785 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 22
17270710 ATCTGCATCG
*
17270720 TTGAGTGGTTTATCCACACCAT
1 TTGAGTGGTTTATTCACACCAT
* *
17270742 TTGAGTAGCTTTTATTTACACCAT
1 TTGAGT-G-GTTTATTCACACCAT
17270766 TTGAGTGGTTTATTCACACC
1 TTGAGTGGTTTATTCACACC
17270786 GTATTAGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
TTGAGTGGTTTATTCACACCAT
Found at i:17270839 original size:45 final size:44
Alignment explanation
Indices: 17270767--17270852 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
17270757 TTACACCATT
** * * *
17270767 TGAGTGGTTTATTCACACCGTATTAGCAACTTTTATCTGCAACAA
1 TGAGTGGTTTAACCACACCATACTAGC-ACTTTAATCTGCAACAA
* *
17270812 TGAGTGGTTTAACCACACTATACTAGCAGTTTAATCTGCAA
1 TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAA
17270853 ACATGTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 12 0.35
45 22 0.65
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAACAA
Found at i:17270964 original size:18 final size:19
Alignment explanation
Indices: 17270940--17270998 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 19
17270930 CTTTTTTTAC
*
17270940 TAGTGGTTTATTCACAACA
1 TAGTGGTTTATCCACAACA
*
17270959 -AGTGGTTCATCCACAACAA
1 TAGTGGTTTATCCACAAC-A
17270978 TTAGTGGTTTATCCACAACA
1 -TAGTGGTTTATCCACAACA
17270998 T
1 T
17270999 GGTGTAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.44
19 2 0.06
20 1 0.03
21 16 0.47
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (19 bp):
TAGTGGTTTATCCACAACA
Found at i:17274218 original size:16 final size:15
Alignment explanation
Indices: 17274197--17274230 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17274187 AAGGAAACAT
17274197 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
17274213 AATAATTCAATATAA
1 AATAATTAAATATAA
17274228 AAT
1 AAT
17274231 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:17274962 original size:13 final size:13
Alignment explanation
Indices: 17274946--17274986 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 13
17274936 ATGTTAGTGG
17274946 AAGTATTAGTGAA
1 AAGTATTAGTGAA
17274959 AAGTATTTATTGTGAA
1 AAGTA-TTA--GTGAA
17274975 AAGTATTAGTGA
1 AAGTATTAGTGA
17274987 GTGATCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.36
14 3 0.12
15 3 0.12
16 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (13 bp):
AAGTATTAGTGAA
Found at i:17274975 original size:16 final size:17
Alignment explanation
Indices: 17274949--17274981 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
17274939 TTAGTGGAAG
17274949 TATTAGTGAAAAGTATT
1 TATTAGTGAAAAGTATT
17274966 TATT-GTGAAAAGTATT
1 TATTAGTGAAAAGTATT
17274982 AGTGAGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (17 bp):
TATTAGTGAAAAGTATT
Found at i:17275566 original size:98 final size:98
Alignment explanation
Indices: 17275397--17275693 Score: 447
Period size: 98 Copynumber: 3.0 Consensus size: 98
17275387 ATACAATAAA
* * *
17275397 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
17275462 CCTTTAGAATCCTAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCTAAACTCGGAATATTTCCTTT
*
17275495 ACTTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
17275560 CCTTTAGAAT-CTCAAACTCGGAATATTTCCTTCAT
66 CCTTTAGAATCCT-AAACTCGGAATATTTCCTT--T
**
17275595 GA-TTTAAAAGAA-AGTCTGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAA
1 -ACTTTAAAAGAACA-TCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAA
* * *
17275658 TTCCTTTAAAATCCCAAACTCGGAATATTGCCTTT
64 TTCCTTTAGAATCCTAAACTCGGAATATTTCCTTT
17275693 A
1 A
17275694 TGATTTTTAA
Statistics
Matches: 184, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
97 3 0.02
98 91 0.49
99 1 0.01
100 87 0.47
101 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAGAATCCTAAACTCGGAATATTTCCTTT
Found at i:17275653 original size:100 final size:98
Alignment explanation
Indices: 17275399--17275699 Score: 446
Period size: 100 Copynumber: 3.0 Consensus size: 98
17275389 ACAATAAAAC
* * * *
17275399 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
17275464 TTTAGAATCCTAAACTCGGAATATTTCCTT-T-A
66 TTTAGAATCC-AAACTCGGAATATTTCCTTATGA
17275496 CTTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 -TTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
17275561 CTTTAGAATCTCAAACTCGGAATATTTCCTTCATGA
65 CTTTAGAATC-CAAACTCGGAATATTTCCTT-ATGA
**
17275597 TTTAAAAGAA-AGTCTGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 TTTAAAAGAACA-TCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
17275661 CTTTAAAATCCCAAACTCGGAATATTGCCTTTATGA
65 CTTTAGAAT-CCAAACTCGGAATATTTCC-TTATGA
17275697 TTT
1 TTT
17275700 TTAAAAAATC
Statistics
Matches: 188, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
98 89 0.47
99 2 0.01
100 93 0.49
101 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAGAATCCAAACTCGGAATATTTCCTTATGA
Found at i:17276446 original size:26 final size:25
Alignment explanation
Indices: 17276403--17276452 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
17276393 ATATTAATTG
* *
17276403 AAAAATATAATATGTACATATATAT
1 AAAAAAATAATATATACATATATAT
17276428 AAAAAAATAATTATATACATATATA
1 AAAAAAATAA-TATATACATATATA
17276453 GATTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAAAAATAATATATACATATATAT
Found at i:17278778 original size:10 final size:10
Alignment explanation
Indices: 17278751--17278817 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
17278741 ACTAAAATAA
*
17278751 AAATTAAATT
1 AAATTAAAAT
* *
17278761 GAACTAAAAT
1 AAATTAAAAT
17278771 AAATTAAAAT
1 AAATTAAAAT
17278781 AAATTAAAA-
1 AAATTAAAAT
*
17278790 ATAATTAATTAT
1 A-AATTAA-AAT
*
17278802 AAAATTAAATT
1 -AAATTAAAAT
17278813 AAATT
1 AAATT
17278818 GAAGAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 35 0.78
11 2 0.04
12 6 0.13
13 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:17278803 original size:21 final size:22
Alignment explanation
Indices: 17278766--17278810 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17278756 AAATTGAACT
17278766 AAAATAAATTAAAAT-AAATTA
1 AAAATAAATTAAAATAAAATTA
*
17278787 AAAAT-AATTAATTATAAAATTA
1 AAAATAAATTAA-AATAAAATTA
17278809 AA
1 AA
17278811 TTAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATTAAAATAAAATTA
Found at i:17279011 original size:15 final size:15
Alignment explanation
Indices: 17278991--17279020 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17278981 TTGATTTCAC
17278991 ATGAAAATCCCCTTA
1 ATGAAAATCCCCTTA
17279006 ATGAAAATCCCCTTA
1 ATGAAAATCCCCTTA
17279021 GTAAAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
ATGAAAATCCCCTTA
Found at i:17285519 original size:50 final size:49
Alignment explanation
Indices: 17285459--17285633 Score: 180
Period size: 50 Copynumber: 3.5 Consensus size: 49
17285449 GATGGTCACG
17285459 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AAGATAGGTCGCA
* * *
17285509 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-G--GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGATAG-GTCG--CA
* * * *
17285558 CGTGT-GTACTATGTGCAGGCTTCTACGTGTATCAGATAG-TGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AGAT-A-GGTCGCA
*
17285608 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
17285634 TGTGAACCGG
Statistics
Matches: 102, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
48 24 0.24
49 8 0.08
50 38 0.37
51 19 0.19
52 4 0.04
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGATAGGTCGCA
Found at i:17285643 original size:99 final size:99
Alignment explanation
Indices: 17285460--17285643 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
17285450 ATGGTCACGT
*
17285460 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGCATGTGTAGTACTATGTG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACTATGTG
*
17285525 CAGGCTACTATGCGTACCGGATAGCTTCGATCAC
66 CAGGCTACTATGCGAACCGGATAGCTTCGATCAC
* * *
17285559 GTGT-GTACTATGTGCAGGCTTCTACGTGTATCAGATAG-TGATGGTCACATGTGTAGTACTATG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGAT-A-GGTCACATGTGTAGTACTATG
* *
17285622 TGTAGGCTACTATGTGAACCGG
64 TGCAGGCTACTATGCGAACCGG
17285644 TATCATTAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 1 0.01
98 32 0.42
99 43 0.57
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (99 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCACATGTGTAGTACTATGTG
CAGGCTACTATGCGAACCGGATAGCTTCGATCAC
Found at i:17285905 original size:37 final size:38
Alignment explanation
Indices: 17285836--17285908 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
17285826 ATGAATGGAA
* **
17285836 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
17285874 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
17285909 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:17291941 original size:22 final size:22
Alignment explanation
Indices: 17291909--17291993 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 22
17291899 TTATTAGTTA
*
17291909 ATGTTTCACGTACTAAGCTCTC
1 ATGTTTAACGTACTAAGCTCTC
17291931 ATGTTTAACGTACTAAGCTCTC
1 ATGTTTAACGTACTAAGCTCTC
* * *
17291953 ATGTTTAACGAACTAAACCCTC
1 ATGTTTAACGTACTAAGCTCTC
**
17291975 ATGGCTAACGTACTAAGCT
1 ATGTTTAACGTACTAAGCT
17291994 ATATGAAATG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (22 bp):
ATGTTTAACGTACTAAGCTCTC
Found at i:17297147 original size:18 final size:17
Alignment explanation
Indices: 17297124--17297158 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17297114 ACCCATGTTG
17297124 CATGCCCATGTGAGCCCA
1 CATGCCCATGTG-GCCCA
*
17297142 CATGCCCGTGTGGCCCA
1 CATGCCCATGTGGCCCA
17297159 AAATGGCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (17 bp):
CATGCCCATGTGGCCCA
Found at i:17301081 original size:62 final size:63
Alignment explanation
Indices: 17300929--17301082 Score: 175
Period size: 62 Copynumber: 2.5 Consensus size: 63
17300919 ATTTATATGC
** * * * * *
17300929 TACACGGCCTAGACACACGCCTATGTCCTCTGCTTGTGTGGTTTTAAAACATAAATAGTGAGT
1 TACACGGCCTAGACACACGCCTATGTCCTAGGCTCGTGTGGTCTTAAAACACAAACAGAGAGT
* * **
17300992 TACACGGCCTGGACACACGCCCATGTCCTAGGC-CGTGTGGTCTTAAGTCACAAACAGAGAGT
1 TACACGGCCTAGACACACGCCTATGTCCTAGGCTCGTGTGGTCTTAAAACACAAACAGAGAGT
* * *
17301054 TACACGGCTTAGACACATGCCTGTGTCCT
1 TACACGGCCTAGACACACGCCTATGTCCT
17301083 TGCCCATGTG
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
62 46 0.61
63 29 0.39
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (63 bp):
TACACGGCCTAGACACACGCCTATGTCCTAGGCTCGTGTGGTCTTAAAACACAAACAGAGAGT
Found at i:17301907 original size:128 final size:128
Alignment explanation
Indices: 17301749--17302012 Score: 433
Period size: 128 Copynumber: 2.1 Consensus size: 128
17301739 TATGGAAGCA
*
17301749 AGCAAAAAGATAAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAATGG
1 AGCAAAAAGATAAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
* * * *
17301814 AAAGAATGATAGAATTAATTCAGAATGATTTAAG-TTAACCACCAACTAGCCTTCCGGCGTTT
66 AAAGAATGATAGAATTAATTCAAAATGATTTAAGTTTAACCACCAACCAGCCTTCCAGCATTT
17301876 AG-AAAAAGATAAAAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAG
1 AGCAAAAAGAT--AAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAG
* *
17301940 GGAAAGAATGGTAGAATTAATTCAAAATGATTTAAGTTTAACCATCAACCAGCCTTCCAGCATTT
64 GGAAAGAATGATAGAATTAATTCAAAATGATTTAAGTTTAACCACCAACCAGCCTTCCAGCATTT
17302005 AGCAAAAA
1 AGCAAAAA
17302013 TATTTCCCTA
Statistics
Matches: 126, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
126 8 0.06
127 2 0.02
128 85 0.67
129 26 0.21
130 5 0.04
ACGTcount: A:0.55, C:0.11, G:0.18, T:0.16
Consensus pattern (128 bp):
AGCAAAAAGATAAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
AAAGAATGATAGAATTAATTCAAAATGATTTAAGTTTAACCACCAACCAGCCTTCCAGCATTT
Found at i:17304283 original size:6 final size:6
Alignment explanation
Indices: 17304272--17304312 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
17304262 AAATTATAAT
*
17304272 ATATTA ATATTA CTATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
17304313 CATAACATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:17305137 original size:31 final size:31
Alignment explanation
Indices: 17305053--17305137 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
17305043 GTAATTTGAT
* * *
17305053 ACATG-AACTTTAA-TTTGATGCAATTATAT
1 ACATGAAACTTTAATTTTGATTCAAATATAA
* * * *
17305082 ATATGAAACTTTGATTGTGGTTCAAATATAA
1 ACATGAAACTTTAATTTTGATTCAAATATAA
17305113 ACATGAAACTTTAATTTTGATTCAA
1 ACATGAAACTTTAATTTTGATTCAA
17305138 TCATACATGT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
29 4 0.09
30 7 0.16
31 32 0.74
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (31 bp):
ACATGAAACTTTAATTTTGATTCAAATATAA
Found at i:17306245 original size:93 final size:95
Alignment explanation
Indices: 17306128--17306300 Score: 219
Period size: 94 Copynumber: 1.8 Consensus size: 95
17306118 ACCACAATAA
* * * * * * *
17306128 TAATTAATTTGTATTTGAACCCTATAATTTATATAAATTTTGCA-ATT-G-ATTTGCACAAACAC
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTAT-AAGATTGGTATTCGCA-AAACAC
*
17306190 GTGTAATTTTAAGAACTATGAACGCATGACGT
64 GTGTAATATTAAGAACTATGAACGCATGACGT
*
17306222 TAATAAATTT-TATTTGAATCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
17306286 GTAATATTAAGAACT
66 GTAATATTAAGAACT
17306301 GCAGACGAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 1 0.01
93 28 0.42
94 32 0.48
95 6 0.09
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (95 bp):
TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
GTAATATTAAGAACTATGAACGCATGACGT
Found at i:17306431 original size:97 final size:97
Alignment explanation
Indices: 17306278--17306457 Score: 218
Period size: 97 Copynumber: 1.9 Consensus size: 97
17306268 GGTATTCGCA
* ** ** * *
17306278 AAACACGTGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATGGTTTGTATTTGAA-CTCT
1 AAACACGTGTAATATTAAGAACTACAGACGAATAAATGAAGACAATAATTTATATTTGAATC-CC
17306342 AAAAATCAAATAAATTATACTATCGATTTTCAC
65 AAAAATCAAATAAATTATACTATCGATTTTCAC
* * * * *
17306375 AAACATGTGTAATATTGAGAACTACATATGAATAAATGACGACAATAATTTATATTTGAATCCCA
1 AAACACGTGTAATATTAAGAACTACAGACGAATAAATGAAGACAATAATTTATATTTGAATCCCA
* *
17306440 AAAATTAAATAAGTTATA
66 AAAATCAAATAAATTATA
17306458 AAATTGTTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
97 67 0.99
98 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (97 bp):
AAACACGTGTAATATTAAGAACTACAGACGAATAAATGAAGACAATAATTTATATTTGAATCCCA
AAAATCAAATAAATTATACTATCGATTTTCAC
Found at i:17306661 original size:288 final size:288
Alignment explanation
Indices: 17306280--17306832 Score: 790
Period size: 288 Copynumber: 1.9 Consensus size: 288
17306270 TATTCGCAAA
* *
17306280 ACACGTGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATGGTTTGTATTTGAACTCTAAA
1 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATGGTTTGTATTTGAACACTAAA
* * * * *
17306345 AATCAAATAAATTATACTATCGATTTTCACAAACATGTGTAATATTGAGAACTACATATGAATAA
66 AATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAATAA
* *
17306410 ATGACGACAATAATTTATATTTGAATCCCAAAAATTAAATAAGTTATAAAATTGTTCTTTGCAAA
131 ATGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCAAA
* * * **
17306475 ACATGTGCAATATTAAGAACAACATAAGATTTAAT-AAAGATC-AGTTTTTTATTTGGAAATCTA
196 ACACGTGCAATATTAAAAACAACATAAGATTTAATGAAA-ATCGA-TTTCTTATTTAAAAATCTA
*
17306538 GGGTGATATTTATCATCTAATTCATATCAC
259 AGGTGATATTTATCATCTAATTCATATCAC
17306568 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGACT-ATGGTTTGTAGTTT-AACACTA
1 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGA-TGATGGTTTGTA-TTTGAACACTA
* * * * * * * *
17306631 GAAATCAAATCAATTATAGGATTAATTTTCACAAATACGTGTAATACTAAGAACTGCGTATGATT
64 AAAATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAAT
* * * *
17306696 GAATGAATACAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGTTCTTTGCA
129 AAATGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCA
*
17306761 AAACACGTGCAATATTAAAAACGACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTA
194 AAACACGTGCAATATTAAAAACAACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTA
17306826 AGGTGAT
259 AGGTGAT
17306833 GTGTATCACT
Statistics
Matches: 233, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
288 225 0.97
289 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (288 bp):
ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATGGTTTGTATTTGAACACTAAA
AATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAATAA
ATGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCAAA
ACACGTGCAATATTAAAAACAACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTAAG
GTGATATTTATCATCTAATTCATATCAC
Found at i:17311337 original size:195 final size:195
Alignment explanation
Indices: 17311051--17311406 Score: 452
Period size: 195 Copynumber: 1.8 Consensus size: 195
17311041 AATTTAAAGA
*
17311051 ACTACATATGAATGAATGACGACAATAATTTCTATTTGAATCCTATAAATTAAATAAACTATATG
1 ACTACATATGAATGAATGACGACAATAATTTATATTTGAATCCTATAAATTAAATAAACTATATG
** * * * * *
17311116 ATTGATGTTGACAAAACCCATGTAATATTGAGAACAACATAAAAATAAATGAAGACGATGGTTTG
66 ATCCATCTTGACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGGTTTG
*
17311181 TATTTGAACTCTA-AATATCAAATCAATTATACGGTCAATCTTCACAAACATGAGTAATATTGAT
131 TATTTGAACACTAGAA-ATCAAATCAATTATACGGTCAATCTTCACAAACATGAGTAATATTGAT
17311245 T
195 T
* * *
17311246 ACTACATATGAAT-ACATGACGATAATAATTTATATTTGAAT-CTCGTAAATTAAATAAATTATA
1 ACTACATATGAATGA-ATGACGACAATAATTTATATTTGAATCCT-ATAAATTAAATAAACTAT-
* ** * * *
17311309 AT-ATCCATCTTCG-CAAAACACGTGTAATAATAAGAACTGCATAAGAACCAATGAAGACTATGG
63 ATGATCCATCTT-GACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGG
* *
17311372 TTTTTATTTTAACACTAGAAATCAAATCAATTATA
127 TTTGTATTTGAACACTAGAAATCAAATCAATTATA
17311407 ATACTCTTTG
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
194 3 0.02
195 128 0.94
196 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (195 bp):
ACTACATATGAATGAATGACGACAATAATTTATATTTGAATCCTATAAATTAAATAAACTATATG
ATCCATCTTGACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGGTTTG
TATTTGAACACTAGAAATCAAATCAATTATACGGTCAATCTTCACAAACATGAGTAATATTGATT
Found at i:17312342 original size:26 final size:27
Alignment explanation
Indices: 17312294--17312348 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 27
17312284 TTTTAGACAT
17312294 ATTCATAACCATATATATGTGATTTTGG
1 ATTCATAACCA-ATATATGTGATTTTGG
17312322 ATTCATAACC-ATATATGTGATTTTGG
1 ATTCATAACCAATATATGTGATTTTGG
17312348 A
1 A
17312349 CAACACAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.63
28 10 0.37
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTCATAACCAATATATGTGATTTTGG
Found at i:17313124 original size:26 final size:26
Alignment explanation
Indices: 17313088--17313140 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17313078 GGGGGGACAT
17313088 ATTCATAACCAAATATGTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
17313114 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
17313140 A
1 A
17313141 CAACTCAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:17315449 original size:17 final size:17
Alignment explanation
Indices: 17315427--17315466 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17315417 TTAGGCCGTA
17315427 TGGGCCACAC-AGGCGTG
1 TGGGCCACACGA-GCGTG
17315444 TGGGCCACACGAGCGTG
1 TGGGCCACACGAGCGTG
17315461 TGGGCC
1 TGGGCC
17315467 TACATGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.15, C:0.30, G:0.42, T:0.12
Consensus pattern (17 bp):
TGGGCCACACGAGCGTG
Found at i:17316446 original size:28 final size:28
Alignment explanation
Indices: 17316407--17316476 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
17316397 ATATGCAGTA
* * *
17316407 ACAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
17316434 ACAGTAACAGTGTGAGATTTAGCCCAAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
17316462 ACAATAACAGTGTGA
1 ACAGTAACAGTGTGA
17316477 TAATGCAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGAGACTTAGCCCAAT
Found at i:17316598 original size:26 final size:26
Alignment explanation
Indices: 17316569--17316623 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
17316559 CAACACCCAA
*
17316569 TATCGCAGCAAAGCTGGCAGTAAAAG
1 TATCGCAGCAAAGCTGCCAGTAAAAG
* *
17316595 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAAAAG
17316621 TAT
1 TAT
17316624 ATGTGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAAAAG
Found at i:17316830 original size:27 final size:27
Alignment explanation
Indices: 17316800--17317102 Score: 283
Period size: 27 Copynumber: 11.4 Consensus size: 27
17316790 TCGACTCCTA
** * *
17316800 GGGGTATAACAGTCATTTTA-TCTTATG
1 GGGGTATTTCAGTCATTTTACCCTT-CG
*
17316827 GGGGTATTTTAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
17316854 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* **
17316881 GGGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCCTTCG
** * *
17316908 GGGGTATTTTGGTCA-TTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
17316934 GGGGTATTTCAGTCATTTTACCCTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * **
17316961 GAGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* **
17316988 GGGGTATTTCAGTTA-TTTA-CCTTTT
1 GGGGTATTTCAGTCATTTTACCCTTCG
** * * * *
17317013 AAGGTATTTCGGCCATTTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* **
17317040 GGGGTATTTTAGTCATTTTACATTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
17317067 GGGGCATTTCAGTCA-TTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCG
17317093 GGGGTATTTC
1 GGGGTATTTC
17317103 GGGCTTACCA
Statistics
Matches: 228, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
25 15 0.07
26 47 0.21
27 163 0.71
28 3 0.01
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:17316868 original size:54 final size:54
Alignment explanation
Indices: 17316799--17317102 Score: 330
Period size: 54 Copynumber: 5.7 Consensus size: 54
17316789 TTCGACTCCT
** * *
17316799 AGGGGTATAACAGTCATTTTA-TCTTATGGGGGTATTTTAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTT-TGGGGGTATTTCAGTCATTTTACCCTTC
* * * *
17316853 GGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTT
1 AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTC
** *
17316907 AGGGGTATTTTGGTCA-TTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTC
* * * * * *
17316960 AGAGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTCAGTTA-TTTACCTTTT
1 AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTC
* * * * * **
17317013 A-AGGTATTTCGGCCATTTTACCTTTTGGGGGTATTTTAGTCATTTTACATTTC
1 AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTC
* *
17317066 GGGGGCATTTCAGTCA-TTTACCCTTTGGGGGTATTTC
1 AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTC
17317103 GGGCTTACCA
Statistics
Matches: 210, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
52 36 0.17
53 83 0.40
54 88 0.42
55 3 0.01
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (54 bp):
AGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTC
Found at i:17316959 original size:80 final size:80
Alignment explanation
Indices: 17316827--17317102 Score: 340
Period size: 80 Copynumber: 3.5 Consensus size: 80
17316817 TTATCTTATG
* *
17316827 GGGGTATTTTAGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCG
1 GGGGTATTTCAGTCA-TTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCG
17316892 GTCATTTTACCCTTTA
65 GTCATTTTACCCTTTA
** * * *
17316908 GGGGTATTTTGGTCATTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCAGAGGTATTTCGG
1 GGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGG
17316973 TCATTTTACCCTTTA
66 TCATTTTACCCTTTA
* *** * * * * **
17316988 GGGGTATTTCAGTTATTTA-CCTTTTAAGGTATTTCGGCCATTTTACCTTTTGGGGGTATTTTAG
1 GGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGG
* *
17317052 TCATTTTA-CATTTCG
66 TCATTTTACCCTTT-A
*
17317067 GGGGCATTTCAGTCATTTACCCTTTGGGGGTATTTC
1 GGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTC
17317103 GGGCTTACCA
Statistics
Matches: 166, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
78 4 0.02
79 58 0.35
80 90 0.54
81 14 0.08
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (80 bp):
GGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGG
TCATTTTACCCTTTA
Found at i:17319719 original size:194 final size:194
Alignment explanation
Indices: 17319262--17319731 Score: 471
Period size: 194 Copynumber: 2.4 Consensus size: 194
17319252 CAATAATAAT
* * * * * * * ** * *
17319262 TAATTTCTATTTGAATCCTATAAATTAAATAAACTATATGATTGATATTGACAAAACAGGTGTAC
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTCATCTTCACAAAACACATGCAA
* * *
17319327 TATTGAGAATTGCATAAGAATAAATAAAGACGATGGTTTGTATTTAAACTCTAAAAATCAAATCA
66 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTAAACACTAAAAATCAAATCA
* ** * ** *
17319392 ATTATACGATCGATCTTCACAACACGAGTAATATTGATAACTACATATGAATACATGATGATAA
131 ATTATACGATCAATCTTCACAACACGAGTAATATAAAGAACTACATATGAATACATGAACACAA
* * * * * *
17319456 TAATTTATATTTTAATCTCGTAAATTAAATAAATTATAATATTCATCTTCACAAAACACGTGTAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTCATCTTCACAAAACACATGCAA
* * * * *
17319521 TATTAAGCACTGCATAAGAGTAAATGAAGACTATGGTTTGTGTATT-AACACTAAAAATCAAATC
66 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTAT-TTAAACACTAAAAATCAAATC
* * * * * * *
17319585 AATTATCCGATCAATCTTCACAAGTACGTGTAACT-TAAAGAATTGCGTCTGAATGA-ATGAACA
130 AATTATACGATCAATCTTCACAA-CACGAGTAA-TATAAAGAACTACATATGAAT-ACATGAACA
17319648 CAA
192 CAA
** ***
17319651 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGTTCTT-TTTAAACACATGCAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTCATCTTCACAAAACACATGCAA
*
17319715 TATTAAGAACCGCATAA
66 TATTAAGAACTGCATAA
17319732 TTAAAGATTT
Statistics
Matches: 224, Mismatches: 48, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
194 151 0.67
195 71 0.32
196 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (194 bp):
TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTCATCTTCACAAAACACATGCAA
TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTAAACACTAAAAATCAAATCA
ATTATACGATCAATCTTCACAACACGAGTAATATAAAGAACTACATATGAATACATGAACACAA
Found at i:17324893 original size:32 final size:32
Alignment explanation
Indices: 17324857--17324920 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17324847 ACTTTTTATT
* *
17324857 TTCAAGTCTCTTCGCATTATTAACTCTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
* *
17324889 TTCAAGTCTCTTCACATTCGTAACTTTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
17324921 ATTTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTAGTAACTCTTCATA
Found at i:17325860 original size:2 final size:2
Alignment explanation
Indices: 17325855--17325886 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17325845 AAAGGGACAA
17325855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17325887 GTATGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17325983 original size:3 final size:3
Alignment explanation
Indices: 17325975--17326024 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
17325965 TTCAAGCATA
17325975 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17326023 AA
1 AA
17326025 CCATTTAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17326614 original size:97 final size:95
Alignment explanation
Indices: 17326513--17326886 Score: 277
Period size: 97 Copynumber: 3.8 Consensus size: 95
17326503 TCATATCGTA
* * * *
17326513 AAACACGTGTAATATTAAGAACCACATAAGAATAAATAAAGACGATGGTTTGCATTTGAACTCTA
1 AAACACGTGTAATATTAAGAACAACATAAGAATAAATGAAGACAATGGTTTGTATTTGAA-TCTA
*
17326578 AAAATTAAATCAATTATATGATCGGTCTTCAC
65 AAAATTAAATCAATTATAT-ATCGGTTTTCAC
* * * * * * * ** *
17326610 AAACACCTATTATATTGAGAACAACATATGATTAAATGATGACAATAATTTATATTTGAATCTCA
1 AAACACGTGTAATATTAAGAACAACATAAGAATAAATGAAGACAATGGTTTGTATTTGAATCT-A
* *
17326675 TAAATTAAAT-ATATTATAATATCGATATTTGCA-
65 AAAATTAAATCA-ATTAT-ATATCGGT-TTT-CAC
* * **
17326708 AAACACATGTAATATTAAGAGCTGCAGTAAGAATAAATGAAGA-ATATGGTTTGTATTTGAATCA
1 AAACACGTGTAATATTAAGAACAACA-TAAGAATAAATGAAGACA-ATGGTTTGTATTTGAATC-
* * * *
17326772 TAGAAATCAAATCAATTATACAATCAGTTTTCAC
63 TAAAAATTAAATCAATTATA-TATCGGTTTTCAC
* * ** ** * * ** * *
17326806 AAATACGTGTAACATTAAGAATTATGTATGAATTAATGAAGACAATAATTTATATTTGAATCCAA
1 AAACACGTGTAATATTAAGAACAACATAAGAATAAATGAAGACAATGGTTTGTATTTGAATCTAA
*
17326871 TAAATTAAATAAATTA
66 -AAATTAAATCAATTA
17326887 AATAAAATAC
Statistics
Matches: 212, Mismatches: 52, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
96 5 0.02
97 110 0.52
98 47 0.22
99 48 0.23
100 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (95 bp):
AAACACGTGTAATATTAAGAACAACATAAGAATAAATGAAGACAATGGTTTGTATTTGAATCTAA
AAATTAAATCAATTATATATCGGTTTTCAC
Found at i:17326789 original size:196 final size:193
Alignment explanation
Indices: 17326442--17326890 Score: 494
Period size: 196 Copynumber: 2.3 Consensus size: 193
17326432 AAGTACTACG
* * * *
17326442 TATGAATGAATGACA-ACAATAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTCA
1 TATGAATTAATGA-AGACAATAATTTATATTTGAAT-CCATAAATTAAATAAATTATAATATTCA
* * *
17326506 TATCGTAAAACACGTGTAATATTAAGAACCACATAAGAATAAATAAAGACGATGGTTTGCATTTG
64 TATCGCAAAACACATGTAATATTAAGAACCACATAAGAATAAATAAAGAAGATGGTTTGCATTTG
* ** * * * *
17326571 AACTCTAAAAATTAAATCAATTATATGATCGGTCTTCACAAACACCTATTATATTGAGAACAACA
129 AACTCTAAAAATCAAATCAATTATACAATCAGTCTTCACAAACACCTATAACATTAAGAACAACA
* *
17326636 TATG-ATTAAATGATGACAATAATTTATATTTGAATCTCATAAATTAAATATATTATAATA-TCG
1 TATGAATT-AATGAAGACAATAATTTATATTTGAATC-CATAAATTAAATAAATTATAATATTC-
* * ** * * *
17326699 ATATTTGCAAAACACATGTAATATTAAGAGCTGCAGTAAGAATAAATGAAGAATATGGTTTGTAT
63 ATA-TCGCAAAACACATGTAATATTAAGAACCACA-TAAGAATAAATAAAGAAGATGGTTTGCAT
* * * * * *
17326764 TTGAA-TCATAGAAATCAAATCAATTATACAATCAGTTTTCACAAATACGTGTAACATTAAGAAT
126 TTGAACTC-TAAAAATCAAATCAATTATACAATCAGTCTTCACAAACACCTATAACATTAAGAAC
* **
17326828 TATG
190 AACA
17326832 TATGAATTAATGAAGACAATAATTTATATTTGAATCCAATAAATTAAATAAATTA-AATA
1 TATGAATTAATGAAGACAATAATTTATATTTGAATCC-ATAAATTAAATAAATTATAATA
17326891 AAATACATTG
Statistics
Matches: 212, Mismatches: 34, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
193 5 0.02
194 51 0.24
195 32 0.15
196 121 0.57
197 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (193 bp):
TATGAATTAATGAAGACAATAATTTATATTTGAATCCATAAATTAAATAAATTATAATATTCATA
TCGCAAAACACATGTAATATTAAGAACCACATAAGAATAAATAAAGAAGATGGTTTGCATTTGAA
CTCTAAAAATCAAATCAATTATACAATCAGTCTTCACAAACACCTATAACATTAAGAACAACA
Found at i:17328387 original size:17 final size:16
Alignment explanation
Indices: 17328365--17328397 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
17328355 AAACATTAAT
17328365 ATTCATATCATTAAAAA
1 ATTCATATCA-TAAAAA
17328382 ATTCATATCATAAAAA
1 ATTCATATCATAAAAA
17328398 TTTTTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTCATATCATAAAAA
Found at i:17331606 original size:3 final size:3
Alignment explanation
Indices: 17331598--17331646 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
17331588 AGTATAGAGT
*
17331598 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
17331644 ATA
1 ATA
17331647 TGTACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17334690 original size:28 final size:28
Alignment explanation
Indices: 17334653--17334709 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
17334643 TGAAACTTAT
*
17334653 TTGAATCAAGAAAAATGATCGTGAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
17334681 TTGAATCAAGAAAAATGATCGTAAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
17334709 T
1 T
17334710 GGTAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (28 bp):
TTGAATCAAGAAAAATGATCGTAAATTA
Found at i:17336165 original size:19 final size:19
Alignment explanation
Indices: 17336131--17336167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17336121 ACACGAGCGT
*
17336131 ATGCCCAGGCCGTGTGGAA
1 ATGCCCAGGCCATGTGGAA
*
17336150 ATGCCCAGGCTATGTGGA
1 ATGCCCAGGCCATGTGGA
17336168 TCCTGAAAAT
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:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (19 bp):
ATGCCCAGGCCATGTGGAA
Found at i:17337834 original size:32 final size:33
Alignment explanation
Indices: 17337779--17337843 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
17337769 TCTGAGAAAA
*
17337779 CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
1 CTAATAACAAAATAAAAAAACAGTGAAGAAGAT
*
17337812 CTAATAACAACAT-AAAAAACAGTGAAGAAGAT
1 CTAATAACAAAATAAAAAAACAGTGAAGAAGAT
17337844 TAAAAGCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.62, C:0.09, G:0.14, T:0.15
Consensus pattern (33 bp):
CTAATAACAAAATAAAAAAACAGTGAAGAAGAT
Found at i:17339645 original size:8 final size:8
Alignment explanation
Indices: 17339632--17339672 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
17339622 AAAGAAAAGA
17339632 AAAATAAT
1 AAAATAAT
17339640 AAAATAAT
1 AAAATAAT
*
17339648 AGAAT-A-
1 AAAATAAT
17339654 AAAATAAAT
1 AAAAT-AAT
17339663 AAAATAAT
1 AAAATAAT
17339671 AA
1 AA
17339673 TAGGGCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 4 0.14
7 1 0.04
8 18 0.64
9 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:17345291 original size:4 final size:4
Alignment explanation
Indices: 17345282--17345308 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17345272 TTTATGGTTT
17345282 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
17345309 GAAGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:17349967 original size:25 final size:27
Alignment explanation
Indices: 17349926--17349975 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
17349916 AACGTTACAA
17349926 ATTAAAAGAGAATGTTACCAAATAACT
1 ATTAAAAGAGAATGTTACCAAATAACT
17349953 ATTAAAA-A-AATGTTACCAAATAA
1 ATTAAAAGAGAATGTTACCAAATAA
17349976 GGTTACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.65
26 1 0.04
27 7 0.30
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (27 bp):
ATTAAAAGAGAATGTTACCAAATAACT
Found at i:17355144 original size:50 final size:50
Alignment explanation
Indices: 17355085--17355232 Score: 149
Period size: 50 Copynumber: 3.0 Consensus size: 50
17355075 ATATTCGCCA
17355085 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGGAA-TCATGATTCACTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGTCA-GATTCACTG
** ** * * * *
17355135 TTGTGGCTTTAAT-TTGTTCCACTGCACCGCCTAGGAAGTGAGATTCGCTG
1 TTGTGGCTTTAATCTT-TTTAACTGCAATGTCGAGGAAGTCAGATTCACTG
* * *
17355185 TTATAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAG-CGAGATTCAC
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGTC-AGATTCAC
17355233 CGAATTGGCT
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
49 2 0.03
50 69 0.92
51 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (50 bp):
TTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGTCAGATTCACTG
Found at i:17355405 original size:44 final size:44
Alignment explanation
Indices: 17355298--17355856 Score: 216
Period size: 44 Copynumber: 12.6 Consensus size: 44
17355288 TTCGGTCTAT
* *** *
17355298 TCCACTGTAATCTCAGGGAGACAAGA-CC-TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCTGC
* * *
17355339 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTGATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTGATTTTAATCTGC
* * *
17355383 TCCACTGTAATCTCAGGGAGATAGGAT--TATCAGCTTTAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TGA-TTTTAATCTGC
* * * **
17355427 TCCGCTGTAATCTCAGGGAGATAAGAT--ATGAAATTCTTCAGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTG--ATT-TT-AATCTGC
* *** *
17355473 TCCACTGTAATCTCAGGGAGACAAGA-CC-TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCTGC
* *
17355514 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTGATTTTAAT-TCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTGATTTTAATCT-GC
* * * *
17355558 TCCACTGTAATCTCAGGGAGATAGGGATTACC-AG-CTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATA-AGA-T-CCTTGATTTTAATCTGC
* * * * *
17355603 TTCGCTGTAATCTTAGGGAGATAAGGAT-C-TGAAATTTCT-TTCGGTC
1 TCCACTGTAATCTCAGGGAGATAA-GATCCTTG--ATTT-TAATCTG-C
* * *
17355649 TATTCCACTGTAATCTCAGGGGAGACAAGGA-CCTGATGCGATCTT-A-CTTC
1 ---TCCACTGTAATCTCA-GGGAGATAA-GATCCT--T--GATTTTAATCTGC
* * *
17355699 T-TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCT-C
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTGATTTTAAT-CTGC
* * * * *
17355742 TCCACTGTAATCTCAAGGAGATAAGATTACTAG-CTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-TCCTTGATTTTAATCTGC
* * * * *
17355786 TCCGCTGTAATCTCAGGGAGATAAGATTTCTAG-CTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-TCCTTGATTTTAATCTGC
* *
17355830 TCCGCTGTAACCTCAGGGAGATAAGAT
1 TCCACTGTAATCTCAGGGAGATAAGAT
17355857 TCTTCGGTCT
Statistics
Matches: 394, Mismatches: 76, Indels: 94
0.70 0.13 0.17
Matches are distributed among these distances:
40 2 0.01
41 50 0.13
42 8 0.02
43 17 0.04
44 182 0.46
45 56 0.14
46 44 0.11
47 3 0.01
49 12 0.03
50 13 0.03
51 1 0.00
52 1 0.00
53 4 0.01
55 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTGATTTTAATCTGC
Found at i:17355531 original size:175 final size:174
Alignment explanation
Indices: 17355269--17355812 Score: 890
Period size: 175 Copynumber: 3.1 Consensus size: 174
17355259 CATTGCCAGA
17355269 GAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGACAAGACCTGATGCGA
1 GAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGACAAGACCTGATGCGA
17355334 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCGCTCCACTGTAATCTCAG
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCGCTCCACTGTAATCTCAG
*
17355399 GGAGATAGGATTATCAGCTTTAATCTGCTCCGCTGTAATCTCAGG
131 GGAGATAGGATTA-CAGCTTCAATCTGCTCCGCTGTAATCTCAGG
* *
17355444 GAGATAAGATATGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGACAAGACCTGATGCGA
1 GAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGACAAGACCTGATGCGA
*
17355509 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATTCGCTCCACTGTAATCTCAG
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCGCTCCACTGTAATCTCAG
* *
17355574 GGAGATAGGGATTACCAGCTTCAATCTGCTTCGCTGTAATCTTAGG
131 GGAGATA-GGATTA-CAGCTTCAATCTGCTCCGCTGTAATCTCAGG
17355620 GAGATAAGGATCTGAAATTTCTTTCGGTCTATTCCACTGTAATCTCAGGGGAGACAAGGACCTGA
1 GAGATAA-GATCTGAAA-TTC-TTCGGTCTATTCCACTGTAATCTCA-GGGAGACAA-GACCTGA
* *
17355685 TGCGATCTTACTTCTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCTCTCCACTGT
61 TGCGATC-TAC-TC-TACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCGCTCCACTGT
* *
17355750 AATCTCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG
123 AATCTCAGGGAGATAGGATTAC-AGCTTCAATCTGCTCCGCTGTAATCTCAGG
17355803 GAGATAAGAT
1 GAGATAAGAT
17355813 TTCTAGCTTC
Statistics
Matches: 343, Mismatches: 16, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
175 134 0.39
176 41 0.12
177 8 0.02
178 3 0.01
179 24 0.07
180 9 0.03
181 14 0.04
182 7 0.02
183 42 0.12
184 61 0.18
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (174 bp):
GAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGACAAGACCTGATGCGA
TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCGCTCCACTGTAATCTCAG
GGAGATAGGATTACAGCTTCAATCTGCTCCGCTGTAATCTCAGG
Found at i:17356032 original size:128 final size:128
Alignment explanation
Indices: 17355882--17356287 Score: 598
Period size: 128 Copynumber: 3.1 Consensus size: 128
17355872 ACTGTAATCT
*
17355882 CAGGGAGATAAGACTTGTGGCTTAAATCTGCTTCCTTTCACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTTCACTTGAAGATAAGATTCGCCGTCTTC
* *
17355947 GATATGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTACTCCACTGCTGAC
66 GATATGCTCCGCTACTGCTTAGGGAAACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
17356010 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTTCACTTGAAGATAAGATTCGCCGTCTTC
*
17356075 GATATGCTCCGCTACTGCTTAGGGAAACAAGATCTGTAATTTCCAAACTACTCCACTGCTGAC
66 GATATGCTCCGCTACTGCTTAGGGAAACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * * *
17356138 CAGGGAGATAGAACTTGTGGCTTAAATCTGTTTCCCTACTC-CTGGGGAAGACAAGATTCACCGT
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTT-CCT-TTCACT--TGAAGATAAGATTCGCCGT
* * * * * * * *
17356202 CTTTGATCTACTCCACTATTGCTTAGGGATATAAGATCTATAATTTCCAACCTACTCCACTGCTG
62 CTTCGATATGCTCCGCTACTGCTTAGGGAAACAAGATCTGTAATTTCCAACCTACTCCACTGCTG
17356267 AC
127 AC
17356269 CAGGGAGATAGGACTTGTG
1 CAGGGAGATAGGACTTGTG
17356288 ATTTCACTGA
Statistics
Matches: 252, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
128 154 0.61
129 5 0.02
130 1 0.00
131 92 0.37
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (128 bp):
CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTTCACTTGAAGATAAGATTCGCCGTCTTC
GATATGCTCCGCTACTGCTTAGGGAAACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:17358544 original size:17 final size:17
Alignment explanation
Indices: 17358496--17358550 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
17358486 CGTTTTGACC
17358496 TTGA-TTTTGATTTTTCT
1 TTGATTTTTGATTTTT-T
**
17358513 TTG-TTCTTTTTTTTTTT
1 TTGATT-TTTGATTTTTT
17358530 TTGATTTTTGATTTTTT
1 TTGATTTTTGATTTTTT
17358547 TTGA
1 TTGA
17358551 GCTCATAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.76
Consensus pattern (17 bp):
TTGATTTTTGATTTTTT
Found at i:17363768 original size:22 final size:20
Alignment explanation
Indices: 17363735--17363799 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
17363725 GTATATGATT
*
17363735 AAAAATGGAAGAACAAAAAAG
1 AAAAATGAAAGAA-AAAAAAG
*
17363756 AAAAATTGAAAGAAAAAAACG
1 AAAAA-TGAAAGAAAAAAAAG
* *
17363777 AAAGATG-CAGAAAAAAGAAG
1 AAAAATGAAAGAAAAAA-AAG
17363797 AAA
1 AAA
17363800 GAAAAGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.22
20 7 0.19
21 15 0.41
22 7 0.19
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.06
Consensus pattern (20 bp):
AAAAATGAAAGAAAAAAAAG
Found at i:17367105 original size:26 final size:26
Alignment explanation
Indices: 17367062--17367143 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 26
17367052 CAACCAATAC
** *
17367062 AACAATATTGCAGCAAAGCTGCAAGT
1 AACAATATCACAGTAAAGCTGCAAGT
* * *
17367088 AATAATATCATAGTAAAGCTGCCAGT
1 AACAATATCACAGTAAAGCTGCAAGT
* * * *
17367114 AACAGTATCGCAGTAAAGCTACCAGT
1 AACAATATCACAGTAAAGCTGCAAGT
17367140 AACA
1 AACA
17367144 GTATACTTCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
AACAATATCACAGTAAAGCTGCAAGT
Found at i:17374648 original size:33 final size:33
Alignment explanation
Indices: 17374587--17374686 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 33
17374577 ACATGCAGAA
* * *
17374587 ACAGTCTGGGCCTGAGCCCTAT-TCAGTAACAGT
1 ACAGTGTGGGCCTTAGCCCAATAT-AGTAACAGT
17374620 ACAGTGTGGGCCTTAGCCCAATATAGTAAC---
1 ACAGTGTGGGCCTTAGCCCAATATAGTAACAGT
* * * *
17374650 A-A-TATGGGCCTTAGCCCAATACAATATCAGT
1 ACAGTGTGGGCCTTAGCCCAATATAGTAACAGT
17374681 ACAGTG
1 ACAGTG
17374687 CAATAATGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
28 22 0.42
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 26 0.49
34 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (33 bp):
ACAGTGTGGGCCTTAGCCCAATATAGTAACAGT
Found at i:17374812 original size:26 final size:26
Alignment explanation
Indices: 17374783--17374837 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
17374773 AACACAATAA
*
17374783 TATCGCAGCAAAGCTGTCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
17374809 TATCGTAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
17374835 TAT
1 TAT
17374838 ACTTCCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:17377970 original size:6 final size:7
Alignment explanation
Indices: 17377937--17377977 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
17377927 GGAGAAAGGA
*
17377937 AAGGGGA
1 AAGGGGG
**
17377944 AAGGGCA
1 AAGGGGG
17377951 AAGGGGG
1 AAGGGGG
17377958 AAGGGGG
1 AAGGGGG
17377965 AAGGGGG
1 AAGGGGG
17377972 AAGGGG
1 AAGGGG
17377978 CCGGGTGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.34, C:0.02, G:0.63, T:0.00
Consensus pattern (7 bp):
AAGGGGG
Found at i:17377977 original size:14 final size:14
Alignment explanation
Indices: 17377934--17377977 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
17377924 AAGGGAGAAA
*
17377934 GGAAAGGGGAAAGG
1 GGAAAGGGGGAAGG
*
17377948 GCAAAGGGGGAAGG
1 GGAAAGGGGGAAGG
*
17377962 GGGAAGGGGGAAGG
1 GGAAAGGGGGAAGG
17377976 GG
1 GG
17377978 CCGGGTGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.64, T:0.00
Consensus pattern (14 bp):
GGAAAGGGGGAAGG
Found at i:17382662 original size:18 final size:18
Alignment explanation
Indices: 17382617--17382662 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
17382607 CCCCAACCCG
17382617 ATGCAATATACAAATATGAC
1 ATGC-ATATACAAATAT-AC
17382637 ATGC-TATACATAATAT-C
1 ATGCATATACA-AATATAC
17382654 ATGCATATA
1 ATGCATATA
17382663 AACTGGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 5 0.21
20 4 0.17
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (18 bp):
ATGCATATACAAATATAC
Found at i:17386311 original size:79 final size:79
Alignment explanation
Indices: 17386180--17386328 Score: 280
Period size: 79 Copynumber: 1.9 Consensus size: 79
17386170 TCCGACATGT
*
17386180 GATGCATCGCTGTAGACAGTAAACTCTTTTCCAAACTCTAGCTGTATTAAAACAGAGGCCTCAGT
1 GATGCATCGCTGTAGACAGTAAACTCTTTTCCAAACTCTAGCTGTATCAAAACAGAGGCCTCAGT
17386245 CAGTAAAATTTTGA
66 CAGTAAAATTTTGA
*
17386259 GATGCATCGCTGTAGACAGTAAACTCTTTTCCAGACTCTAGCTGTATCAAAACAGAGGCCTCAGT
1 GATGCATCGCTGTAGACAGTAAACTCTTTTCCAAACTCTAGCTGTATCAAAACAGAGGCCTCAGT
17386324 CAGTA
66 CAGTA
17386329 CAAACTCTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (79 bp):
GATGCATCGCTGTAGACAGTAAACTCTTTTCCAAACTCTAGCTGTATCAAAACAGAGGCCTCAGT
CAGTAAAATTTTGA
Found at i:17393549 original size:25 final size:26
Alignment explanation
Indices: 17393508--17393557 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
17393498 AACGTTACAA
*
17393508 ATTTAAAAAAATGTTACCAAATAACT
1 ATTTAAAAAAATATTACCAAATAACT
17393534 ATTTAAAAAAA-ATTACCAAATAAC
1 ATTTAAAAAAATATTACCAAATAAC
17393558 GTTACAACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (26 bp):
ATTTAAAAAAATATTACCAAATAACT
Found at i:17393978 original size:28 final size:28
Alignment explanation
Indices: 17393943--17394024 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
17393933 AAGCGGCAGG
*
17393943 GCCGACCATATATCATTCAGGTGACAGA
1 GCCGACCATATATCATTCAGGCGACAGA
* *
17393971 GCTGACCATATATCATTCAGGCGATAGA
1 GCCGACCATATATCATTCAGGCGACAGA
17393999 GCCGACCATATATCATTCAGGCGACA
1 GCCGACCATATATCATTCAGGCGACA
17394025 AATCCAACAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (28 bp):
GCCGACCATATATCATTCAGGCGACAGA
Found at i:17406571 original size:14 final size:14
Alignment explanation
Indices: 17406552--17406592 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
17406542 TCGCACAAGA
17406552 ATACAAATTAATAT
1 ATACAAATTAATAT
17406566 ATACAAATT-A-AT
1 ATACAAATTAATAT
17406578 ATACAAATTAATAT
1 ATACAAATTAATAT
17406592 A
1 A
17406593 CCAACTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
14 12 0.48
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
ATACAAATTAATAT
Found at i:17406601 original size:12 final size:12
Alignment explanation
Indices: 17406552--17406593 Score: 66
Period size: 12 Copynumber: 3.3 Consensus size: 12
17406542 TCGCACAAGA
17406552 ATACAAATTAATAT
1 ATACAAATT-A-AT
17406566 ATACAAATTAAT
1 ATACAAATTAAT
17406578 ATACAAATTAAT
1 ATACAAATTAAT
17406590 ATAC
1 ATAC
17406594 CAACTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 18 0.64
13 1 0.04
14 9 0.32
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (12 bp):
ATACAAATTAAT
Found at i:17406783 original size:26 final size:26
Alignment explanation
Indices: 17406735--17406787 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17406725 TTTTTGACAT
**
17406735 ATTCATAACCAAATATGTAATTTTGG
1 ATTCATAACCAAATATCCAATTTTGG
* *
17406761 ATTCATAACCATATATCCGATTTTGG
1 ATTCATAACCAAATATCCAATTTTGG
17406787 A
1 A
17406788 CAACTCAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (26 bp):
ATTCATAACCAAATATCCAATTTTGG
Found at i:17410022 original size:51 final size:51
Alignment explanation
Indices: 17409857--17410034 Score: 254
Period size: 51 Copynumber: 3.5 Consensus size: 51
17409847 ACTAGTGACT
* * *
17409857 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAA-CAGATAGC-TTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
17409906 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
17409958 CAAGTGTGGTACTATGTAAAGGCCACTTTGTGAAGAAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
17410009 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
17410035 CGAGTATCCA
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 33 0.28
50 1 0.01
51 43 0.37
52 40 0.34
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:17418463 original size:96 final size:95
Alignment explanation
Indices: 17418282--17418471 Score: 344
Period size: 95 Copynumber: 2.0 Consensus size: 95
17418272 AATTTTTCAG
17418282 CAAGTTGATTGGTTTTTTGTTTTCTATGTTATTATCATCAGCAAGACAACAACTGTCTGGTTCTT
1 CAAGTTGATTGGTTTTTTGTTTTCTATGTTATTATCATCAGCAAGACAACAACTGTCTGGTTCTT
17418347 TTCTAGAAATAGTTAGAAACATGAAGGAAA
66 TTCTAGAAATAGTTAGAAACATGAAGGAAA
* *
17418377 CAAGTTGCTTGGTTTTTTGTTTTTTATGTTATTATCATCAGCAAGACAACAACTGGTCTGGTTCT
1 CAAGTTGATTGGTTTTTTGTTTTCTATGTTATTATCATCAGCAAGACAACAACT-GTCTGGTTCT
*
17418442 TTTCTAGAAATAGTTAGAAACATTAAGGAA
65 TTTCTAGAAATAGTTAGAAACATGAAGGAA
17418472 GAAAAATCTG
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 52 0.57
96 39 0.43
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (95 bp):
CAAGTTGATTGGTTTTTTGTTTTCTATGTTATTATCATCAGCAAGACAACAACTGTCTGGTTCTT
TTCTAGAAATAGTTAGAAACATGAAGGAAA
Found at i:17421713 original size:30 final size:31
Alignment explanation
Indices: 17421677--17421739 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
17421667 ATCCAATGCG
* *
17421677 CAAATCAATTCGGCAATATGT-ATACATATA
1 CAAATCAATTCGGCAATATATAAAACATATA
17421707 CAAATCAATTCGGCAATATATAAAACATATA
1 CAAATCAATTCGGCAATATATAAAACATATA
17421738 CA
1 CA
17421740 TTAGAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (31 bp):
CAAATCAATTCGGCAATATATAAAACATATA
Found at i:17437119 original size:32 final size:32
Alignment explanation
Indices: 17437078--17437141 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
17437068 GACATAAGTA
17437078 AACTCACATATAGCATAAGTAAATTTCTTCCT
1 AACTCACATATAGCATAAGTAAATTTCTTCCT
17437110 AACTCACATATAGCATAAGTAAATTTCTTCCT
1 AACTCACATATAGCATAAGTAAATTTCTTCCT
17437142 TACAAGTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (32 bp):
AACTCACATATAGCATAAGTAAATTTCTTCCT
Found at i:17437669 original size:18 final size:18
Alignment explanation
Indices: 17437643--17437680 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17437633 AAACCAAATT
*
17437643 AACAGCCCAATACCCCAA
1 AACAACCCAATACCCCAA
17437661 AACAACCCAATACCCCAA
1 AACAACCCAATACCCCAA
17437679 AA
1 AA
17437681 TCAGCAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.42, G:0.03, T:0.05
Consensus pattern (18 bp):
AACAACCCAATACCCCAA
Found at i:17438781 original size:16 final size:16
Alignment explanation
Indices: 17438747--17438777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17438737 ATATCTTTAC
17438747 ATTATTTATTGTATTT
1 ATTATTTATTGTATTT
17438763 ATTATTTATT-TATTT
1 ATTATTTATTGTATTT
17438778 TATTTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTATTTATTGTATTT
Found at i:17440402 original size:17 final size:17
Alignment explanation
Indices: 17440369--17440402 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17440359 CGTTCTTGAT
* *
17440369 CTAAATTAATAATTTTA
1 CTAAATTAAAAAATTTA
17440386 CTAAATTAAAAAATTTA
1 CTAAATTAAAAAATTTA
17440403 GATAGAAAAA
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:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
CTAAATTAAAAAATTTA
Done.