Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 289 of 343
Found at i:95566781 original size:14 final size:14
Alignment explanation
Indices: 95566764--95566796 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95566754 TCTAAATTTT
*
95566764 TATTTTTATTTAAA
1 TATTTTTAGTTAAA
95566778 TATTTTTAGTTAAA
1 TATTTTTAGTTAAA
95566792 -ATTTT
1 TATTTT
95566797 AATAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TATTTTTAGTTAAA
Found at i:95566783 original size:19 final size:21
Alignment explanation
Indices: 95566739--95566783 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
95566729 TTTTATTATT
95566739 TATTTTAATTTTGATTCTAAA
1 TATTTTAATTTTGATTCTAAA
*
95566760 T-TTTT-ATTTTTATT-TAAA
1 TATTTTAATTTTGATTCTAAA
95566778 TATTTT
1 TATTTT
95566784 TAGTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 4 0.18
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTTAATTTTGATTCTAAA
Found at i:95566875 original size:29 final size:28
Alignment explanation
Indices: 95566845--95566898 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
95566835 TTCTCAATAT
*
95566845 TTTGATAATGAATTTTA-AATTTTTTATA
1 TTTG-TAATGAATTTTATAATATTTTATA
*
95566873 TTTGTCATGAATTTTATAATATTTTA
1 TTTGTAATGAATTTTATAATATTTTA
95566899 CTTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTGTAATGAATTTTATAATATTTTATA
Found at i:95567923 original size:33 final size:33
Alignment explanation
Indices: 95567800--95567942 Score: 121
Period size: 33 Copynumber: 4.3 Consensus size: 33
95567790 TGTTGACTAC
* *
95567800 TGGGGAGGGTGATGTTGAAG-GGTTAGAAGT-TCA
1 TGGGGAGGGTGATGTAGAAGAGG-TAGAA-TCTGA
*
95567833 TGGGGAGGGTGATG-ATGAAGGGGTAGAATCTGA
1 TGGGGAGGGTGATGTA-GAAGAGGTAGAATCTGA
* * * * * *
95567866 TGGTGAAGATGATCTAGAAAAGGTAGAATCTGG
1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
* * *
95567899 TGGGGAGGGTGATGTAGGAGAGGTACAAGCTGA
1 TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
*
95567932 TGGAGAGGGTG
1 TGGGGAGGGTG
95567943 TTTCTGCTAC
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
32 1 0.01
33 83 0.95
34 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.45, T:0.22
Consensus pattern (33 bp):
TGGGGAGGGTGATGTAGAAGAGGTAGAATCTGA
Found at i:95568110 original size:51 final size:51
Alignment explanation
Indices: 95568046--95568203 Score: 235
Period size: 51 Copynumber: 3.1 Consensus size: 51
95568036 GTGAAGTTGC
* * *
95568046 TGCTAATGAATATGCTGGTGATTTTGTAACATCAGATGGAGTGAATAATGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
* *
95568097 TGCTGATGAATATGTTGGTGATTTTGCAACATTAGATGGAGTGGATAATGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
* * * *
95568148 TGCTGATGAATATGCTGATGATTTTGCAACATCTGATAGACTGGATAATGT
1 TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
95568199 TGCTG
1 TGCTG
95568204 CTGCACGTAC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.36
Consensus pattern (51 bp):
TGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGT
Found at i:95571714 original size:49 final size:49
Alignment explanation
Indices: 95571661--95571892 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
95571651 CTGGTACGGA
* *
95571661 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * * *
95571710 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
95571760 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
95571811 TAGTAGCCTGCACTTGGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
95571860 TAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
95571893 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.24
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:95571834 original size:101 final size:98
Alignment explanation
Indices: 95571661--95571892 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 98
95571651 CTGGTACGGA
* * * **
95571661 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* * *
95571726 GTACTACACACGTGACCTAACCATCTGATGCACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* *
95571760 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* * ** *
95571825 TGGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
*
95571860 TAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
95571893 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 30 0.26
100 44 0.39
101 40 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:95572192 original size:27 final size:27
Alignment explanation
Indices: 95572137--95572189 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
95572127 TCATACAACC
*
95572137 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
95572164 CATGTAA-AATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
95572190 TCACATGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:95575840 original size:19 final size:20
Alignment explanation
Indices: 95575805--95575846 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
95575795 CAACCAACTA
95575805 ATTAAAAGGGGAAATCTTCC
1 ATTAAAAGGGGAAATCTTCC
* *
95575825 ATTAAAA-GGTAAATCTTTC
1 ATTAAAAGGGGAAATCTTCC
95575844 ATT
1 ATT
95575847 TTTTGCAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
ATTAAAAGGGGAAATCTTCC
Found at i:95576502 original size:22 final size:22
Alignment explanation
Indices: 95576477--95576521 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
95576467 TCATATGCTT
*
95576477 TTGTAAAGTACATTTATCGAAA
1 TTGTAAAGTACATTTATCCAAA
95576499 TTGTAAAGTACATTTATCCAAA
1 TTGTAAAGTACATTTATCCAAA
95576521 T
1 T
95576522 CATATGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTGTAAAGTACATTTATCCAAA
Found at i:95579159 original size:88 final size:87
Alignment explanation
Indices: 95578988--95579379 Score: 232
Period size: 88 Copynumber: 4.6 Consensus size: 87
95578978 ATTAAAAGTG
* * * *
95578988 AATAAAATCTGTTTCAAGATTTATTCCCGTCGTTCAACAGATTTTATTCCAATTTTGATTTTATT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAACAGATTTTATTACAATTCTGATTTTATT
* * * ** *
95579053 TCCAAAATGATCATTAAAATTAA
66 GCAAAAACGAAAAGTAAAATT-A
* *
95579076 AATAAAATTTGTTTCAGGATTTATTCCCG-CTGTTCAACGGATTTTATTAC-ATTCTGATTTTGT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTC-GTTCAACAGATTTTATTACAATTCTGATTTTAT
95579139 TGCAAAAACGAGAAAGTAAAATTA
65 TGCAAAAACGA-AAAGTAAAATTA
* * * ** * * * * *
95579163 AATAGAATTTGTTTCGGGACTTATTCTTGCCGTTTAATAAGATTTTATT-CGATT-TGATTTTGT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAA-CAGATTTTATTACAATTCTGATTTTAT
* * ** * **
95579226 TTC-CAAATTAGATTTAAAATTA
65 TGCAAAAACGAAAAGTAAAATTA
* * * * *
95579248 AATAAAATCTATTTCGGGATTTATTCCCG-CAGTTTAACAAGATTTTATT-CGATAT-TG-TTTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTC-GTTCAAC-AGATTTTATTACAAT-TCTGATTTT
* * * * *
95579309 ATTTC--AAACAAAAACT-TAATCA
63 ATTGCAAAAACGAAAAGTAAAATTA
* ** * * *
95579331 AATAAAATATGTTTTGGGATTTATTCCTGTCATTTAACAGATTTTATTA
1 AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAACAGATTTTATTA
95579380 AATCCCAAAC
Statistics
Matches: 247, Mismatches: 47, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
82 10 0.04
83 35 0.14
84 8 0.03
85 60 0.24
86 7 0.03
87 62 0.25
88 65 0.26
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (87 bp):
AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAACAGATTTTATTACAATTCTGATTTTATT
GCAAAAACGAAAAGTAAAATTA
Found at i:95579264 original size:85 final size:85
Alignment explanation
Indices: 95579155--95579313 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
95579145 AACGAGAAAG
* * * ** * *
95579155 TAAAATTAAATAGAATTTGTTTCGGGACTTATTCTTGCCGTTTAATAAGATTTTATTCGAT-TTG
1 TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
*
95579219 ATTTTGTTTCCAAATTAGATT
66 -TTTTATTTCCAAATTAGATT
*
95579240 TAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
1 TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
95579305 TTTTATTTC
66 TTTTATTTC
95579314 AAACAAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 61 0.95
86 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (85 bp):
TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
TTTTATTTCCAAATTAGATT
Found at i:95579553 original size:74 final size:73
Alignment explanation
Indices: 95579434--95579669 Score: 267
Period size: 74 Copynumber: 3.1 Consensus size: 73
95579424 AACAATATCG
* *
95579434 AATAAAATCTTGTTAAACCGCGGGAATAAATCTCGAAACAGATTTAATTTAA-TTTAATTCTAAT
1 AATAAAATCTTGTTAAACAGCGGGAATAAATC-CCAAACAGATTT-ATTTAACTTTAATTCTAAT
95579498 TTGGAAACAA
64 TTGGAAACAA
* *
95579508 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAGCAGATTTATTTAATTTTAATTCTAATT
1 AATAAAATCTTGTTAAACAGCGGGAATAAATCCCAAA-CAGATTTATTTAACTTTAATTCTAATT
*
95579573 TAGAAACAAAA
65 TGGAAAC--AA
* * **
95579584 TCAATAAAATTTTGTTAAACAACAAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCT
1 --AATAAAATCTTGTTAAACAGCGGGAATAAATCCC-AAACAGA-TTTATTTAACTTTAA-TTCT
* * *
95579649 CATTTGAAAATAA
61 AATTTGGAAACAA
95579662 AATAAAAT
1 AATAAAAT
95579670 AAAAAAGGAA
Statistics
Matches: 140, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
73 10 0.07
74 57 0.41
76 10 0.07
78 35 0.25
79 17 0.12
80 11 0.08
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (73 bp):
AATAAAATCTTGTTAAACAGCGGGAATAAATCCCAAACAGATTTATTTAACTTTAATTCTAATTT
GGAAACAA
Found at i:95580049 original size:22 final size:22
Alignment explanation
Indices: 95580024--95580070 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
95580014 ATCGAACAAA
95580024 ATATTTAAATAT-AAATAAACAT
1 ATATTTAAATATAAAATAAA-AT
*
95580046 ATATTTATATATAAAATAAAAT
1 ATATTTAAATATAAAATAAAAT
95580068 ATA
1 ATA
95580071 AATAGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATTTAAATATAAAATAAAAT
Found at i:95580086 original size:16 final size:16
Alignment explanation
Indices: 95580033--95580086 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
95580023 AATATTTAAA
95580033 TATAAATAAACATATATT
1 TATAAATAAA-ATA-ATT
* **
95580051 TATATATAAAATAAAA
1 TATAAATAAAATAATT
*
95580067 TATAAATAGAATAATT
1 TATAAATAAAATAATT
95580083 TATA
1 TATA
95580087 TTTAAATTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 17 0.59
17 3 0.10
18 9 0.31
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
TATAAATAAAATAATT
Found at i:95580103 original size:34 final size:34
Alignment explanation
Indices: 95580030--95580092 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
95580020 CAAAATATTT
95580030 AAATATAAATAAACATATATTTATATATAAAATA
1 AAATATAAATAAACATATATTTATATATAAAATA
* *
95580064 AAATATAAATAGA-ATA-ATTTATATTTAAA
1 AAATATAAATAAACATATATTTATATATAAA
95580093 TTGTCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 12 0.44
33 3 0.11
34 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (34 bp):
AAATATAAATAAACATATATTTATATATAAAATA
Found at i:95582766 original size:37 final size:37
Alignment explanation
Indices: 95582682--95582767 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
95582672 ATTGAATACT
**
95582682 TCAAAGTTATACTACAATTTAATTATCAAAATTTTTA
1 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
95582719 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
1 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
95582756 TCAAAGTTATGG
1 TCAAAGTTATGG
95582768 ATTTTCACCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (37 bp):
TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
Found at i:95584475 original size:24 final size:25
Alignment explanation
Indices: 95584448--95584498 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
95584438 GGAGAACCAT
95584448 TAACGAGAA-GCTCATA-TGAGCCAA
1 TAACGAGAAGGCTCA-AGTGAGCCAA
* *
95584472 TAACGGGAAGGTTCAAGTGAGCCAA
1 TAACGAGAAGGCTCAAGTGAGCCAA
95584497 TA
1 TA
95584499 TCGGCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (25 bp):
TAACGAGAAGGCTCAAGTGAGCCAA
Found at i:95586717 original size:22 final size:23
Alignment explanation
Indices: 95586692--95586737 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
95586682 CGGGAGGGGG
95586692 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
95586714 ATCGATTGTATTTTGCGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
95586737 A
1 A
95586738 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:95586743 original size:23 final size:22
Alignment explanation
Indices: 95586699--95586748 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
95586689 GGGATCGATG
**
95586699 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
95586721 GTATTTTGCGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
95586744 GTATT
1 GTATT
95586749 AGAGGGAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:95600037 original size:205 final size:203
Alignment explanation
Indices: 95599662--95600442 Score: 1190
Period size: 205 Copynumber: 3.8 Consensus size: 203
95599652 CGCAGCATGA
*
95599662 CAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 CAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
*
95599727 ATGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATG
65 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATG
*
95599792 ATTTGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
130 ATTTGTCGTCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
95599857 GACACATAG
195 GACACATAG
*
95599866 CAGATCTCGCCTTCAGATGATTTCACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGTTTAC
1 CAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
*
95599931 AAGGAGCAAATTGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGAT
64 AAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGAT
95599996 GATTTGTCGTCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
129 GATTTGTCGTCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
95600061 AGACACATAG
194 AGACACATAG
* * * *
95600071 CAGATCTCGCATTTAGATGATTTCACTGAAGCAGATCCAAGACGGTTTGGCATCCTTGTGTTTAT
1 CAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
** * *
95600136 AAGGAAAAAATCGAAGACATAGCTGATTTGGATTTCACGTGATTACGAGAAAGCAAATCTAAGAT
64 AAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGAT
* *
95600201 GATTTGTCGTCTCTGTATCGTCAGA-AAATGAATCGAAGTTTGGCATCTTCACTTTGATAGAGAG
129 GATTTGTCGTCTCTGTATTGTCAGAGAAA-GAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
95600265 CAGACACATAG
193 CAGACACATAG
* ** * * * *
95600276 CAGATCTCACCTTTGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTAGCATCCTTATGCTTAC
1 CAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
* * * * *
95600341 AAGGAGGAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGAT
64 AAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGAT
* * *
95600405 GATTTGGCATCTCTGTATTGTCAGGGAACA-AATCGAAG
129 GATTTGTCGTCTCTGTATTGTCAGAGAA-AGAATCGAAG
95600443 AAATAGATTT
Statistics
Matches: 532, Mismatches: 38, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
203 1 0.00
204 97 0.18
205 433 0.81
206 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (203 bp):
CAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAA
GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGA
TTTGTCGTCTCTGTATTGTCAGAGAAAGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAG
ACACATAG
Found at i:95600558 original size:44 final size:44
Alignment explanation
Indices: 95600510--95601014 Score: 403
Period size: 44 Copynumber: 11.5 Consensus size: 44
95600500 CCTTCCTAAG
* **
95600510 TTATAGTGAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
95600554 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTCTTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* * **
95600598 TTAGAGTGAAGCAGATCGAAGATTTC-GCA-TGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
95600641 TTATAGGGAACA-AGTTGAAAACAGCAG-ATTTGGCATCCCTGTGC
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
* * *
95600685 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTCTTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* ** **
95600729 TTACAGTAAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * * *
95600773 TTATAGGGAACA-AGTTGAAAAACAGCAG-ATTTGGCATCCTTGTGC
1 TTATAGGGAACAGA-TCG-AAGATAGCAGCA-TTGGCATCCCTGTGC
* **
95600818 TTATAGGGAACAGATCGAAGATAGCAG-ATCTGACATTTCTGTGC
1 TTATAGGGAACAGATCGAAGATAGCAGCAT-TGGCATCCCTGTGC
* * ** *
95600862 TTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGT
1 TTATAGGGAA-CAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
* * *
95600906 TTATAGGGAACA-AGTTGAAGATAGCAG-ATTTGGCATCCCTATGT
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
* * *
95600950 TTATAGGGAACA-AGTTGAAGACAGCAG-ATTTGGCATCCCTGTGT
1 TTATAGGGAACAGA-TCGAAGATAGCAGCA-TTGGCATCCCTGTGC
95600994 TTATAGGGAACAGATCGAAGA
1 TTATAGGGAACAGATCGAAGA
95601015 AGTAGATCGA
Statistics
Matches: 370, Mismatches: 67, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.00
42 13 0.04
43 54 0.15
44 226 0.61
45 73 0.20
46 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
TTATAGGGAACAGATCGAAGATAGCAGCATTGGCATCCCTGTGC
Found at i:95600862 original size:133 final size:132
Alignment explanation
Indices: 95600540--95601014 Score: 742
Period size: 133 Copynumber: 3.6 Consensus size: 132
95600530 GATTTCAGCA
*
95600540 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTAGAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGT
95600605 GAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
95600669 TT
131 TT
95600671 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGT
*
95600736 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAAACAGCAG
95600801 ATT
130 ATT
*
95600804 TGGCATCCTTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT-TCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCT-TGTGCTTACAG
* * *
95600868 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
95600933 ATT
130 ATT
* * * * * * * * * *
95600936 TGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCTTGTGCTTACAG
*
95601000 GGAA-CAGATCGAAGA
65 TGAAGCAGATCGAAGA
95601015 AGTAGATCGA
Statistics
Matches: 320, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
131 94 0.29
132 99 0.31
133 127 0.40
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:95602109 original size:22 final size:22
Alignment explanation
Indices: 95602084--95602125 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95602074 TTTTTGTTGT
* *
95602084 TTTTTTTTCTTAAAAAAAAAGG
1 TTTTTTATCATAAAAAAAAAGG
*
95602106 TTTTTTATGATAAAAAAAAA
1 TTTTTTATCATAAAAAAAAA
95602126 AGAGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (22 bp):
TTTTTTATCATAAAAAAAAAGG
Found at i:95602253 original size:39 final size:40
Alignment explanation
Indices: 95602143--95602296 Score: 251
Period size: 39 Copynumber: 3.9 Consensus size: 40
95602133 ATAAAGTATG
95602143 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT-
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
95602182 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
95602223 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
95602262 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
95602297 CAGTGGAATC
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 57 0.52
40 52 0.47
41 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:95602256 original size:79 final size:79
Alignment explanation
Indices: 95602143--95602296 Score: 249
Period size: 79 Copynumber: 1.9 Consensus size: 79
95602133 ATAAAGTATG
95602143 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT-GATTTTAATTAATAATAAAAACAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAG-TTTTAATTAATAAT-AAAACAAA
*
95602207 ATAGTATGGGGGAATA
64 ATAGCATGGGGGAATA
* *
95602223 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAGTTTTAATTAATAATAAAACAAAGT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
95602287 AGCATGGGGG
66 AGCATGGGGG
95602297 CAGTGGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 18 0.26
79 36 0.51
80 16 0.23
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (79 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
AGCATGGGGGAATA
Found at i:95610311 original size:6 final size:6
Alignment explanation
Indices: 95610302--95610329 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95610292 GAAAGAAAAA
95610302 GAGAAG GAGAAG GAGAAG GAGAAG GAGA
1 GAGAAG GAGAAG GAGAAG GAGAAG GAGA
95610330 GGGGGTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAGAAG
Found at i:95610312 original size:18 final size:18
Alignment explanation
Indices: 95610277--95610329 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
95610267 AGAAGGAAGG
* **
95610277 AGAAGAAGAGAAAAAGAA
1 AGAAAAAGAGAAGGAGAA
95610295 AGAAAAAGAGAAGGAGAA
1 AGAAAAAGAGAAGGAGAA
* * *
95610313 GGAGAAGGAGAAGGAGA
1 AGAAAAAGAGAAGGAGA
95610330 GGGGGTGAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AGAAAAAGAGAAGGAGAA
Found at i:95611391 original size:23 final size:20
Alignment explanation
Indices: 95611365--95611420 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 20
95611355 ATTAAATAAG
95611365 AAATAATATATTTTAATATACTT
1 AAATAATATATTTT--TATA-TT
* *
95611388 AAATTATATCTTTTTATATT
1 AAATAATATATTTTTATATT
95611408 -AATAATAATATTT
1 AAATAAT-ATATTT
95611421 ATTCTAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 5 0.18
20 7 0.25
21 4 0.14
23 12 0.43
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATAATATATTTTTATATT
Found at i:95611732 original size:13 final size:13
Alignment explanation
Indices: 95611710--95611743 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
95611700 CAAACCCCCC
95611710 AAAAAA-AAAAGA
1 AAAAAAGAAAAGA
95611722 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
95611735 AAAGAAGAA
1 AAAAAAGAA
95611744 GCAGTTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:95613911 original size:28 final size:29
Alignment explanation
Indices: 95613862--95613916 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
95613852 ATACATGTCT
* ** *
95613862 AAAAAATTATATTTTTCTAATTTTAAACA
1 AAAAAATTATATTTATAAAATTATAAACA
95613891 AAAAAATT-TATTTATAAAATTATAAA
1 AAAAAATTATATTTATAAAATTATAAA
95613917 AACTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAAAATTATATTTATAAAATTATAAACA
Found at i:95617268 original size:10 final size:9
Alignment explanation
Indices: 95617242--95617298 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
95617232 TATATTAAAA
95617242 AATATTTTT
1 AATATTTTT
*
95617251 TATATTTTT
1 AATATTTTT
95617260 AATACTTTTT
1 AATA-TTTTT
* *
95617270 AAACAATTTT
1 -AATATTTTT
95617280 AATATTTTT
1 AATATTTTT
*
95617289 TA-ATTTTT
1 AATATTTTT
95617297 AA
1 AA
95617299 AAATAGTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 7 0.18
9 19 0.50
10 9 0.24
11 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:95617303 original size:20 final size:22
Alignment explanation
Indices: 95617280--95617320 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
95617270 AAACAATTTT
*
95617280 AATA-TTTTT-TAATTTTTAAA
1 AATAGTTTTTATAAATTTTAAA
95617300 AATAGTTTTTATAAATTTTAA
1 AATAGTTTTTATAAATTTTAA
95617321 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATAGTTTTTATAAATTTTAAA
Found at i:95617310 original size:30 final size:28
Alignment explanation
Indices: 95617239--95617330 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
95617229 ATATATATTA
*
95617239 AAAAATATTTTTTATATTTTTAATACTTTTT
1 AAAAATA-TTTTTATATTTTT--TAATTTTT
* *
95617270 AAACA-ATTTTAATATTTTTTAATTTTT
1 AAAAATATTTTTATATTTTTTAATTTTT
**
95617297 AAAAATAGTTTTTATAAATTTTAATTTTT
1 AAAAATA-TTTTTATATTTTTTAATTTTT
95617326 AAAAA
1 AAAAA
95617331 ATTAATTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.21
28 1 0.02
29 35 0.67
30 1 0.02
31 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
AAAAATATTTTTATATTTTTTAATTTTT
Found at i:95617335 original size:15 final size:15
Alignment explanation
Indices: 95617288--95617337 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
95617278 TTAATATTTT
95617288 TTAATTTTT-AAAAA
1 TTAATTTTTAAAAAA
* **
95617302 -TAGTTTTTATAAATT
1 TTAATTTTTA-AAAAA
95617317 TTAATTTTTAAAAAA
1 TTAATTTTTAAAAAA
95617332 TTAATT
1 TTAATT
95617338 GTTGACTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 7 0.26
15 12 0.44
16 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATTTTTAAAAAA
Found at i:95619199 original size:15 final size:14
Alignment explanation
Indices: 95619175--95619208 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
95619165 TTTGAATTTT
*
95619175 AAATTAATTAAAGA
1 AAATTAATTAAACA
95619189 AAATGTAATTAAACA
1 AAAT-TAATTAAACA
95619204 AAATT
1 AAATT
95619209 TTAATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATTAATTAAACA
Found at i:95619484 original size:21 final size:21
Alignment explanation
Indices: 95619458--95619509 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
95619448 TAATGAATTT
*
95619458 TTATTTTTATATATATTTGAA
1 TTATTTTTATATATATTTCAA
* * *
95619479 TTATTTATATATTTATTTCTA
1 TTATTTTTATATATATTTCAA
95619500 TT-TTTTTATA
1 TTATTTTTATA
95619510 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTTATATATATTTCAA
Found at i:95620686 original size:8 final size:8
Alignment explanation
Indices: 95620675--95620708 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
95620665 TAAATATATG
95620675 AAAAAGAA
1 AAAAAGAA
95620683 AAAAAGAA
1 AAAAAGAA
95620691 AAAAAGAA
1 AAAAAGAA
95620699 AAAAAGAA
1 AAAAAGAA
95620707 AA
1 AA
95620709 TTGGGCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:95625605 original size:24 final size:24
Alignment explanation
Indices: 95625573--95625621 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
95625563 CGCAGTTTAA
95625573 CACGATATAGCATCCAACACCCTC
1 CACGATATAGCATCCAACACCCTC
95625597 CACGATATAGCATCCAACACCCTC
1 CACGATATAGCATCCAACACCCTC
95625621 C
1 C
95625622 GGGGACGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.43, G:0.08, T:0.16
Consensus pattern (24 bp):
CACGATATAGCATCCAACACCCTC
Found at i:95631997 original size:6 final size:6
Alignment explanation
Indices: 95631986--95632026 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
95631976 AGGTTTATTT
95631986 AAAATA AAAATA AAAATA AAAATA AAAATAA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAA
95632027 ATGTAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:95632538 original size:20 final size:21
Alignment explanation
Indices: 95632515--95632555 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
95632505 ATATGATATT
95632515 TTTTTAT-TTTTTAATTTAAA
1 TTTTTATATTTTTAATTTAAA
*
95632535 -TTTTATATTTTTATTTTAAA
1 TTTTTATATTTTTAATTTAAA
95632555 T
1 T
95632556 AAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATATTTTTAATTTAAA
Found at i:95632927 original size:12 final size:12
Alignment explanation
Indices: 95632910--95632945 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
95632900 TAAAACATAT
95632910 ATAATTTTTTAA
1 ATAATTTTTTAA
95632922 ATAA-TTTTTAA
1 ATAATTTTTTAA
95632933 ATAATTTTTTAA
1 ATAATTTTTTAA
95632945 A
1 A
95632946 CTCGTGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTAA
Found at i:95632940 original size:10 final size:11
Alignment explanation
Indices: 95632910--95632941 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
95632900 TAAAACATAT
95632910 ATAATTTTTTAA
1 ATAA-TTTTTAA
95632922 ATAATTTTTAA
1 ATAATTTTTAA
95632933 ATAATTTTT
1 ATAATTTTT
95632942 TAAACTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATAATTTTTAA
Found at i:95633757 original size:6 final size:6
Alignment explanation
Indices: 95633746--95633770 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95633736 ATTTTTATAG
95633746 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
95633771 GGGTTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:95634985 original size:16 final size:17
Alignment explanation
Indices: 95634956--95634990 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
95634946 TTTCTTTATA
95634956 TATTCTTTAGAATTTTT
1 TATTCTTTAGAATTTTT
*
95634973 TATT-TTTATAATTTTT
1 TATTCTTTAGAATTTTT
95634989 TA
1 TA
95634991 AAAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTCTTTAGAATTTTT
Found at i:95636306 original size:2 final size:2
Alignment explanation
Indices: 95636299--95636331 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
95636289 TAAAATCTAC
95636299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95636332 ATAACATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95637809 original size:20 final size:20
Alignment explanation
Indices: 95637765--95637820 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
95637755 TAATTTTTTT
*
95637765 ACCCTAAATCTCGAACCATAA
1 ACCCTAAATCTCAAACCA-AA
95637786 ACCCTAAATCTCAAACTC-AA
1 ACCCTAAATCTCAAAC-CAAA
*
95637806 ACCCTAAATCCCAAA
1 ACCCTAAATCTCAAA
95637821 ATTTGAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 16 0.50
21 15 0.47
22 1 0.03
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.18
Consensus pattern (20 bp):
ACCCTAAATCTCAAACCAAA
Found at i:95637972 original size:27 final size:27
Alignment explanation
Indices: 95637842--95637972 Score: 63
Period size: 28 Copynumber: 4.7 Consensus size: 27
95637832 AAACTTATTC
* ** *
95637842 AAGGTTCAAGATTTTTGATTTGAGATTT
1 AAGGTTCTAGATTTAGGTTTTGAG-TTT
* *
95637870 AAGGTTCAAGATTTAGGGTTTTTGAATTT
1 AAGGTTCTAGATTTA-GG-TTTTGAGTTT
* * *
95637899 AAGATTCGAG-TTTA-GTGTTTGATGTAT
1 AAGGTTCTAGATTTAGGT-TTTGA-GTTT
* *
95637926 AGGGTT-TGAGGTTT-GAGTTTTGAGTTT
1 AAGGTTCT-AGATTTAG-GTTTTGAGTTT
*
95637953 AGGGTTCTAGATTTAGGTTT
1 AAGGTTCTAGATTTAGGTTT
95637973 AGGTTTTAAG
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
25 1 0.01
26 6 0.08
27 26 0.32
28 28 0.35
29 14 0.17
30 5 0.06
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.46
Consensus pattern (27 bp):
AAGGTTCTAGATTTAGGTTTTGAGTTT
Found at i:95640241 original size:21 final size:22
Alignment explanation
Indices: 95640190--95640243 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
95640180 GATCATAACG
95640190 ATATAA-AAATAAATTAATAAAC
1 ATATAATAAAT-AATTAATAAAC
95640212 ATA-AATAAATAA-TAATGAAA-
1 ATATAATAAATAATTAAT-AAAC
95640232 ATATAATAAATA
1 ATATAATAAATA
95640244 TTCATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.24
21 15 0.52
22 7 0.24
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
ATATAATAAATAATTAATAAAC
Found at i:95640623 original size:21 final size:21
Alignment explanation
Indices: 95640597--95640636 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
95640587 CAAAACAACG
95640597 TAGTTTT-ACCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
95640618 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
95640637 TAGAAAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:95640961 original size:19 final size:19
Alignment explanation
Indices: 95640937--95641043 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
95640927 AAAATTATTA
95640937 TTTTATAAAATTTTAAATT
1 TTTTATAAAATTTTAAATT
* *
95640956 TTTTATATATATTTTTTTATATT
1 TTTTATA-A-A--ATTTTAAATT
*
95640979 TTTTA-AAAATTTGTAATTT
1 TTTTATAAAATTT-TAAATT
95640998 TTTTAAAAATACAAATTTTAGAA-T
1 TTTT----ATA-AAATTTTA-AATT
95641022 TTTTATAAATATTTTAAATT
1 TTTTATAAA-ATTTTAAATT
95641042 TT
1 TT
95641044 AAAAATTATT
Statistics
Matches: 68, Mismatches: 6, Indels: 27
0.67 0.06 0.27
Matches are distributed among these distances:
18 3 0.04
19 19 0.28
20 14 0.21
21 2 0.03
22 1 0.01
23 14 0.21
24 8 0.12
25 7 0.10
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTATAAAATTTTAAATT
Found at i:95641053 original size:19 final size:19
Alignment explanation
Indices: 95641012--95641071 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
95641002 AAAAATACAA
*
95641012 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AA-TTTTAAAAATT
95641032 ATTTTAAATTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
* *
95641051 ATTTTCAAAATTTGAAAATT
1 ATTTT-AAATTTTAAAAATT
95641071 A
1 A
95641072 CTTTGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 8 0.23
20 19 0.54
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:95642307 original size:26 final size:26
Alignment explanation
Indices: 95642278--95642347 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
95642268 CCCAATATAT
95642278 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * * *
95642304 GGCTATTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
95642330 GGCTCTCCG-GAGCTTCCC
1 GGCTCTTCGTGAGCTTCCC
95642348 AATATGGCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:95649920 original size:25 final size:25
Alignment explanation
Indices: 95649892--95649976 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
95649882 GGCTCTTATG
* *
95649892 AGCTTCCCGTTATACGGCTCGGATA
1 AGCTTCCCATTATATGGCTCGGATA
* ** *
95649917 AGCTTTCCATTACT-TGGCTCACATG
1 AGCTTCCCATTA-TATGGCTCGGATA
*
95649942 AGCTTCCCATTATATGGCTCGAGAGA
1 AGCTTCCCATTATATGGCTCG-GATA
95649968 GAGCTTCCC
1 -AGCTTCCC
95649977 GTTTATGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
24 1 0.02
25 34 0.76
26 2 0.04
27 8 0.18
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCGGATA
Found at i:95653372 original size:21 final size:21
Alignment explanation
Indices: 95653346--95653389 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
95653336 CAAACATCTC
* *
95653346 ATATGCCAACTAAACAAATTA
1 ATATGCAAACCAAACAAATTA
*
95653367 ATATGCAAACCAAACATATTA
1 ATATGCAAACCAAACAAATTA
95653388 AT
1 AT
95653390 CTTAAGCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (21 bp):
ATATGCAAACCAAACAAATTA
Found at i:95653789 original size:10 final size:10
Alignment explanation
Indices: 95653774--95653799 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
95653764 AATGTATCAC
95653774 AAAGAAAAAG
1 AAAGAAAAAG
95653784 AAAGAAAAAG
1 AAAGAAAAAG
95653794 AAAGAA
1 AAAGAA
95653800 CACACAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:95656799 original size:23 final size:23
Alignment explanation
Indices: 95656712--95656812 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
95656702 TCCGCTTGTA
* *
95656712 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACCG-TTTCAGCTCAAT
* * * ***
95656736 GGAGCTTATCGTTTCAACTTGTT
1 AGAGCTTACCGTTTCAGCTCAAT
* **
95656759 TGAGCTTATTG-TTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
95656781 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
95656804 AGAGCTTAC
1 AGAGCTTAC
95656813 TATTCACCAG
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 15 0.25
23 38 0.62
24 8 0.13
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:95657016 original size:20 final size:19
Alignment explanation
Indices: 95656987--95657071 Score: 89
Period size: 20 Copynumber: 4.3 Consensus size: 19
95656977 AGATATGTGT
* *
95656987 TTATATGGATGAATTACTG
1 TTATACGGATGAACTACTG
* *
95657006 TTGATACGGATGAATTGCTG
1 TT-ATACGGATGAACTACTG
*
95657026 TTATTACTGATGAACTACTG
1 TTA-TACGGATGAACTACTG
95657046 TTTATACGGATGAACTACTGG
1 -TTATACGGATGAACTACT-G
95657067 TTATA
1 TTATA
95657072 TGAATGAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
19 3 0.05
20 49 0.88
21 4 0.07
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (19 bp):
TTATACGGATGAACTACTG
Found at i:95657078 original size:20 final size:20
Alignment explanation
Indices: 95657035--95657079 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
95657025 GTTATTACTG
* *
95657035 ATGAACTACTGTTTATACGG
1 ATGAACTACTGGTTATACGA
*
95657055 ATGAACTACTGGTTATATGA
1 ATGAACTACTGGTTATACGA
95657075 ATGAA
1 ATGAA
95657080 TTATAGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGAACTACTGGTTATACGA
Found at i:95657089 original size:40 final size:38
Alignment explanation
Indices: 95656987--95657090 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 38
95656977 AGATATGTGT
* * *
95656987 TTATATGGATGAATTACTGTTGATACGGATGAATTGCTG
1 TTATAT-GATGAATTACTGTTTATACGGATGAACTACTG
*
95657026 TTATTACTGATGAACTACTGTTTATACGGATGAACTACTGG
1 TTA-TA-TGATGAATTACTGTTTATACGGATGAACTACT-G
95657067 TTATATGAATGAATTA-TAGTTTAT
1 TTATATG-ATGAATTACT-GTTTAT
95657091 TCGAATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 6 0.11
40 44 0.80
41 5 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (38 bp):
TTATATGATGAATTACTGTTTATACGGATGAACTACTG
Found at i:95668745 original size:68 final size:68
Alignment explanation
Indices: 95668671--95668807 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
95668661 TTAAAACGAG
* *
95668671 ATTCCAACCTTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAATAA
1 ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
95668736 AAT
66 AAT
*
95668739 ATTCCAACATTTTAACCCAATGGAATTATATTAAAACTCATACCCTTTATTTTGTCAAAAAACAA
1 ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
95668804 AAT
66 AAT
95668807 A
1 A
95668808 AAATGCATAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.34
Consensus pattern (68 bp):
ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
AAT
Found at i:95668962 original size:3 final size:3
Alignment explanation
Indices: 95668954--95669000 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
95668944 CTGGAAGAGT
95668954 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95669001 TTACATCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:95674361 original size:131 final size:131
Alignment explanation
Indices: 95674115--95674440 Score: 406
Period size: 131 Copynumber: 2.5 Consensus size: 131
95674105 CGAACTTGGG
* * * * * * *
95674115 GTGATCTTAAATCAATGAGTTGTTTGAAGAAGTGATATTAAATCAACTATATCAAATAAGACTGT
1 GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
** **
95674180 TCATGATCTTAAATCGAATGAACATAAGTTGTTATCTGAAATCAACGAACCTTAATAATATCAGT
66 TCATGATCTTAAATCGAATGAACATAAGTTGAGATCTGAAATCAACGAACCTTAATAATATCAAC
95674245 T
131 T
* * * *
95674246 GTGATCTTAAATCAGTGAGCTGTTTAAAGAAACGATATTAAATCAGCCATCTCAAATAGGATTGA
1 GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
* ** *
95674311 TCATGATCTTAAATCGAATGAACATATA-TTGAGATCTTAAA-CTAGTGAACCTTAATAATGTCA
66 TCATGATCTTAAATCGAATGAACATA-AGTTGAGATCTGAAATC-AACGAACCTTAATAATATCA
95674374 ACT
129 ACT
* * *
95674377 GTGATCTTAAATCAACGAGCTAG-TTAGAGAAGCAATATTAAATCAGCTATCTCAAATAAGATTG
1 GTGATCTTAAATCAATGAGCT-GTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTG
95674441 TTCGTGATGT
Statistics
Matches: 166, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 1 0.01
131 163 0.98
132 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (131 bp):
GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
TCATGATCTTAAATCGAATGAACATAAGTTGAGATCTGAAATCAACGAACCTTAATAATATCAAC
T
Found at i:95676934 original size:27 final size:26
Alignment explanation
Indices: 95676897--95677011 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
95676887 AGCATGGCTG
* *
95676897 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
95676923 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
95676951 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
95676978 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
95677005 CCAGAAC
1 CCAGAAC
95677012 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95676956 original size:54 final size:54
Alignment explanation
Indices: 95676897--95677011 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
95676887 AGCATGGCTG
*
95676897 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
95676951 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
95677005 CCAGAAC
1 CCAGAAC
95677012 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:95678664 original size:26 final size:26
Alignment explanation
Indices: 95678628--95678789 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
95678618 CATGAAATTT
95678628 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
95678654 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
95678680 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
95678706 TTTTCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
95678732 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
95678758 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
95678784 TTATCA
1 TTATCA
95678790 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:95678761 original size:78 final size:78
Alignment explanation
Indices: 95678631--95678785 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
95678621 GAAATTTTTA
95678631 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
1 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
95678696 ACCTAACCTATTT
66 ACCTAACCTATTT
* *
95678709 TCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACATTT
1 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
95678774 ACCTAACCTATT
66 ACCTAACCTATT
95678786 ATCAATTTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (78 bp):
TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
ACCTAACCTATTT
Found at i:95680700 original size:12 final size:12
Alignment explanation
Indices: 95680683--95680707 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95680673 TATTGAATGC
95680683 ATTGTTGTGTGA
1 ATTGTTGTGTGA
95680695 ATTGTTGTGTGA
1 ATTGTTGTGTGA
95680707 A
1 A
95680708 GTTTCAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (12 bp):
ATTGTTGTGTGA
Found at i:95681161 original size:27 final size:26
Alignment explanation
Indices: 95681106--95681161 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
95681096 ATACTAAATA
* **
95681106 TTTTTTTTATTTTTAATCATATTCAT
1 TTTTTTTTAATTTTAATCATAACCAT
95681132 TTTTTTTTCAATTTTAAT-ATAACCAT
1 TTTTTTTT-AATTTTAATCATAACCAT
95681158 TTTT
1 TTTT
95681162 ATTATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTTTTAATTTTAATCATAACCAT
Found at i:95681261 original size:24 final size:26
Alignment explanation
Indices: 95681232--95681279 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
95681222 TCTTATTTTA
95681232 ATATTTG-TTT-TTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
95681256 ATATTTGATTTATTATATTTTTAA
1 ATATTTGATTTATTATATTTTTAA
95681280 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:95682092 original size:68 final size:67
Alignment explanation
Indices: 95682001--95682149 Score: 201
Period size: 67 Copynumber: 2.2 Consensus size: 67
95681991 ATAACTCAAG
* *
95682001 CGCCAATCTAGT-ATATTATATGTAACTATGTTGAACATGTTTTATGCTTAATGGAGTATGCGCT
1 CGCCAATCTA-TCATATTAAATGTAACTATGTGGAACATG-TTTATGCTTAATGGAGTATGCGCT
95682065 ATAT
64 ATAT
* * *
95682069 CGCCAATCTATCATATTAAATGTAATTGTGTGGAACATGTTTATGCTTAATGGAGTATGTGCTAT
1 CGCCAATCTATCATATTAAATGTAACTATGTGGAACATGTTTATGCTTAATGGAGTATGCGCTAT
95682134 AT
66 AT
* * *
95682136 TGCAAATTTATCAT
1 CGCCAATCTATCAT
95682150 TATATGTGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
67 39 0.54
68 33 0.46
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (67 bp):
CGCCAATCTATCATATTAAATGTAACTATGTGGAACATGTTTATGCTTAATGGAGTATGCGCTAT
AT
Found at i:95696255 original size:12 final size:12
Alignment explanation
Indices: 95696227--95696263 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
95696217 AAAACCCAAA
95696227 ATAATAATA-AT
1 ATAATAATATAT
95696238 -TAATAATATAT
1 ATAATAATATAT
*
95696249 ATAATAATTTAT
1 ATAATAATATAT
95696261 ATA
1 ATA
95696264 GAAAATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 8 0.35
11 2 0.09
12 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:95698591 original size:39 final size:39
Alignment explanation
Indices: 95698537--95698618 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
95698527 CCAAACGATA
*
95698537 CTTTTTATTATTTATTATATGTTGTTTTTAAACACACGT
1 CTTTTTATTATTTATTATATGTTGTTTTTAAACACAAGT
95698576 CTTTTTATTATTTATTATATGTTGTTTTTAAACACAAGT
1 CTTTTTATTATTTATTATATGTTGTTTTTAAACACAAGT
95698615 CTTT
1 CTTT
95698619 GTTCTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (39 bp):
CTTTTTATTATTTATTATATGTTGTTTTTAAACACAAGT
Found at i:95708462 original size:42 final size:43
Alignment explanation
Indices: 95708393--95708474 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
95708383 GTTTCAAAAC
* *
95708393 CACACGGGCATAGGACATGAGCATGTGTCCAAGCCGTGTGAAT
1 CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTGAAT
* * * *
95708436 CACACGGCCA-AGGACACGGGCGTGTGTCTAGGCCGTGTG
1 CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTG
95708475 GCATATAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.73
43 9 0.27
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (43 bp):
CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTGAAT
Found at i:95710329 original size:22 final size:23
Alignment explanation
Indices: 95710302--95710350 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
95710292 ATGTTTCTTC
95710302 TTCTTTTTCTCAATC-TTTTTCT
1 TTCTTTTTCTCAATCTTTTTTCT
**
95710324 TTCTTTTTCTCTTTCTTTTTTCT
1 TTCTTTTTCTCAATCTTTTTTCT
95710347 TTCT
1 TTCT
95710351 ATCTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (23 bp):
TTCTTTTTCTCAATCTTTTTTCT
Found at i:95710336 original size:12 final size:11
Alignment explanation
Indices: 95710317--95710350 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
95710307 TTTCTCAATC
95710317 TTTTTCTTTCT
1 TTTTTCTTTCT
95710328 TTTTCTCTTTCT
1 TTTT-TCTTTCT
95710340 TTTTTCTTTCT
1 TTTTTCTTTCT
95710351 ATCTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:95710347 original size:19 final size:18
Alignment explanation
Indices: 95710323--95710375 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
95710313 AATCTTTTTC
*
95710323 TTTCTTTTTCTCTTTCTTT
1 TTTCTTTTTCTCTTT-ATT
* *
95710342 TTTCTTTCTATCTTTATT
1 TTTCTTTTTCTCTTTATT
*
95710360 TTTCATTTTCTTCTTT
1 TTTCTTTTTC-TCTTT
95710376 TGCTTCTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTCTCTTTATT
Found at i:95713648 original size:26 final size:26
Alignment explanation
Indices: 95713612--95713664 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
95713602 CCAATGTTTG
95713612 CACATTCTATCAATTTGATCCTAAAT
1 CACATTCTATCAATTTGATCCTAAAT
*
95713638 CACATTCTATCAATTTGATTCTAAAT
1 CACATTCTATCAATTTGATCCTAAAT
95713664 C
1 C
95713665 TAAAAAATCT
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:0.23, G:0.04, T:0.40
Consensus pattern (26 bp):
CACATTCTATCAATTTGATCCTAAAT
Found at i:95714564 original size:19 final size:19
Alignment explanation
Indices: 95714540--95714585 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
95714530 TTAAAATTTG
95714540 AAAATAAAAATATTATTAT
1 AAAATAAAAATATTATTAT
*** *
95714559 AAAATAATTGTATTGTTAT
1 AAAATAAAAATATTATTAT
95714578 AAAATAAA
1 AAAATAAA
95714586 GAGAGATGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATAAAAATATTATTAT
Found at i:95716656 original size:61 final size:61
Alignment explanation
Indices: 95716519--95716663 Score: 170
Period size: 61 Copynumber: 2.3 Consensus size: 61
95716509 TCAAGCTTTA
* * *
95716519 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGATAACTGGGCCTTAGCCCATATCAATATCAAT
* * *
95716581 TTGGGCCATAGCCCTATTACAATATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAG-ATAACTGGGCCTTAGCCCATATCAATATCAAT
95716642 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
95716664 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 37 0.51
62 31 0.43
63 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (61 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGATAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:95716790 original size:22 final size:22
Alignment explanation
Indices: 95716765--95716806 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95716755 CATGATAACC
*
95716765 CCATCC-TACCCTGCACTTCCCT
1 CCATCCAT-CCCTACACTTCCCT
95716787 CCATCCATCCCTACACTTCC
1 CCATCCATCCCTACACTTCC
95716807 TGTGGGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.17, C:0.55, G:0.02, T:0.26
Consensus pattern (22 bp):
CCATCCATCCCTACACTTCCCT
Found at i:95719321 original size:20 final size:22
Alignment explanation
Indices: 95719283--95719322 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
95719273 TTCAAATACG
*
95719283 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
95719305 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
95719323 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:95722769 original size:25 final size:25
Alignment explanation
Indices: 95722741--95722789 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
95722731 ATTAGTTAAC
95722741 ATTT-GTATAAGATCAAACCGATTTA
1 ATTTAGTAT-AGATCAAACCGATTTA
**
95722766 ATTTAGTATTTATCAAACCGATTT
1 ATTTAGTATAGATCAAACCGATTT
95722790 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
ATTTAGTATAGATCAAACCGATTTA
Found at i:95722800 original size:24 final size:25
Alignment explanation
Indices: 95722752--95722801 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
95722742 TTTGTATAAG
**
95722752 ATCAAACCGATTTAATTTAGTATTT
1 ATCAAACCGATTTAATTTAAAATTT
*
95722777 ATCAAACCGATTT-TTTTAAAATTT
1 ATCAAACCGATTTAATTTAAAATTT
95722801 A
1 A
95722802 GTATTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (25 bp):
ATCAAACCGATTTAATTTAAAATTT
Found at i:95724166 original size:23 final size:23
Alignment explanation
Indices: 95724140--95724187 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
95724130 AATATCACAG
*
95724140 TTGTTTTTTATAAAGTTAAAATT
1 TTGTTTTTTACAAAGTTAAAATT
*
95724163 TTGTTTTTTACATAGTTAAAATT
1 TTGTTTTTTACAAAGTTAAAATT
95724186 TT
1 TT
95724188 AAATTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
TTGTTTTTTACAAAGTTAAAATT
Found at i:95724220 original size:17 final size:17
Alignment explanation
Indices: 95724198--95724233 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
95724188 AAATTATGAC
95724198 TTTAATATCTTAAATAT
1 TTTAATATCTTAAATAT
95724215 TTTAATATCTTAAATAT
1 TTTAATATCTTAAATAT
95724232 TT
1 TT
95724234 AAAGTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAATATCTTAAATAT
Found at i:95726754 original size:64 final size:64
Alignment explanation
Indices: 95726680--95726810 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
95726670 AATTCATTAG
*
95726680 TTGATGTTGTGTTCACACAATAAAGGGAATATAATCTTTCTTAGATATCTTGTGATTCAGGGCA
1 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
95726744 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
1 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
95726808 TTG
1 TTG
95726811 CTTCTGATAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (64 bp):
TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
Found at i:95728448 original size:38 final size:38
Alignment explanation
Indices: 95728361--95728555 Score: 232
Period size: 38 Copynumber: 5.0 Consensus size: 38
95728351 AAACCCAAAC
* * * *
95728361 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
*
95728401 ATAATACCAGCAC-TAGACCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAG-CCTGCGGGATTTAACCCGGAT
95728439 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
95728477 ATATTACCAGTACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
95728515 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
95728555 A
1 A
95728556 CACATCAAAT
Statistics
Matches: 137, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.01
38 96 0.70
39 12 0.09
40 28 0.20
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:95733521 original size:54 final size:54
Alignment explanation
Indices: 95733463--95733573 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
95733453 TCTCTACCCA
* * *
95733463 TGTAACTCACTGACTTGAGG-CACACGACCATGTCTCAACCCGTGTCTCAGCCCG
1 TGTAACTCACTAACTTG-GGTCACACGACCATGTCGCAACCCGTATCTCAGCCCG
* * * *
95733517 TGTAACTCACTAACTTGGGTCACACGGCCATGTCGCAAGCTGTATGTCAGCCCG
1 TGTAACTCACTAACTTGGGTCACACGACCATGTCGCAACCCGTATCTCAGCCCG
95733571 TGT
1 TGT
95733574 GGAAACTACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 2 0.04
54 47 0.96
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (54 bp):
TGTAACTCACTAACTTGGGTCACACGACCATGTCGCAACCCGTATCTCAGCCCG
Found at i:95735861 original size:22 final size:23
Alignment explanation
Indices: 95735822--95735868 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
95735812 CATATGCATC
** *
95735822 TTATGAATTTAATCTATGTTTTA
1 TTATGAATTTAAAATATGATTTA
95735845 TTATG-ATTTAAAATATGATTTA
1 TTATGAATTTAAAATATGATTTA
95735867 TT
1 TT
95735869 TTGGGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTATGAATTTAAAATATGATTTA
Found at i:95738869 original size:20 final size:19
Alignment explanation
Indices: 95738834--95738873 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
95738824 AAATTAAGTT
*
95738834 TTAATTAATTATAATTAAC
1 TTAATTAATAATAATTAAC
95738853 TTAATTAACTAATAATTAAC
1 TTAATTAA-TAATAATTAAC
95738873 T
1 T
95738874 AACACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATTAATAATAATTAAC
Found at i:95738870 original size:11 final size:11
Alignment explanation
Indices: 95738835--95738875 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
95738825 AATTAAGTTT
*
95738835 TAATTAA-TTA
1 TAATTAACTAA
95738845 TAATTAACT--
1 TAATTAACTAA
95738854 TAATTAACTAA
1 TAATTAACTAA
95738865 TAATTAACTAA
1 TAATTAACTAA
95738876 CACTAATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.32
10 7 0.25
11 12 0.43
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATTAACTAA
Found at i:95744344 original size:40 final size:40
Alignment explanation
Indices: 95744282--95744499 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
95744272 AAGCCAAGTA
* * * *
95744282 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
95744321 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
95744361 CTTTTGGAACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
95744401 CCTTCGGGAATTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
95744441 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
95744481 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
95744500 TTATCATCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 13 0.08
40 141 0.92
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95745769 original size:5 final size:5
Alignment explanation
Indices: 95745747--95745779 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
95745737 CATGAGAGCC
95745747 TTTCT TTT-T TTTCTT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTC-T TTTCT TTTCT TTTCT TTT
95745780 TTTCATCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:95752468 original size:40 final size:40
Alignment explanation
Indices: 95752251--95752468 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
95752241 AAGCCAAGTA
* * * *
95752251 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
95752290 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
95752330 CTTTTGGAACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
95752370 CCTTCGGGAATTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
95752410 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
95752450 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
95752469 TTATCATCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 13 0.08
40 140 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95756126 original size:17 final size:17
Alignment explanation
Indices: 95756104--95756140 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
95756094 AACATTGCAC
95756104 TTTAGGTTAAAAGTGCT
1 TTTAGGTTAAAAGTGCT
95756121 TTTAGGTTAAAAGTGCT
1 TTTAGGTTAAAAGTGCT
95756138 TTT
1 TTT
95756141 GGAGTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (17 bp):
TTTAGGTTAAAAGTGCT
Found at i:95756461 original size:164 final size:165
Alignment explanation
Indices: 95756138--95756469 Score: 612
Period size: 164 Copynumber: 2.0 Consensus size: 165
95756128 TAAAAGTGCT
*
95756138 TTTGGAGTTATAAGCAATGCTAAGCAAACAATTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
1 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
* *
95756203 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATTAGTTTTTGAGCCAAATGATATTTTA
66 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
95756268 ACCATTATTTATCTTCCTATGTATCTTATATAATA
131 ACCATTATTTATCTTCCTATGTATCTTATATAATA
95756303 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
1 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
*
95756368 CAAAAACAC-TTTTTTTTAGGTTTCGATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
66 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
*
95756432 ACCATTATTTTTCTTCCTATGTATCTTATATAATA
131 ACCATTATTTATCTTCCTATGTATCTTATATAATA
95756467 TTT
1 TTT
95756470 ATATTGAGTA
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
164 89 0.55
165 73 0.45
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (165 bp):
TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
ACCATTATTTATCTTCCTATGTATCTTATATAATA
Found at i:95757235 original size:26 final size:26
Alignment explanation
Indices: 95757198--95757281 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
95757188 TGATACAAAT
* *
95757198 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95757224 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95757250 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95757276 TGATAA
1 TGATAA
95757282 AAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95762302 original size:21 final size:21
Alignment explanation
Indices: 95762272--95762326 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
95762262 AAAGCATAAA
*
95762272 TTTAAAAATCATATATATGA-
1 TTTATAAATCATATATATGAT
95762292 TTTATTAAATCA-A-ATATGAT
1 TTTA-TAAATCATATATATGAT
95762312 TTTCATAAATCATAT
1 TTT-ATAAATCATAT
95762327 TATAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 6 0.21
20 15 0.52
21 8 0.28
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (21 bp):
TTTATAAATCATATATATGAT
Found at i:95763186 original size:3 final size:3
Alignment explanation
Indices: 95763180--95763208 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95763170 TTATTATATA
95763180 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
95763209 TGCATATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:95766832 original size:63 final size:64
Alignment explanation
Indices: 95766762--95766917 Score: 183
Period size: 63 Copynumber: 2.5 Consensus size: 64
95766752 CACTGTTTGG
** * * * *
95766762 GGTATAAAAACCACACATCCAAGGACGTGGGTGTGTGCCCAGGCCATGTAACTTACTATTT-TA
1 GGTATAAAAACCACACGGCCAAGGACATGGATATGTGCCCAGGCCAGGTAACTTACTATTTGTA
* * * *
95766825 GGTATAAAAACCACACGGCCAGGGGCATGGATATGTGTCCAGGCCAGGTAACTTACTGTTTGTA
1 GGTATAAAAACCACACGGCCAAGGACATGGATATGTGCCCAGGCCAGGTAACTTACTATTTGTA
*
95766889 -CT-TAAAAACCACACGGCCAAGGAACATGG
1 GGTATAAAAACCACACGGCCAAGG-ACATGG
95766918 GCGCGTGCCT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
62 19 0.24
63 57 0.73
64 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (64 bp):
GGTATAAAAACCACACGGCCAAGGACATGGATATGTGCCCAGGCCAGGTAACTTACTATTTGTA
Found at i:95776048 original size:12 final size:12
Alignment explanation
Indices: 95776031--95776079 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 12
95776021 CAAAAAATTG
95776031 AAATAAATCATA
1 AAATAAATCATA
95776043 AAATAAAT-A-A
1 AAATAAATCATA
*
95776053 AAATAAA-AAT-
1 AAATAAATCATA
*
95776063 AAATAATTCATA
1 AAATAAATCATA
95776075 AAATA
1 AAATA
95776080 TAAAGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 15 0.48
11 3 0.10
12 13 0.42
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATCATA
Found at i:95776052 original size:16 final size:16
Alignment explanation
Indices: 95776031--95776079 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
95776021 CAAAAAATTG
95776031 AAATAAATCATAAAAT
1 AAATAAATCATAAAAT
*
95776047 AAATAAA-AATAAAAAT
1 AAATAAATCAT-AAAAT
*
95776063 AAATAATTCATAAAAT
1 AAATAAATCATAAAAT
95776079 A
1 A
95776080 TAAAGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAATCATAAAAT
Found at i:95776349 original size:20 final size:20
Alignment explanation
Indices: 95776312--95776349 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95776302 ATACAAAAGA
*
95776312 ATATATATGAATTACAATCT
1 ATATATATGAAATACAATCT
95776332 ATATAATATGAAAT-CAAT
1 ATAT-ATATGAAATACAAT
95776350 AATCATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATATATGAAATACAATCT
Found at i:95776627 original size:16 final size:14
Alignment explanation
Indices: 95776592--95776629 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
95776582 CATAATATAT
*
95776592 ACAATATAATTCAA
1 ACAATATAATTAAA
95776606 ACAATATATATTAAA
1 ACAATATA-ATTAAA
95776621 ACAA-ATAAT
1 ACAATATAAT
95776630 GAATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAATATAATTAAA
Found at i:95778698 original size:168 final size:168
Alignment explanation
Indices: 95778267--95778946 Score: 613
Period size: 178 Copynumber: 4.0 Consensus size: 168
95778257 TCTACAATCC
* * * * * * * * *
95778267 TCAGTCTGCTTCCTTGCTATCTCAGGAAGAT---TCTACAATCTTCAACCTTCTCTCTTGCTACC
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
* ** *
95778329 TC-AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTTTGGAAGATGAGATTCGCC
66 TCAAG-GAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCC
* * * * *
95778393 ATTTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCTACAATCT
130 ATCTTCGATCTGCTCCACTGCTATCTCA-GGAGACAAG-------A--T
* * * * *
95778441 TCAGTCTACTTCATTGCTACCTCAGGAAGATAAGACTACAAACTTTAACCTGCTCTCTTGCTACC
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTA-C
* * * * * * *
95778506 TT--AGAGAGATAAGGCTGATGGCTAAAAACTACTCCCCTACTACCCCGGGAAGATAAGATTCAC
65 TTCAAG-GAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGC
* *
95778569 CATTTTCAATCTGC-CTCACTGCTATCTCGAGGAGACAAGA-
129 CATCTTCGATCTGCTC-CACTGCTATCTC-AGGAGACAAGAT
* *
95778609 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTACTCCCTTGCTACT
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
* * *
95778674 TCAAGGAAATAAGTCTGGTGGCTAAAATTTGCTCCCTTGCTACCTCGGGAAGATAAGATTCGCCA
66 TCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
* * *
95778739 TCTTCGATCTGCTCCACCGTTATCTCAGGGAGATAAGATCT
131 TCTTCGATCTGCTCCACTGCTATCTCA-GGAGACAAGA--T
* * * * *
95778780 TCAATCTTCAGTTTGCTCCCTTGCTACCTCGGGAAGATAGGACTACAATCTTTAGCTTGTTCCCT
1 TCAGTC-T-A-----CTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCT
* * * *
95778845 TGCTACCTCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATAAAA
59 TGCTACTTCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGA
* *
95778910 TTCGCCGTCTTCGATCTGCTCCACTGCCATCTCAGGA
124 TTCGCCATCTTCGATCTGCTCCACTGCTATCTCAGGA
95778947 AGATAAAATC
Statistics
Matches: 423, Mismatches: 62, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
167 4 0.01
168 135 0.32
169 3 0.01
171 6 0.01
172 1 0.00
173 1 0.00
174 28 0.07
176 1 0.00
177 99 0.23
178 144 0.34
179 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (168 bp):
TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
TCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
TCTTCGATCTGCTCCACTGCTATCTCAGGAGACAAGAT
Found at i:95778818 original size:45 final size:46
Alignment explanation
Indices: 95778617--95778864 Score: 153
Period size: 44 Copynumber: 5.6 Consensus size: 46
95778607 GATCAGTCTA
** *
95778617 CTCCCTTGCTACCTCA-GGAAGATAAGA-CTACAATCATT-AGCCTA
1 CTCCCTTGCTACCTCAGGGAAGATAAGATCTACAATC-TTCAGTTTG
* * ***** ** *
95778661 CTCCCTTGCTACTTCAAGGAA-ATAAG-TCTGGTGGCTAAAATTTG
1 CTCCCTTGCTACCTCAGGGAAGATAAGATCTACAATCTTCAGTTTG
* * *
95778705 CTCCCTTGCTACCTC-GGGAAGATAAGAT-TCGCCATCTTC-GATCTG
1 CTCCCTTGCTACCTCAGGGAAGATAAGATCT-ACAATCTTCAG-TTTG
* * * *
95778750 CTCCAC-CGTTATCTCAGGG-AGATAAGATCTTCAATCTTCAGTTTG
1 CTCC-CTTGCTACCTCAGGGAAGATAAGATCTACAATCTTCAGTTTG
* * *
95778795 CTCCCTTGCTACCTC-GGGAAGATAGGA-CTACAATCTTTAGCTTG
1 CTCCCTTGCTACCTCAGGGAAGATAAGATCTACAATCTTCAGTTTG
*
95778839 TTCCCTTGCTACCTCAGGGAA-ATAAG
1 CTCCCTTGCTACCTCAGGGAAGATAAG
95778865 GCTGGTGGCT
Statistics
Matches: 154, Mismatches: 36, Indels: 28
0.71 0.17 0.13
Matches are distributed among these distances:
43 5 0.03
44 81 0.53
45 62 0.40
46 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
CTCCCTTGCTACCTCAGGGAAGATAAGATCTACAATCTTCAGTTTG
Found at i:95779666 original size:11 final size:11
Alignment explanation
Indices: 95779650--95779678 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
95779640 ATTATTTCAA
95779650 TGCAACATGCT
1 TGCAACATGCT
95779661 TGCAACATGCT
1 TGCAACATGCT
95779672 TGCAACA
1 TGCAACA
95779679 AATCATAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (11 bp):
TGCAACATGCT
Found at i:95780384 original size:46 final size:46
Alignment explanation
Indices: 95780317--95780408 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
95780307 CCTCCGGAGA
95780317 AAGCTTTCTTCACTACATAGGCCCCCTCCCAATTTAGCATCCATTT
1 AAGCTTTCTTCACTACATAGGCCCCCTCCCAATTTAGCATCCATTT
* *
95780363 AAGCTTTCTTTACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
1 AAGCTTTCTTCACTACATAGGCCCCCTCCCAATTTAGCATCCATTT
95780409 CCCTCTGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.23, C:0.34, G:0.10, T:0.34
Consensus pattern (46 bp):
AAGCTTTCTTCACTACATAGGCCCCCTCCCAATTTAGCATCCATTT
Found at i:95787336 original size:12 final size:13
Alignment explanation
Indices: 95787321--95787353 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
95787311 TGCATGTGTG
95787321 CTTGCATTT-TTT
1 CTTGCATTTCTTT
95787333 CTTGCATTTCTTT
1 CTTGCATTTCTTT
95787346 C-TGCATTT
1 CTTGCATTT
95787354 GTTCCAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.61
Consensus pattern (13 bp):
CTTGCATTTCTTT
Found at i:95787514 original size:19 final size:20
Alignment explanation
Indices: 95787490--95787536 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
95787480 TGACTTACTT
* *
95787490 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
95787509 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
95787529 -AATGCAAA
1 TAATGCAAA
95787537 AAAAAGGCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:95791243 original size:16 final size:14
Alignment explanation
Indices: 95791208--95791245 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
95791198 CATAATATAT
*
95791208 ACAATATAATTCAA
1 ACAATATAATTAAA
95791222 ACAATATATATTAAA
1 ACAATATA-ATTAAA
95791237 ACAA-ATAAT
1 ACAATATAAT
95791246 GAATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAATATAATTAAA
Found at i:95793576 original size:5 final size:5
Alignment explanation
Indices: 95793566--95793622 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
95793556 TCTTACTGTT
* *
95793566 TTTAA TTTAA TTTAA TTTAA TTTAA TGTTCAA TATTAA ATAATA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA T-TT-AA T-TTAA TTTA-A TTTAA
95793615 TTTAA TTT
1 TTTAA TTT
95793623 TTGAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 32 0.73
6 7 0.16
7 5 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
TTTAA
Found at i:95794106 original size:22 final size:22
Alignment explanation
Indices: 95794081--95794132 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
95794071 TTAATAAATT
95794081 ATTTTGGTTTACTAAAACAACG
1 ATTTTGGTTTACTAAAACAACG
95794103 ATTTTGGTTTACTAAAACAACG
1 ATTTTGGTTTACTAAAACAACG
95794125 ATTTTGGT
1 ATTTTGGT
95794133 CTACGAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (22 bp):
ATTTTGGTTTACTAAAACAACG
Found at i:95794720 original size:130 final size:131
Alignment explanation
Indices: 95794461--95794794 Score: 385
Period size: 130 Copynumber: 2.6 Consensus size: 131
95794451 GTCCAACGAA
* * * * * *
95794461 AAATCGAAACCCAGCAC-AGTAGGGCATGATTCCTCGAATTTCTAGACATCGAACATTGCCTT-A
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCG
* * ** * * *
95794524 TTTT---AAAGTTTAGAAAATATGAGTGAAATTTTAAAGGGATGTTTGATTATTTTGAACAAACG
65 TTTTAAAAAATTTTAGAAAACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAACA
95794586 GG
130 GG
* * *
95794588 AAATTGCAACCCAGCACGATAGGGTACGATTCCCCGAATTGCTAAACATCGAACATTTCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGT
* *
95794653 TTTAAAAAATTTTA-AAGACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAGCAAACAG
66 TTTAAAAAATTTTAGAAAACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAACAG
95794717 G
131 G
* * * * * *
95794718 AAATCGTAACACAGCACGATAGGGCACGTTTTCCCGAATTGCCAAACATC-AGCATTGCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGT
*
95794782 TTTAAAGAATTTT
66 TTTAAAAAATTTT
95794795 TAAATGAATA
Statistics
Matches: 174, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
127 52 0.30
128 5 0.03
129 24 0.14
130 86 0.49
131 7 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (131 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGT
TTTAAAAAATTTTAGAAAACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAACAG
G
Found at i:95800701 original size:5 final size:5
Alignment explanation
Indices: 95800691--95800727 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
95800681 CTGTGTGTTC
95800691 TTTAT TTTAT TTT-T ATTT-T TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
95800728 CACAATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:95800715 original size:19 final size:18
Alignment explanation
Indices: 95800691--95800727 Score: 65
Period size: 18 Copynumber: 2.0 Consensus size: 18
95800681 CTGTGTGTTC
95800691 TTTATTTTATTTTTATTTT
1 TTTATTTTA-TTTTATTTT
95800710 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
95800728 CACAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTATTTTATTTTATTTT
Found at i:95805146 original size:11 final size:11
Alignment explanation
Indices: 95805130--95805165 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
95805120 CTGTGTGTTC
95805130 TTTATTTTATT
1 TTTATTTTATT
95805141 TTTATTTT-TAT
1 TTTATTTTAT-T
95805152 TTTATTTTATT
1 TTTATTTTATT
95805163 TTT
1 TTT
95805166 TTCACAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:95805165 original size:6 final size:5
Alignment explanation
Indices: 95805130--95805164 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
95805120 CTGTGTGTTC
95805130 TTTAT TTTATT TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTT
95805165 TTTCACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:95805166 original size:17 final size:17
Alignment explanation
Indices: 95805130--95805165 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
95805120 CTGTGTGTTC
95805130 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
95805147 TTTATTTTA-TTTTATT
1 TTTATTTTATTTTTATT
95805163 TTT
1 TTT
95805166 TTCACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Done.