Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 168 of 210
Found at i:50420241 original size:24 final size:24
Alignment explanation
Indices: 50420213--50420266 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
50420203 TTTTTAGAAG
* *
50420213 ATTTAATATTAATTAGTATAATAT
1 ATTTAACATTAATTAGCATAATAT
* * *
50420237 ATTTAGCATTTATTAGCATAATTT
1 ATTTAACATTAATTAGCATAATAT
50420261 ATTTAA
1 ATTTAA
50420267 ACTACGAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAACATTAATTAGCATAATAT
Found at i:50420963 original size:28 final size:28
Alignment explanation
Indices: 50420925--50421005 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
50420915 ATTTTATAGC
* *
50420925 TTGCCTTTATTTTTTAAATTTTATAAAT
1 TTGCCCTTATTTTTTAGATTTTATAAAT
* * **
50420953 TTGCCCTTATTTTTTAGGTTTTACACTT
1 TTGCCCTTATTTTTTAGATTTTATAAAT
* *
50420981 TTGCCCCTATTTTTCAGATTTTATA
1 TTGCCCTTATTTTTTAGATTTTATA
50421006 GTTTTGCCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.21, C:0.15, G:0.07, T:0.57
Consensus pattern (28 bp):
TTGCCCTTATTTTTTAGATTTTATAAAT
Found at i:50421010 original size:28 final size:28
Alignment explanation
Indices: 50420895--50421013 Score: 87
Period size: 28 Copynumber: 4.2 Consensus size: 28
50420885 GACATTACAA
* *
50420895 TTTTGTCCCCTACTTTACAAATTTTATAG
1 TTTTG-CCCCTATTTTTCAAATTTTATAG
* ** * *
50420924 -CTTGCCTTTATTTTTTAAATTTTATAA
1 TTTTGCCCCTATTTTTCAAATTTTATAG
* * * ** * *
50420951 ATTTGCCCTTATTTTTTAGGTTTTACAC
1 TTTTGCCCCTATTTTTCAAATTTTATAG
*
50420979 TTTTGCCCCTATTTTTCAGATTTTATAG
1 TTTTGCCCCTATTTTTCAAATTTTATAG
50421007 TTTTGCC
1 TTTTGCC
50421014 TAAGAAATTC
Statistics
Matches: 70, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
27 17 0.24
28 53 0.76
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (28 bp):
TTTTGCCCCTATTTTTCAAATTTTATAG
Found at i:50422347 original size:32 final size:32
Alignment explanation
Indices: 50422279--50422348 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
50422269 GCTCGTGCAG
*
50422279 CCCACAAGCCCAAATTGGCCTTACCTGTGTGG
1 CCCACAAGCCCAAATTGGCCTTACCTGTGTGA
50422311 CCCACACA-CCCAAATTGGCC-TAGGCCT-TGTGA
1 CCCACA-AGCCCAAATTGGCCTTA--CCTGTGTGA
50422343 CCCACA
1 CCCACA
50422349 TGGCCACACA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 2 0.06
32 28 0.82
33 4 0.12
ACGTcount: A:0.24, C:0.39, G:0.19, T:0.19
Consensus pattern (32 bp):
CCCACAAGCCCAAATTGGCCTTACCTGTGTGA
Found at i:50423786 original size:90 final size:90
Alignment explanation
Indices: 50423552--50423787 Score: 301
Period size: 90 Copynumber: 2.6 Consensus size: 90
50423542 TTATTTATAC
* * * * *
50423552 ATATGTTGTGCATTCACAATCATCTAACAGTGTATTAACCTGCAACACTGGTGGTTCATCCACCT
1 ATATGTTGTGCATTCACAACCATCTAGCAGCGTATTAACCTGCAACATTGGTGGTTCATCCACCC
**
50423617 ATTTTCTGGCAGCTCTCATCTACAA
66 ACATTCTGGCAGCTCTCATCTACAA
* * * * *
50423642 ATATGTTGTGTATTCACAACCATATGGCAACGTATTAACCTGCAAAATTGGTGGTTCATCCACCC
1 ATATGTTGTGCATTCACAACCATCTAGCAGCGTATTAACCTGCAACATTGGTGGTTCATCCACCC
**
50423707 ACATTCTGGCAGCTCTCATCTGTAA
66 ACATTCTGGCAGCTCTCATCTACAA
* * * * *
50423732 ATATGTTATACATTCACAACCATCTAGCAGCATATTAACCTGCAACTTTTGTGGTT
1 ATATGTTGTGCATTCACAACCATCTAGCAGCGTATTAACCTGCAACATTGGTGGTT
50423788 TATTCACAAC
Statistics
Matches: 122, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 122 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (90 bp):
ATATGTTGTGCATTCACAACCATCTAGCAGCGTATTAACCTGCAACATTGGTGGTTCATCCACCC
ACATTCTGGCAGCTCTCATCTACAA
Found at i:50423906 original size:51 final size:51
Alignment explanation
Indices: 50423837--50423939 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
50423827 GAATTCTTAC
50423837 TATGGTGTGTAGCGATGGGGTAAGATCTTCTTTTATAAACCGAAACTATGT
1 TATGGTGTGTAGCGATGGGGTAAGATCTTCTTTTATAAACCGAAACTATGT
*
50423888 TATGGTGTGTAGCGATGGGGTAGGATCTTCTTTTATAAACCGAAACTATGT
1 TATGGTGTGTAGCGATGGGGTAAGATCTTCTTTTATAAACCGAAACTATGT
50423939 T
1 T
50423940 GCATTCATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (51 bp):
TATGGTGTGTAGCGATGGGGTAAGATCTTCTTTTATAAACCGAAACTATGT
Found at i:50424604 original size:22 final size:23
Alignment explanation
Indices: 50424561--50424604 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
50424551 AGCTCTTGGG
*
50424561 TTCTTCTAAAAATAGACTAAATT
1 TTCTTCTAAAAATAAACTAAATT
* *
50424584 TTCTTTTAAAAGTAAAC-AAAT
1 TTCTTCTAAAAATAAACTAAAT
50424605 GTTTTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (23 bp):
TTCTTCTAAAAATAAACTAAATT
Found at i:50425539 original size:28 final size:28
Alignment explanation
Indices: 50425507--50425563 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
50425497 TATTTATGAC
50425507 ATCATTTCTTATATATAAATTAATTTTA
1 ATCATTTCTTATATATAAATTAATTTTA
50425535 ATCATTTCTTATATATAAATTAATTTTA
1 ATCATTTCTTATATATAAATTAATTTTA
50425563 A
1 A
50425564 CTTTAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (28 bp):
ATCATTTCTTATATATAAATTAATTTTA
Found at i:50426846 original size:58 final size:58
Alignment explanation
Indices: 50426756--50426869 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
50426746 AAAAAAACTG
* *
50426756 AAATTATTTGATATTCAAATTGATAGTGATTTGATGATTTGGGCAACCTTAGAATATT
1 AAATTATTTGATATTCAAATTGAGAGTGATTTGATCATTTGGGCAACCTTAGAATATT
* *
50426814 AAATTATTTGATATTCAAATTTAGAGTGATTTGTTCATTTGGGCAACCTTAGAATA
1 AAATTATTTGATATTCAAATTGAGAGTGATTTGATCATTTGGGCAACCTTAGAATA
50426870 ATTTAAAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (58 bp):
AAATTATTTGATATTCAAATTGAGAGTGATTTGATCATTTGGGCAACCTTAGAATATT
Found at i:50427227 original size:29 final size:28
Alignment explanation
Indices: 50427166--50427235 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
50427156 ATTTTTTTTC
* *
50427166 TAAAAT-TTTAAAACTTTATAATTTATT
1 TAAAATATTTAAAACTTTATAATCTAGT
*
50427193 TAAAATTTATTAAAACTTTATAATCTAGT
1 TAAAATAT-TTAAAACTTTATAATCTAGT
*
50427222 TCAAATATTTAAAA
1 TAAAATATTTAAAA
50427236 AATTAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.16
28 7 0.19
29 24 0.65
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAAATATTTAAAACTTTATAATCTAGT
Found at i:50427673 original size:20 final size:20
Alignment explanation
Indices: 50427631--50427672 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
50427621 TTATGAACTA
*
50427631 TTTATATAGTATTTTAAAAT
1 TTTATATAGTATATTAAAAT
50427651 TTTA-ATAGTATATTAAAAT
1 TTTATATAGTATATTAAAAT
50427670 TTT
1 TTT
50427673 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTATATAGTATATTAAAAT
Found at i:50437072 original size:96 final size:96
Alignment explanation
Indices: 50436960--50437151 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
50436950 CTGCAAGATA
50436960 AAAATTTGTGGCTGAAATTAAACAATGAAACAACTATCAATTTTGTTAGTTAGTACATCTGAAAT
1 AAAATTTGTGGCTGAAATTAAACAATGAAACAACTATCAATTTTGTTAGTTAGTACATCTGAAAT
50437025 TTCCCCATGTTTTCAATATTTTCGGCATTCT
66 TTCCCCATGTTTTCAATATTTTCGGCATTCT
50437056 AAAATTTGTGGCTGAAATTAAACAATGAAACAACTATCAATTTTGTTAGTTAGTACATCTGAAAT
1 AAAATTTGTGGCTGAAATTAAACAATGAAACAACTATCAATTTTGTTAGTTAGTACATCTGAAAT
50437121 TTCCCCATGTTTTCAATATTTTCGGCATTCT
66 TTCCCCATGTTTTCAATATTTTCGGCATTCT
50437152 TTTTTGTGTG
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (96 bp):
AAAATTTGTGGCTGAAATTAAACAATGAAACAACTATCAATTTTGTTAGTTAGTACATCTGAAAT
TTCCCCATGTTTTCAATATTTTCGGCATTCT
Found at i:50439037 original size:109 final size:109
Alignment explanation
Indices: 50438608--50439034 Score: 678
Period size: 109 Copynumber: 3.9 Consensus size: 109
50438598 AAGATATAAG
* * *
50438608 AGGATATTTGGCTATTTGATCCAACGAGAAAAATCGAAACCCAGCACATTGGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
50438673 GAATTTCCAAACGCAAAACACTGCCTTATTTTGAAAATT-TTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTG-AAATTATTAAA
*
50438717 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGACACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
50438782 GAATTTCCAAACGTAAAACATTGCCTTACTTTGAATTTATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
* * * *
50438826 AGGATATTTGGCTATTTGGTCGAATGAGAAAAATAGAAACCCAACACATTAGGGCACGTTTTCCC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
50438891 GAATTTCCAAATGCAAAACATTGCCTTACTTTGAAATTATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
* *
50438935 AGGATATTTGACTATTTGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT-
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
50438999 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAA
50439035 ATTTTTCTTT
Statistics
Matches: 294, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
108 37 0.13
109 257 0.87
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
Found at i:50439092 original size:20 final size:21
Alignment explanation
Indices: 50439060--50439104 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50439050 ATATGGTGTT
50439060 AATATGCATAATG-AAATAATA
1 AATATGCATAATGTAAATAA-A
50439081 AATATG-ATAATGTAAATAAA
1 AATATGCATAATGTAAATAAA
50439101 AATA
1 AATA
50439105 ATACGAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (21 bp):
AATATGCATAATGTAAATAAA
Found at i:50441407 original size:131 final size:131
Alignment explanation
Indices: 50441150--50441486 Score: 532
Period size: 131 Copynumber: 2.6 Consensus size: 131
50441140 TGCTGTTGTT
* * * * * *
50441150 GATCTACTCCACTACTGCTTAGAGAGAAAGGATCTACAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTTCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
50441215 GGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCT
66 GGGAGATA-GACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCT
50441280 TC
130 TC
*
50441282 GATCTGCTTCACTACTGCTTAGGGAGACAGAATCTGCAATTTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTTCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
* *
50441347 GGGAGATAGACTAATGGCTTAAATCTGCTTCTCCCCTATCTTGGGAAGATAAGATTCACCATCTT
66 GGGAGATAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTT
50441412 C
131 C
* * * *
50441413 GATATGC-TCTACTACTGCTTAGGGAGACAGATTCTGCAATCTTCAACCTACTCCACTATTACTT
1 GATCTGCTTC-ACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
50441477 AGGGAGATAG
65 AGGGAGATAG
50441487 GATCGGCTTC
Statistics
Matches: 190, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
130 2 0.01
131 122 0.64
132 66 0.35
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (131 bp):
GATCTGCTTCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
GGGAGATAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTT
C
Found at i:50441582 original size:50 final size:50
Alignment explanation
Indices: 50441522--50442100 Score: 319
Period size: 50 Copynumber: 11.7 Consensus size: 50
50441512 TTCAATGTTG
* * *
50441522 GGGAAGTAAGATTCGCCATCGTAGCTTCAATATATTCCACTACACTGCCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * * ** * * * *
50441572 AGGAAGTAAGATTTC-CCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCG
1 GGGAAGTAAGA-TTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* *
50441621 GGGAAGTAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCACTGCCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * * ** * * * *
50441671 GGGAAGTAAGATTCGTCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
** * *
50441720 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * * * ** * * * * *
50441770 GGGAAGTAAGATTTGCCGTTGTGGCCTCAATAT-TTTAATTGTAATGTCA
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* ** * * *
50441819 GGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGTACTGCCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * * * * ** * * * **
50441869 GGGAAGTAAAATTCACCATTGTGGCTTCAATCTTTTTAATTGTAAT-TTT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * * * *
50441918 GGGGAAGCAAGATTCACCGTCGTAGCTTCAATTTGTTCCGCTACAC--CACT
1 -GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGC-CT
* * * * * ** * * *
50441968 TGGAAGTAAAATTCGCCGTGGTGGCTTCAATCTTTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * * *
50442017 GGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCT
1 -GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
* * *
50442068 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCT
50442101 TTTTAATTGC
Statistics
Matches: 380, Mismatches: 138, Indels: 22
0.70 0.26 0.04
Matches are distributed among these distances:
48 3 0.01
49 135 0.36
50 238 0.63
51 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACTGCCT
Found at i:50441633 original size:99 final size:100
Alignment explanation
Indices: 50441506--50442112 Score: 751
Period size: 99 Copynumber: 6.1 Consensus size: 100
50441496 CTTCTGTCTA
* * * * * * *
50441506 TTTAACTT-CAATGTTGGGGAAGTAAGATTCGCCATCGTAGCTTCAATATATTCCACTACACTGC
1 TTTAA-TTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGC
*
50441570 CTAGGAAGTAAGATTTC-CCGTTGTGGCCTCAATC-T
65 CTGGGAAGTAAGA-TTCACCGTTGTGGCCTCAATCTT
* **
50441605 TTTAATTGCAATGTCGGGGAAGTAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
**
50441670 TGGGAAGTAAGATTCGTCGTTGTGGCCTCAATC-T
66 TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
*
50441704 TTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
** *
50441769 TGGGAAGTAAGATTTGCCGTTGTGGCCTCAAT-AT
66 TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * * * * *
50441803 TTTAATTGTAATGTCAGGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGTACTGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
* * *
50441868 TGGGAAGTAAAATTCACCATTGTGGCTTCAATCTT
66 TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * * * *
50441903 TTTAATTGTAATTTTGGGGAAGCAAGATTCACCGTCGTAGCTTCAATTTGTTCCGCTACAC--CA
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGC-
* * * * *
50441966 CTTGGAAGTAAAATTCGCCGTGGTGGCTTCAATCTT
65 CTGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * *
50442002 TTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
*
50442067 TGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
66 TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
50442102 TTTAATTGCAA
1 TTTAATTGCAA
50442113 ACTATGGTTT
Statistics
Matches: 451, Mismatches: 50, Indels: 13
0.88 0.10 0.03
Matches are distributed among these distances:
98 6 0.01
99 348 0.77
100 96 0.21
101 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACTGCC
TGGGAAGTAAGATTCACCGTTGTGGCCTCAATCTT
Found at i:50447862 original size:254 final size:254
Alignment explanation
Indices: 50447406--50447914 Score: 885
Period size: 254 Copynumber: 2.0 Consensus size: 254
50447396 ATGTGGGGGA
*
50447406 AAGTCATAGGTTCCCAATCAACTTCTTCTCCACTCAAACGCGCCTTCCTTCTCTCTTGTCTTTTC
1 AAGTCATAGGTTCCCAATCAACTTCTTCTCCACTCAAACGCGCCTTCCTCCTCTCTTGTCTTTTC
* *
50447471 TCTAACTCTTCCCTTCTTTGTCTAGCATTTGGTTTCAATCCTAAACCAAAGCGGTCTTATTTATC
66 TCTAACTCTTCCCTTCTTTGTCTAGCATTTGGCTTCAATCCTAAACCAAAGCAGTCTTATTTATC
*
50447536 TTTCACCATTGGTGCCTCTATCATTCCTTGAAGGTATCTTCCAAGTCCTCTTCCAGGCACAGCTC
131 TTTCACCATTGGTGCCTCTATCATTCCTTGAAGGCATCTTCCAAGTCCTCTTCCAGGCACAGCTC
* * *
50447601 ATTTCCCAACAATCATTTGTAGTCTCATCCTCGTGGCTCTAGATATGCTGGCCATCGGG
196 ATTTCCCAACAATCATTTGTAGTCCCATCCTCGTGGCTCTAAATATGCTGGCCACCGGG
*
50447660 AAGTCATAGGTTCCCAATCAACTTCTTCTCCACTCAAACGCGTCTTCCTCCTCTCTTGTCTTTTC
1 AAGTCATAGGTTCCCAATCAACTTCTTCTCCACTCAAACGCGCCTTCCTCCTCTCTTGTCTTTTC
* * * *
50447725 TCTAACTCTTTCTTTTTTTGTCTAGCATTTGGCTTCAATCCTAAACCAAAGTAGTCTTATTTATC
66 TCTAACTCTTCCCTTCTTTGTCTAGCATTTGGCTTCAATCCTAAACCAAAGCAGTCTTATTTATC
*
50447790 TTTCACCATTGGTGCCTCTATCCTTCCTTGAAGGCATCTTCCAAGTCCTCTTCCAGGCACAGCTT
131 TTTCACCATTGGTGCCTCTATCATTCCTTGAAGGCATCTTCCAAGTCCTCTTCCAGGCACAGC-T
50447855 C-TTTCCCAACAATCATTTGTAGTCCCATCCTCGTGGCTCTAAATATGCTGGCCACCGGG
195 CATTTCCCAACAATCATTTGTAGTCCCATCCTCGTGGCTCTAAATATGCTGGCCACCGGG
50447914 A
1 A
50447915 TCTTCTTTCC
Statistics
Matches: 241, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
254 239 0.99
255 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (254 bp):
AAGTCATAGGTTCCCAATCAACTTCTTCTCCACTCAAACGCGCCTTCCTCCTCTCTTGTCTTTTC
TCTAACTCTTCCCTTCTTTGTCTAGCATTTGGCTTCAATCCTAAACCAAAGCAGTCTTATTTATC
TTTCACCATTGGTGCCTCTATCATTCCTTGAAGGCATCTTCCAAGTCCTCTTCCAGGCACAGCTC
ATTTCCCAACAATCATTTGTAGTCCCATCCTCGTGGCTCTAAATATGCTGGCCACCGGG
Found at i:50454359 original size:109 final size:109
Alignment explanation
Indices: 50454167--50454594 Score: 687
Period size: 109 Copynumber: 3.9 Consensus size: 109
50454157 AAGATATAAG
* * **
50454167 AGGATATTTGGCTATTTGATCCAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTT
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCCC
*
50454232 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT-TTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTG-AAATTATTAAA
* * * * *
50454276 AGGATATTTAGCTATTTGGTCGAACAAGAAAAATCGAAACCCTGCACATTAGGACACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCCC
* * *
50454341 TAATTTCCAAACGTAAAACATTGCCTTACTTTGAATTTATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
* *
50454385 AGGATATTTGGCTATTTGGTCGAATGAGAAAAACCGAAACCCAGCACATTAGGGCACGTTTTCCC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCCC
50454450 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
* *
50454494 AGGATATTTGGCTATTTGGTCGAATGAGAAAAATCAAAACCCAGCACATTAGGGCACGTTTTCCC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCCC
50454559 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAA
50454595 ATTTTTCTTT
Statistics
Matches: 295, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 4 0.01
109 291 0.99
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCCC
GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAA
Found at i:50454652 original size:20 final size:21
Alignment explanation
Indices: 50454620--50454664 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50454610 ATATGGTGTT
50454620 AATATGCATAATG-AAATAATA
1 AATATGCATAATGTAAATAA-A
50454641 AATATG-ATAATGTAAATAAA
1 AATATGCATAATGTAAATAAA
50454661 AATA
1 AATA
50454665 ATACGAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (21 bp):
AATATGCATAATGTAAATAAA
Found at i:50469703 original size:33 final size:33
Alignment explanation
Indices: 50469650--50469712 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
50469640 CAAAAGCTAG
50469650 AACCCTTCAGCAGAGCAGATACGATTTCAACGT
1 AACCCTTCAGCAGAGCAGATACGATTTCAACGT
* * *
50469683 AACCTTTCAGCGGAGTAGATACGATTTCAA
1 AACCCTTCAGCAGAGCAGATACGATTTCAA
50469713 TGTTGTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (33 bp):
AACCCTTCAGCAGAGCAGATACGATTTCAACGT
Found at i:50472961 original size:18 final size:18
Alignment explanation
Indices: 50472940--50472976 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50472930 TATTGGGCTT
50472940 GTTTAATGCTTTGGGCCC
1 GTTTAATGCTTTGGGCCC
* *
50472958 GTTTATTGGTTTGGGCCC
1 GTTTAATGCTTTGGGCCC
50472976 G
1 G
50472977 GGCATATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.32, T:0.41
Consensus pattern (18 bp):
GTTTAATGCTTTGGGCCC
Found at i:50473849 original size:6 final size:6
Alignment explanation
Indices: 50473838--50473868 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
50473828 TCTTTAGACT
50473838 TCTCTG TCTCTG TCTCTG TCTCTG TCATCTG
1 TCTCTG TCTCTG TCTCTG TCTCTG TC-TCTG
50473869 CGCCTGGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.03, C:0.32, G:0.16, T:0.48
Consensus pattern (6 bp):
TCTCTG
Found at i:50474540 original size:5 final size:5
Alignment explanation
Indices: 50474530--50474554 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50474520 ACCATAGGTT
50474530 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
50474555 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:50479708 original size:21 final size:22
Alignment explanation
Indices: 50479682--50479722 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50479672 ATATTGTCTC
*
50479682 AATTTAG-TCTTAATTTTTAAA
1 AATTTAGCTCTTAATGTTTAAA
50479703 AATTTAGCTCTTAATGTTTA
1 AATTTAGCTCTTAATGTTTA
50479723 CATATTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
AATTTAGCTCTTAATGTTTAAA
Found at i:50479828 original size:18 final size:18
Alignment explanation
Indices: 50479791--50479825 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50479781 TAAATTAGAA
50479791 ATAAAACAAAAATATTTT
1 ATAAAACAAAAATATTTT
*
50479809 ATAAAA-AAATATATTTT
1 ATAAAACAAAAATATTTT
50479826 TATTAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAACAAAAATATTTT
Found at i:50480471 original size:20 final size:18
Alignment explanation
Indices: 50480432--50480476 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
50480422 TGAAAACAAC
50480432 AAAAAATGATTTTTGAAA
1 AAAAAATGATTTTTGAAA
* *
50480450 AATAAATCGATTTTTTAGAA
1 AAAAAAT-GATTTTTGA-AA
50480470 AAAAAAT
1 AAAAAAT
50480477 TATTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (18 bp):
AAAAAATGATTTTTGAAA
Found at i:50480485 original size:20 final size:22
Alignment explanation
Indices: 50480440--50480485 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
50480430 ACAAAAAATG
*
50480440 ATTTTTGAAAAATAAATCGATT
1 ATTTTAGAAAAATAAATCGATT
*
50480462 -TTTTAGAAAAA-AAAT-TATT
1 ATTTTAGAAAAATAAATCGATT
50480481 ATTTT
1 ATTTT
50480486 TCGGTGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.14
20 8 0.38
21 10 0.48
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTTTAGAAAAATAAATCGATT
Found at i:50494597 original size:16 final size:18
Alignment explanation
Indices: 50494571--50494603 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50494561 TCAAATTAAC
50494571 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
50494588 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
50494604 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:50496292 original size:50 final size:49
Alignment explanation
Indices: 50496217--50496386 Score: 169
Period size: 51 Copynumber: 3.4 Consensus size: 49
50496207 GATGGTCATG
* * * *
50496217 TGTGTAGTACTATGTGCAGGTTACTACGTGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GGATGATAGGTCACA
* * * * * *
50496267 TGTGTAGTACTATGTGCAAGCTACTATGCGTACCGGATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT-G-ATAGGTCACA
* * * *
50496318 TGTGTAGTACTATGCGCACGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGAT-A-GGTCACA
50496369 TGTGTAGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
50496387 GGTTACTATG
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.04
50 32 0.33
51 60 0.62
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGATAGGTCACA
Found at i:50496395 original size:14 final size:14
Alignment explanation
Indices: 50496376--50496408 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
50496366 ACATGTGTAG
*
50496376 TACTATGTGCAGGT
1 TACTATGTGCAGGC
50496390 TACTATGTGCAGGC
1 TACTATGTGCAGGC
50496404 TACTA
1 TACTA
50496409 CGTGAACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (14 bp):
TACTATGTGCAGGC
Found at i:50501941 original size:51 final size:51
Alignment explanation
Indices: 50501798--50501972 Score: 149
Period size: 51 Copynumber: 3.5 Consensus size: 51
50501788 AAAGTGATGT
* ** * * * *
50501798 TCACATGTGTAGTACTATGTGTATTCTACTACGTGTACAGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGCGTACCGGATAGTAAT-GA
* * * *
50501848 TCGCATGTGTAGTACTATGAGCAAGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGCGTACCGGATAGTAAT-GA
* * * * * *
50501899 TCACGTGTGTAGTACTATGTGCACGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGCGTACCGGATAGTAATGA
*
50501950 TTACATGTGTAGTACTATGTGCA
1 TCACATGTGTAGTACTATGTGCA
50501973 GGTTACTATG
Statistics
Matches: 99, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 34 0.34
51 63 0.64
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGCGTACCGGATAGTAATGA
Found at i:50501981 original size:14 final size:14
Alignment explanation
Indices: 50501962--50502012 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
50501952 ACATGTGTAG
*
50501962 TACTATGTGCAGGT
1 TACTATGTGCAGGC
50501976 TACTATGTGCAGGC
1 TACTATGTGCAGGC
50501990 TACTATGTGCAGGC
1 TACTATGTGCAGGC
50502004 TACTATGTG
1 TACTATGTG
50502013 AACCGAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (14 bp):
TACTATGTGCAGGC
Found at i:50502083 original size:45 final size:45
Alignment explanation
Indices: 50502014--50502108 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
50502004 TACTATGTGA
* *
50502014 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
50502059 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
50502104 ACCGA
1 ACCGA
50502109 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:50506588 original size:14 final size:15
Alignment explanation
Indices: 50506564--50506592 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50506554 TTTTTCTGTG
50506564 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
50506579 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
50506593 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:50506830 original size:28 final size:28
Alignment explanation
Indices: 50506784--50506840 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
50506774 TATAGTTTTT
50506784 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
*
50506812 ATAATATATTATAAA-GTTATTATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
50506840 A
1 A
50506841 AACAAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:50507899 original size:42 final size:41
Alignment explanation
Indices: 50507745--50507900 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 41
50507735 TGTGTTATCG
* *
50507745 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT--GATTCA
* * * * *
50507787 TGTATAAAACCATGTCTGGGACATCGACATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACATTGGCATCGATA-TTGA-TTCA
* *
50507831 TGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTGATT-CA
50507873 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
50507901 TGTACGAGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.02
42 51 0.57
43 8 0.09
44 26 0.29
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTGATTCA
Found at i:50510635 original size:59 final size:58
Alignment explanation
Indices: 50510540--50510678 Score: 192
Period size: 59 Copynumber: 2.4 Consensus size: 58
50510530 GAGATACGTA
*
50510540 GTGTAAGACCATAGATGAAAGACGCCATAACAGCATGGTACAAGGTAAAACGGTATATAG
1 GTGTAAGACCATAGATGAAAGACACCATAACAGCATGGTACAAGGTAAAA-GGTATAT-G
* * * *
50510600 G-GTAAGACCATGGATGAAAGACACCATGGA-GGCATGGTACAAGGTATAAGGTATATG
1 GTGTAAGACCATAGATGAAAGACACCAT-AACAGCATGGTACAAGGTAAAAGGTATATG
50510657 GTGTAAGACCATAGATGAAAGA
1 GTGTAAGACCATAGATGAAAGA
50510679 TGTTATGACA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
57 2 0.03
58 26 0.37
59 41 0.58
60 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (58 bp):
GTGTAAGACCATAGATGAAAGACACCATAACAGCATGGTACAAGGTAAAAGGTATATG
Found at i:50525438 original size:5 final size:5
Alignment explanation
Indices: 50525428--50525476 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
50525418 ACCTAGGCTG
* *
50525428 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TG-AAT TGAAT TGAAT TGA
50525477 GCTAAATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:50525966 original size:24 final size:23
Alignment explanation
Indices: 50525921--50525984 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
50525911 GCAGCTCTTA
*
50525921 TGAACTTCCCGATATATGGCTCTCT
1 TGAACTTCCCG--ATATGGCTCGCT
*
50525946 GTGAGCTTCCCGATATGGCTCGCT
1 -TGAACTTCCCGATATGGCTCGCT
*
50525970 TGAACTTTCCGATAT
1 TGAACTTCCCGATAT
50525985 ATGGCTATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.38
24 11 0.32
26 10 0.29
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (23 bp):
TGAACTTCCCGATATGGCTCGCT
Found at i:50526013 original size:49 final size:47
Alignment explanation
Indices: 50525921--50526023 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 47
50525911 GCAGCTCTTA
* *
50525921 TGAACTTCCCGATATATGGCTCTCTGTGAGCTTCCCGATATGGCTCGCT
1 TGAACTTCCCGATATATGGCTATCCGTGAGCTTCCCGATATGGCT--CT
* * *
50525970 TGAACTTTCCGATATATGGCTATCCG-GAGCTTTCCGTTAATGGCTCT
1 TGAACTTCCCGATATATGGCTATCCGTGAGCTTCCCGAT-ATGGCTCT
50526017 TGAACTT
1 TGAACTT
50526024 ACCTAAAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 9 0.19
48 10 0.21
49 29 0.60
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (47 bp):
TGAACTTCCCGATATATGGCTATCCGTGAGCTTCCCGATATGGCTCT
Found at i:50528661 original size:16 final size:16
Alignment explanation
Indices: 50528626--50528681 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
50528616 TTTTGAATAG
* *
50528626 AGTTATTCATGAAGAAT
1 AGTTATTC-TAAATAAT
50528643 AGTTATTCTAAATAAT
1 AGTTATTCTAAATAAT
* *
50528659 AGTTGTTCCAAATAAT
1 AGTTATTCTAAATAAT
*
50528675 AATTATT
1 AGTTATT
50528682 TTTAATAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (16 bp):
AGTTATTCTAAATAAT
Found at i:50528822 original size:3 final size:3
Alignment explanation
Indices: 50528814--50528868 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
50528804 AATTATCCTA
50528814 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50528862 ATT ATT A
1 ATT ATT A
50528869 ATGTCTTGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:50529070 original size:5 final size:5
Alignment explanation
Indices: 50529060--50529091 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
50529050 GGAGAGGTAC
50529060 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
50529092 GTAAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:50538605 original size:5 final size:5
Alignment explanation
Indices: 50538597--50538638 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
50538587 TATTTTTTTC
*
50538597 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCA ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
50538639 CAAACACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (5 bp):
ATTCG
Found at i:50551788 original size:13 final size:13
Alignment explanation
Indices: 50551770--50551796 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50551760 CCAAACTTCA
50551770 ATTCACATATAAT
1 ATTCACATATAAT
50551783 ATTCACATATAAT
1 ATTCACATATAAT
50551796 A
1 A
50551797 CAACTCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTCACATATAAT
Found at i:50556852 original size:95 final size:93
Alignment explanation
Indices: 50556689--50557009 Score: 365
Period size: 95 Copynumber: 3.4 Consensus size: 93
50556679 AGTGATTAGA
* * *
50556689 AAATCAGCTAACACAGATGAGATTGTTCATGATAG-TAAATCAAATGGACTTAGGTTGCGATCTT
1 AAATCAGCTAACTCAGATAAGATTGTTCATGAT-GTTAAAT-AAATGAACTTAGGTTGCGATCTT
* * *
50556753 AAATCAGCAAGCCATTTGAAGCAGCAATGTT
64 AAATCAGCAAGCCGTTTG-AGTAACAATGTT
* * * **
50556784 AAATCAGTTAACTCAGATAAGTTTGTTCATGATGTTAAATAGAATTAACTTAGGCCGCGATCTTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATA-AATGAACTTAGGTTGCGATCTTA
*** *
50556849 AATCAATGAGCCGTTTGGAGTAACGATGTT
65 AATCAGCAAGCCGTTT-GAGTAACAATGTT
* * *
50556879 AAATCAGCTAACTCAGATAAGATTGCTCATGATGTTAAATAAAATGAACTTAGGTTGTGATATTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAAT-AAATGAACTTAGGTTGCGATCTTA
* * *
50556944 AATTAGCAAGCCGTTTCGAGTACCAATTTT
65 AATCAGCAAGCCGTTT-GAGTAACAATGTT
* *
50556974 AAATCAGCGAACTCAGATAAAATTGTTCATGATGTT
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTT
50557010 GAATCGAACG
Statistics
Matches: 188, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
94 2 0.01
95 184 0.98
96 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (93 bp):
AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATAAATGAACTTAGGTTGCGATCTTAA
ATCAGCAAGCCGTTTGAGTAACAATGTT
Found at i:50557039 original size:190 final size:190
Alignment explanation
Indices: 50556689--50557041 Score: 449
Period size: 190 Copynumber: 1.9 Consensus size: 190
50556679 AGTGATTAGA
* * * * *
50556689 AAATCAGCTAACACAGATGAGATTGTTCATGATAGTAAATCAAATGGACTTAGGTTGCGATCTTA
1 AAATCAGCTAACACAGATAAGATTGCTCATGATAGTAAATAAAATGAACTTAGGTTGCGATATTA
* ** **
50556754 AATCAGCAAGCCATTTGAAGCAGCAATGTTAAATCAGTTAACTCAGATAAGTTTGTTCATGATGT
66 AATCAGCAAGCCATTTGAAGCACCAATGTTAAATCAGCGAACTCAGATAAAATTGTTCATGATGT
** * * *
50556819 TAAATAGAATTAACTTAGGCCGCGATCTTAAATCAATGAGCCGTTTGGAGTAACGATGTT
131 TAAATAGAACGAACATAGGCCACAATCTTAAATCAATGAGCCGTTTGGAGTAACGATGTT
* *
50556879 AAATCAGCTAACTCAGATAAGATTGCTCATGAT-GTTAAATAAAATGAACTTAGGTTGTGATATT
1 AAATCAGCTAACACAGATAAGATTGCTCATGATAG-TAAATAAAATGAACTTAGGTTGCGATATT
* * * *
50556943 AAATTAGCAAGCCGTTTCG-AGTACCAATTTTAAATCAGCGAACTCAGATAAAATTGTTCATGAT
65 AAATCAGCAAGCCATTT-GAAGCACCAATGTTAAATCAGCGAACTCAGATAAAATTGTTCATGAT
* * * *
50557007 GTTGAATCGAACGAACATAGGCTATAATCTTAAAT
129 GTTAAATAGAACGAACATAGGCCACAATCTTAAAT
50557042 TAGCGAGCCT
Statistics
Matches: 136, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
189 1 0.01
190 134 0.99
191 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (190 bp):
AAATCAGCTAACACAGATAAGATTGCTCATGATAGTAAATAAAATGAACTTAGGTTGCGATATTA
AATCAGCAAGCCATTTGAAGCACCAATGTTAAATCAGCGAACTCAGATAAAATTGTTCATGATGT
TAAATAGAACGAACATAGGCCACAATCTTAAATCAATGAGCCGTTTGGAGTAACGATGTT
Found at i:50557040 original size:95 final size:94
Alignment explanation
Indices: 50556689--50557050 Score: 359
Period size: 95 Copynumber: 3.8 Consensus size: 94
50556679 AGTGATTAGA
* * * * *
50556689 AAATCAGCTAACACAGATGAGATTGTTCATGATAG-TAAATCA-AATGGACTTAGGTTGCGATCT
1 AAATCAGCTAACTCAGATAAGATTGTTCATGAT-GTTAAAT-AGAATGAACTTAGGCTGTGATCT
* * *
50556752 TAAATCAGCAAGCCATTTGAAGCAGCAATGTT
64 TAAATCAGCAAGCCGTTTG-AGTAACAATGTT
* * * * *
50556784 AAATCAGTTAACTCAGATAAGTTTGTTCATGATGTTAAATAGAATTAACTTAGGCCGCGATCTTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATAGAATGAACTTAGGCTGTGATCTTA
*** *
50556849 AATCAATGAGCCGTTTGGAGTAACGATGTT
66 AATCAGCAAGCCGTTT-GAGTAACAATGTT
* * * *
50556879 AAATCAGCTAACTCAGATAAGATTGCTCATGATGTTAAATAAAATGAACTTAGGTTGTGATATTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATAGAATGAACTTAGGCTGTGATCTTA
* * *
50556944 AATTAGCAAGCCGTTTCGAGTACCAATTTT
66 AATCAGCAAGCCGTTT-GAGTAACAATGTT
* * * * * * * *
50556974 AAATCAGCGAACTCAGATAAAATTGTTCATGATGTTGAATCGAACGAACATAGGCTATAATCTTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATAGAATGAACTTAGGCTGTGATCTTA
* *
50557039 AATTAGCGAGCC
66 AATCAGCAAGCC
50557051 TTAACGATAT
Statistics
Matches: 219, Mismatches: 45, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
94 2 0.01
95 216 0.99
96 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (94 bp):
AAATCAGCTAACTCAGATAAGATTGTTCATGATGTTAAATAGAATGAACTTAGGCTGTGATCTTA
AATCAGCAAGCCGTTTGAGTAACAATGTT
Found at i:50557227 original size:130 final size:130
Alignment explanation
Indices: 50556973--50557310 Score: 408
Period size: 130 Copynumber: 2.6 Consensus size: 130
50556963 GTACCAATTT
* * * * **
50556973 TAAATCAGCGAACTCAGATAAAATTGTTCATGATGTTGAATCGAAC-GAACATAGGCTATAATCT
1 TAAATCAACTAACTCAGA-AAAATTGTTCATGATATTAAATC-AACTGAACATAGGCTGCAATCT
* * * *
50557037 TAAATTAGCGAGCCTTAACGATATCAGCTGCAATCTTACACCAGCGAGCTATTTAGATTAGTAAT
64 TAAATTAACGAGCCTTAACGATATCAGCTGCAATCTTAAACCAACGAGCTATTTAGATTAGCAAT
50557102 AG
129 AG
* * * *
50557104 TAAATCAACTAACTCAGAACAATTGTTCATAATATTAAATCAACTGAACTTAGGCTGCGATCTTA
1 TAAATCAACTAACTCAGAAAAATTGTTCATGATATTAAATCAACTGAACATAGGCTGCAATCTTA
* * ** * * * *
50557169 AGTTAACGAGCCTTAACGATATCAGTTGCGGTCTTAAATCAATGAGCTATTTATATTAGCGATAG
66 AATTAACGAGCCTTAACGATATCAGCTGCAATCTTAAACCAACGAGCTATTTAGATTAGCAATAG
* * *
50557234 TAAATCAACTAACTCAGAAAAAATTGTTCATGATATTAAATCAAATGAACCTAAGCTGCAATCTT
1 TAAATCAACTAACTCAG-AAAAATTGTTCATGATATTAAATCAACTGAACATAGGCTGCAATCTT
*
50557299 AAATCAACGAGC
65 AAATTAACGAGC
50557311 TGTTTAGAGT
Statistics
Matches: 175, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
129 3 0.02
130 105 0.60
131 67 0.38
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (130 bp):
TAAATCAACTAACTCAGAAAAATTGTTCATGATATTAAATCAACTGAACATAGGCTGCAATCTTA
AATTAACGAGCCTTAACGATATCAGCTGCAATCTTAAACCAACGAGCTATTTAGATTAGCAATAG
Found at i:50561097 original size:11 final size:11
Alignment explanation
Indices: 50561077--50561111 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
50561067 ATTGTGTTAC
50561077 AATAAAATAAA
1 AATAAAATAAA
*
50561088 AATGAAATAAA
1 AATAAAATAAA
50561099 AATAAAATGAAA
1 AATAAAAT-AAA
50561111 A
1 A
50561112 CAAATAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:50576724 original size:24 final size:24
Alignment explanation
Indices: 50576704--50576749 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
50576694 ACCAAAAATT
*
50576704 TATTTTAAAATAAATAA-AAAAAG
1 TATTTTAAAATAAAAAATAAAAAG
50576727 TATTTTAAAATAAAAAATAAAAA
1 TATTTTAAAATAAAAAATAAAAA
50576750 ATAAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
TATTTTAAAATAAAAAATAAAAAG
Found at i:50585875 original size:15 final size:15
Alignment explanation
Indices: 50585855--50585888 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50585845 ATGAATGTCG
50585855 CAATAACAAATACAA
1 CAATAACAAATACAA
*
50585870 CAATAATAAATACAA
1 CAATAACAAATACAA
50585885 CAAT
1 CAAT
50585889 GGCACAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:50585914 original size:13 final size:14
Alignment explanation
Indices: 50585895--50585932 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
50585885 CAATGGCACA
50585895 GAAATAATATAAAC
1 GAAATAATATAAAC
50585909 -AAATAA-ATAAAC
1 GAAATAATATAAAC
50585921 GAAACTAATATA
1 GAAA-TAATATA
50585933 CATAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:50586052 original size:23 final size:22
Alignment explanation
Indices: 50586026--50586071 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
50586016 TAAACAAATG
50586026 AAAGAAATAAAGAA-AAAAAATAT
1 AAAGAAA-AAA-AATAAAAAATAT
*
50586049 AAAGAAAAAAAATACAAAATAT
1 AAAGAAAAAAAATAAAAAATAT
50586071 A
1 A
50586072 TATATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 12 0.57
23 7 0.33
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (22 bp):
AAAGAAAAAAAATAAAAAATAT
Found at i:50586058 original size:14 final size:15
Alignment explanation
Indices: 50585987--50586062 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 15
50585977 TGAGCAACAT
50585987 AAAAAAATATAAATGA
1 AAAAAAATATAAA-GA
*
50586003 AAACACAAATTAATAAACA
1 AAA-A-AAA-T-ATAAAGA
50586022 AATGAAAGAA-ATAAAGA
1 AA--AAA-AATATAAAGA
50586039 AAAAAAATATAAAGA
1 AAAAAAATATAAAGA
50586054 AAAAAAATA
1 AAAAAAATA
50586063 CAAAATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
14 2 0.04
15 19 0.38
16 3 0.06
17 9 0.18
18 3 0.06
19 5 0.10
20 8 0.16
21 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAAAATATAAAGA
Found at i:50586690 original size:12 final size:13
Alignment explanation
Indices: 50586663--50586701 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
50586653 AAATCAAATT
50586663 TAATAAAAATAAA
1 TAATAAAAATAAA
*
50586676 TAATAAACA-AAA
1 TAATAAAAATAAA
50586688 TAATAATAAATAAA
1 TAATAA-AAATAAA
50586702 AAAAGACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 9 0.41
13 10 0.45
14 3 0.14
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
TAATAAAAATAAA
Found at i:50586692 original size:15 final size:16
Alignment explanation
Indices: 50586668--50586702 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50586658 AAATTTAATA
50586668 AAAATAAATAATAAAC
1 AAAATAAATAATAAAC
*
50586684 AAAAT-AATAATAAAT
1 AAAATAAATAATAAAC
50586699 AAAA
1 AAAA
50586703 AAAGACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAATAATAAAC
Found at i:50588235 original size:44 final size:44
Alignment explanation
Indices: 50588173--50588511 Score: 153
Period size: 44 Copynumber: 7.8 Consensus size: 44
50588163 ACCCGATGTG
* * * * *
50588173 ATCTACTCTACAGAAACTTTAGAGAGAGAAGATCT-GTGGATTTA
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGAT-TAGTGGATTTA
* * * *
50588217 ATCTGCTCTACTGTAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGATTTA
* * * * *
50588261 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGT-CACCTTCA
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGA--TTTA
* * * * * * *
50588306 GTTTG-TCTCACTGCAACTTTA-GGAGGATAATACTT-GCT-TACTTA
1 ATCTGCTCT-ACTGAAACTTCAGGGA-GATAAGA-TTAG-TGGATTTA
* * * * ***
50588350 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA---GATACG
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGATTTA
* * * *
50588391 ATATGCTCT-CTGCAACTTCAGAGAGATAAGATTTGT-GATTTTA
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGA-TTTA
* * * * * * *
50588434 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTA
1 ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGATTTA
*
50588478 ATCTGCTCCACT-ACAACTTCAGGGAGATAAGATT
1 ATCTGCTCTACTGA-AACTTCAGGGAGATAAGATT
50588512 CGCCATCTTC
Statistics
Matches: 224, Mismatches: 55, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 2 0.01
43 9 0.04
44 150 0.67
45 30 0.13
46 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCTACTGAAACTTCAGGGAGATAAGATTAGTGGATTTA
Found at i:50588482 original size:217 final size:219
Alignment explanation
Indices: 50588095--50588524 Score: 623
Period size: 217 Copynumber: 2.0 Consensus size: 219
50588085 TAGTCTGCCC
* * *
50588095 CACTGCAATTTTAGGAGGATAAGACTTGCTTTCTTGAGTCTGCTCTACTGCAACTTCAGAGAGAT
1 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCCACTGCAACTTCAGAGAGAT
* ** * * *
50588160 AAGACCCGATGTGATCTACTCTACAGAAACTTTAGAGAGAGAAGATCTGTGGATTTAATCTGCTC
66 AAGACCAGATACGATATACTCTACAGAAACTTCAGAGAGAGAAGATCTGTGGATTTAATCCGCTC
* * * *
50588225 TACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
131 CACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATA
*
50588290 AGATTCGTCACCTTCAGTTTGTCT
196 AGATTCGCCACCTTCAGTTTGTCT
* *
50588314 CACTGCAACTTTAGGAGGATAATACTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCCACTGCAACTTCAGAGAGAT
* * * * * *
50588378 AAGACTAGATACGATATGCTCT-CTGCAACTTCAGAGAGATAAGATTTGT-GATTTTAATCCGCT
66 AAGACCAGATACGATATACTCTACAGAAACTTCAGAGAGAGAAGATCTGTGGA-TTTAATCCGCT
50588441 CCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
130 CCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
*
50588506 AAGATTCGCCATCTTCAGT
195 AAGATTCGCCACCTTCAGT
50588525 CTTTTTAATT
Statistics
Matches: 187, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
216 2 0.01
217 110 0.59
218 43 0.23
219 32 0.17
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (219 bp):
CACTGCAACTTTAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCCACTGCAACTTCAGAGAGAT
AAGACCAGATACGATATACTCTACAGAAACTTCAGAGAGAGAAGATCTGTGGATTTAATCCGCTC
CACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATA
AGATTCGCCACCTTCAGTTTGTCT
Found at i:50588907 original size:44 final size:44
Alignment explanation
Indices: 50588853--50588996 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
50588843 ACTGCCAATA
*
50588853 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCT
1 CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGAT
* * * * * * * **
50588897 CAGGGAGACAAG-GCTGGTATCTTT-GATCTACTTCGCTGCCAAT
1 CAGGAAGACAAGATCTGCTAT-TTTCAACCTACTCCACTGCTGAT
* * * * *
50588940 ATAGGAAGACAATATCTGCTATTTTCAACCTACTCTACTACTGTT
1 -CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGAT
50588985 CAGGAAGACAAG
1 CAGGAAGACAAG
50588997 GTTGGAGTTT
Statistics
Matches: 70, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 18 0.26
44 36 0.51
45 16 0.23
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGAT
Found at i:50588988 original size:88 final size:88
Alignment explanation
Indices: 50588828--50588997 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 88
50588818 AAGACTGATG
* *
50588828 TCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
50588893 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGAAGACAAGGCTGGTA
* * * * *
50588916 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAATATCTGCTATTTTCAACCTACTCTACTAC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
50588981 TGTTCAGGAAGACAAGG
66 TGCTCAGGAAGACAAGG
50588998 TTGGAGTTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAGGAAGACAAGGCTGGTA
Found at i:50589197 original size:15 final size:15
Alignment explanation
Indices: 50589174--50589230 Score: 105
Period size: 15 Copynumber: 3.8 Consensus size: 15
50589164 GAATGATCCC
*
50589174 TTATTATCACTCCAG
1 TTATCATCACTCCAG
50589189 TTATCATCACTCCAG
1 TTATCATCACTCCAG
50589204 TTATCATCACTCCAG
1 TTATCATCACTCCAG
50589219 TTATCATCACTC
1 TTATCATCACTC
50589231 AAAGTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (15 bp):
TTATCATCACTCCAG
Found at i:50590316 original size:18 final size:18
Alignment explanation
Indices: 50590278--50590315 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50590268 CCTCTTATTC
*
50590278 TTTCTTTTTCTTTTTTCT
1 TTTCTTTTTCTTTTCTCT
50590296 TTTCTTTTTCTTTTC-CT
1 TTTCTTTTTCTTTTCTCT
50590313 TTT
1 TTT
50590316 TTCCATTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTCTTTTTCTTTTCTCT
Found at i:50591143 original size:25 final size:25
Alignment explanation
Indices: 50591090--50591155 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
50591080 AAGAAGATCC
* *
50591090 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
50591115 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
50591140 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
50591156 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:50599192 original size:57 final size:57
Alignment explanation
Indices: 50599119--50599259 Score: 167
Period size: 57 Copynumber: 2.5 Consensus size: 57
50599109 TAAATTCATG
* * * * *
50599119 GATAGAATATGGAATTGAGATGAGTTATGTATATTTGGTATAAATTTATGGATAGAT
1 GATAGAATATGAAATTGAGATGAGTTATGTACATTTGATATAAATTCATAGATAGAT
* * *
50599176 GATAGAATATGAAATTGATATGAGTTATGTGCATTTGATATAAATTCATAGATTGAT
1 GATAGAATATGAAATTGAGATGAGTTATGTACATTTGATATAAATTCATAGATAGAT
* * *
50599233 GATA-AATTTTAACATTGTGATGAGTTA
1 GATAGAATATGAA-ATTGAGATGAGTTA
50599260 AGTGAAATTG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 6 0.08
57 65 0.92
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (57 bp):
GATAGAATATGAAATTGAGATGAGTTATGTACATTTGATATAAATTCATAGATAGAT
Found at i:50616388 original size:18 final size:18
Alignment explanation
Indices: 50616362--50616397 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50616352 TTTTAATTTT
*
50616362 AATTTTAAAAAATTTTAA
1 AATTATAAAAAATTTTAA
50616380 AATTATAAAAAATTTTAA
1 AATTATAAAAAATTTTAA
50616398 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTATAAAAAATTTTAA
Found at i:50619501 original size:2 final size:2
Alignment explanation
Indices: 50619494--50619630 Score: 107
Period size: 2 Copynumber: 68.5 Consensus size: 2
50619484 ATGAGCCGAA
50619494 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
50619536 AG -G GG GG AG AG GG AG GG AG AG AG GG GG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * *
50619577 GG AC A- ATG AC AG GG AC AG GG AG GG AG AG AG AG AG AG GG AG AG
1 AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50619619 AG AG AG ATG AG A
1 AG AG AG A-G AG A
50619631 ATAAGAAGGA
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
1 2 0.02
2 102 0.95
3 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.54, T:0.01
Consensus pattern (2 bp):
AG
Found at i:50621500 original size:18 final size:18
Alignment explanation
Indices: 50621477--50621542 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
50621467 ATATTCATAT
50621477 ATTTTAATATTTTAAATA
1 ATTTTAATATTTTAAATA
* *
50621495 ATTTTATTATTAATAAATA
1 ATTTTAATATT-TTAAATA
** *
50621514 ATAAT-ATATTTTTAATA
1 ATTTTAATATTTTAAATA
*
50621531 ATCTTTACTATT
1 AT-TTTAATATT
50621543 AAAAATATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
17 7 0.20
18 15 0.43
19 13 0.37
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATATTTTAAATA
Found at i:50622145 original size:30 final size:30
Alignment explanation
Indices: 50622111--50622172 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
50622101 CACTACTACT
50622111 ACAACTATTCAAATTGTCTAGTTCAACCCA
1 ACAACTATTCAAATTGTCTAGTTCAACCCA
50622141 ACAACTATTCAAATTGTCTAGTTCAACCCA
1 ACAACTATTCAAATTGTCTAGTTCAACCCA
50622171 AC
1 AC
50622173 CTCTCAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (30 bp):
ACAACTATTCAAATTGTCTAGTTCAACCCA
Found at i:50635878 original size:70 final size:70
Alignment explanation
Indices: 50635765--50635904 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
50635755 ACTATTTTGA
50635765 TCATAATGTTATTATATCCTGGAAAACATTCGACCAACGTTTCTTCAACCGTAAGGTGATAGAAA
1 TCATAATGTTATTATATCCTGGAAAACATTCGACCAACGTTTCTTCAACCGTAAGGTGATAGAAA
50635830 AAAGC
66 AAAGC
50635835 TCATAATGTTATTATATCCTGGAAAACATTCGACCAACGTTTCTTCAACCGTAAGGTGATAGAAA
1 TCATAATGTTATTATATCCTGGAAAACATTCGACCAACGTTTCTTCAACCGTAAGGTGATAGAAA
50635900 AAAGC
66 AAAGC
50635905 AATGTTCGTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (70 bp):
TCATAATGTTATTATATCCTGGAAAACATTCGACCAACGTTTCTTCAACCGTAAGGTGATAGAAA
AAAGC
Found at i:50636593 original size:87 final size:85
Alignment explanation
Indices: 50636286--50636764 Score: 329
Period size: 88 Copynumber: 5.6 Consensus size: 85
50636276 AGACAAAAAG
* * * * *
50636286 AAAAAA-AAATTGAAAA-TAAATAAAAAT-TGTTTCGGGATTAATTCCCGCCATTCAACCGATTT
1 AAAAAAGAAATT-AAAATTAAAT-AAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTT
* *
50636348 TATTCTTTATTTTGTTTTTATTTTC-
64 TATTC---AATTTGATTTTA-TTTCA
* * * * * **
50636373 AAACAA-ATATTAAAACTAAA-AAAATATATGTTTCAAGATTTATTCCCGTTGTTCAACGGATTT
1 AAAAAAGAAATTAAAATTAAATAAAATCTA--TTTCGAGATTTATTCCCGCCGTTCAACGGATTT
50636436 TATTCCAATTTTGATTTTATTT-A
64 TATT-CAA-TTTGATTTTATTTCA
* * *
50636459 AAAAATGATTATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCCGCCGTTCAACGGATTT
1 AAAAAAGA-AATTAAAATT-AAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTT
*
50636524 CATT-ACATTCTGATTTT-TTTGCA
64 TATTCA-ATT-TGATTTTATTT-CA
* * * *
50636547 AAAACAAGAAATTCAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCCGTTTAACAAGATTT
1 AAAA-AAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAAC-GGATTT
* * *
50636612 TATTCGATTTGATTTTGTTTCC
64 TATTCAATTTGATTTTATTTCA
** * * * * *
50636634 AAATTAG-AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCTCGCAGTTTAACAAGATTTT
1 AAAAAAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAAC-GGATTTT
* *
50636698 ATTCGATATTG-TTTTGTTTCCA
65 ATTCAAT-TTGATTTTATTT-CA
* * * * *
50636720 AACAAAG-ACTT--AATCAAATAAAATCTGTTTCGGGATTTATTCCCG
1 AAAAAAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCG
50636765 TCATTTAACA
Statistics
Matches: 325, Mismatches: 46, Indels: 45
0.78 0.11 0.11
Matches are distributed among these distances:
84 31 0.10
85 72 0.22
86 32 0.10
87 78 0.24
88 99 0.30
89 7 0.02
90 6 0.02
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (85 bp):
AAAAAAGAAATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCGTTCAACGGATTTTA
TTCAATTTGATTTTATTTCA
Found at i:50636675 original size:85 final size:85
Alignment explanation
Indices: 50636469--50636762 Score: 323
Period size: 85 Copynumber: 3.4 Consensus size: 85
50636459 AAAAATGATT
* * * * *
50636469 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCCGCCGTTCAAC-GGATTTCATTAC-AT
1 ATTAAAATT-AAATAAAATCTATTTCGAGATTTATTCCTGCCGTTTAACAAGATTTTATT-CGAT
*
50636532 TCTGATTTT-TTTGCAAAAACAAGAA
64 T-TGATTTTGTTT-CCAAAA-AAG-A
*
50636557 ATTCAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCCGTTTAACAAGATTTTATTCGATTT
1 ATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCCGTTTAACAAGATTTTATTCGATTT
**
50636622 GATTTTGTTTCCAAATTAGA
66 GATTTTGTTTCCAAAAAAGA
* *
50636642 ATTAAAATTAAATAAAATCTATTTCGGGATTTATT-CTCGCAGTTTAACAAGATTTTATTCGATA
1 ATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCT-GCCGTTTAACAAGATTTTATTCGAT-
50636706 TTG-TTTTGTTTCCAAACAAAGA
64 TTGATTTTGTTTCCAAA-AAAGA
* * * *
50636728 CTT--AATCAAATAAAATCTGTTTCGGGATTTATTCC
1 ATTAAAATTAAATAAAATCTATTTCGAGATTTATTCC
50636763 CGTCATTTAA
Statistics
Matches: 182, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
84 30 0.16
85 72 0.40
86 10 0.05
87 48 0.26
88 22 0.12
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (85 bp):
ATTAAAATTAAATAAAATCTATTTCGAGATTTATTCCTGCCGTTTAACAAGATTTTATTCGATTT
GATTTTGTTTCCAAAAAAGA
Found at i:50637070 original size:91 final size:86
Alignment explanation
Indices: 50636948--50637283 Score: 265
Period size: 87 Copynumber: 3.8 Consensus size: 86
50636938 AAACGACGAG
* *
50636948 AATAAAATCAAAATGTAATATAATTCATTGAACGGTAGGAATAAATCCCGAAACAAATTTTATTT
1 AATAAAAT-AAAA-G-AATA-AAATCGTTGAACGG-AGGAATAAATCCCGAAACAAATTTTATTT
*
50637013 AACTTTAATTTCTTGTTTGGAAATAA
61 AATTTTAATTTCTTGTTTGGAAATAA
* *
50637039 AATAAAATAAAAAAAGAATAAAATACGTTGAACGGCGAGAATAAATCCCGAAACATATTTTATTT
1 AATAAAAT---AAAAGAATAAAAT-CGTTGAACGGAG-GAATAAATCCCGAAACAAATTTTA-TT
* *
50637104 TAATTTTAA-TACTCGTTTTGGAAATAA
60 TAATTTTAATTTCTTG-TTTGGAAATAA
* * * * * *
50637131 AATCAAAAT--TAGAATAAAATTCATTGAAC-AACGGGAATAAATTCTGAAATAAATTTTATTTA
1 AAT-AAAATAAAAGAATAAAA-TCGTTGAACGGA--GGAATAAATCCCGAAACAAATTTTATTTA
* *
50637193 ATTTTAATAT-TTGTTTAGAAATAA
62 ATTTTAATTTCTTGTTTGGAAATAA
* * * *
50637217 AA-ACAATATAAAGAATAGAATCTGTTGAACAGCGA-GAATTAATCCCGAAACATATTTTATTT-
1 AATAAAATA-AAAGAATAAAATC-GTTGAAC-G-GAGGAATAAATCCCGAAACAAATTTTATTTA
50637279 ATTTT
62 ATTTT
50637284 CAAAATTTAT
Statistics
Matches: 197, Mismatches: 30, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
84 4 0.02
86 19 0.10
87 49 0.25
88 36 0.18
89 2 0.01
90 5 0.03
91 48 0.24
92 25 0.13
93 9 0.05
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (86 bp):
AATAAAATAAAAGAATAAAATCGTTGAACGGAGGAATAAATCCCGAAACAAATTTTATTTAATTT
TAATTTCTTGTTTGGAAATAA
Found at i:50637172 original size:179 final size:174
Alignment explanation
Indices: 50636948--50637278 Score: 441
Period size: 179 Copynumber: 1.9 Consensus size: 174
50636938 AAACGACGAG
* ***
50636948 AATAAAATCAAAATGTAATATAATTCATTGAACGGTAGGAATAAATCCCGAAACAAATTTTATTT
1 AATAAAATCAAAATGTAATAAAATTCATTGAACAACAGGAATAAATCCCGAAACAAATTTTATTT
* * *
50637013 AACTTTAATTTCTTGTTTGGAAATAAAATAAAATAAAAAAAGAATAAAATAC-GTTGAACGGCGA
66 AACTTTAATAT-TTGTTTAGAAATAAAA-AAAAT--AAAAAGAATAAAAT-CTGTTGAACAGCGA
50637077 GAATAAATCCCGAAACATATTTTATTTTAATTTTAATACTCGTTTTGGA
126 GAATAAATCCCGAAACATATTTTATTTTAATTTTAATACTCGTTTTGGA
* * * *
50637126 AATAAAATCAAAAT-TAGAATAAAATTCATTGAACAACGGGAATAAATTCTGAAATAAATTTTAT
1 AATAAAATCAAAATGT--AATAAAATTCATTGAACAACAGGAATAAATCCCGAAACAAATTTTAT
* * * *
50637190 TTAATTTTAATATTTGTTTAGAAATAAAAACAATATAAAGAATAGAATCTGTTGAACAGCGAGAA
64 TTAACTTTAATATTTGTTTAGAAATAAAAAAAATAAAAAGAATAAAATCTGTTGAACAGCGAGAA
*
50637255 TTAATCCCGAAACATATTTTATTT
129 TAAATCCCGAAACATATTTTATTT
50637279 ATTTTCAAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
174 1 0.01
175 49 0.37
177 5 0.04
178 29 0.22
179 50 0.37
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (174 bp):
AATAAAATCAAAATGTAATAAAATTCATTGAACAACAGGAATAAATCCCGAAACAAATTTTATTT
AACTTTAATATTTGTTTAGAAATAAAAAAAATAAAAAGAATAAAATCTGTTGAACAGCGAGAATA
AATCCCGAAACATATTTTATTTTAATTTTAATACTCGTTTTGGA
Found at i:50637245 original size:87 final size:87
Alignment explanation
Indices: 50636986--50637283 Score: 307
Period size: 87 Copynumber: 3.4 Consensus size: 87
50636976 TGAACGGTAG
* * * *
50636986 GAATAAATCCCGAAACAAATTTTATTTAACTTTAATTTCTTGTTTGGAAATAAAATAAAATAAAA
1 GAATAAATCCCGAAACAAATTTTATTTAATTTTAATAT-TTGTTTGGAAATAAAA-ACAAT--AT
*
50637051 AAAGAATAAAATAC-GTTGAACGGCGA
62 AAAGAATAAAAT-CTGTTGAACAGCGA
* * * * * *
50637077 GAATAAATCCCGAAACATATTTTATTTTAATTTTAATACTCGTTTTGGAAATAAAATCAAAAT-T
1 GAATAAATCCCGAAACAAATTTTA-TTTAATTTTAATATTTG-TTTGGAAATAAAAACAATATAA
* * *
50637141 AGAATAAAAT-TCATTGAACAACGG
64 AGAATAAAATCT-GTTGAACAGCGA
* * * *
50637165 GAATAAATTCTGAAATAAATTTTATTTAATTTTAATATTTGTTTAGAAATAAAAACAATATAAAG
1 GAATAAATCCCGAAACAAATTTTATTTAATTTTAATATTTGTTTGGAAATAAAAACAATATAAAG
*
50637230 AATAGAATCTGTTGAACAGCGA
66 AATAAAATCTGTTGAACAGCGA
* *
50637252 GAATTAATCCCGAAACATATTTTATTT-ATTTT
1 GAATAAATCCCGAAACAAATTTTATTTAATTTT
50637284 CAAAATTTAT
Statistics
Matches: 168, Mismatches: 33, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
86 22 0.13
87 55 0.33
88 39 0.23
89 1 0.01
91 27 0.16
92 24 0.14
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (87 bp):
GAATAAATCCCGAAACAAATTTTATTTAATTTTAATATTTGTTTGGAAATAAAAACAATATAAAG
AATAAAATCTGTTGAACAGCGA
Found at i:50637293 original size:13 final size:13
Alignment explanation
Indices: 50637275--50637299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50637265 AACATATTTT
50637275 ATTTATTTTCAAA
1 ATTTATTTTCAAA
50637288 ATTTATTTTCAA
1 ATTTATTTTCAA
50637300 TTTTTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTATTTTCAAA
Found at i:50643384 original size:31 final size:31
Alignment explanation
Indices: 50643317--50643644 Score: 276
Period size: 31 Copynumber: 10.6 Consensus size: 31
50643307 ATCCAATGCT
* *
50643317 CAAATCAA-TTCAATAATATATATATTCATATA
1 CAAATCAATTTCAACAATGTATA-A-TCATATA
* *
50643349 CAAATCAATTTCAATAATGTATAATCACATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* *
50643380 CAAATTAATTTCAACAATGAATAATCATATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* * *
50643411 CGAATCAATTTTAATAATGTATAATCATATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* * *
50643442 CAAATTAATTTCAGCAATGAATAATCATATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* * * *
50643473 -AGAACCAA-TTCGACAGCT-TAT-ATCCTTATA
1 CA-AATCAATTTCAACA-ATGTATAAT-CATATA
* *
50643503 CAAATCAATTTCAATAATGTGTAATCATATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* * *
50643534 CAAATTAATTTCAGCAATGAATAATCATATA
1 CAAATCAATTTCAACAATGTATAATCATATA
* * * *
50643565 CGAATCAATTT-GACAACT-TATATTCATTTA
1 CAAATCAATTTCAACAA-TGTATAATCATATA
* * *
50643595 CAAATCAATTTCAATAATGAATAA-CTATAAA
1 CAAATCAATTTCAACAATGTATAATC-ATATA
*
50643626 CAAATTAATTTCAACAATG
1 CAAATCAATTTCAACAATG
50643645 AATATTGATA
Statistics
Matches: 233, Mismatches: 51, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
29 2 0.01
30 43 0.18
31 164 0.70
32 11 0.05
33 13 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (31 bp):
CAAATCAATTTCAACAATGTATAATCATATA
Found at i:50643666 original size:92 final size:91
Alignment explanation
Indices: 50643317--50643657 Score: 364
Period size: 92 Copynumber: 3.7 Consensus size: 91
50643307 ATCCAATGCT
* * ** * *
50643317 CAAATCAA-TTCAATAATATATATATTCATATACAAATCAATTTCAATAATGTATAATCACATAC
1 CAAATCAATTTCAATAATGTATA-A-TCATATACAAATTAATTTCAGCAATGAATAATCATATAC
* ** * * *
50643381 AAATTAATTTCAACAA-TGAATAATCATATA
64 GAACCAA-TTCGACAACT-TAT-ATCATTTA
* * *
50643411 CGAATCAATTTTAATAATGTATAATCATATACAAATTAATTTCAGCAATGAATAATCATATAAGA
1 CAAATCAATTTCAATAATGTATAATCATATACAAATTAATTTCAGCAATGAATAATCATATACGA
* *
50643476 ACCAATTCGACAGCTTATATCCTTATA
66 ACCAATTCGACAACTTATATCATT-TA
*
50643503 CAAATCAATTTCAATAATGTGTAATCATATACAAATTAATTTCAGCAATGAATAATCATATACGA
1 CAAATCAATTTCAATAATGTATAATCATATACAAATTAATTTCAGCAATGAATAATCATATACGA
* *
50643568 ATCAATTTGACAACTTATATTCATTTA
66 ACCAATTCGACAACTTATA-TCATTTA
* * * * *
50643595 CAAATCAATTTCAATAATGAATAA-CTATAAACAAATTAATTTCAACAATGAATATTGATATAC
1 CAAATCAATTTCAATAATGTATAATC-ATATACAAATTAATTTCAGCAATGAATAATCATATAC
50643658 CCAACAATTC
Statistics
Matches: 211, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
91 5 0.02
92 144 0.68
93 42 0.20
94 8 0.04
95 12 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (91 bp):
CAAATCAATTTCAATAATGTATAATCATATACAAATTAATTTCAGCAATGAATAATCATATACGA
ACCAATTCGACAACTTATATCATTTA
Found at i:50643917 original size:91 final size:91
Alignment explanation
Indices: 50643821--50644094 Score: 246
Period size: 91 Copynumber: 3.0 Consensus size: 91
50643811 TACGAATCAA
* *
50643821 TGCATCAACTTATATCCATATACCAAACAGTTCGGCAATATATAACCATACACGAATCAAGTTCA
1 TGCATCAACTTATATCCATATACCAAACAATTCGACAATATATAACCATACACGAATCAAGTTCA
50643886 A-TAATACTCATATACAAATCCAATT
66 AGTAATACTCATATACAAATCCAATT
* * * * ** * *
50643911 TGGCATC--C-TATATTCATA-AACAATTCAATATCGACAATTTATAACCATGTAC-AATTAAAT
1 T-GCATCAACTTATATCCATATACCAA-ACAAT-TCGACAATATATAACCATACACGAA-TCAAG
* *
50643971 TTCAGCAAGGTAAAACT-ATATACGAAT-CAA--
62 TT---CAA-GTAATACTCATATACAAATCCAATT
*
50644001 TGCGTCAACTTATATCCATATACCAAACAATTCGACAATATATAACCATACACGAATCAAGTTCG
1 TGCATCAACTTATATCCATATACCAAACAATTCGACAATATATAACCATACACGAATCAAGTTC-
50644066 ATATTGT-ATACTCATATACAAATCCAATT
65 A-A--GTAATACTCATATACAAATCCAATT
50644095 CGACATCCTA
Statistics
Matches: 139, Mismatches: 24, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
87 4 0.03
88 15 0.11
89 29 0.21
90 7 0.05
91 41 0.29
92 24 0.17
93 13 0.09
94 6 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (91 bp):
TGCATCAACTTATATCCATATACCAAACAATTCGACAATATATAACCATACACGAATCAAGTTCA
AGTAATACTCATATACAAATCCAATT
Found at i:50643987 original size:180 final size:181
Alignment explanation
Indices: 50643652--50644169 Score: 781
Period size: 180 Copynumber: 2.8 Consensus size: 181
50643642 ATGAATATTG
* * * *
50643652 ATATACCCAACAATTCGGCAATGTATAACCACT-CACGAATCAAGTTCTGCAATGTATAATTATA
1 ATATACCAAACAATTCGGCAATATATAACCA-TACACGAATCAAG-T-T-CAATGTATACTCATA
* * * *
50643716 CACAAATCAAATTCGGCATCCTATATACATAAACAATGCAATAT-GAACAATATATATAACCATG
62 TACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCG-ACAAT-T-TATAACCATG
50643780 TACAATTAAATTTCAGCAAGGTAAAACTATATACGAATCAATGCATCAACTTATATCC
124 TACAATTAAATTTCAGCAAGGTAAAACTATATACGAATCAATGCATCAACTTATATCC
* *
50643838 ATATACCAAACAGTTCGGCAATATATAACCATACACGAATCAAGTTCAAT-AATACTCATATACA
1 ATATACCAAACAATTCGGCAATATATAACCATACACGAATCAAGTTCAATGTATACTCATATACA
*
50643902 AATCCAATTTGGCATCCTATATTCATAAACAATTCAATATCGACAATTTATAACCATGTACAATT
66 AATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATTTATAACCATGTACAATT
*
50643967 AAATTTCAGCAAGGTAAAACTATATACGAATCAATGCGTCAACTTATATCC
131 AAATTTCAGCAAGGTAAAACTATATACGAATCAATGCATCAACTTATATCC
*
50644018 ATATACCAAACAATTCGACAATATATAACCATACACGAATCAAGTTCGATATTGTATACTCATAT
1 ATATACCAAACAATTCGGCAATATATAACCATACACGAATCAAGTTC-A-A-TGTATACTCATAT
* * *
50644083 ACAAATCCAATTCGACATCCTATATTCATAAACAATTCAATATCGATAATTTATAACCATGAACA
63 ACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATTTATAACCATGTACA
50644148 ATTAAATTTCAGCAAGGTAAAA
128 ATTAAATTTCAGCAAGGTAAAA
50644170 ACATTATATT
Statistics
Matches: 307, Mismatches: 19, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
180 112 0.36
181 2 0.01
182 52 0.17
183 6 0.02
184 94 0.31
185 2 0.01
186 39 0.13
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (181 bp):
ATATACCAAACAATTCGGCAATATATAACCATACACGAATCAAGTTCAATGTATACTCATATACA
AATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATTTATAACCATGTACAATT
AAATTTCAGCAAGGTAAAACTATATACGAATCAATGCATCAACTTATATCC
Found at i:50660425 original size:20 final size:21
Alignment explanation
Indices: 50660402--50660448 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
50660392 AATACATTCA
50660402 AAACATCTAA-TAATATAAAG
1 AAACATCTAATTAATATAAAG
* *
50660422 AAACTTGTAATTAATATAAAG
1 AAACATCTAATTAATATAAAG
50660443 AAACAT
1 AAACAT
50660449 ATACACACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (21 bp):
AAACATCTAATTAATATAAAG
Found at i:50663274 original size:3 final size:3
Alignment explanation
Indices: 50663268--50663338 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
50663258 TTCAGTTTAA
* * * *
50663268 TAT TAT T-T TTT TAT TAT TAT TAT TGT TAT TAG TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
50663315 TAT TAT TGGT T-T TAT TAT T-T TAT T
1 TAT TAT T-AT TAT TAT TAT TAT TAT T
50663339 TTTGTTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 6 0.11
3 48 0.86
4 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50666820 original size:29 final size:27
Alignment explanation
Indices: 50666783--50666875 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 27
50666773 AAAAATTAAA
50666783 AAAT-ATTTTTATATTTTTAATAATTTTT
1 AAATAATTTTTATATTTTT--TAATTTTT
* * *
50666811 AAATAATTTTAAGATTTTTTTAAATTTTAA
1 AAATAATTTTTATA-TTTTTT-AATTTT-T
* **
50666841 AAATAGTTTTTATAAATTTTAATTTTT
1 AAATAATTTTTATATTTTTTAATTTTT
50666868 AAA-AATTT
1 AAATAATTT
50666876 AATTGTTGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 11 0.22
29 17 0.33
30 16 0.31
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
AAATAATTTTTATATTTTTTAATTTTT
Found at i:50666876 original size:15 final size:15
Alignment explanation
Indices: 50666829--50666879 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
50666819 TTAAGATTTT
*
50666829 TTTAAATTTTAAAAA
1 TTTAATTTTTAAAAA
* *
50666844 --TAGTTTTTATAAAT
1 TTTAATTTTTA-AAAA
50666858 TTTAATTTTTAAAAA
1 TTTAATTTTTAAAAA
50666873 TTTAATT
1 TTTAATT
50666880 GTTGACTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 10 0.36
16 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTAATTTTTAAAAA
Found at i:50668960 original size:17 final size:17
Alignment explanation
Indices: 50668940--50668973 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50668930 TCATTATTGA
50668940 AATTATATATATATTTG
1 AATTATATATATATTTG
*
50668957 AATTATTTATATATTTG
1 AATTATATATATATTTG
50668974 TTTCTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTATATATATATTTG
Found at i:50672773 original size:131 final size:132
Alignment explanation
Indices: 50672517--50672781 Score: 496
Period size: 131 Copynumber: 2.0 Consensus size: 132
50672507 GCCACAACAA
50672517 TTGATTCATTCTTTAAATGAGAATGAGATTTAATTGGATGATAAATTTTGTCAAGAATTAAGAAG
1 TTGATTCATTCTTTAAATGAGAATGAGATTTAATTGGATGATAAATTTTGTCAAGAATT-A-AAG
50672582 AAGTAAGAAGATTAAAAAGGTCAAAGATTTTGGGCCATTTCATTATGTTTCTTGTAGAAGGAAAA
64 AAGTAAGAAGATTAAAAAGGTCAAAGATTTTGGGCCATTTCATTATGTTTCTTGTAGAAGGAAAA
50672647 GGTG
129 GGTG
*
50672651 TTGATTCATTCTTTAAATGAGAATGAGATTTCATTGGATGATAAATTTTGTCAAGAATT-AAGAA
1 TTGATTCATTCTTTAAATGAGAATGAGATTTAATTGGATGATAAATTTTGTCAAGAATTAAAGAA
50672715 GTAAGAAGATTAAAAAGGTCAAAGATTTTGGGCCATTTCATTATGTTTCTTGTAGAAGGAAAAGG
66 GTAAGAAGATTAAAAAGGTCAAAGATTTTGGGCCATTTCATTATGTTTCTTGTAGAAGGAAAAGG
50672780 TG
131 TG
50672782 AAAGTATATG
Statistics
Matches: 130, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
131 72 0.55
134 58 0.45
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (132 bp):
TTGATTCATTCTTTAAATGAGAATGAGATTTAATTGGATGATAAATTTTGTCAAGAATTAAAGAA
GTAAGAAGATTAAAAAGGTCAAAGATTTTGGGCCATTTCATTATGTTTCTTGTAGAAGGAAAAGG
TG
Found at i:50675057 original size:20 final size:20
Alignment explanation
Indices: 50675023--50675064 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50675013 AACTATTTAA
** *
50675023 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
50675043 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50675063 AT
1 AT
50675065 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50685168 original size:19 final size:20
Alignment explanation
Indices: 50685141--50685178 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50685131 GAATTATAAA
50685141 AAAACTATTTTAAT-TTTTG
1 AAAACTATTTTAATCTTTTG
*
50685160 AAAATTATTTTAATCTTTT
1 AAAACTATTTTAATCTTTT
50685179 TGTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
AAAACTATTTTAATCTTTTG
Found at i:50688010 original size:28 final size:26
Alignment explanation
Indices: 50687957--50688033 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
50687947 TGAGTTTGGA
*
50687957 GTTTAGGGTTTTAAGTTTGAA-CTTCGAG
1 GTTTAGGG-TTTAAG-TTCAAGCTTCG-G
*
50687985 GTTTAGGGTTTAAGATTCAAGGTTCGG
1 GTTTAGGGTTTAAG-TTCAAGCTTCGG
*
50688012 GATTCAGGGTTTATAGTTCAAG
1 G-TTTAGGGTTTA-AGTTCAAG
50688034 ATAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 12 0.29
28 28 0.67
29 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.39
Consensus pattern (26 bp):
GTTTAGGGTTTAAGTTCAAGCTTCGG
Found at i:50690613 original size:21 final size:21
Alignment explanation
Indices: 50690587--50690627 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50690577 TCAAAACAAC
*
50690587 ATAGTTTTGCCTTTTAACTTG
1 ATAGTTTTGACTTTTAACTTG
50690608 ATAGTTTTGACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
50690628 TAGGAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTG
Found at i:50692197 original size:25 final size:24
Alignment explanation
Indices: 50692169--50692257 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
50692159 ATTTGGGAAT
*
50692169 GCTCATACGAGCACATAAACAAGAA
1 GCTCATACGAGC-CATAAACGAGAA
* ** *
50692194 GCTCTTTTGAGCCATATAACGGGAA
1 GCTCATACGAGCCATA-AACGAGAA
** *
50692219 GCTCATGTGAGCCATGTAACGAGAA
1 GCTCATACGAGCCAT-AAACGAGAA
50692244 GCTCATACGAGCCA
1 GCTCATACGAGCCA
50692258 ATATCGGGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 4 0.08
25 47 0.92
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (24 bp):
GCTCATACGAGCCATAAACGAGAA
Found at i:50692364 original size:25 final size:24
Alignment explanation
Indices: 50692202--50692373 Score: 82
Period size: 25 Copynumber: 6.9 Consensus size: 24
50692192 AAGCTCTTTT
* *
50692202 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATATCGGGAAGCTCA-GA
* * * *
50692227 GAGCCATGTAACGAGAAGCTCATA
1 GAGCCATATATCGGGAAGCTCAGA
* *
50692251 CGAGCCA-ATATCGGGAAGGTTCAAGC
1 -GAGCCATATATCGGGAA-GCTC-AGA
* *
50692277 GAGCCA-ATATTGAGAAGCTCTAGA
1 GAGCCATATATCGGGAAGCTC-AGA
* *
50692301 GAGCCAT-TAATCAGGAAGCTCACAA
1 GAGCCATAT-ATCGGGAAGCTCA-GA
* *
50692326 TGAGCC-TTTAATCGGGAAGTTCACGA
1 -GAGCCATAT-ATCGGGAAGCTCA-GA
* *
50692352 GAGCCATATATCGAGATGCTCA
1 GAGCCATATATCGGGAAGCTCA
50692374 TAAGAGCTAC
Statistics
Matches: 112, Mismatches: 26, Indels: 18
0.72 0.17 0.12
Matches are distributed among these distances:
24 20 0.18
25 69 0.62
26 23 0.21
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (24 bp):
GAGCCATATATCGGGAAGCTCAGA
Found at i:50694049 original size:25 final size:24
Alignment explanation
Indices: 50694013--50694061 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
50694003 TTTAGATTCC
50694013 AAAATTATTATTTTATAAAATTTT
1 AAAATTATTATTTTATAAAATTTT
* * *
50694037 AAAATTTTATATTTTTTAATATTTT
1 AAAATTAT-TATTTTATAAAATTTT
50694062 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AAAATTATTATTTTATAAAATTTT
Found at i:50694095 original size:17 final size:18
Alignment explanation
Indices: 50694059--50694097 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50694049 TTTTTAATAT
**
50694059 TTTTTTAAAAATTTATAA
1 TTTTTTAAAAATACATAA
50694077 TTTTTTAAAAATACA-AA
1 TTTTTTAAAAATACATAA
50694094 TTTT
1 TTTT
50694098 AGAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAAAAATACATAA
Found at i:50696975 original size:33 final size:31
Alignment explanation
Indices: 50696937--50697013 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 31
50696927 CAGCTATAAG
50696937 TGCCGAATGCACATAT-TCACTTATACCCACCTA
1 TGCCGAATGCACATATAT-A--TATACCCACCTA
*
50696970 TGCCGAATGCATACATATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATATACCCACCTA
50697003 TGCCGAATGCA
1 TGCCGAATGCA
50697014 TTCATATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
31 1 0.03
33 31 0.77
35 7 0.17
36 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (31 bp):
TGCCGAATGCACATATATATATACCCACCTA
Found at i:50697014 original size:33 final size:33
Alignment explanation
Indices: 50696958--50697021 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
50696948 CATATTCACT
50696958 TATACCCACCTATGCCGAATGCATACATATATA
1 TATACCCACCTATGCCGAATGCATACATATATA
* *
50696991 TATATCCACCTATGCCGAATGCATTCATATA
1 TATACCCACCTATGCCGAATGCATACATATA
50697022 CACACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (33 bp):
TATACCCACCTATGCCGAATGCATACATATATA
Found at i:50697274 original size:41 final size:41
Alignment explanation
Indices: 50697209--50697408 Score: 233
Period size: 41 Copynumber: 4.9 Consensus size: 41
50697199 TTTAAACAGA
* * * * *
50697209 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTGATTCAG
* *
50697250 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
50697291 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
50697332 TTCACTGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAG
* *
50697373 TTCACCGACACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
50697409 ACAATTTCAC
Statistics
Matches: 138, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.02
41 134 0.97
42 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
Found at i:50701700 original size:42 final size:42
Alignment explanation
Indices: 50701641--50701726 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
50701631 GAGCATAAAG
50701641 ACGCTGCTTCATATGTAGCTTGCTAGTTAGAGTTTTCGACAT
1 ACGCTGCTTCATATGTAGCTTGCTAGTTAGAGTTTTCGACAT
50701683 ACGCTGCTTCATATGTAGCTTGCTAGTTAGAGTTTTCGACAT
1 ACGCTGCTTCATATGTAGCTTGCTAGTTAGAGTTTTCGACAT
50701725 AC
1 AC
50701727 ATATCTGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
ACGCTGCTTCATATGTAGCTTGCTAGTTAGAGTTTTCGACAT
Found at i:50703736 original size:20 final size:21
Alignment explanation
Indices: 50703707--50703766 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
50703697 AGCAACAATT
50703707 CAAA-CAAACATATC-ATATG
1 CAAACCAAACATATCAATATG
* * *
50703726 CCAACCAAACAAATCAATGTG
1 CAAACCAAACATATCAATATG
* *
50703747 CAAATCAAACATATTAATAT
1 CAAACCAAACATATCAATAT
50703767 CAAGCATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
21 19 0.61
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.22
Consensus pattern (21 bp):
CAAACCAAACATATCAATATG
Found at i:50706197 original size:21 final size:23
Alignment explanation
Indices: 50706159--50706200 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
50706149 TGGCCAAGGT
50706159 TATAATGGCATGTATAGTTGACC
1 TATAATGGCATGTATAGTTGACC
*
50706182 TATAAT-G-ATGTTTAGTTGA
1 TATAATGGCATGTATAGTTGA
50706201 ATATTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (23 bp):
TATAATGGCATGTATAGTTGACC
Found at i:50715967 original size:29 final size:30
Alignment explanation
Indices: 50715935--50715993 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
50715925 TTTGGCCTAA
50715935 TGTGCAATTCTGTACATG-AACTTTGATTT
1 TGTGCAATTCTGTACATGAAACTTTGATTT
* * *
50715964 TGTGTAATTTTGTACATGAAATTTTGATTT
1 TGTGCAATTCTGTACATGAAACTTTGATTT
50715994 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.49
Consensus pattern (30 bp):
TGTGCAATTCTGTACATGAAACTTTGATTT
Found at i:50716179 original size:31 final size:30
Alignment explanation
Indices: 50716139--50716217 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
50716129 AACTGAATCA
* *
50716139 AAATTAAAGTTTCATGTATATATTTGAACC
1 AAATAAAAGTTTCATGTATATACTTGAACC
* * *
50716169 ACAATAAAAGTTTCATATGTATACTTGCACC
1 A-AATAAAAGTTTCATGTATATACTTGAACC
*
50716200 AAATCAAAG-TTCATGTAT
1 AAATAAAAGTTTCATGTAT
50716218 CAAATTACAC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 7 0.17
30 8 0.20
31 25 0.62
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATAAAAGTTTCATGTATATACTTGAACC
Found at i:50716491 original size:3 final size:3
Alignment explanation
Indices: 50716483--50716541 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
50716473 TTGGAAGAGT
50716483 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50716531 TTA TTA TTA TT
1 TTA TTA TTA TT
50716542 TTACATCAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50721812 original size:95 final size:95
Alignment explanation
Indices: 50721697--50721873 Score: 246
Period size: 95 Copynumber: 1.9 Consensus size: 95
50721687 GCGATCTTAT
* * * * * *
50721697 ATCAACGAGTTGTTTGAAGAAGCGATATTAAATCAACTATATCAAATAAGACTGTTCATGATTTT
1 ATCAACGAGCTATTTAAAGAAGCGATATTAAATCAACCATATCAAATAAGACTGATCATGATCTT
*
50721762 AAATCGAATGAACATAGGTTGTGATCTGAA
66 AAATCAAATGAACATAGGTTGTGATCTGAA
* * * * *
50721792 ATCAACGAGCTATTTAAAGAAGTGATATTAAATCAGCCATCTCAAATAAGATTGATCATGCTCTT
1 ATCAACGAGCTATTTAAAGAAGCGATATTAAATCAACCATATCAAATAAGACTGATCATGATCTT
50721857 AAATCAAATGAACATAG
66 AAATCAAATGAACATAG
50721874 ATTGAGATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (95 bp):
ATCAACGAGCTATTTAAAGAAGCGATATTAAATCAACCATATCAAATAAGACTGATCATGATCTT
AAATCAAATGAACATAGGTTGTGATCTGAA
Found at i:50724156 original size:21 final size:21
Alignment explanation
Indices: 50724130--50724180 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
50724120 TGACTATGTA
50724130 TGTCGCGACATCAG-GGTTCGT
1 TGTCGCGACAT-AGAGGTTCGT
*
50724151 TGTCGCGACATTGAGGTTCGT
1 TGTCGCGACATAGAGGTTCGT
50724172 TGTCGCGAC
1 TGTCGCGAC
50724181 TGTAACACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (21 bp):
TGTCGCGACATAGAGGTTCGT
Found at i:50725996 original size:33 final size:33
Alignment explanation
Indices: 50725954--50726017 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
50725944 TTAGAGATTT
*
50725954 GTGTATCCGATGAGTGATGGTAAAGCTCACTTC
1 GTGTATCCGATGAGTGATGATAAAGCTCACTTC
50725987 GTGTATCCGATGAGTGATGATAAAGCTCACT
1 GTGTATCCGATGAGTGATGATAAAGCTCACT
50726018 ATATGTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (33 bp):
GTGTATCCGATGAGTGATGATAAAGCTCACTTC
Found at i:50728777 original size:2 final size:2
Alignment explanation
Indices: 50728772--50728805 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50728762 ACACACACAC
50728772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50728806 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50735609 original size:48 final size:48
Alignment explanation
Indices: 50735534--50735633 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
50735524 CCAAGGTGCT
50735534 ATCCCAAATTTAGATACTGTTTCCCCTGTGCAGCAAGAAGTTAGCACG
1 ATCCCAAATTTAGATACTGTTTCCCCTGTGCAGCAAGAAGTTAGCACG
* *
50735582 ATCCCAGATTTAGATACTGTTTTCCCTGTGCAGCAAGAAGTTAGCACG
1 ATCCCAAATTTAGATACTGTTTCCCCTGTGCAGCAAGAAGTTAGCACG
50735630 ATCC
1 ATCC
50735634 TTCCCAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
ATCCCAAATTTAGATACTGTTTCCCCTGTGCAGCAAGAAGTTAGCACG
Found at i:50753833 original size:37 final size:37
Alignment explanation
Indices: 50753771--50753878 Score: 101
Period size: 37 Copynumber: 2.9 Consensus size: 37
50753761 TTTGTAAAGT
* * *
50753771 AATAATAAACAATTTCACATGTCAATCAATTCAGA-AC
1 AATAACAAACAATTTCGCATATCAATCAATTCA-ACAC
* * ** * *
50753808 AATGACAAACAATTTCGCACATCAATTTATTTAACAT
1 AATAACAAACAATTTCGCATATCAATCAATTCAACAC
* *
50753845 AATAACAAACAGTCTCGCATATCAATCAATTCAA
1 AATAACAAACAATTTCGCATATCAATCAATTCAA
50753879 TACAGTTAAG
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 1 0.02
37 53 0.98
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (37 bp):
AATAACAAACAATTTCGCATATCAATCAATTCAACAC
Found at i:50755368 original size:12 final size:12
Alignment explanation
Indices: 50755326--50755371 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
50755316 AAAGTTTACG
50755326 TTTCTTCTTTC-T
1 TTTC-TCTTTCTT
**
50755338 TTTCTCACTCTT
1 TTTCTCTTTCTT
50755350 TTT-TCTTTCTT
1 TTTCTCTTTCTT
50755361 TTTCTCTTTCT
1 TTTCTCTTTCT
50755372 CTCTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTCTTTCTT
Found at i:50756317 original size:42 final size:42
Alignment explanation
Indices: 50756270--50756382 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
50756260 ACACCGATAT
* * *
50756270 AGGACACGTGCATGTGTCTAGGTCGTGTGAATCATACAGCCA
1 AGGACACGGGCATGTGTCTAGGCCGTGTGAATCACACAGCCA
*
50756312 AGGACACGGGCATGTGT-TCAGGCCGTGTGAATCACACGGCCA
1 AGGACACGGGCATGTGTCT-AGGCCGTGTGAATCACACAGCCA
* *
50756354 AGGGCACGGGCGTGTGTCTAGGCCGTGTG
1 AGGACACGGGCATGTGTCTAGGCCGTGTG
50756383 GCATATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.20
Consensus pattern (42 bp):
AGGACACGGGCATGTGTCTAGGCCGTGTGAATCACACAGCCA
Found at i:50756902 original size:29 final size:28
Alignment explanation
Indices: 50756848--50756903 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
50756838 ACTTGCATAT
*
50756848 AAAATTGATCTGTTCTGTAAATAAAACC
1 AAAATTGATCTGTTCTGTAAACAAAACC
*
50756876 AAAATTGTTTCTGCTTCTGT-AACAAAAC
1 AAAATTG-ATCTG-TTCTGTAAACAAAAC
50756904 TGTTCTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 11 0.46
30 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (28 bp):
AAAATTGATCTGTTCTGTAAACAAAACC
Found at i:50758235 original size:11 final size:11
Alignment explanation
Indices: 50758219--50758244 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50758209 TATTTCTTAA
50758219 TTTTAAAATAT
1 TTTTAAAATAT
50758230 TTTTAAAATAT
1 TTTTAAAATAT
50758241 TTTT
1 TTTT
50758245 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50759305 original size:21 final size:22
Alignment explanation
Indices: 50759281--50759323 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
50759271 GTACAAAAAT
50759281 CTTTAAAATATTTTAT-ATTTA
1 CTTTAAAATATTTTATAATTTA
** *
50759302 CTTTTTAATTTTTTATAATTTA
1 CTTTAAAATATTTTATAATTTA
50759324 TATTTAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
CTTTAAAATATTTTATAATTTA
Found at i:50759329 original size:21 final size:21
Alignment explanation
Indices: 50759291--50759330 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50759281 CTTTAAAATA
*
50759291 TTTTATATTTACTTTTTAATT
1 TTTTATATTTACTATTTAATT
50759312 TTTTATAATTTA-TATTTAA
1 TTTTAT-ATTTACTATTTAA
50759331 ATGTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATATTTACTATTTAATT
Found at i:50763231 original size:20 final size:20
Alignment explanation
Indices: 50763206--50763244 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50763196 TAAGGGACTC
50763206 ATGAGGCAATTAAAACATTT
1 ATGAGGCAATTAAAACATTT
50763226 ATGAGGCAATTAAAACATT
1 ATGAGGCAATTAAAACATT
50763245 ATTCTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGAGGCAATTAAAACATTT
Found at i:50770609 original size:20 final size:19
Alignment explanation
Indices: 50770574--50770613 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
50770564 AAATTAAGTT
*
50770574 TTAATTAATTATAATTAAC
1 TTAATTAATAATAATTAAC
50770593 TTAATTAACTAATAATTAAC
1 TTAATTAA-TAATAATTAAC
50770613 T
1 T
50770614 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:50770610 original size:11 final size:11
Alignment explanation
Indices: 50770575--50770615 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
50770565 AATTAAGTTT
*
50770575 TAATTAA-TTA
1 TAATTAACTAA
50770585 TAATTAACT--
1 TAATTAACTAA
50770594 TAATTAACTAA
1 TAATTAACTAA
50770605 TAATTAACTAA
1 TAATTAACTAA
50770616 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:50777377 original size:34 final size:35
Alignment explanation
Indices: 50777317--50777383 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
50777307 CAAACACCAG
*
50777317 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
50777352 AAAACATTTTCCCG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
50777384 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Done.