Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2896985 original size:21 final size:21
Alignment explanation
Indices: 2896913--2896977 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
2896903 GGACCTATCA
*
2896913 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTAATCTGTG
2896934 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
2896955 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
2896976 TC
1 TC
2896978 TCGTAGGACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (21 bp):
TCCCGAAGGATGTAATCTGTG
Found at i:2897664 original size:35 final size:36
Alignment explanation
Indices: 2897618--2897688 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
2897608 TTTCATTTAG
2897618 GGGGAATCGATACCCCCCAA-GGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAAGGGGGAATCTGTTCCC
2897653 GGGGAATCGATACCCCCCAAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAAGGGGGAATCTGTTCCC
2897689 CCTGCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAAGGGGGAATCTGTTCCC
Found at i:2906603 original size:65 final size:64
Alignment explanation
Indices: 2906484--2906690 Score: 217
Period size: 65 Copynumber: 3.2 Consensus size: 64
2906474 TTTATCAAAG
* * * *
2906484 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCAAATGC
1 TGATGCATCGATGCACCAA-CCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATGC
2906546 ATT
62 ATT
* *
2906549 TCATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCA
2906612 TT
63 TT
* * * * *
2906614 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
2906678 TGATGCATCGATG
1 TGATGCATCGATG
2906691 AACTCTTAGT
Statistics
Matches: 121, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 45 0.37
65 68 0.56
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:2909704 original size:21 final size:21
Alignment explanation
Indices: 2909616--2909705 Score: 90
Period size: 21 Copynumber: 4.3 Consensus size: 21
2909606 AACCGAAAAT
* * *
2909616 GAAGCAAGGGAAGCAGAGAGA
1 GAAGCAACGGCAGCACAGAGA
* * * * *
2909637 GCAGTAGCGGAAGCACAAAGA
1 GAAGCAACGGCAGCACAGAGA
*
2909658 GAAGTAACGGCAGCACAGAGA
1 GAAGCAACGGCAGCACAGAGA
*
2909679 GAAGCAATGGCAGCACAGAGA
1 GAAGCAACGGCAGCACAGAGA
2909700 GAAGCA
1 GAAGCA
2909706 TCATATCAGC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.44, C:0.17, G:0.36, T:0.03
Consensus pattern (21 bp):
GAAGCAACGGCAGCACAGAGA
Found at i:2910313 original size:43 final size:43
Alignment explanation
Indices: 2910247--2910331 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
2910237 TTTTGTGGCA
* * *
2910247 TTTGTGGGAAAAACACTGTTAAATATCAATAGCTATTGCGGCG
1 TTTGTGGGAAAAACACTGCTAAATATCAACACCTATTGCGGCG
* * *
2910290 TTTGTGGGATAAACGCTGCTAAATCTCAACACCTATTGCGGC
1 TTTGTGGGAAAAACACTGCTAAATATCAACACCTATTGCGGC
2910332 ATTTTTTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
TTTGTGGGAAAAACACTGCTAAATATCAACACCTATTGCGGCG
Found at i:2912429 original size:24 final size:24
Alignment explanation
Indices: 2912384--2912430 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2912374 TCTTTATATA
* *
2912384 TAATAATATTACATTTTTAATTAT
1 TAATAATATTACATATTAAATTAT
* *
2912408 TAATAATTTTATATATTAAATTA
1 TAATAATATTACATATTAAATTA
2912431 GACTAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATAATATTACATATTAAATTAT
Found at i:2913288 original size:24 final size:26
Alignment explanation
Indices: 2913255--2913309 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
2913245 TATAAATATT
* *
2913255 TTTTTTATTGTTATACACACA-A-TG
1 TTTTTGATTGCTATACACACACACTG
2913279 TTTTTGATTGCTATACACACACACTG
1 TTTTTGATTGCTATACACACACACTG
2913305 TTTTT
1 TTTTT
2913310 CTATTTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 19 0.70
25 1 0.04
26 7 0.26
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (26 bp):
TTTTTGATTGCTATACACACACACTG
Found at i:2916603 original size:15 final size:15
Alignment explanation
Indices: 2916585--2916626 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
2916575 ATTTATGCTA
2916585 TTTAATTTCCATCAT
1 TTTAATTTCCATCAT
* *
2916600 TTTAATTTCAATCCT
1 TTTAATTTCCATCAT
*
2916615 TTAAATTTCCAT
1 TTTAATTTCCAT
2916627 TTTTTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAATTTCCATCAT
Found at i:2917276 original size:138 final size:137
Alignment explanation
Indices: 2916906--2917345 Score: 494
Period size: 139 Copynumber: 3.2 Consensus size: 137
2916896 TCCTTAAAAT
* * * * *
2916906 TTTTAATTTAGATGAATTTTT-ATTTGATCATTGCTTTTACGCCCGAGGTTCCATATTAATTATT
1 TTTTAATTTAGAAGAATTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCCATATTAATTATT
* * * *** * * *
2916970 TGATCCAATAAATTGTTAAAATTGGTTAGGATTAATATTACAATATTTATTTTAGATTTATTTCA
66 CGATCCAAT-AATTGTTAAAATTGGCTAGGATTAATATTAGAGCCTTTATTTTATATTAATTTTA
2917035 CTTTAGTC
130 CTTTAGTC
* * * * * *
2917043 TTTTAATTTAGGAGAATTTTTTAATTTTGTCCACACTTTTATGCTCAAGGTTCCATATTAATTAT
1 TTTTAATTTAGAAGAA-TTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCCATATTAATTAT
* *
2917108 TCGATCCATTAATTTGTTAAAATTGTCTAGGATTAATATTAGAGCCTTTATTTTATATTAATTTT
65 TCGATCCAATAA-TTGTTAAAATTGGCTAGGATTAATATTAGAGCCTTTATTTTATATTAATTTT
2917173 ACTTTAGTC
129 ACTTTAGTC
*
2917182 TTTTAATTTAGAAGAATTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCTATATTAATTATT
1 TTTTAATTTAGAAGAATTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCCATATTAATTATT
* * * * *
2917247 CAATCCAATCATCTGTTAAAATTGGCTAGGATTTATATTAGGGCCTTCT-TCTTAGGT-TTAATT
66 CGATCCAATAAT-TGTTAAAATTGGCTAGGATTAATATTAGAGCCTT-TATTTTA--TATTAATT
2917310 TTA-TCTTAGTC
127 TTACT-TTAGTC
* **
2917321 CTTTAATTTAGGTGAA-TTTTAATTT
1 TTTTAATTTAGAAGAATTTTTAATTT
2917346 GGTGCTCGCC
Statistics
Matches: 256, Mismatches: 39, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
137 15 0.06
138 103 0.40
139 137 0.54
140 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (137 bp):
TTTTAATTTAGAAGAATTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCCATATTAATTATT
CGATCCAATAATTGTTAAAATTGGCTAGGATTAATATTAGAGCCTTTATTTTATATTAATTTTAC
TTTAGTC
Found at i:2917423 original size:277 final size:275
Alignment explanation
Indices: 2916906--2917431 Score: 596
Period size: 277 Copynumber: 1.9 Consensus size: 275
2916896 TCCTTAAAAT
* * *
2916906 TTTTAATTTAGATGAATTTTTATTTGATCATTGCTTTTACGCCCGAGGTTCCATATTAATTATTT
1 TTTTAATTTAGAAGAATTTTTATTTGATCATCGCTTTTACGCCCGAGGTTCCATATTAATTATTC
* * * *
2916971 GATCCAATAAATTGTTAAAATTGGTTAGGATTAATATTACAATATTTATTTTAGATTTATTTCAC
66 AATCCAATAAATTGTTAAAATTGGCTAGGATTAATATTACAACATTTATCTTAGATTTATTTCAC
* * * *
2917036 TTTAGTCTTTTAATTTAGGAGAATTTTTTAATTTTGTCCACACTTTTATGCTCAAGGTTCCATAT
131 TTTAGTCCTTTAATTTAGGAGAA-TTTTTAATTTGGTCCACACCTTTATGCCCAAGGTTCCATAT
* * * * *
2917101 TAATTATTCGATCCATTAATTTGTTAAAATTGTCTAGGATTAATATTAGAGCCTTTATTTTATAT
195 TAATTATTCGATCAATAAAATTGGTAAAATTATCTAGGATTAATATTAGAGCCTTTATTTTATAT
2917166 TAATTTTACTTTAGTC
260 TAATTTTACTTTAGTC
* * * *
2917182 TTTTAATTTAGAAGAATTTTTAATTTTATCCTCGCTTTTACGCTCGAGGTTCTATATTAATTATT
1 TTTTAATTTAGAAGAATTTTT-ATTTGATCATCGCTTTTACGCCCGAGGTTCCATATTAATTATT
* * *** * *
2917247 CAATCCAAT-CATCTGTTAAAATTGGCTAGGATTTATATTAGGGCCTTCT-TCTTAGGTTTAATT
65 CAATCCAATAAAT-TGTTAAAATTGGCTAGGATTAATATTACAACATT-TATCTTAGATTT-ATT
* * * * *
2917310 TTA-TCTTAGTCCTTTAATTTAGGTGAA-TTTTAATTTGGTGCTCGCCTTTATGCCCAAGGTTCC
127 TCACT-TTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCACACCTTTATGCCCAAGGTTCC
* * * **
2917373 ATTTTGATT-TTTGATTCAATAAAATTGGTAAAATTCAT-TAAGTTTTAATATTAGAGCCT
191 ATATTAATTATTCGA-TCAATAAAATTGGTAAAATT-ATCT-AGGATTAATATTAGAGCCT
2917432 ACATTTTAGG
Statistics
Matches: 205, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
275 4 0.02
276 76 0.37
277 99 0.48
278 26 0.13
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (275 bp):
TTTTAATTTAGAAGAATTTTTATTTGATCATCGCTTTTACGCCCGAGGTTCCATATTAATTATTC
AATCCAATAAATTGTTAAAATTGGCTAGGATTAATATTACAACATTTATCTTAGATTTATTTCAC
TTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCACACCTTTATGCCCAAGGTTCCATATT
AATTATTCGATCAATAAAATTGGTAAAATTATCTAGGATTAATATTAGAGCCTTTATTTTATATT
AATTTTACTTTAGTC
Found at i:2921264 original size:21 final size:20
Alignment explanation
Indices: 2921220--2921264 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2921210 GTGAGTTTGG
* *
2921220 GATCGATCCCTTGACAAAAG
1 GATCGATCCCTCGACAAAAA
*
2921240 GATCGATCCCTCGAGGAAAAA
1 GATCGATCCCTCGA-CAAAAA
2921261 GATC
1 GATC
2921265 AATTCCTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
GATCGATCCCTCGACAAAAA
Found at i:2921335 original size:20 final size:21
Alignment explanation
Indices: 2921312--2921351 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2921302 CAGTCGAAAT
2921312 ATTT-GAAAAATGATCGATCC
1 ATTTGGAAAAATGATCGATCC
* *
2921332 ATTTGGTAAAATGATTGATC
1 ATTTGGAAAAATGATCGATC
2921352 TCTTGGACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (21 bp):
ATTTGGAAAAATGATCGATCC
Found at i:2923963 original size:21 final size:21
Alignment explanation
Indices: 2923922--2924002 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 21
2923912 AGCTCAAATA
*
2923922 ATCGATCCCTTAG-CAAAAGG
1 ATCGATCCCTTTGACAAAAGG
*
2923942 ATCGATCCCTTTGACCAAAGG
1 ATCGATCCCTTTGACAAAAGG
* * *
2923963 ATTGATCCCCTTGA-AAAAAG
1 ATCGATCCCTTTGACAAAAGG
* * *
2923983 ATCAATCCCTTGGAAAAAAG
1 ATCGATCCCTTTGACAAAAG
2924003 TGAGTTTGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 26 0.54
21 22 0.46
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGATCCCTTTGACAAAAGG
Found at i:2926283 original size:3 final size:3
Alignment explanation
Indices: 2926277--2926321 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2926267 GTTGTTGTTG
2926277 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
2926322 GGTTACAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2927487 original size:35 final size:35
Alignment explanation
Indices: 2927392--2927471 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
2927382 AACACAATCA
2927392 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
* *
2927427 TCAATTATATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
*
2927462 TTAATTACAT
1 TCAATTACAT
2927472 ATCCAACCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATACT
Found at i:2929262 original size:64 final size:64
Alignment explanation
Indices: 2929194--2929350 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
2929184 TTGAAGGTGT
* *
2929194 ATCGATGCACTGGTAGTGCATCGATGCA-CTCTTTTA-AAATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACTGGTAGTGCATCGATGCATC-CTATTACAAAT-AAAACATCGAATGCATATTA-T
2929256 GC
63 GC
* * *
2929258 ATCGATGCA-TAAGGCA-TGCATCGATGCATCCTATTACTAATAAAACATCGAATGCATTTTATG
1 ATCGATGCACT--GGTAGTGCATCGATGCATCCTATTACAAATAAAACATCGAATGCATATTATG
2929321 C
64 C
* **
2929322 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACTGGTAGTGCATCGATGCAT
2929351 ATCTTCATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
63 3 0.04
64 64 0.83
65 10 0.13
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCACTGGTAGTGCATCGATGCATCCTATTACAAATAAAACATCGAATGCATATTATGC
Found at i:2929766 original size:29 final size:29
Alignment explanation
Indices: 2929727--2929836 Score: 168
Period size: 29 Copynumber: 3.8 Consensus size: 29
2929717 TATGTGATAT
*
2929727 GAGAACATGACATGAGCTACATGATCATAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
2929757 GAGAAATGACATGAGTTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
2929786 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
2929815 GAGAAATGAAATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
2929837 ACATATGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 7 0.09
29 62 0.84
30 5 0.07
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:2929941 original size:15 final size:15
Alignment explanation
Indices: 2929921--2929984 Score: 110
Period size: 15 Copynumber: 4.3 Consensus size: 15
2929911 GATGGTATAA
2929921 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
2929936 TAGTCCTTCGGGACA
1 TAGTCCTTCGGGACG
2929951 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
2929966 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
2929981 TAGT
1 TAGT
2929985 GGTCCTACGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:2936179 original size:65 final size:64
Alignment explanation
Indices: 2936046--2936201 Score: 165
Period size: 65 Copynumber: 2.4 Consensus size: 64
2936036 GAAGGTGTAT
** * ** * *
2936046 CGATGCACTGGTAGTACATCGATGCA-CTCTTTTAAAATAAAAAGATCGAATGCAATTAGTGCAT
1 CGATGCACAAGTAGTGCATCGATGCATC-CCATTAAAATAAAAACATCGAATGCAATTAGTGCAC
* *
2936110 CGATGCATAAGGTA-TGCATCGATGCATCCCATTAATAATAAAAACATCGAATGCATTTTA-TGC
1 CGATGCACAA-GTAGTGCATCGATGCATCCCATTAA-AATAAAAACATCGAATGCA-ATTAGTGC
2936173 AC
63 AC
*
2936175 CGATGTACAAGTAGTGCATCGATGCAT
1 CGATGCACAAGTAGTGCATCGATGCAT
2936202 ACCTTCATTA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
64 26 0.34
65 47 0.62
66 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCATCCCATTAAAATAAAAACATCGAATGCAATTAGTGCAC
Found at i:2936619 original size:29 final size:29
Alignment explanation
Indices: 2936580--2936689 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
2936570 TATGTGATAT
2936580 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
2936610 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
2936639 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
2936668 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
2936690 ACATATGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:2936792 original size:15 final size:15
Alignment explanation
Indices: 2936774--2936807 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2936764 GAGGGTCTAA
2936774 TAGTCCTTCAGGACG
1 TAGTCCTTCAGGACG
* *
2936789 TAGTCCTTCGGGATG
1 TAGTCCTTCAGGACG
2936804 TAGT
1 TAGT
2936808 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCAGGACG
Found at i:2937952 original size:2 final size:2
Alignment explanation
Indices: 2937945--2938018 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
2937935 GTTAGTCCCC
*
2937945 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2937987 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
2938019 GTTAGATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2948192 original size:21 final size:21
Alignment explanation
Indices: 2948163--2948213 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2948153 AAATGCCAAT
*
2948163 TGACTAAATGCTCACAAAGAA
1 TGACCAAATGCTCACAAAGAA
*
2948184 TGACCAAATGCTCGCAAAGAA
1 TGACCAAATGCTCACAAAGAA
*
2948205 TGAACAAAT
1 TGACCAAAT
2948214 AAACATGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (21 bp):
TGACCAAATGCTCACAAAGAA
Found at i:2949132 original size:7 final size:7
Alignment explanation
Indices: 2949120--2949144 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2949110 ATTATATTTT
2949120 TTTATCA
1 TTTATCA
2949127 TTTATCA
1 TTTATCA
2949134 TTTATCA
1 TTTATCA
2949141 TTTA
1 TTTA
2949145 GATGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTATCA
Found at i:2949288 original size:13 final size:14
Alignment explanation
Indices: 2949264--2949293 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2949254 ACGTTTATAA
2949264 ATTTTAAAAATTTT
1 ATTTTAAAAATTTT
2949278 ATTTT-AAAATTTT
1 ATTTTAAAAATTTT
2949291 ATT
1 ATT
2949294 ATCTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAAAAATTTT
Found at i:2949302 original size:17 final size:17
Alignment explanation
Indices: 2949276--2949322 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2949266 TTTAAAAATT
2949276 TTAT-TTTAAAATTTTA
1 TTATCTTTAAAATTTTA
**
2949292 TTATCTTTAAAAAATTA
1 TTATCTTTAAAATTTTA
*
2949309 TTTTCTTTAAAATT
1 TTATCTTTAAAATT
2949323 AAAAAAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATCTTTAAAATTTTA
Found at i:2949634 original size:18 final size:18
Alignment explanation
Indices: 2949613--2949647 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2949603 AAACTTTTGG
2949613 ATTTTTTAAAGATTTTAA
1 ATTTTTTAAAGATTTTAA
* *
2949631 ATTTTTTGAGGATTTTA
1 ATTTTTTAAAGATTTTA
2949648 TTAAATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
ATTTTTTAAAGATTTTAA
Found at i:2950713 original size:14 final size:15
Alignment explanation
Indices: 2950696--2950724 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2950686 TTTGATTTTA
2950696 ATAATTT-TTTATTT
1 ATAATTTATTTATTT
2950710 ATAATTTATTTATTT
1 ATAATTTATTTATTT
2950725 TTATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATAATTTATTTATTT
Found at i:2950727 original size:17 final size:17
Alignment explanation
Indices: 2950684--2950730 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2950674 GTATGATTCA
*
2950684 TATTTGATTTTAATAATT
1 TATTT-ATTTTTATAATT
2950702 T-TTTA--TTTATAATT
1 TATTTATTTTTATAATT
2950716 TATTTATTTTTATAA
1 TATTTATTTTTATAA
2950731 ATTAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 1 0.04
17 10 0.40
18 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTTATTTTTATAATT
Found at i:2951307 original size:24 final size:26
Alignment explanation
Indices: 2951280--2951335 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 26
2951270 AAATTCACTA
*
2951280 TAAAAAAAT-AAAAATATCT-TTATT
1 TAAAAAAATGAAAAATATCTCATATT
*
2951304 T--AAAAATGAAACATATCTCATATT
1 TAAAAAAATGAAAAATATCTCATATT
2951328 TAAAAAAA
1 TAAAAAAA
2951336 ATAAGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.23
23 9 0.35
24 6 0.23
26 5 0.19
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAAAAAATGAAAAATATCTCATATT
Found at i:2951319 original size:23 final size:23
Alignment explanation
Indices: 2951283--2951333 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
2951273 TTCACTATAA
*
2951283 AAAAATAAAAATATCT-TTATTT
1 AAAAATAAAAATATCTCATATTT
*
2951305 AAAAATGAAACATATCTCATATTT
1 AAAAAT-AAAAATATCTCATATTT
2951329 AAAAA
1 AAAAA
2951334 AAATAAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.24
23 9 0.36
24 10 0.40
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATAAAAATATCTCATATTT
Found at i:2952850 original size:19 final size:19
Alignment explanation
Indices: 2952828--2952877 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
2952818 TTTAGCCTGC
*
2952828 AAATAAAATAA-AATGATTA
1 AAATAAAATAATAAT-AATA
* *
2952847 AAATTAATTAATAATAATA
1 AAATAAAATAATAATAATA
2952866 AAAT-AAATAATA
1 AAATAAAATAATA
2952878 TTCATATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 16 0.62
20 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAAAATAATAATAATA
Found at i:2953459 original size:125 final size:124
Alignment explanation
Indices: 2953237--2953704 Score: 411
Period size: 125 Copynumber: 3.8 Consensus size: 124
2953227 TGAAGAACAC
* * *
2953237 TGAATCTGGTGTCAATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGTGGGACGATCTTACTCAT
1 TGAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGT-GGAAGATCTTACTCAT
** * * *
2953302 TCCTCTGAAGGACGCTGAGTCGTAATTGGTAGGCGACCCACTCCTTTTGCTAAAGGA-AGT
65 TAATCTGAAGGACGCTAAGTCATAATTGGTAGGCGACCCACTCCTTTTACTAAAGGATA-T
* * * * * *
2953362 TGAATCTAGTGACGATCACACTCTATCCTCTAAAAGACGTTGAGTCGTGAAATGATCTTACTCCT
1 TGAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGTGGAA-GATCTTACTCAT
* * * * * *
2953427 TAATCTGAAGTACGCTAATTCATAATTTGTAGGTGATCCACTCCTTTTACTGAAGGATAT
65 TAATCTGAAGGACGCTAAGTCATAATTGGTAGGCGACCCACTCCTTTTACTAAAGGATAT
* * * *
2953487 TGAATCTGGTGATGATCTCACTCTTTCCTCTGGAAGACATTGAGTCGAGGAAGATCTTACTCATT
1 TGAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGTGGAAGATCTTACTCATT
** * * * * ** * *** * * * **
2953552 CTTTTAAAGAATGCTAAGTTGTATTTGGTAGATAATCCACTTCTTTTGCTGAAA-GATGC
66 AATCTGAAGGACGCTAAGTCATAATTGGTAGGCGACCCACTCCTTTTACT-AAAGGATAT
* * * *
2953611 TAAATCTGGTGACGATCTCACTCTTTCGTCTGAAAGACGCTGAGTCGTAGGACGATCTTACTTC-
1 TGAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGT-GGAAGATCTTAC-TCA
** * * *
2953675 TTCTTCTGAAGGATGCTAACTCGTAATTGG
64 TTAATCTGAAGGACGCTAAGTCATAATTGG
2953705 ATGACTACAT
Statistics
Matches: 276, Mismatches: 62, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
124 93 0.34
125 180 0.65
126 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (124 bp):
TGAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGTTGAGTCGTGGAAGATCTTACTCATT
AATCTGAAGGACGCTAAGTCATAATTGGTAGGCGACCCACTCCTTTTACTAAAGGATAT
Found at i:2953699 original size:40 final size:41
Alignment explanation
Indices: 2953589--2953699 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 41
2953579 GTAGATAATC
*
2953589 CACTTCTT-TTGCTGAAAGATGCTAAATC-TGGTGACGATCT
1 CACTTCTTCTT-CTGAAAGATGCTAAATCGTAGTGACGATCT
* * * *
2953629 CAC-TCTTTCGTCTGAAAGACGCTGAGTCGTAG-GACGATCT
1 CACTTC-TTCTTCTGAAAGATGCTAAATCGTAGTGACGATCT
* * *
2953669 TACTTCTTCTTCTGAAGGATGCTAACTCGTA
1 CACTTCTTCTTCTGAAAGATGCTAAATCGTA
2953700 ATTGGATGAC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
39 2 0.04
40 49 0.88
41 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (41 bp):
CACTTCTTCTTCTGAAAGATGCTAAATCGTAGTGACGATCT
Found at i:2954169 original size:50 final size:50
Alignment explanation
Indices: 2954082--2954323 Score: 204
Period size: 50 Copynumber: 4.8 Consensus size: 50
2954072 ATTAAATAAG
* * * * * *
2954082 GACATCACAGAAAAGTTGATTCCTCT-CTACGAGAAAGTAAAGTTGAGAAT
1 GACATAACCGAAAAGTTGACTCATCTCCT-CGAAAAAGTCAAGTTGAGAAT
* ** * *
2954132 GACACAACCGAAAAGTTGACTCATCTTTTCAAAAAAGTTAAGTTGAGAAT
1 GACATAACCGAAAAGTTGACTCATCTCCTCGAAAAAGTCAAGTTGAGAAT
* * * * * *
2954182 GAAATAACTGAAAATTTTACT-ACTCTCCGCGAGAAAGTCAAGTTGAGAAT
1 GACATAACCGAAAAGTTGACTCA-TCTCCTCGAAAAAGTCAAGTTGAGAAT
** * * *
2954232 GACATAACTAAAAAGTTGATTCCTCTCCGT-GAAAAAGTCAAGTTGACAAT
1 GACATAACCGAAAAGTTGACTCATCTCC-TCGAAAAAGTCAAGTTGAGAAT
* *
2954282 GACATAACCGAAAAGTTAACTCATCT-CTGCGAGAAAGTCAAG
1 GACATAACCGAAAAGTTGACTCATCTCCT-CGAAAAAGTCAAG
2954324 AATGACATCA
Statistics
Matches: 151, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 147 0.97
51 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (50 bp):
GACATAACCGAAAAGTTGACTCATCTCCTCGAAAAAGTCAAGTTGAGAAT
Found at i:2954230 original size:100 final size:100
Alignment explanation
Indices: 2954111--2954323 Score: 250
Period size: 100 Copynumber: 2.1 Consensus size: 100
2954101 TTCCTCTCTA
* * ** *
2954111 CGAGAAAGTAAAGTTGAGAATGACACAACCGAAAAGTTGACTCATCT-TTTCAAAAAAGTTAAGT
1 CGAGAAAGTCAAGTTGAGAATGACACAACCAAAAAGTTGACTCATCTCCGT-AAAAAAGTCAAGT
* * * *
2954175 TGAGAATGAAATAACTGAAAATTTTACT-ACTCTCCG
65 TGACAATGAAATAACCGAAAAGTTAACTCA-TCTCCG
* * * * *
2954211 CGAGAAAGTCAAGTTGAGAATGACATAACTAAAAAGTTGATTCCTCTCCGTGAAAAAGTCAAGTT
1 CGAGAAAGTCAAGTTGAGAATGACACAACCAAAAAGTTGACTCATCTCCGTAAAAAAGTCAAGTT
* *
2954276 GACAATGACATAACCGAAAAGTTAACTCATCTCTG
66 GACAATGAAATAACCGAAAAGTTAACTCATCTCCG
2954311 CGAGAAAGTCAAG
1 CGAGAAAGTCAAG
2954324 AATGACATCA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
100 93 0.98
101 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (100 bp):
CGAGAAAGTCAAGTTGAGAATGACACAACCAAAAAGTTGACTCATCTCCGTAAAAAAGTCAAGTT
GACAATGAAATAACCGAAAAGTTAACTCATCTCCG
Found at i:2954359 original size:45 final size:45
Alignment explanation
Indices: 2954310--2954397 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
2954300 ACTCATCTCT
2954310 GCGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTAC
1 GCGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTAC
**
2954355 GCGAGAAAGTCAAGAATGACATCACTGCAAGATTGACTTCTCT
1 GCGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCT
2954398 TCACGTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (45 bp):
GCGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTAC
Found at i:2954408 original size:45 final size:45
Alignment explanation
Indices: 2954311--2954409 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
2954301 CTCATCTCTG
*
2954311 CGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTACG
1 CGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTACA
** *
2954356 CGAGAAAGTCAAGAATGACATCACTGCAAGATTGACTTCTCTTCA
1 CGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTACA
*
2954401 CGTGAAAGT
1 CGAGAAAGT
2954410 TAAGTTGAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (45 bp):
CGAGAAAGTCAAGAATGACATCACTAAAAGATTGACTTCTCTACA
Found at i:2954469 original size:37 final size:37
Alignment explanation
Indices: 2954428--2954599 Score: 220
Period size: 37 Copynumber: 4.6 Consensus size: 37
2954418 GTTTTTTAGG
*
2954428 GAAACAATCCTGAA-AATGACTAAAACGAATTTCTAGA
1 GAAACGATCCT-AAGAATGACTAAAACGAATTTCTAGA
* * **
2954465 GAAACGATCCTAAAAAGGACTCTAACGAATTTCTAGA
1 GAAACGATCCTAAGAATGACTAAAACGAATTTCTAGA
**
2954502 GAAACGATCCTAAGAATGACTCTAACGAATTTCTAGA
1 GAAACGATCCTAAGAATGACTAAAACGAATTTCTAGA
* * * *
2954539 GAAACGATCTTAAGAAGGACTAAAATGAATTTTTAGA
1 GAAACGATCCTAAGAATGACTAAAACGAATTTCTAGA
*
2954576 GAAATGATCCTAAGAATGACTAAA
1 GAAACGATCCTAAGAATGACTAAA
2954600 GTGAGTTTTT
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
36 2 0.02
37 117 0.98
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (37 bp):
GAAACGATCCTAAGAATGACTAAAACGAATTTCTAGA
Found at i:2956006 original size:175 final size:175
Alignment explanation
Indices: 2955688--2956019 Score: 434
Period size: 175 Copynumber: 1.9 Consensus size: 175
2955678 TTTCCCTTAC
* * * *
2955688 CTCAGGGAATTTATCACGTTATAATTAATGTCACCGTTTAAATATAACCACTTCATAAAGCTCAT
1 CTCAGGGAATTCATCACGTCACAATTAATGTCACCGTTTAAATATAACCACTTCATAAAGCTCAA
* * * * *
2955753 ACATACCTCAATAATTGTTTGAGATTATCTTCAAGTTATCAGCTTAATGCTTTTAACGGAGTAAC
66 ACATACCTCAATAATTGCTTGAAATTACCTTCAAGTTATCAGCTTAATGCTTCTAACAGAGTAAC
* *
2955818 CCTATTTTATTACACTCACATATCACTATTTCATTAATCTTTTAT
131 CCCATTGTATTACACTCACATATCACTATTTCATTAATCTTTTAT
* * *
2955863 CTCAGGGAATTCATCACGTCACAATTAATGTTA-CGATTTGAATATAACCACTTCATGAAGCTCA
1 CTCAGGGAATTCATCACGTCACAATTAATGTCACCG-TTTAAATATAACCACTTCATAAAGCTCA
* * * * *
2955927 AACTTACCTTAATAGCTT-CTTGAAATTACCTTCAAGTTATCAGCTTAATGCTTCTAGCAGAGTG
65 AACATACCTCAATA-ATTGCTTGAAATTACCTTCAAGTTATCAGCTTAATGCTTCTAACAGAGTA
* * *
2955991 GCCCCGTTGTATTACACTCACCTATCACT
129 ACCCCATTGTATTACACTCACATATCACT
2956020 GCTTTATTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
174 2 0.02
175 129 0.97
176 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (175 bp):
CTCAGGGAATTCATCACGTCACAATTAATGTCACCGTTTAAATATAACCACTTCATAAAGCTCAA
ACATACCTCAATAATTGCTTGAAATTACCTTCAAGTTATCAGCTTAATGCTTCTAACAGAGTAAC
CCCATTGTATTACACTCACATATCACTATTTCATTAATCTTTTAT
Found at i:2960405 original size:25 final size:25
Alignment explanation
Indices: 2960351--2960405 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
2960341 CATATTTTTT
*
2960351 TTTAAAAAAATAGGATATAAATAAAT
1 TTTAAAAAAATA-GATATAAATAAAC
*
2960377 TTTAAAAAAATA-ATATAATATCAAC
1 TTTAAAAAAATAGATATAA-ATAAAC
2960402 TTTA
1 TTTA
2960406 TTAGAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 8 0.31
26 12 0.46
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
TTTAAAAAAATAGATATAAATAAAC
Found at i:2964513 original size:3 final size:3
Alignment explanation
Indices: 2964502--2964562 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
2964492 TTTTTTATCG
** *
2964502 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2964547 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
2964563 CATATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2964557 original size:29 final size:30
Alignment explanation
Indices: 2964495--2964557 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
2964485 TCCGGGTTTT
*
2964495 TTTATCGTTATTTTATTATTATTATTATTA
1 TTTATCGTTATCTTATTATTATTATTATTA
2964525 -TTATCGTTATCTTATTATT-TTATTATTA
1 TTTATCGTTATCTTATTATTATTATTATTA
2964553 TTTAT
1 TTTAT
2964558 TATTACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTATCGTTATCTTATTATTATTATTATTA
Found at i:2964568 original size:28 final size:28
Alignment explanation
Indices: 2964508--2964573 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
2964498 ATCGTTATTT
* *
2964508 TATTATTATTATTATTATTATCGTTATCT
1 TATTATT-TTATTATTATTATCATTATCA
*
2964537 TATTATTTTATTATTATTTATTATTA-CA
1 TATTATTTTATTATTA-TTATCATTATCA
*
2964565 TATTTTTTT
1 TATTATTTT
2964574 TGCAGGCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTATTTTATTATTATTATCATTATCA
Found at i:2965071 original size:18 final size:20
Alignment explanation
Indices: 2965048--2965092 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
2965038 TTGGGTTCAG
2965048 AAAAAAAAAAGAA-A-ACAA
1 AAAAAAAAAAGAAGATACAA
*
2965066 AAAAAAAAAAGAAGATAGAA
1 AAAAAAAAAAGAAGATACAA
2965086 AAAAAAA
1 AAAAAAA
2965093 GAGAGATTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 1 0.04
20 10 0.42
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAGAAGATACAA
Found at i:2966841 original size:22 final size:22
Alignment explanation
Indices: 2966816--2966859 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2966806 TCAAACGATG
*
2966816 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
2966838 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
2966860 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:2971213 original size:11 final size:11
Alignment explanation
Indices: 2971194--2971283 Score: 64
Period size: 12 Copynumber: 8.2 Consensus size: 11
2971184 AGATCCAATC
2971194 AAAAA-CAAAG
1 AAAAAGCAAAG
*
2971204 AAAAATCAAAGAG
1 AAAAAGC-AA-AG
2971217 AAAAGAGCAAAG
1 AAAA-AGCAAAG
*
2971229 AAAAAACAAAG
1 AAAAAGCAAAG
2971240 ----AGCAAAG
1 AAAAAGCAAAG
*
2971247 AGAAAATCAAAG
1 A-AAAAGCAAAG
*
2971259 CAAAAATCAAAG
1 -AAAAAGCAAAG
2971271 AAAAAGCAAAG
1 AAAAAGCAAAG
2971282 AA
1 AA
2971284 CAAAAGAGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
7 6 0.09
10 5 0.08
11 19 0.29
12 24 0.37
13 9 0.14
14 2 0.03
ACGTcount: A:0.71, C:0.10, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAAGCAAAG
Found at i:2971227 original size:25 final size:25
Alignment explanation
Indices: 2971199--2971248 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2971189 CAATCAAAAA
*
2971199 CAAAGAAAAATCAAAGAGAAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
*
2971224 CAAAGAAAAAACAAAGAGCAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
2971249 AAAATCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (25 bp):
CAAAGAAAAAACAAAGAGAAAAGAG
Found at i:2971239 original size:18 final size:19
Alignment explanation
Indices: 2971218--2971258 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
2971208 ATCAAAGAGA
2971218 AAAGAGCAAAGA-AAAAAC
1 AAAGAGCAAAGAGAAAAAC
*
2971236 AAAGAGCAAAGAGAAAATC
1 AAAGAGCAAAGAGAAAAAC
2971255 AAAG
1 AAAG
2971259 CAAAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAGAGCAAAGAGAAAAAC
Found at i:2971287 original size:18 final size:18
Alignment explanation
Indices: 2971215--2971287 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
2971205 AAAATCAAAG
*
2971215 AGAAAAGAGCAAAGAAAAA
1 AGAAAA-AGCAAAGAACAA
* *
2971234 ACAAAGAGCAAAGAGA-AA
1 AGAAAAAGCAAAGA-ACAA
**
2971252 A-TCAAAGCAAA-AATCAA
1 AGAAAAAGCAAAGAA-CAA
2971269 AGAAAAAGCAAAGAACAA
1 AGAAAAAGCAAAGAACAA
2971287 A
1 A
2971288 AGAGGACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 10 0.24
18 23 0.55
19 7 0.17
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.03
Consensus pattern (18 bp):
AGAAAAAGCAAAGAACAA
Found at i:2972472 original size:4 final size:4
Alignment explanation
Indices: 2972463--2972506 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
2972453 AGAAAAGTAT
2972463 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2972507 CCATGATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2973556 original size:29 final size:29
Alignment explanation
Indices: 2973520--2973617 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
2973510 ATTTCTCTTG
2973520 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
2973549 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
2973578 AAATATCTTTGAG-TTGTTTCTTTTG-A-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
2973604 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
2973618 CTATTTATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
26 12 0.19
27 1 0.02
28 11 0.17
29 39 0.62
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:2973632 original size:26 final size:26
Alignment explanation
Indices: 2973520--2973632 Score: 79
Period size: 29 Copynumber: 4.1 Consensus size: 26
2973510 ATTTCTCTTG
*
2973520 AAAAATCTTTGAGTT-TGTTCCTTTTGAA
1 AAAAATCTTTGAGTTAT-TT-ATTTTG-A
* *
2973548 TAAAAATCTTGGAGTT-TGTTCCTTTTGA
1 -AAAAATCTTTGAGTTAT-TT-ATTTTGA
* *
2973576 ATAAATATCTTTGAGTTGTTTCTTTTGA
1 A-AAA-ATCTTTGAGTTATTTATTTTGA
2973604 AAAAATCTTTGAGTCTATTTATTTT-A
1 AAAAATCTTTGAGT-TATTTATTTTGA
2973630 AAA
1 AAA
2973633 CAAAGTGTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
26 14 0.18
27 12 0.16
28 12 0.16
29 37 0.49
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (26 bp):
AAAAATCTTTGAGTTATTTATTTTGA
Found at i:2973895 original size:120 final size:118
Alignment explanation
Indices: 2973727--2973949 Score: 263
Period size: 120 Copynumber: 1.9 Consensus size: 118
2973717 TTAACAAAAT
* * * * *
2973727 CATCTTTGAGTCTATTTCTTTAAAAACATATGTTGTCTCTCTTGAGACAGTTTCTAATGAAAAAC
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCTAATGAAAAA-
2973792 TAACTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTAATC
65 -AAC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTAATC
** **
2973847 CATCTTTGAGTCTATTTCTTTTGAAACAAAAT-TT-TATATCTTAAAGACAATTTCTTTTGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATATCTT-AAGACAATTTCTAATGAAAA
* * * *
2973910 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
64 AAACTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
2973950 TCGAGACAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
117 21 0.24
118 13 0.15
119 6 0.07
120 44 0.51
121 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (118 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCTAATGAAAAAA
ACTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTAATC
Found at i:2974016 original size:40 final size:40
Alignment explanation
Indices: 2973953--2974032 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
2973943 TTGTCTCTCG
*
2973953 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
* * *
2973993 AGACAATTTCTTTT-AAAACTACCCACCTTGGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTGGAGATCGTTT
2974033 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
Found at i:2974151 original size:15 final size:15
Alignment explanation
Indices: 2974128--2974171 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
2974118 TTTTGAGTCG
*
2974128 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
2974143 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
2974158 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
2974172 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:2974319 original size:64 final size:62
Alignment explanation
Indices: 2974177--2974331 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 62
2974167 AAACAAGATC
* * * *
2974177 ATCTTTGAGTTTGTTTCTCTGGAAAC-AATGTTTTATCCCTTAAAACAATTTCTTTTGAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTTTATCCCTCAAAACAATTTCTTTAGAAAA
* * * * * * * **
2974238 ATCATTGAATCTCTTTCTTTGGAAACAAAAGTTTGTATCTCTCGAGACGGTTTCTTTGAGAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTT-TATCCCTCAAAACAATTTCTTT-AGAAAA
2974302 ATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAA
2974332 TTTACCATCT
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
61 21 0.28
62 6 0.08
63 16 0.22
64 31 0.42
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (62 bp):
ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTTTATCCCTCAAAACAATTTCTTTAGAAAA
Found at i:2974644 original size:40 final size:40
Alignment explanation
Indices: 2974586--2974912 Score: 173
Period size: 40 Copynumber: 7.8 Consensus size: 40
2974576 CCAGCCGTCC
* * * *
2974586 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGAACTCT
* * * *
2974626 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGAAC-TCT
* *
2974669 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGAACTCT
* * * *
2974715 TCATCACGTATGAGCCGTGTCATCAGCT-GACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCATC-CCTAGACCAGAACTCT
* *
2974755 TCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCC-TAG---ACCAGAAC-TCT
* * * *
2974798 TCATCATGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGAACTCT
* * *
2974844 TCATCACGTATGAGCCGTGTCTTTCTCC--GACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTC-ATC-CCTAGACCAGAACTCT
*
2974884 TCATCACGTATGAGCCGTGTCA-CCCTAGA
1 TCATCACGTAGGAGCCGTGTCATCCCTAGA
2974913 TAACCAGCCG
Statistics
Matches: 223, Mismatches: 37, Indels: 55
0.71 0.12 0.17
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 4 0.02
40 84 0.38
42 2 0.01
43 60 0.27
44 3 0.01
45 2 0.01
46 58 0.26
47 6 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGAACTCT
Found at i:2974722 original size:46 final size:45
Alignment explanation
Indices: 2974616--2974991 Score: 209
Period size: 46 Copynumber: 8.7 Consensus size: 45
2974606 CATCCCCAGA
* * * * **
2974616 CCAGAGCTCTTCATCACGTAGGAGCCGTGTCA--ACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* *
2974659 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGAAC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* * * *
2974705 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T-GA---
1 CCAGAACTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * * * **
2974745 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-C-CCTTAGATAA
1 CCAGAACTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * * *
2974788 CCAG-CCGTCCTCATCATGTAGGAACCGTATTATCACCTTTAGATGG
1 CCAGAAC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* * * *
2974834 CCAGAACTCTTCATCACGTATGAGCCGTGTCTTTCTCC---GA---
1 CCAGAACTCTTCATCACGTAGGAACCGTGT-TATCACCTTAGATGG
* * * * **
2974874 CCAGATCTCTTCATCACGTATGAGCCGTG---TCACCCTAGATAA
1 CCAGAACTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * *
2974916 CCAG-CCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGG
1 CCAGAAC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* *
2974962 CCAGAACTCTTCATCACGTATGAACAGTGT
1 CCAGAACTCTTCATCACGTAGGAACCGTGT
2974992 CGTCCCCACC
Statistics
Matches: 258, Mismatches: 47, Indels: 53
0.72 0.13 0.15
Matches are distributed among these distances:
36 4 0.02
38 1 0.00
39 4 0.02
40 59 0.23
41 1 0.00
42 24 0.09
43 55 0.21
44 2 0.01
45 10 0.04
46 90 0.35
47 8 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
CCAGAACTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
Found at i:2974800 original size:129 final size:127
Alignment explanation
Indices: 2974586--2974984 Score: 620
Period size: 129 Copynumber: 3.1 Consensus size: 127
2974576 CCAGCCGTCC
* * * *
2974586 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCAT-CCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTC-ACC
*
2974651 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * *
2974715 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCC
* *
2974780 TTAGATAACCAGCCGTCCTCATCATGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
65 -TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
2974844 TCATCACGTATGAGCCGTGTCTTTCTCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCACC
1 TCATCACGTATGAGCCGTGTC-ATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACC
*
2974908 CTAGATAACCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
2974972 TCATCACGTATGA
1 TCATCACGTATGA
2974985 ACAGTGTCGT
Statistics
Matches: 249, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
128 77 0.31
129 169 0.68
130 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (127 bp):
TCATCACGTATGAGCCGTGTCATCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCT
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:2975164 original size:3 final size:3
Alignment explanation
Indices: 2975153--2975207 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
2975143 TTTTTTATCG
** *
2975153 TTA TT- TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2975198 TTTA TTA TTA
1 -TTA TTA TTA
2975208 CATATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 5 0.12
3 34 0.81
4 3 0.07
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2975173 original size:23 final size:22
Alignment explanation
Indices: 2975142--2975195 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
2975132 TTTGTCCGGG
* *
2975142 TTTTTTTATCGTTATTTTATTA
1 TTTTATTATCGTTATCTTATTA
2975164 TTATTATTATCGTTATCTTATTA
1 TT-TTATTATCGTTATCTTATTA
2975187 TTTTATTAT
1 TTTTATTAT
2975196 TATTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATTATCGTTATCTTATTA
Found at i:2975213 original size:28 final size:29
Alignment explanation
Indices: 2975153--2975218 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
2975143 TTTTTTATCG
*
2975153 TTATTTTATTATTATTATTATCGTTATCTTA
1 TTATTTTATTATTATTATTA-C-TTATCATA
2975184 TTATTTTATTATTATTTATTA-TTA-CATA
1 TTATTTTATTATTA-TTATTACTTATCATA
*
2975212 TTTTTTT
1 TTATTTT
2975219 TGCAGGCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.28
29 3 0.09
31 14 0.44
32 6 0.19
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (29 bp):
TTATTTTATTATTATTATTACTTATCATA
Found at i:2975711 original size:14 final size:15
Alignment explanation
Indices: 2975692--2975727 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
2975682 TTGGGTTCAG
2975692 AAAAAAAAAGA-AAA
1 AAAAAAAAAGATAAA
*
2975706 AAAAAAAAAGATAGA
1 AAAAAAAAAGATAAA
2975721 AAAAAAA
1 AAAAAAA
2975728 GAGAGATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGATAAA
Found at i:2975721 original size:18 final size:16
Alignment explanation
Indices: 2975692--2975727 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
2975682 TTGGGTTCAG
2975692 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
2975708 AAAAAAAGATAGAAAAAA
1 AAAAAAA-A-AGAAAAAA
2975726 AA
1 AA
2975728 GAGAGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAA
Found at i:2977470 original size:22 final size:22
Alignment explanation
Indices: 2977445--2977488 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2977435 TCAAACGATG
*
2977445 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
2977467 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
2977489 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:2988110 original size:46 final size:46
Alignment explanation
Indices: 2988060--2988222 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
2988050 AAAAATATTG
2988060 AATTTAAATTAGAAATATAAAAATAATAAATTTAATATGAACAAGT
1 AATTTAAATTAGAAATATAAAAATAATAAATTTAATATGAACAAGT
** * *
2988106 AATTTATTTTTAGAAATATAAATATGAA-AAA---AATAT-----TG-
1 AATTTA-AATTAGAAATATAAAAAT-AATAAATTTAATATGAACAAGT
* *
2988144 AATTTAAATGAGAAATATAAAATTAATAAATTTAATATGAACAAGT
1 AATTTAAATTAGAAATATAAAAATAATAAATTTAATATGAACAAGT
2988190 AATTTAATATTA-AAATATAAAAATAATAAATTT
1 AATTTAA-ATTAGAAATATAAAAATAATAAATTT
2988223 TCTTTAAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
36 2 0.02
37 16 0.17
38 6 0.07
39 1 0.01
40 5 0.05
44 5 0.05
45 1 0.01
46 33 0.36
47 21 0.23
48 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (46 bp):
AATTTAAATTAGAAATATAAAAATAATAAATTTAATATGAACAAGT
Found at i:2988115 original size:84 final size:84
Alignment explanation
Indices: 2988023--2988210 Score: 333
Period size: 84 Copynumber: 2.2 Consensus size: 84
2988013 ATCTTTTTAT
*
2988023 ATTTATTTTTAGAAATATAAATATGAAAAAAATATTGAATTTAAATTAGAAATATAAAAATAATA
1 ATTTATTTTTAGAAATATAAATATGAAAAAAATATTGAATTTAAATGAGAAATATAAAAATAATA
2988088 AATTTAATATGAACAAGTA
66 AATTTAATATGAACAAGTA
*
2988107 ATTTATTTTTAGAAATATAAATATGAAAAAAATATTGAATTTAAATGAGAAATATAAAATTAATA
1 ATTTATTTTTAGAAATATAAATATGAAAAAAATATTGAATTTAAATGAGAAATATAAAAATAATA
2988172 AATTTAATATGAACAAGTA
66 AATTTAATATGAACAAGTA
* *
2988191 ATTTAATATTA-AAATATAAA
1 ATTTATTTTTAGAAATATAAA
2988211 AATAATAAAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 9 0.09
84 91 0.91
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (84 bp):
ATTTATTTTTAGAAATATAAATATGAAAAAAATATTGAATTTAAATGAGAAATATAAAAATAATA
AATTTAATATGAACAAGTA
Found at i:2988810 original size:18 final size:17
Alignment explanation
Indices: 2988778--2988812 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2988768 TTAAATAGAT
*
2988778 AAATAATTATATATTAA
1 AAATAATAATATATTAA
2988795 AAATAATAATTATATTAA
1 AAATAATAA-TATATTAA
2988813 CACCAACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATAATAATATATTAA
Found at i:2992739 original size:2 final size:2
Alignment explanation
Indices: 2992732--2992757 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2992722 TACATTCAAT
2992732 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2992758 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2994778 original size:25 final size:25
Alignment explanation
Indices: 2994744--2994800 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
2994734 TTTATATTCA
*
2994744 TTTTATTTAATTT-ATCTCTTTTAATT
1 TTTTATTAAATTTGAT-T-TTTTAATT
2994770 TTTTATTAAATTTGATTTTTTAATT
1 TTTTATTAAATTTGATTTTTTAATT
2994795 TTTTAT
1 TTTTAT
2994801 GATAATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 14 0.48
26 13 0.45
27 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTATTAAATTTGATTTTTTAATT
Found at i:2995296 original size:15 final size:14
Alignment explanation
Indices: 2995263--2995303 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2995253 GTAAGGAAAA
2995263 ATTAT-TTTATTTT
1 ATTATATTTATTTT
2995276 ATTATATTTATTTT
1 ATTATATTTATTTT
*
2995290 ATATATAATTATTT
1 AT-TATATTTATTT
2995304 GAAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 5 0.20
14 10 0.40
15 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATATTTATTTT
Found at i:3003038 original size:81 final size:81
Alignment explanation
Indices: 3002840--3003286 Score: 538
Period size: 81 Copynumber: 5.5 Consensus size: 81
3002830 AGTTAGATTT
* * * *
3002840 GATATGTGCCT-TCTTTTTGGGTACACAGATCAATTTTGGAAGACGTGTCTGCTCCACTATTCAT
1 GATATGTGCCTCT-TTTTTGGGTAGACATATCAACTTTGGAAGACGTGTATGCTCCACTATTCAT
* *
3002904 TCAGGGGAAATCAGACTC
65 TCA-GGGAGATAAGACTC
* * * * *
3002922 GATTTGTGCCTCTTTTTCGGGTAGACAGATTAACTTTTGGAA-ATGTGTATGCTCCACTATTCAT
1 GATATGTGCCTCTTTTTTGGGTAGACATATCAAC-TTTGGAAGACGTGTATGCTCCACTATTCAT
3002986 TCAGGGAGATAAGACTC
65 TCAGGGAGATAAGACTC
** * * * *
3003003 GATCCGTGCCTCTTTTTTAGGTAGACATATCAACTTTGGAAGACGTGTTTGCTCTAGTATTCATT
1 GATATGTGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGACGTGTATGCTCCACTATTCATT
* *
3003068 CAAGGAGACAAGACTC
66 CAGGGAGATAAGACTC
* * * * *
3003084 GATATGTGCCTCTTTTTTGGGTAGACAAATCAACTTTGGAAGACCTATCTGCTCCACTATTCTTT
1 GATATGTGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGACGTGTATGCTCCACTATTCATT
*
3003149 CAAGGAGATAAGACTC
66 CAGGGAGATAAGACTC
* * * * * *
3003165 GATATGTGCCTATTTTTCGGGTAGACATATCAACTTTGGAAGACATCTATACTACACTATTCATT
1 GATATGTGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGACGTGTATGCTCCACTATTCATT
* *
3003230 CAGGGACATGAGACTC
66 CAGGGAGATAAGACTC
* *
3003246 GATCTGTGCCTCTTCTTTGGGTAGACATATCAACTTTGGAA
1 GATATGTGCCTCTTTTTTGGGTAGACATATCAACTTTGGAA
3003287 AACATGTCAA
Statistics
Matches: 314, Mismatches: 48, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
80 7 0.02
81 249 0.79
82 50 0.16
83 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GATATGTGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGACGTGTATGCTCCACTATTCATT
CAGGGAGATAAGACTC
Found at i:3003271 original size:243 final size:244
Alignment explanation
Indices: 3002840--3003286 Score: 648
Period size: 243 Copynumber: 1.8 Consensus size: 244
3002830 AGTTAGATTT
* * * *
3002840 GATATGTGCCTTCTTTTTGGGTACACAGATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATT
1 GATATGTGCCTTCTTTTTGGGTACACAAATCAACTTTGGAAGACCTATCTGCTCCACTATTCATT
* * * * * ** *
3002905 CAGGGGAAATCAGACTCGATTTGTGCCTCTTTTTCGGGTAGACAGATTAACTTTTGGAAATGTGT
66 CAGAGGAAATAAGACTCGATATGTGCCTATTTTTCGGGTAGACAGATCAACTTTTGGAAACATCT
* * * *
3002970 ATGCTCCACTATTCATTCAGGGAGATAAGACTCGATCCGTGCCTCTTTTTTAGGTAGACATATCA
131 ATACTACACTATTCATTCAGGGACATAAGACTCGATCCGTGCCTCTTCTTTAGGTAGACATATCA
3003035 ACTTTGGAAGACGTGTTTGCTCTAGTATTCATTCAAGGAGACAAGACTC
196 ACTTTGGAAGACGTGTTTGCTCTAGTATTCATTCAAGGAGACAAGACTC
* *
3003084 GATATGTGCC-TCTTTTTTGGGTAGACAAATCAACTTTGGAAGACCTATCTGCTCCACTATTCTT
1 GATATGTGCCTTC-TTTTTGGGTACACAAATCAACTTTGGAAGACCTATCTGCTCCACTATTCAT
* *
3003148 TCA-AGGAGATAAGACTCGATATGTGCCTATTTTTCGGGTAGACATATCAAC-TTTGGAAGACAT
65 TCAGAGGAAATAAGACTCGATATGTGCCTATTTTTCGGGTAGACAGATCAACTTTTGGAA-ACAT
* * *
3003211 CTATACTACACTATTCATTCAGGGACATGAGACTCGATCTGTGCCTCTTCTTTGGGTAGACATAT
129 CTATACTACACTATTCATTCAGGGACATAAGACTCGATCCGTGCCTCTTCTTTAGGTAGACATAT
3003276 CAACTTTGGAA
194 CAACTTTGGAA
3003287 AACATGTCAA
Statistics
Matches: 178, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
242 7 0.04
243 113 0.63
244 58 0.33
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (244 bp):
GATATGTGCCTTCTTTTTGGGTACACAAATCAACTTTGGAAGACCTATCTGCTCCACTATTCATT
CAGAGGAAATAAGACTCGATATGTGCCTATTTTTCGGGTAGACAGATCAACTTTTGGAAACATCT
ATACTACACTATTCATTCAGGGACATAAGACTCGATCCGTGCCTCTTCTTTAGGTAGACATATCA
ACTTTGGAAGACGTGTTTGCTCTAGTATTCATTCAAGGAGACAAGACTC
Found at i:3003284 original size:19 final size:19
Alignment explanation
Indices: 3003260--3003309 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
3003250 TGTGCCTCTT
* *
3003260 CTTTGGGTAGACATATCAA
1 CTTTGGGAAAACATATCAA
*
3003279 CTTT-GGAAAACATGTCAA
1 CTTTGGGAAAACATATCAA
3003297 CTTT-GGAAAACAT
1 CTTTGGGAAAACAT
3003310 TTCTGCTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CTTTGGGAAAACATATCAA
Found at i:3003296 original size:18 final size:18
Alignment explanation
Indices: 3003270--3003309 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
3003260 CTTTGGGTAG
3003270 ACATATCAACTTTGGAAA
1 ACATATCAACTTTGGAAA
*
3003288 ACATGTCAACTTTGGAAA
1 ACATATCAACTTTGGAAA
3003306 ACAT
1 ACAT
3003310 TTCTGCTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (18 bp):
ACATATCAACTTTGGAAA
Found at i:3003478 original size:42 final size:41
Alignment explanation
Indices: 3003385--3003484 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 41
3003375 GAAGGCTAAT
* * * *
3003385 AGATGGCCCGAAGGACTTATCATCTTGCTTGGAAGCCTGAC
1 AGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
** * *
3003426 AGATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTGAC
* *
3003468 TGATGGCCCGAAAGACT
1 AGATGGCCCGAAGGACT
3003485 AATCGATATT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
Found at i:3003634 original size:71 final size:73
Alignment explanation
Indices: 3003512--3003695 Score: 239
Period size: 71 Copynumber: 2.5 Consensus size: 73
3003502 ATTTACTGGG
* *
3003512 TAAGATTGATTTGCTTCACTACTCTTCCGTAAAGGCTTAAGATTGATTTGCTTCACTACTCTTCC
1 TAAGATTGATTTGCTTCACTACTCTT-TGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCC
*
3003577 GTGAAGGCT
65 ATGAAGGCT
* * * *
3003586 TAAGATTGATTTGCTTCACTA-T-TTTATGAAGGCTTAAGATTGATTTGCTTCATTGCTCTTTCA
1 TAAGATTGATTTGCTTCACTACTCTTTGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCCA
3003649 TGAAGGCT
66 TGAAGGCT
* *
3003657 TATAGA-AGATTTGCTTTACTACTCTTTCGTGAAGGCTTA
1 TA-AGATTGATTTGCTTCACTACTCTTT-GTGAAGGCTTA
3003696 TAAATGGCCC
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 55 0.57
72 6 0.06
73 4 0.04
74 31 0.32
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (73 bp):
TAAGATTGATTTGCTTCACTACTCTTTGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCCA
TGAAGGCT
Found at i:3003697 original size:37 final size:37
Alignment explanation
Indices: 3003512--3003695 Score: 250
Period size: 37 Copynumber: 5.1 Consensus size: 37
3003502 ATTTACTGGG
* *
3003512 TAAGATTGATTTGCTTCACTACTCTTCCGTAAAGGCT
1 TAAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
*
3003549 TAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCT
1 TAAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
*
3003586 TAAGATTGATTTGCTTCACTA-T-TTT-ATGAAGGCT
1 TAAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
* * *
3003620 TAAGATTGATTTGCTTCATTGCTCTTTCATGAAGGCT
1 TAAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
* *
3003657 TATAGA-AGATTTGCTTTACTACTCTTTCGTGAAGGCT
1 TA-AGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
3003694 TA
1 TA
3003696 TAAATGGCCC
Statistics
Matches: 133, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
34 27 0.20
35 3 0.02
36 4 0.03
37 96 0.72
38 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (37 bp):
TAAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCT
Found at i:3003774 original size:41 final size:42
Alignment explanation
Indices: 3003715--3003891 Score: 150
Period size: 41 Copynumber: 4.3 Consensus size: 42
3003705 CGAAAGAAAT
* *
3003715 ATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGGATTTA
1 ATCATCATGATCGAAAGCCTGACAGATGACCCGAAGGATTTA
*
3003757 ATCATCATGATCG-AAGCCTGACAGATGACTCGAAGGATTTA
1 ATCATCATGATCGAAAGCCTGACAGATGACCCGAAGGATTTA
* * * * **
3003798 ATCATCATGCTC-AGAAGGCTTACTGAGTG-CCCGAAGGACAT-
1 ATCATCATGATCGA-AAGCCTGACAGA-TGACCCGAAGGATTTA
* * * * *
3003839 ATCATCTTGCTTGAAAGCCT-AGCATATTACCCTG-AGGATTTA
1 ATCATCATGATCGAAAGCCTGA-CAGATGACCC-GAAGGATTTA
3003881 ATCATCATGAT
1 ATCATCATGAT
3003892 TGGAAGGCTT
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.02
41 63 0.59
42 40 0.37
43 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
ATCATCATGATCGAAAGCCTGACAGATGACCCGAAGGATTTA
Found at i:3006163 original size:109 final size:107
Alignment explanation
Indices: 3005981--3006178 Score: 270
Period size: 109 Copynumber: 1.8 Consensus size: 107
3005971 TTATAATTTT
* *
3005981 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCATAACCAATTACTCTAAAGGGACA
1 CCTTTATCAGGCTAACTGAATCTTATCCATAAAGCCGGGGCATAACCAATTACTCTAAAGGGACA
* * *
3006046 GCTTAAGCTTTATTGTATATATATATATATATATTATAATCA
66 ACTCAAGCTTTATTGTATACATATATATATATATTATAATCA
* * * ** * *
3006088 CCTTTATTATGCTAACTGAATCTTATTCATAAAGCCGGAGCGTTTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAGGCTAACTGAATCTTATCCATAAAGCCGG-G-GCATAACCAATTACTCTAAAGGGA
3006153 CAACTCAAGCTTTATTGTATACATAT
64 CAACTCAAGCTTTATTGTATACATAT
3006179 GTAATTACAT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 33 0.43
108 1 0.01
109 43 0.56
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (107 bp):
CCTTTATCAGGCTAACTGAATCTTATCCATAAAGCCGGGGCATAACCAATTACTCTAAAGGGACA
ACTCAAGCTTTATTGTATACATATATATATATATTATAATCA
Found at i:3015777 original size:50 final size:50
Alignment explanation
Indices: 3015710--3015840 Score: 199
Period size: 50 Copynumber: 2.6 Consensus size: 50
3015700 GTGGATGGCG
*
3015710 ATCCGCACCTGTCTTGACGTGGCACCAGCTCGGATAAGACGCGGATGACC
1 ATCCACACCTGTCTTGACGTGGCACCAGCTCGGATAAGACGCGGATGACC
*
3015760 ATCCACACCTGTCTTGACGTTGCACCAGCTCGGATAAGACGCGGATGACC
1 ATCCACACCTGTCTTGACGTGGCACCAGCTCGGATAAGACGCGGATGACC
* * * * *
3015810 ATCCATACCTTTCATGATGTGGCACAAGCTC
1 ATCCACACCTGTCTTGACGTGGCACCAGCTC
3015841 AGACAAATCC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (50 bp):
ATCCACACCTGTCTTGACGTGGCACCAGCTCGGATAAGACGCGGATGACC
Found at i:3018636 original size:21 final size:21
Alignment explanation
Indices: 3018597--3018636 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
3018587 TATTTTATCA
*
3018597 AAATAAAATTAATTATAAAAT
1 AAATAAAATAAATTATAAAAT
3018618 AAATAAAAATAAATT-TAAA
1 AAAT-AAAATAAATTATAAA
3018637 TTCAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAAATAAATTATAAAAT
Found at i:3028643 original size:2 final size:2
Alignment explanation
Indices: 3028636--3028670 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3028626 AAATGAGTAT
3028636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3028671 CACGTCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3029470 original size:221 final size:222
Alignment explanation
Indices: 3029059--3029470 Score: 657
Period size: 221 Copynumber: 1.9 Consensus size: 222
3029049 TGATTAGCGA
* *
3029059 TAGGTGATATCTTAATATTTCTTTTTAATCTGAGATGATTAAGAACTCTTTCTTCAACCTTTTCA
1 TAGGTAATATCTTAATATTTCCTTTTAATCTGAGATGATTAAGAACTCTTTCTTCAACCTTTTCA
3029124 TAATCCGATACGATTTGAAAAATGTGATGAAATCGAGATAGCAAATAAATTTGATTTCGGATTTA
66 TAATCCGATACGATTTGAAAAATGTGATGAAATCGAGATAGCAAATAAATTTGATTTCGGATTTA
* * *
3029189 TCCTATTGTTTTAACGGATTTGCTAAAATCTCAAAGTGGATAAATCTGTTTAACAGAAATTGTCA
131 TCATATCGTTTTAACGGATTTGCTAAAATCTCAAAGTGGATAAATCCGTTTAACAGAAATTGTCA
3029254 TGAAAGTAAAATTGGTTACTGATCAAG
196 TGAAAGTAAAATTGGTTACTGATCAAG
* * *
3029281 TAGGTAATATTTTAATA-TTCCTTTTATTCTGAGATGATTCAGAACTCTTTCTTCAACC-TTTCT
1 TAGGTAATATCTTAATATTTCCTTTTAATCTGAGATGATTAAGAACTCTTTCTTCAACCTTTTC-
* * * * * *
3029344 TTTATCCGATACTATTTGGAAAATGTGATGAAATCGAGATAGCAAATAAATTTGTTTTGGGATTT
65 ATAATCCGATACGATTTGAAAAATGTGATGAAATCGAGATAGCAAATAAATTTGATTTCGGATTT
* *
3029409 ATCATGTCGTTTTAACGGGTTTGCTAAAATCTCAAAGTGGATAAATCCGTTTAACAGAAATT
130 ATCATATCGTTTTAACGGATTTGCTAAAATCTCAAAGTGGATAAATCCGTTTAACAGAAATT
3029471 ATCGGGAAAC
Statistics
Matches: 173, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
220 4 0.02
221 154 0.89
222 15 0.09
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (222 bp):
TAGGTAATATCTTAATATTTCCTTTTAATCTGAGATGATTAAGAACTCTTTCTTCAACCTTTTCA
TAATCCGATACGATTTGAAAAATGTGATGAAATCGAGATAGCAAATAAATTTGATTTCGGATTTA
TCATATCGTTTTAACGGATTTGCTAAAATCTCAAAGTGGATAAATCCGTTTAACAGAAATTGTCA
TGAAAGTAAAATTGGTTACTGATCAAG
Found at i:3032989 original size:51 final size:50
Alignment explanation
Indices: 3032926--3033027 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 50
3032916 ATTTATTATG
* *
3032926 TATTTAACTTTGAATATTAAAAGATAATTATATCCTTTTAAATATTTTAAA
1 TATTTAACTTTGAATAATAAAAGATAATTATAT-CTTTTAAATATTTCAAA
* * ** *
3032977 TATTTAAGTTTGAATAATAAAAGGTGTTTATATCTTTTGAATATTTCAAA
1 TATTTAACTTTGAATAATAAAAGATAATTATATCTTTTAAATATTTCAAA
3033027 T
1 T
3033028 TAAAAGATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 16 0.36
51 28 0.64
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (50 bp):
TATTTAACTTTGAATAATAAAAGATAATTATATCTTTTAAATATTTCAAA
Found at i:3037027 original size:35 final size:37
Alignment explanation
Indices: 3036964--3037032 Score: 115
Period size: 35 Copynumber: 1.9 Consensus size: 37
3036954 TTTCGTCCTA
3036964 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
*
3037001 CTAGGATTC-AACTC-CTAAAATAGGATAGAATT
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATT
3037033 TTTCTATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 17 0.55
36 5 0.16
37 9 0.29
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
Found at i:3037754 original size:16 final size:16
Alignment explanation
Indices: 3037733--3037766 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3037723 CATGTATTTA
3037733 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
3037749 TATTATTTTACTTTAT
1 TATTATATTACATTAT
3037765 TA
1 TA
3037767 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:3043217 original size:22 final size:22
Alignment explanation
Indices: 3043189--3043239 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3043179 CCCCATCAAT
3043189 CCTTTGAGCATAAAATACCAAA
1 CCTTTGAGCATAAAATACCAAA
* *
3043211 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATAAAATACCAAA
3043233 CCTTTGA
1 CCTTTGA
3043240 CCAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATAAAATACCAAA
Found at i:3044182 original size:37 final size:37
Alignment explanation
Indices: 3044091--3044197 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
3044081 CTCACCATTA
3044091 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACTTTG
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAACTTTG
* * *
3044127 TCTCTCTTGAGACAGTTTCCCTTTAAACAAAATTTTT
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAAACTTTG
* *
3044164 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
3044198 ATTGAAAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 27 0.44
37 32 0.52
38 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAACAAAACTTTG
Found at i:3044282 original size:102 final size:102
Alignment explanation
Indices: 3044106--3044563 Score: 799
Period size: 102 Copynumber: 4.5 Consensus size: 102
3044096 CTTGAGACAG
** * * * *
3044106 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3044171 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
3044208 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCTGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
3044273 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
3044310 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3044375 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
3044412 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3044477 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
3044514 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
3044564 TAAACATTGA
Statistics
Matches: 338, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 338 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:3044377 original size:37 final size:37
Alignment explanation
Indices: 3044310--3044396 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
3044300 ATTGGAAACA
** * *
3044310 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
3044346 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
3044383 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
3044397 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:3044469 original size:37 final size:37
Alignment explanation
Indices: 3044426--3044498 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
3044416 CCTTGAAATG
* *
3044426 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
* *
3044463 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
3044499 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
Found at i:3044553 original size:65 final size:65
Alignment explanation
Indices: 3044463--3044628 Score: 296
Period size: 65 Copynumber: 2.6 Consensus size: 65
3044453 CTCGAAACAA
* *
3044463 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
*
3044528 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
*
3044593 AATTTCGTCTCTTTTGAGACAGTTTCTCTTGAAACA
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
3044629 AAATTTTGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 96 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:3044564 original size:167 final size:169
Alignment explanation
Indices: 3044346--3044663 Score: 532
Period size: 167 Copynumber: 1.9 Consensus size: 169
3044336 CTTGAGATAG
*
3044346 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
3044411 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
3044476 TTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
** * *
3044514 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* * *
3044578 ATTTCCCTTGAAATGAATTTCGTCTCTTTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
3044643 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
3044664 GCATCATCTT
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 116 0.83
168 23 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:3044777 original size:37 final size:37
Alignment explanation
Indices: 3044736--3044807 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
3044726 TGGAACTAAG
* * *
3044736 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCTCTTAAAACAAAA
* *
3044773 TTTTGTCTCCCTTAAGACCGTTTCTCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCTCTTAAAACAA
3044808 CAAATATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCTCTTAAAACAAAA
Found at i:3045768 original size:106 final size:105
Alignment explanation
Indices: 3045166--3045925 Score: 663
Period size: 109 Copynumber: 7.3 Consensus size: 105
3045156 GTCAATTTTG
* * *
3045166 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGACGGGACGGCT
1 ACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
3045231 GGTTGTCAAC-AATAATTTCCCAGTTTCAGGGCTAATTTCA
66 GGTTGTCAACAAACAATTT-TCAATTTCAGAGCCAATTTCA
* * * * * * * *
3045271 ACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
1 ACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
** * * * *
3045336 GACTGT---C-GACAA---GCAATTTCGGAGCCAATCTCA
66 GGTTGTCAACAAACAATTTTCAATTTCAGAGCCAATTTCA
* * *
3045369 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCT
1 ACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
3045434 GGTTGTCAACAAATAATTTCCCAATTCCATAGCCGATTTCA
66 GGTTGTCAACAAACAATTT-TCAATTTCAGAGCCAATTTCA
* * * *
3045475 ACTCCACGACGGAGGATATCGTGCTAC-CTGAGACAACACAAGTT-AACCTTCACAACGAAGGGA
1 ACTTCACAACGAAGGATAT--TG-AACTC-GAGACAACACAAGTTCAA-CTTCACAACGAAGGGA
* * ** *
3045538 CGGCTGGTTGTCAACGAACAACTTTTCAGTTTCA-TCCGCGATTTCA
61 CGGCTGGTTGTCAACAAACAA-TTTTCAATTTCAGAGC-CAATTTCA
* * * **
3045584 ACTCCACGACGGAGGATATCGTTCCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACG
1 ACTTCACAACGAAGGATA---TTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACG
*
3045649 GCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCA
63 GCTGGTTGTCAACAAACAATTTTC-AATTTCAGAGCCAATTTCA
* *
3045693 ACTTCGCAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGCT
1 ACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * *
3045758 GATTGTCAAC-AA-GA-TTTC--GTTCAGAGTCAATTTCA
66 GGTTGTCAACAAACAATTTTCAATTTCAGAGCCAATTTCA
* * * * * *
3045793 ACTTCACAGCGAAGGATATT-AGACTCGAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGGC
1 ACTTCACAACGAAGGATATTGA-ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
** * ** * *
3045857 TGACTGTCAACAAACAATTTCCCGGTTCCAGAACCAATTTCA
65 TGGTTGTCAACAAACAATTT-TCAATTTCAGAGCCAATTTCA
* * *
3045899 ACTTCACAGCGGAGGATATTGGACTCG
1 ACTTCACAACGAAGGATATTGAACTCG
3045926 GAACAATATT
Statistics
Matches: 543, Mismatches: 82, Indels: 59
0.79 0.12 0.09
Matches are distributed among these distances:
98 79 0.15
99 1 0.00
100 79 0.15
101 3 0.01
102 8 0.01
103 6 0.01
104 1 0.00
105 64 0.12
106 120 0.22
108 11 0.02
109 162 0.30
110 8 0.01
112 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (105 bp):
ACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
GGTTGTCAACAAACAATTTTCAATTTCAGAGCCAATTTCA
Found at i:3046444 original size:35 final size:36
Alignment explanation
Indices: 3046395--3046485 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 36
3046385 ACTATAATTC
*
3046395 AAACTCTCAAAAATAGGATAGAATTCTGCTA-GGATT
1 AAACTC-CTAAAATAGGATAGAATTCTGCTATGGATT
* * **
3046431 CAACTCCTAAAATAGGATAGAATTTTGCTATGTTTT
1 AAACTCCTAAAATAGGATAGAATTCTGCTATGGATT
3046467 AAACTCCTAAAGATAGGAT
1 AAACTCCTAAA-ATAGGAT
3046486 CCACAAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 22 0.47
36 18 0.38
37 7 0.15
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (36 bp):
AAACTCCTAAAATAGGATAGAATTCTGCTATGGATT
Found at i:3047193 original size:16 final size:17
Alignment explanation
Indices: 3047158--3047195 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3047148 TGTTTTCATG
3047158 TATTATATATATTACAT
1 TATTATATATATTACAT
* *
3047175 TATTAT-TATTTTACTT
1 TATTATATATATTACAT
3047191 TATTA
1 TATTA
3047196 AATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATATATATTACAT
Found at i:3052354 original size:21 final size:21
Alignment explanation
Indices: 3052324--3052368 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3052314 TTATCAATTA
*
3052324 TTATTATTATTATTTGTTT-TT
1 TTATTATTATT-TTTATTTCTT
*
3052345 TTATTTTTATTTTTATTTCTT
1 TTATTATTATTTTTATTTCTT
3052366 TTA
1 TTA
3052369 CAGGCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (21 bp):
TTATTATTATTTTTATTTCTT
Found at i:3052354 original size:24 final size:24
Alignment explanation
Indices: 3052321--3052367 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3052311 TTATTATCAA
*
3052321 TTATTATTATTATTATTTGTTTTT
1 TTATTATTATTATTATTTCTTTTT
* *
3052345 TTATTTTTATTTTTATTTCTTTT
1 TTATTATTATTATTATTTCTTTT
3052368 ACAGGCCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (24 bp):
TTATTATTATTATTATTTCTTTTT
Found at i:3052357 original size:5 final size:6
Alignment explanation
Indices: 3052321--3052362 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
3052311 TTATTATCAA
* *
3052321 TTATTA TTATTA TTATTT GTT-TTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT -TTATTT TTATTT TTATTT TTATTT
3052363 CTTTTACAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:3053876 original size:2 final size:2
Alignment explanation
Indices: 3053869--3053912 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3053859 TAAGTTATTA
3053869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3053911 AT
1 AT
3053913 GAAAACATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3056195 original size:21 final size:21
Alignment explanation
Indices: 3056084--3056195 Score: 59
Period size: 21 Copynumber: 5.4 Consensus size: 21
3056074 AATAAAAATT
*
3056084 GCAACGCGA-TCTCCAGAATC
1 GCAACGCGATTTTCCAGAATC
** * *
3056104 GCAAATC-AGTTCCCAGAATC
1 GCAACGCGATTTTCCAGAATC
* **
3056124 GCAACGCGATTATGAAGAATC
1 GCAACGCGATTTTCCAGAATC
* * ** *
3056145 ACAATGCGATAGTACA-AATTC
1 GCAACGCGATTTTCCAGAA-TC
**
3056166 GCATTGCGATTTTCCAGAATC
1 GCAACGCGATTTTCCAGAATC
3056187 GCAACGCGA
1 GCAACGCGA
3056196 ACATATAAAT
Statistics
Matches: 64, Mismatches: 24, Indels: 7
0.67 0.25 0.07
Matches are distributed among these distances:
19 1 0.02
20 21 0.33
21 40 0.62
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
GCAACGCGATTTTCCAGAATC
Found at i:3056268 original size:20 final size:20
Alignment explanation
Indices: 3056243--3056418 Score: 187
Period size: 20 Copynumber: 8.7 Consensus size: 20
3056233 AGTATCTGTA
* *
3056243 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACGT
3056263 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGAATACGT
* *
3056283 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGAATACGT
*
3056304 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGAATACGT
*
3056324 AAATCGCAACGCGTAT-CTGT
1 AAATCGCAACGCGAATAC-GT
* * *
3056344 AAATTGCAATGAGAATACGT
1 AAATCGCAACGCGAATACGT
3056364 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGAATACGT
* *
3056384 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGAATACGT
3056405 AAATCGCAACGCGA
1 AAATCGCAACGCGA
3056419 TTTTTAAAGC
Statistics
Matches: 129, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
19 1 0.01
20 94 0.73
21 34 0.26
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGAATACGT
Found at i:3056285 original size:41 final size:40
Alignment explanation
Indices: 3056243--3056417 Score: 219
Period size: 41 Copynumber: 4.3 Consensus size: 40
3056233 AGTATCTGTA
3056243 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
*
3056283 AAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
* * * *
3056324 AAATCGCAACGCGTATCTGTAAATTGCAATGAGAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
* * * *
3056364 AAATCGCAACGAC-AATACGTAAAATCGCAACG-CGTATCCGT
1 AAATCGCAACG-CGTATCCGT-AAATCGCAACGAC-AATACGT
3056405 AAATCGCAACGCG
1 AAATCGCAACGCG
3056418 ATTTTTAAAG
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
40 53 0.45
41 65 0.55
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
Found at i:3056332 original size:81 final size:81
Alignment explanation
Indices: 3056243--3056417 Score: 237
Period size: 81 Copynumber: 2.2 Consensus size: 81
3056233 AGTATCTGTA
* *
3056243 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACG-CGTATCCGT-AA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT-AAATCGCAACGAC-AATACGTAAA
3056306 ATCGCAACGAGAATACGT
64 ATCGCAACGAGAATACGT
* * * *
3056324 AAATCGCAACGCGTATCTGTAAATTGCAATGAGAATACGTAAATCGCAACGACAATACGTAAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAATCGCAACGACAATACGTAAAAT
* * *
3056389 CGCAACGCGTATCCGT
66 CGCAACGAGAATACGT
3056405 AAATCGCAACGCG
1 AAATCGCAACGCG
3056418 ATTTTTAAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
80 16 0.19
81 67 0.81
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (81 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAATCGCAACGACAATACGTAAAAT
CGCAACGAGAATACGT
Found at i:3057053 original size:21 final size:20
Alignment explanation
Indices: 3056975--3057046 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
3056965 TTCTAAACTT
*
3056975 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
3056995 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
3057015 ACTATCGCAACAAGAGAAATG
1 AAAATCGCAACACGA-AAATG
3057036 AAAATCGCAAC
1 AAAATCGCAAC
3057047 GAGAGAATCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
20 31 0.69
21 14 0.31
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:3057057 original size:14 final size:14
Alignment explanation
Indices: 3057035--3057099 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
3057025 CAAGAGAAAT
3057035 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
3057049 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
3057067 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
3057082 GATAATCGCAACGC
1 GAAAATCGCAACGA
3057096 GAAA
1 GAAA
3057100 CCAAAATCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:3057070 original size:33 final size:33
Alignment explanation
Indices: 3057030--3057108 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
3057020 CGCAACAAGA
3057030 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
3057063 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
3057096 GAAACCAAAATCG
1 GAAATGAAAATCG
3057109 TATTCCGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3057229 original size:20 final size:19
Alignment explanation
Indices: 3057114--3057237 Score: 141
Period size: 19 Copynumber: 6.7 Consensus size: 19
3057104 AATCGTATTC
*
3057114 CGATTTTTATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
3057133 CGATTTTAATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
3057152 CGA--TTC---TCTCGTTG
1 CGATTTTCATTTCGCGTTG
3057166 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
**
3057185 CGATAGTCATTTCCGCGTTG
1 CGATTTTCATTT-CGCGTTG
*
3057205 CGATTTTCATTCTCTCGTTG
1 CGATTTTCATT-TCGCGTTG
3057225 CGATTTTCATTTC
1 CGATTTTCATTTC
3057238 AACCAAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
14 10 0.11
16 3 0.03
17 2 0.02
19 40 0.45
20 33 0.37
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:3057235 original size:40 final size:39
Alignment explanation
Indices: 3057122--3057237 Score: 129
Period size: 33 Copynumber: 3.1 Consensus size: 39
3057112 TCCGATTTTT
*
3057122 ATTT-CGCGTTGCGATTTTAATTTCGCGTTGCGAT--TC
1 ATTTCCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
*
3057158 ---T-CTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTTCCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
* **
3057193 ATTTCCGCGTTGCGATTTTCATTCTCTCGTTGCGATTTTC
1 ATTTCCGCGTTGCGATTTTCATT-TCGCGTTGCGATAGTC
3057233 ATTTC
1 ATTTC
3057238 AACCAAAAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
33 29 0.43
35 2 0.03
38 1 0.01
39 17 0.25
40 18 0.27
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (39 bp):
ATTTCCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
Found at i:3059076 original size:94 final size:94
Alignment explanation
Indices: 3058915--3059483 Score: 955
Period size: 94 Copynumber: 6.1 Consensus size: 94
3058905 TAGATTGCTT
* *
3058915 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
3058980 ATTTGTATTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGT-CTTTGTTTTGTCTTTTGGTTGAA
*
3059009 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3059074 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
3059103 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3059168 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* * *
3059197 AGTAAATTTATTCGGTTGCTTCCAATTCTGCTACACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3059262 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
3059291 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3059356 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
3059385 AGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
3059450 AATTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
3059478 AGTAAA
1 AGTAAA
3059484 GCAATCCATT
Statistics
Matches: 451, Mismatches: 21, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
93 47 0.10
94 384 0.85
95 20 0.04
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3060013 original size:21 final size:21
Alignment explanation
Indices: 3059989--3060055 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3059979 TCATTCCTCG
3059989 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3060010 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3060031 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
3060052 AGAG
1 AGAG
3060056 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3060013 original size:42 final size:42
Alignment explanation
Indices: 3059937--3060055 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
3059927 AACTCGCCTG
* * * * * * *
3059937 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCTCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
3059979 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
3060021 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
3060056 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:3061553 original size:19 final size:17
Alignment explanation
Indices: 3061537--3061587 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
3061527 AAAAATGACT
3061537 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
3061556 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
3061570 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
3061587 A
1 A
3061588 AATTGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:3061579 original size:33 final size:33
Alignment explanation
Indices: 3061537--3061630 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
3061527 AAAAATGACT
* *
3061537 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
3061570 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
3061603 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
3061631 TGAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:3061624 original size:19 final size:19
Alignment explanation
Indices: 3061600--3061645 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
3061590 TTGCAACGAC
3061600 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
3061619 AAAATCGCAACGTGAAACT
1 AAAATCGCAACGCGAAACT
*
3061638 AAATTCGC
1 AAAATCGC
3061646 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:3061663 original size:19 final size:19
Alignment explanation
Indices: 3061641--3061778 Score: 143
Period size: 19 Copynumber: 7.7 Consensus size: 19
3061631 TGAAACTAAA
*
3061641 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
3061660 TTCGCTTTGCGATTTGC--
1 TTCGCATTGCGATTTTCAT
3061677 -TCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
3061693 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
3061709 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
3061726 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
3061745 TTCCGCATTGCGATTTTCAT
1 TT-CGCATTGCGATTTTCAT
3061765 TTCGCATTGCGATT
1 TTCGCATTGCGATT
3061779 CTCTCGTTGC
Statistics
Matches: 99, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.16
16 10 0.10
17 10 0.10
19 46 0.46
20 17 0.17
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:3061753 original size:20 final size:19
Alignment explanation
Indices: 3061689--3061818 Score: 91
Period size: 20 Copynumber: 7.3 Consensus size: 19
3061679 GTTGCGATTT
3061689 TCATTTCGCATTGCGAT--
1 TCATTTCGCATTGCGATAG
* **
3061706 TC-TCTCG--TTGCGATTT
1 TCATTTCGCATTGCGATAG
3061722 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
**
3061741 TCATTTCCGCATTGCGATTT
1 TCATTT-CGCATTGCGATAG
3061761 TCATTTCGCATTGCGAT--
1 TCATTTCGCATTGCGATAG
*
3061778 TC-TCTCG--TTGCGATAG
1 TCATTTCGCATTGCGATAG
* *
3061794 TAATTTCCGCGTTGCGATAG
1 TCATTT-CGCATTGCGATAG
*
3061814 ACATT
1 TCATT
3061819 AAGATGATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
14 14 0.16
16 11 0.12
17 10 0.11
18 2 0.02
19 24 0.27
20 29 0.32
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Done.