Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_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: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 19
Found at i:2655580 original size:3 final size:3
Alignment explanation
Indices: 2655574--2655602 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2655564 TTTTATTGTT
2655574 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2655603 TATTACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2663182 original size:10 final size:10
Alignment explanation
Indices: 2663167--2663193 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2663157 GGAGAAAGAA
2663167 ATGATTTGGG
1 ATGATTTGGG
2663177 ATGATTTGGG
1 ATGATTTGGG
2663187 ATGATTT
1 ATGATTT
2663194 TGAAGCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (10 bp):
ATGATTTGGG
Found at i:2665596 original size:16 final size:16
Alignment explanation
Indices: 2665575--2665608 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2665565 CAGATATCTC
2665575 TGCTCCATTGTTCTAT
1 TGCTCCATTGTTCTAT
2665591 TGCTCCATTGTTCTAT
1 TGCTCCATTGTTCTAT
2665607 TG
1 TG
2665609 TTACATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.15, T:0.50
Consensus pattern (16 bp):
TGCTCCATTGTTCTAT
Found at i:2665615 original size:16 final size:16
Alignment explanation
Indices: 2665575--2665615 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2665565 CAGATATCTC
*
2665575 TGCTCCATTGTTCTAT
1 TGCTACATTGTTCTAT
*
2665591 TGCTCCATTGTTCTAT
1 TGCTACATTGTTCTAT
*
2665607 TGTTACATT
1 TGCTACATT
2665616 TGCCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.51
Consensus pattern (16 bp):
TGCTACATTGTTCTAT
Found at i:2668281 original size:2 final size:2
Alignment explanation
Indices: 2668274--2668303 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2668264 TTAAATTATC
2668274 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
2668304 CATTGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2682066 original size:35 final size:35
Alignment explanation
Indices: 2682020--2682095 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
2682010 AAAACAGTCA
* * *
2682020 TCAATTTCATTCTAAACCCCAATTTTCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
2682055 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
2682090 TCAATT
1 TCAATT
2682096 AAATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:2682644 original size:130 final size:130
Alignment explanation
Indices: 2682492--2682739 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
2682482 TATTTATATA
* **
2682492 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
*
2682557 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
2682622 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCATGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
2682687 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
2682740 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:2682770 original size:130 final size:129
Alignment explanation
Indices: 2682506--2682770 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
2682496 ATTTGGTCCT
* **
2682506 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
2682571 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
2682636 AAATTAAATAAAATTTAATAAATTAATCATTTAACCATGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
2682701 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
2682765 -A
128 CA
2682766 AAATT
1 AAATT
2682771 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:2683224 original size:15 final size:16
Alignment explanation
Indices: 2683200--2683236 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2683190 TTTAATTTCT
2683200 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
2683214 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
2683230 TGATTCA
1 T-ATTCA
2683237 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:2690099 original size:6 final size:6
Alignment explanation
Indices: 2690088--2690126 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
2690078 CGACGACCAT
2690088 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAGAAG GG
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGA-AAG GG
2690127 GGCTGAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:2710705 original size:55 final size:55
Alignment explanation
Indices: 2710622--2710748 Score: 182
Period size: 55 Copynumber: 2.3 Consensus size: 55
2710612 ATATGGAACT
* * * * *
2710622 CGAATAATCTTTAACAATCGTGTTTGCTCCCTATTCGTTCAGAGAGTATGAGACA
1 CGAACAATCTTCAATAATCGTGTCTGCTCCCTATTCGTTCAGAGAGTATAAGACA
* * *
2710677 CGAACAATCTTCAATAATCTTGTCTGCTCTCTATTCGTTCAGAGAGTATAAGACT
1 CGAACAATCTTCAATAATCGTGTCTGCTCCCTATTCGTTCAGAGAGTATAAGACA
2710732 CGAACAATCTTCAATAA
1 CGAACAATCTTCAATAA
2710749 ACTGGTTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (55 bp):
CGAACAATCTTCAATAATCGTGTCTGCTCCCTATTCGTTCAGAGAGTATAAGACA
Found at i:2710779 original size:55 final size:52
Alignment explanation
Indices: 2710720--2711333 Score: 621
Period size: 51 Copynumber: 11.5 Consensus size: 52
2710710 TTCGTTCAGA
* * * *
2710720 GAGTATA-AGACTCGAACAATCTTCAATAAACTGGTTCTCTCCTTCTCTCTCTAGG
1 GAGTATAGA-ACTCGAACAATCTTC---AAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
2710775 GAGTATAGAACTTGAAC-ATCTTCAAACGGGTTCGCTTCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
2710826 GAGTATAGAACTCGAAC-ATCTTCAAACGGTTTCGCTCCCTCTTTCTTTTAGG
1 GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTC-TCTAGG
* * *
2710878 AAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACAATC-T-T-CAAACGGGTTCGCTCCCTCTTTCTCTAGG
** * *
2710933 GAGTATAGAACTCGAACATATTCTTCTTACGGGTTCGTTCCCTCTTTATCTAGG
1 GAGTATAGAACTCGAACA-A-TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * * * * *
2710987 GAGTTTGGAACTCGAATATCTTCTTCAAACGGGTTCACTCTCTCTTTCTTTCAGG
1 GAGTATAGAACTCGAACA--ATCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGG
* * *
2711042 AAGTATAGAACTCGAATAATCTTCTGCAAACGAGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACAATC-T-T-CAAACGGGTTCGCTCCCTCTTTCTCTAGG
* ** * ** * *
2711097 GAGTATAGAACTCGAACATCTTCTTCTTACAGGTTCATTCTCTCTTTATCTAGG
1 GAGTATAGAACTCGAACA--ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
2711151 GAGTATGGAACTCGAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCT-TCAGG
1 GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGG
* * * *
2711202 GAGAATAGAACTCGAATATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
1 GAGTATAGAACTCGAACA--ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
2711256 GAGTATGGAACTCGAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGG
1 GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
2711307 GAGTATAGAACTC-AAAAATCTTCAAAC
1 GAGTATAGAACTCGAACAATCTTCAAAC
2711334 ATGTCTGCTC
Statistics
Matches: 463, Mismatches: 75, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
50 3 0.01
51 156 0.34
52 20 0.04
53 5 0.01
54 151 0.33
55 77 0.17
56 47 0.10
57 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (52 bp):
GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:2710977 original size:54 final size:54
Alignment explanation
Indices: 2710747--2711319 Score: 614
Period size: 54 Copynumber: 10.8 Consensus size: 54
2710737 AATCTTCAAT
* * * * *
2710747 AAACTGGTTCTCTCCTTCTCTCTCTAGGGAGTATAGAACTTGAAC--A-TCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
*
2710798 AAACGGGTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGAAC--A-TCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
* * * * * *
2710849 AAACGGTTTCGCTCCCTCTTTCTTTTAGGAAGTATAGAACTCGAATAATCTTCTGC
1 AAACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGAA-CATATTCTTC
*
2710905 AAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
** * * * * * *
2710959 TTACGGGTTCGTTCCCTCTTTATCTAGGGAGTTTGGAACTCGAATATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
* * * * * * *
2711013 AAACGGGTTCACTCTCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGC
1 AAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAA-CATATTCTTC
* *
2711069 AAACGAGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
** * ** * * *
2711123 TTACAGGTTCATTCTCTCTTTATCTAGGGAGTATGGAACTCGAAC--A-TCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
* * *
2711174 AAACGGGTTCGCTCCCTCTTTCT-TCAGGGAGAATAGAACTCGAATATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAACATATTCTTC
* *
2711228 AAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAACTCGAAC--A-TCTTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
*
2711279 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC
1 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
2711320 AAAAATCTTC
Statistics
Matches: 433, Mismatches: 77, Indels: 24
0.81 0.14 0.04
Matches are distributed among these distances:
50 1 0.00
51 146 0.34
52 20 0.05
54 158 0.36
55 55 0.13
56 53 0.12
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATATTCTTC
Found at i:2711055 original size:164 final size:158
Alignment explanation
Indices: 2710721--2711333 Score: 766
Period size: 164 Copynumber: 3.8 Consensus size: 158
2710711 TCGTTCAGAG
* *** * * * *
2710721 AGTATA-AGACTCGAACAATCTTCAATAAACTGGTTCTCTCCTTCTCTCTCTAGGGAGTATAGAA
1 AGTATAGA-ACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAA
* *
2710785 CTTGAACATCTTCAAACGGGTTCGCTT-CCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTC
65 CTCGAACATCTTCAAACGGGTTCG-TTCCCTCTTTATCTAGGGAGTATAGAACTCGAACATCTTC
* *
2710849 AAACGGTTTCGCTCCCTCTTTCTTTTAGGA
129 AAACGGGTTCGCTCCCTCTTTCTTTCAGGA
*
2710879 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAAC
1 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
** * * *
2710944 TCGAACATATTCTTCTTACGGGTTCGTTCCCTCTTTATCTAGGGAGTTTGGAACTCGAATATCTT
66 TCGAAC--A-TCTTCAAACGGGTTCGTTCCCTCTTTATCTAGGGAGTATAGAACTCG-A-A-CAT
* *
2711009 CTTCAAACGGGTTCACTCTCTCTTTCTTTCAGGA
125 CTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGA
*
2711043 AGTATAGAACTCGAATAATCTTCTGCAAACGAGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
1 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
** * * * *
2711108 TCGAACATCTTCTTCTTACAGGTTCATTCTCTCTTTATCTAGGGAGTATGGAACTCGAACATCTT
66 TCGAACA---TCTTCAAACGGGTTCGTTCCCTCTTTATCTAGGGAGTATAGAACTCGAACATCTT
*
2711173 CAAACGGGTTCGCTCCCTCTTTC-TTCAGGG
128 CAAACGGGTTCGCTCCCTCTTTCTTTCAGGA
* * * *
2711203 AGAATAGAACTCGAAT-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATGGAAC
1 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
* * * * *
2711267 TCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAAAATCTTCAA
66 TCGAACATCTTCAAACGGGTTCGTTCCCTCTTTATCTAGGGAGTATAGAACTCGAACATCTTCAA
2711332 AC
131 AC
2711334 ATGTCTGCTC
Statistics
Matches: 400, Mismatches: 45, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
156 49 0.12
158 60 0.15
159 52 0.13
160 24 0.06
161 65 0.16
162 3 0.01
163 2 0.00
164 145 0.36
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (158 bp):
AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
TCGAACATCTTCAAACGGGTTCGTTCCCTCTTTATCTAGGGAGTATAGAACTCGAACATCTTCAA
ACGGGTTCGCTCCCTCTTTCTTTCAGGA
Found at i:2711210 original size:105 final size:105
Alignment explanation
Indices: 2710720--2711329 Score: 658
Period size: 105 Copynumber: 5.7 Consensus size: 105
2710710 TTCGTTCAGA
* * * *
2710720 GAGTATA-AGACTCGAACAATCTTCAATAAACTGGTTCTCTCCTTCTCTC-TCTAGGGAGTATAG
1 GAGTATAGA-ACTCGAAC-ATCTTC---AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAG
* * * *
2710783 AACTTG--AA-CATCTTCAAACGGGTTCGCTTCCTCTTTCTCTAGG
60 AACTCGAAAATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGG
* * *
2710826 GAGTATAGAACTCGAACATCTTCAAACGGTTTCGCTCCCTCTTTCTTTTAGGAAGTATAGAACTC
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTC
*
2710891 GAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTCTAGG
65 GAA-AATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGG
** * * * *
2710933 GAGTATAGAACTCGAACATATTCTTCTTACGGGTTCGTTCCCTCTTT-ATCTAGGGAGTTTGGAA
1 GAGTATAGAACTCGAAC--A-TCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAA
* * *
2710997 CTCGAATATCTTCTTCAAACGGGTTCACTCTCTCTTTCTTTCAGG
62 CTCGAAAATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCT-AGG
* * *
2711042 AAGTATAGAACTCGAATAATCTTCTGCAAACGAGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGA
1 GAGTATAGAACTCGAA-CATC-T-T-CAAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGA
* ** * * * *
2711106 ACTCGAACATCTTCTTCTTACAGGTTCATTCTCTCTTTATCTAGG
61 ACTCGAAAATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGG
* *
2711151 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGAATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG
* * *
2711216 AATATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
66 AAAATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGG
* * *
2711256 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCA
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG
2711321 AAAATCTTC
66 AAAATCTTC
2711330 AAACATGTCT
Statistics
Matches: 428, Mismatches: 58, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
102 17 0.04
103 15 0.04
104 1 0.00
105 145 0.34
106 20 0.05
107 52 0.12
108 37 0.09
109 53 0.12
110 88 0.21
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (105 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG
AAAATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGG
Found at i:2711362 original size:51 final size:51
Alignment explanation
Indices: 2711238--2711417 Score: 134
Period size: 51 Copynumber: 3.5 Consensus size: 51
2711228 AAACGGGTTC
* * * * * **
2711238 GCTCCCTCTTTC-TCTAAGGAGTATGGAACTCGAACATCTTCAAACGGGT-T
1 GCTCCCTATTTCTTC-AAAGAGTATAGAACTCAAAAATCTTCAAACATGTCT
* * **
2711288 CGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAAAATCTTCAAACATGTCT
1 -GCTCCCTATTTCTTCAAAGAGTATAGAACTCAAAAATCTTCAAACATGTCT
* *
2711340 GCTCCCTATTTCTTCAAAGAGTATA-AGAC-CCACAATCTTCATCAATCATGTCT
1 GCTCCCTATTTCTTCAAAGAGTATAGA-ACTCAAAAATCTTCA--AA-CATGTCT
* * *
2711393 TCCCCCTATTTCTTCAGAGAGTATA
1 GCTCCCTATTTCTTCAAAGAGTATA
2711418 AGACTCGCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
50 11 0.10
51 63 0.59
52 4 0.04
53 29 0.27
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (51 bp):
GCTCCCTATTTCTTCAAAGAGTATAGAACTCAAAAATCTTCAAACATGTCT
Found at i:2720770 original size:22 final size:21
Alignment explanation
Indices: 2720728--2720767 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2720718 GAGTTTGTTT
*
2720728 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2720749 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2720768 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2741185 original size:20 final size:20
Alignment explanation
Indices: 2741160--2741200 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2741150 GACAGTTGGG
*
2741160 TAAGGGGGTTTTGAAACCTT
1 TAAGGGGGTTTCGAAACCTT
2741180 TAAGGGGGTTTCGAAACCTT
1 TAAGGGGGTTTCGAAACCTT
2741200 T
1 T
2741201 GGCAAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (20 bp):
TAAGGGGGTTTCGAAACCTT
Found at i:2743021 original size:3 final size:3
Alignment explanation
Indices: 2743013--2743038 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2743003 TCTATACAAA
2743013 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2743039 AGTCGGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2748789 original size:24 final size:20
Alignment explanation
Indices: 2748762--2748819 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2748752 GCATGGATAG
2748762 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
2748786 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
2748806 TGTATCGATGCACT
1 TGCATCGATGCACT
2748820 TCAATGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:2754677 original size:17 final size:17
Alignment explanation
Indices: 2754655--2754687 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2754645 TTTTTTATTT
2754655 TAATTTT-ATTGAAAAAA
1 TAATTTTGATT-AAAAAA
2754672 TAATTTTGATTAAAAA
1 TAATTTTGATTAAAAA
2754688 TGTTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TAATTTTGATTAAAAAA
Found at i:2756911 original size:18 final size:18
Alignment explanation
Indices: 2756882--2756973 Score: 103
Period size: 18 Copynumber: 4.9 Consensus size: 18
2756872 GCGTATAATT
*
2756882 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
2756900 TGTCTCGAAGGACCACTATATA
1 TGTCCCGAAGGACCAC----TA
*
2756922 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
* *
2756940 TGTCCTGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
2756958 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
2756974 GTAGACCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
18 47 0.73
22 17 0.27
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2758776 original size:43 final size:43
Alignment explanation
Indices: 2758695--2759176 Score: 322
Period size: 43 Copynumber: 11.2 Consensus size: 43
2758685 ATTTTACGGA
* * * * *
2758695 ATTGAAAAAATTATGAGCCTAAAATATAAAAGTAAAAAGTAAG
1 ATTGAAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* *
2758738 ATTGAAAAAAATTAGGAGCTTCAATTATAAAGGT-AAAAGTGAT
1 ATTG-AAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * * * * * *
2758781 ATTTTAAAAAAATCAGGGGCCTCAATTACAAAGTTAAATAGTGTG
1 A--TTGAAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * * * * *
2758826 ATTTAAAAAAATCAGGGGTCTCAATTACAAAGGTAAAAAGTAAG
1 A-TTGAAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * * *
2758870 ATT-AAAAAATTAAGG-GTCTCAATTATAAAGGTCAATAGTGGG
1 ATTGAAAAAATT-AGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * **
2758912 AATGAAAAAATTAAGGA-TCTCAATTATAAATATAAAAAGTGAG
1 ATTGAAAAAATT-AGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * *
2758955 ATT-AAAAAATTAGAAGACTCAATTTATAAATGTAAAAAGTGAG
1 ATTGAAAAAATTAGGAGCCTCAA-TTATAAAGGTAAAAAGTGAG
* * *
2758998 ATCGAAAAGATTAAGG-GCCTCAATTATAAATGTAAAAAGGTGAG
1 ATTGAAAAAATT-AGGAGCCTCAATTATAAAGGTAAAAA-GTGAG
* ** *
2759042 ATTGAAAAAA-TATGAGCCTCAATTATAAAAATAAAAAGTGAT
1 ATTGAAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
* * * * *
2759084 AAT-AAAAAA-TA-GATACTTCAATTATAAAGATATAAAA-TGAT
1 ATTGAAAAAATTAGGA-GCCTCAATTATAAAGGTA-AAAAGTGAG
* ** ** * *
2759125 ATT-ATAAAAGTTAAAAATCTTAATTATAAAAGTAAAAAGTGAG
1 ATTGA-AAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
2759168 ATTGAAAAA
1 ATTGAAAAA
2759177 GACTATGAAC
Statistics
Matches: 359, Mismatches: 60, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.01
41 33 0.09
42 64 0.18
43 134 0.37
44 115 0.32
45 11 0.03
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.27
Consensus pattern (43 bp):
ATTGAAAAAATTAGGAGCCTCAATTATAAAGGTAAAAAGTGAG
Found at i:2758836 original size:45 final size:43
Alignment explanation
Indices: 2758742--2758863 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 43
2758732 AGTAAGATTG
* * * *
2758742 AAAAAAATTAGGAGCTTCAATTATAAAGGTAAAAGTGATATTTT
1 AAAAAAATCAGGGGCCTCAATTACAAAGGTAAAAGTGATA-TTT
*
2758786 AAAAAAATCAGGGGCCTCAATTACAAAGTTAAATAGTG-TGATTT
1 AAAAAAATCAGGGGCCTCAATTACAAAGGTAAA-AGTGAT-ATTT
*
2758830 AAAAAAATCAGGGGTCTCAATTACAAAGGTAAAA
1 AAAAAAATCAGGGGCCTCAATTACAAAGGTAAAA
2758864 AGTAAGATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.01
44 63 0.91
45 5 0.07
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAAAATCAGGGGCCTCAATTACAAAGGTAAAAGTGATATTT
Found at i:2759141 original size:21 final size:21
Alignment explanation
Indices: 2759103--2759162 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
2759093 TAGATACTTC
*
2759103 AATTAT-AAAGATATAAAATGAT
1 AATTATAAAAG-TA-AAAATCAT
*
2759125 -ATTATAAAAGTTAAAAATCTT
1 AATTATAAAAG-TAAAAATCAT
2759146 AATTATAAAAGTAAAAA
1 AATTATAAAAGTAAAAA
2759163 GTGAGATTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
AATTATAAAAGTAAAAATCAT
Found at i:2762606 original size:2 final size:2
Alignment explanation
Indices: 2762599--2762624 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2762589 AGTAGTTGTC
2762599 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
2762625 GAGACCGAAG
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):
AT
Found at i:2771481 original size:13 final size:14
Alignment explanation
Indices: 2771456--2771482 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2771446 TCCAAACAAT
2771456 GAAAAATGTTTTTA
1 GAAAAATGTTTTTA
2771470 GAAAAATGTTTTT
1 GAAAAATGTTTTT
2771483 TAAAAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
GAAAAATGTTTTTA
Found at i:2771482 original size:15 final size:15
Alignment explanation
Indices: 2771464--2771528 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
2771454 ATGAAAAATG
*
2771464 TTTTTAGAAAAATGT
1 TTTTTAGAAAAATAT
*
2771479 TTTTTAAAAGTAAACTAT
1 TTTTTAGAA--AAA-TAT
*
2771497 TTTTTAG-AAATTAT
1 TTTTTAGAAAAATAT
2771511 TTTTT-GAAAAATAT
1 TTTTTAGAAAAATAT
2771525 TTTT
1 TTTT
2771529 AGTGAAACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 18 0.44
15 10 0.24
17 4 0.10
18 8 0.20
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (15 bp):
TTTTTAGAAAAATAT
Found at i:2771525 original size:14 final size:14
Alignment explanation
Indices: 2771455--2771528 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
2771445 GTCCAAACAA
*
2771455 TGAAAAATGTTTTT
1 TGAAAAATATTTTT
* *
2771469 AGAAAAATGTTTTT
1 TGAAAAATATTTTT
*
2771483 TAAAAGTAAACTATTTTT
1 T-GAA--AAA-TATTTTT
*
2771501 T-AGAAATTATTTTT
1 TGA-AAAATATTTTT
2771515 TGAAAAATATTTTT
1 TGAAAAATATTTTT
2771529 AGTGAAACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 31 0.65
15 5 0.10
16 1 0.02
17 4 0.08
18 7 0.15
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (14 bp):
TGAAAAATATTTTT
Found at i:2774030 original size:22 final size:22
Alignment explanation
Indices: 2774002--2774044 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2773992 AATGTGACCT
*
2774002 TTCAACTTGAAAAAAAAAACCA
1 TTCAACTAGAAAAAAAAAACCA
* *
2774024 TTCAACTAGAATAAAAGAACC
1 TTCAACTAGAAAAAAAAAACC
2774045 TAAGGGTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.19
Consensus pattern (22 bp):
TTCAACTAGAAAAAAAAAACCA
Found at i:2788205 original size:25 final size:22
Alignment explanation
Indices: 2788170--2788222 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
2788160 TTCTTATTAA
2788170 ATAT-TAAATTATAACTAATAAAT
1 ATATATAAATTA-AACTAA-AAAT
*
2788193 ATATATAATATTAAATTAAAAAT
1 ATATATAA-ATTAAACTAAAAAT
2788216 ATATATA
1 ATATATA
2788223 CTTATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 15 0.56
24 8 0.30
25 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATATAAATTAAACTAAAAAT
Found at i:2788568 original size:42 final size:42
Alignment explanation
Indices: 2788522--2788656 Score: 234
Period size: 42 Copynumber: 3.2 Consensus size: 42
2788512 TCCAAGTTCG
2788522 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* * *
2788564 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
2788606 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
2788648 CGTTGCGAT
1 CGTTGCGAT
2788657 TTATTCCAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:2788673 original size:42 final size:42
Alignment explanation
Indices: 2788627--2788803 Score: 227
Period size: 42 Copynumber: 4.2 Consensus size: 42
2788617 TCGAAGTTCA
* *
2788627 CGTTGCGATTTATTCCAAATT-CGTTGCGATTTATTCCAAATT
1 CGTTGCGA-TTAGTCCAAGTTCCGTTGCGATTTATTCCAAATT
* * *
2788669 CGTTGCGA-TAGTCCAAGTTCGCGTTGCAATTTATTCTAAGTT
1 CGTTGCGATTAGTCCAAGTTC-CGTTGCGATTTATTCCAAATT
*
2788711 CGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCCAAGTTC-CGTTGCGATTTATTCCAAATT
*
2788753 TGTTGCGA-TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCCAAGTTC-CGTTGCGATTTATTCCAAATT
2788795 CGTTGCGAT
1 CGTTGCGAT
2788804 AATCCAAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
40 9 0.08
42 111 0.93
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (42 bp):
CGTTGCGATTAGTCCAAGTTCCGTTGCGATTTATTCCAAATT
Found at i:2788685 original size:105 final size:105
Alignment explanation
Indices: 2788503--2788761 Score: 407
Period size: 105 Copynumber: 2.5 Consensus size: 105
2788493 CATATTCGCA
* * * *
2788503 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATTCG
*
2788566 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATT-TCAAGTTCG
64 TTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCT-AAGTTCG
*
2788608 TTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTT
2788673 GCGATAGTCCAAGTTCGCGTTGCAATTTATTCTAAGTTCG
66 GCGATAGTCCAAGTTCGCGTTGCAATTTATTCTAAGTTCG
*
2788713 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
2788762 AGTCCAAGTT
Statistics
Matches: 143, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
105 134 0.94
106 1 0.01
107 8 0.06
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (105 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTT
GCGATAGTCCAAGTTCGCGTTGCAATTTATTCTAAGTTCG
Found at i:2788694 original size:84 final size:83
Alignment explanation
Indices: 2788503--2788782 Score: 322
Period size: 84 Copynumber: 3.3 Consensus size: 83
2788493 CATATTCGCA
2788503 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTC-CGTTGCGATTTATTCCAAATTCGTT
* *
2788568 GCGA--TAGTCCAAGTTCGCG
65 GCGATTTATTCCAAATT--CG
* *
2788587 TTGCGATTTATTTCAAGTT--CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTC-CGTTGCGATTTATTCCAAATTCG
2788650 TTGCGATTTATTCCAAATTCG
63 TTGCGATTTATTCCAAATTCG
* * * * * *
2788671 TTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCTAAGTT-CGTTGCGA--TAGTCGAAGTTCGC
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCCGTTGCGATTTATTCCAAATT--C
*
2788733 GTTGCGATTTATTCCAAATTTG
62 GTTGCGATTTATTCCAAATTCG
2788755 TTGCGATAGTCCAAGTTCGCGTTGCGAT
1 TTGCGATAGTCCAAGTTCGCGTTGCGAT
2788783 TTATTCCAAA
Statistics
Matches: 171, Mismatches: 15, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
82 18 0.11
84 126 0.74
86 27 0.16
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (83 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCCGTTGCGATTTATTCCAAATTCGTTG
CGATTTATTCCAAATTCG
Found at i:2788804 original size:42 final size:42
Alignment explanation
Indices: 2788648--2788810 Score: 272
Period size: 42 Copynumber: 3.9 Consensus size: 42
2788638 ATTCCAAATT
2788648 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
* * * *
2788690 CGTTGCAATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
*
2788732 CGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
*
2788774 CGTTGCGATTTATTCCAAATTCGTTGCGATAATCCAA
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
2788811 AATCGCAACG
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 110 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
Found at i:2788907 original size:6 final size:6
Alignment explanation
Indices: 2788896--2788937 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
2788886 GACACGTATT
2788896 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2788938 GGACGGCGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2789561 original size:21 final size:21
Alignment explanation
Indices: 2789535--2789667 Score: 166
Period size: 21 Copynumber: 6.4 Consensus size: 21
2789525 ATTTTGGACT
2789535 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
2789556 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAATTTGGAATAA
2789575 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * * *
2789596 ATCGTAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2789617 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
2789638 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
2789659 ATCGCAACG
1 ATCGCAACG
2789668 CGAACTTCGA
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
19 26 0.28
21 59 0.63
23 9 0.10
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:2789653 original size:63 final size:61
Alignment explanation
Indices: 2789556--2789707 Score: 232
Period size: 63 Copynumber: 2.4 Consensus size: 61
2789546 TTTGGAATAA
* *
2789556 ATCGCAACGAACTTGGACTATCGCAACGAATTTGGAATAAATCGTAACGCGAACTTCGACT
1 ATCGCAACGAACTTGGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
2789617 ATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAACTTGGAAT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
2789680 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAA--CGAACTTGGAATATCGCAA
2789708 TGCGAATATG
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
61 17 0.21
63 55 0.67
65 10 0.12
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (61 bp):
ATCGCAACGAACTTGGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:2789663 original size:42 final size:40
Alignment explanation
Indices: 2789528--2789707 Score: 211
Period size: 42 Copynumber: 4.3 Consensus size: 40
2789518 CGTTGCGATT
2789528 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
*
2789568 TTGGACTATCGCAACGAATTTGGAATAAATCGTAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
* *
2789610 TTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
* * * *
2789650 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAA--CGAAC
2789694 TTGGACTATCGCAA
1 TTGGACTATCGCAA
2789708 TGCGAATATG
Statistics
Matches: 121, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
40 43 0.36
42 59 0.49
44 19 0.16
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
Found at i:2789683 original size:21 final size:21
Alignment explanation
Indices: 2789659--2789713 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2789649 TTTGGAATAA
2789659 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
2789680 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
2789701 ATCGCAATGCGAA
1 ATCGCAACGCGAA
2789714 TATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:2791511 original size:20 final size:19
Alignment explanation
Indices: 2791486--2791534 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2791476 CTCCGCCTTG
2791486 ATTTATATATATTATATAAT
1 ATTTATATATATT-TATAAT
*
2791506 ATTTATATAT-TTTATATT
1 ATTTATATATATTTATAAT
*
2791524 AATTATATATA
1 ATTTATATATA
2791535 ATACAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 14 0.54
19 2 0.08
20 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATATATATTTATAAT
Found at i:2795436 original size:65 final size:65
Alignment explanation
Indices: 2795332--2795458 Score: 209
Period size: 65 Copynumber: 2.0 Consensus size: 65
2795322 CAGGTGGCAA
* * *
2795332 AATCCAAATCGGTAGAAAAGGGTTATGGACCAAATTGAATGAAAGGGCTTAATTAAGGAGGCCAG
1 AATCCAAATCGGTAAAAAAGAGTTATGGACCAAATTGAATGAAAGGGATTAATTAAGGAGGCCAG
* *
2795397 AATCCAAATTGGTAAAAAAGAGTTATGGACCAAATTGAATGAAAGGGATTAATTCAGGAGGC
1 AATCCAAATCGGTAAAAAAGAGTTATGGACCAAATTGAATGAAAGGGATTAATTAAGGAGGC
2795459 AAATAAGGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (65 bp):
AATCCAAATCGGTAAAAAAGAGTTATGGACCAAATTGAATGAAAGGGATTAATTAAGGAGGCCAG
Found at i:2796292 original size:4 final size:4
Alignment explanation
Indices: 2796269--2796323 Score: 83
Period size: 4 Copynumber: 13.8 Consensus size: 4
2796259 TTGTTTGTTC
* * *
2796269 ATTT ATTC ATTC ATTC ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
2796317 ATTT ATT
1 ATTT ATT
2796324 ACTGTAGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:2803915 original size:15 final size:16
Alignment explanation
Indices: 2803895--2803946 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
2803885 AAAATACAAC
2803895 ATTCCCAGG-AATCTT
1 ATTCCCAGGTAATCTT
*
2803910 ATTCCCTGGTAATCTT
1 ATTCCCAGGTAATCTT
2803926 ACATTCCCACTGGTAATCTT
1 --ATTCCCA--GGTAATCTT
2803946 A
1 A
2803947 CATTCCATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 8 0.27
16 6 0.20
18 7 0.23
20 9 0.30
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (16 bp):
ATTCCCAGGTAATCTT
Found at i:2803940 original size:20 final size:20
Alignment explanation
Indices: 2803915--2803952 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2803905 ATCTTATTCC
2803915 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
2803935 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2803953 ATGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2804474 original size:20 final size:20
Alignment explanation
Indices: 2804437--2804490 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2804427 TCCTGTAAGG
*
2804437 AAAGGGATCAATTCTTTTGCT
1 AAAGGGATCGA-TCTTTTGCT
* *
2804458 CAAGGGATCGATCTTTTGGT
1 AAAGGGATCGATCTTTTGCT
2804478 AAAGGGATCGATC
1 AAAGGGATCGATC
2804491 CCAAACTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGGGATCGATCTTTTGCT
Found at i:2804554 original size:21 final size:21
Alignment explanation
Indices: 2804511--2804587 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
2804501 TGGAATCCAA
* * *
2804511 GGGATCAATCCTTT-TTAAAG
1 GGGATCTATCCTTTGGTCAAG
2804531 GGGATCTATCCTTTGGTCAAG
1 GGGATCTATCCTTTGGTCAAG
*
2804552 GGGATCTATCCTTTGGTCAAA
1 GGGATCTATCCTTTGGTCAAG
*
2804573 GGGATCGATCCTTTG
1 GGGATCTATCCTTTG
2804588 AGCTAAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 13 0.25
21 38 0.75
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (21 bp):
GGGATCTATCCTTTGGTCAAG
Found at i:2805062 original size:25 final size:25
Alignment explanation
Indices: 2805034--2805101 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
2805024 ATCGATAAGC
*
2805034 ATATTAAAGTGTCAAAAGCATAAAT
1 ATATTAAAGTATCAAAAGCATAAAT
* * * *
2805059 ATATCAAAATATCAAATGCATATAT
1 ATATTAAAGTATCAAAAGCATAAAT
2805084 ATAAGTTAAAGTACTCAA
1 AT-A-TTAAAGTA-TCAA
2805102 CAAGATACTC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 22 0.67
26 1 0.03
27 6 0.18
28 4 0.12
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.29
Consensus pattern (25 bp):
ATATTAAAGTATCAAAAGCATAAAT
Found at i:2806545 original size:23 final size:21
Alignment explanation
Indices: 2806518--2806561 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2806508 CCAAAAACAA
2806518 CATTTAACGTACAAGGGATCGAT
1 CATTTAACG-A-AAGGGATCGAT
* *
2806541 CATTTGATGAAAGGGATCGAT
1 CATTTAACGAAAGGGATCGAT
2806562 TTTTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
CATTTAACGAAAGGGATCGAT
Found at i:2806785 original size:21 final size:21
Alignment explanation
Indices: 2806746--2806785 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2806736 TGATATTTTT
**
2806746 TCAAGGGGATCGATCCTTTGG
1 TCAAGGGGATCGAAACTTTGG
*
2806767 TCAAGGGGGTCGAAACTTT
1 TCAAGGGGATCGAAACTTT
2806786 TGCTAAGGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (21 bp):
TCAAGGGGATCGAAACTTTGG
Found at i:2809369 original size:29 final size:30
Alignment explanation
Indices: 2809298--2809357 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2809288 CAATTTAAGG
2809298 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
2809329 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
2809358 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:2809495 original size:15 final size:15
Alignment explanation
Indices: 2809475--2809503 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2809465 CCCCCTAGGA
2809475 GGTACAGATACCCCG
1 GGTACAGATACCCCG
2809490 GGTACAGATACCCC
1 GGTACAGATACCCC
2809504 CCCAGGGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (15 bp):
GGTACAGATACCCCG
Found at i:2809504 original size:36 final size:36
Alignment explanation
Indices: 2809453--2809524 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
2809443 ATTGCCCAGG
* * *
2809453 GGGTATAGATTCCCCCCTAGGAGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGAGGTACAGATACCCC
*
2809489 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGAGGTACAGATACCCC
2809525 ATGCAGGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.15
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGAGGTACAGATACCCC
Found at i:2809513 original size:21 final size:21
Alignment explanation
Indices: 2809447--2809524 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2809437 TTCAAGATTG
* *
2809447 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
* *
2809468 CCTAGGAGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
2809486 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
2809504 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
2809525 ATGCAGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.22
18 7 0.16
21 28 0.62
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:2809600 original size:21 final size:22
Alignment explanation
Indices: 2809559--2809604 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2809549 AACAGAATGT
2809559 CCAGGGGGTACCGATTCCCCCC
1 CCAGGGGGTACCGATTCCCCCC
2809581 CCAGGGGGTACCGATTCCCCCC
1 CCAGGGGGTACCGATTCCCCCC
2809603 CC
1 CC
2809605 TGTTCAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (22 bp):
CCAGGGGGTACCGATTCCCCCC
Found at i:2809666 original size:21 final size:21
Alignment explanation
Indices: 2809640--2809682 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2809630 ATTTGAATAT
*
2809640 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2809661 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2809682 T
1 T
2809683 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:2809748 original size:20 final size:22
Alignment explanation
Indices: 2809710--2809749 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2809700 TTTGAGTATA
2809710 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
2809732 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
2809750 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:2810007 original size:34 final size:32
Alignment explanation
Indices: 2809964--2810033 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2809954 TTTTGTAAAG
*
2809964 GGGAAAGGTTCTAGCTTAGCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGGA-AAAA-CTA
*
2809998 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2810030 GGGA
1 GGGA
2810034 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 23 0.68
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2811723 original size:33 final size:33
Alignment explanation
Indices: 2811681--2811784 Score: 183
Period size: 33 Copynumber: 3.2 Consensus size: 33
2811671 TTCGTTTCAA
2811681 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2811714 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
2811747 TTATCGAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2811779 TTATCG
1 TTATCG
2811785 TAAATTTTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 6 0.09
33 63 0.91
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2812846 original size:16 final size:16
Alignment explanation
Indices: 2812825--2812856 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2812815 TACTTATTTT
2812825 ATAATAAAATATATTA
1 ATAATAAAATATATTA
*
2812841 ATAATAACATATATTA
1 ATAATAAAATATATTA
2812857 TAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATAAAATATATTA
Found at i:2813130 original size:16 final size:16
Alignment explanation
Indices: 2813102--2813133 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2813092 AACCCAAATC
2813102 AAAAGCAACCCGAACT
1 AAAAGCAACCCGAACT
*
2813118 AAAAGCAATCCGAACT
1 AAAAGCAACCCGAACT
2813134 GAAATTAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.12, T:0.09
Consensus pattern (16 bp):
AAAAGCAACCCGAACT
Found at i:2813907 original size:32 final size:31
Alignment explanation
Indices: 2813871--2813972 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 31
2813861 GATCTAAAGG
*
2813871 TTGACCTAAACCGAAAATCAATCGATCTGATA
1 TTGACCTAAACC-AAAATCAATCGATCCGATA
* *
2813903 TTGACC-CAACCATAAATCTAACCGATCCGATA
1 TTGACCTAAACCA-AAATC-AATCGATCCGATA
* * *
2813935 TT-AACTCAACCCAAAAATCAATCGATCCGGTA
1 TTGACCT-AAACC-AAAATCAATCGATCCGATA
2813967 TTGACC
1 TTGACC
2813973 CGACCTGATA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.02
31 11 0.20
32 32 0.58
33 10 0.18
34 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (31 bp):
TTGACCTAAACCAAAATCAATCGATCCGATA
Found at i:2814013 original size:32 final size:32
Alignment explanation
Indices: 2813977--2814041 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
2813967 TTGACCCGAC
*
2813977 CTGATATTGATCTG-ATCCAAAAATTAATCGAT
1 CTGATATTGATCCGAATCCAAAAA-TAATCGAT
*
2814009 CTGATATTGATCCGAATCGAAAAATAATCGAT
1 CTGATATTGATCCGAATCCAAAAATAATCGAT
2814041 C
1 C
2814042 CAATAATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (32 bp):
CTGATATTGATCCGAATCCAAAAATAATCGAT
Found at i:2815084 original size:29 final size:29
Alignment explanation
Indices: 2815007--2815085 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
2814997 AACCCAACCA
* * * *
2815007 TAGGTCGCCATGCACTCCCAGTGACCTCC
1 TAGGTCGCCATGCACGCCCGGCGACATCC
**
2815036 TAGGTCGCCATGCACGCCCGGCGACATGG
1 TAGGTCGCCATGCACGCCCGGCGACATCC
2815065 TAGGTCGCCATGCACGCCCGG
1 TAGGTCGCCATGCACGCCCGG
2815086 ACTCCCCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.16, C:0.38, G:0.29, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCGGCGACATCC
Found at i:2815190 original size:29 final size:30
Alignment explanation
Indices: 2815156--2815243 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
2815146 CCTGCACATG
2815156 CACGATCTCCCCAATCTCCCCATGCATGAA
1 CACGATCTCCCCAATCTCCCCATGCATGAA
**** *
2815186 C-CGA--TCCTTGGTCGCCCCGAGTGCATG-A
1 CACGATCTCCCCAATCTCCCC-A-TGCATGAA
2815214 CACGATCTCCCCAATCTCCCCATGCATGAA
1 CACGATCTCCCCAATCTCCCCATGCATGAA
2815244 TCCTTGGTCG
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
27 9 0.21
28 3 0.07
29 18 0.43
30 3 0.07
31 9 0.21
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (30 bp):
CACGATCTCCCCAATCTCCCCATGCATGAA
Found at i:2815277 original size:29 final size:29
Alignment explanation
Indices: 2815244--2815339 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
2815234 CATGCATGAA
2815244 TCCTTGGTCGCCT-CGAGTGCATGGCGACC
1 TCCTTGGTCG-CTGCGAGTGCATGGCGACC
* * *
2815273 TCCTTGGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGCTGCGAGTGCATGGCGACC
* * * * *
2815302 TCTTTGGTCGTTGGGCGTGCATGGTGACC
1 TCCTTGGTCGCTGCGAGTGCATGGCGACC
*
2815331 TCTTTGGTC
1 TCCTTGGTC
2815340 ACTGTACAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 1 0.02
29 60 0.98
ACGTcount: A:0.07, C:0.27, G:0.34, T:0.31
Consensus pattern (29 bp):
TCCTTGGTCGCTGCGAGTGCATGGCGACC
Found at i:2820473 original size:16 final size:17
Alignment explanation
Indices: 2820449--2820481 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2820439 TTAAGTTTCC
*
2820449 CTTCTGTTTTT-TTATT
1 CTTCAGTTTTTCTTATT
2820465 CTTCAGTTTTTCTTATT
1 CTTCAGTTTTTCTTATT
2820482 TGATATCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (17 bp):
CTTCAGTTTTTCTTATT
Found at i:2832352 original size:2 final size:2
Alignment explanation
Indices: 2832345--2832382 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2832335 ATGGTAAGTT
2832345 TA TA TA TA TA TA 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 TA TA TA TA TA TA
2832383 GTTCAGTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2836287 original size:13 final size:13
Alignment explanation
Indices: 2836271--2836295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2836261 ATGATTTTTT
2836271 TATATTATTTAAA
1 TATATTATTTAAA
2836284 TATATTATTTAA
1 TATATTATTTAA
2836296 TTATTAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTATTTAAA
Found at i:2836425 original size:2 final size:2
Alignment explanation
Indices: 2836364--2836409 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
2836354 AATAATTAAT
*
2836364 TA TA AA TA TA T- TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2836403 TA TA TA T
1 TA TA TA T
2836410 TTAAATATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2838615 original size:20 final size:20
Alignment explanation
Indices: 2838592--2838629 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2838582 TACCGATACT
2838592 TGTCATTTAATATCGATATA
1 TGTCATTTAATATCGATATA
* *
2838612 TGTCCTTTAGTATCGATA
1 TGTCATTTAATATCGATA
2838630 CCTCCCATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (20 bp):
TGTCATTTAATATCGATATA
Found at i:2851635 original size:20 final size:21
Alignment explanation
Indices: 2851610--2851662 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2851600 GACCAACAAA
2851610 TTCGCAACGCGAACTT-CAAT
1 TTCGCAACGCGAACTTCCAAT
* **
2851630 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGAACTTCCAAT
2851650 TTCGCAACGCGAA
1 TTCGCAACGCGAA
2851663 TATGTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.15
20 20 0.77
21 2 0.08
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCGCAACGCGAACTTCCAAT
Found at i:2851720 original size:20 final size:20
Alignment explanation
Indices: 2851694--2851738 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2851684 TTCCAATTTA
2851694 ACAACGCGAATCTGTAAATC
1 ACAACGCGAATCTGTAAATC
* *
2851714 GCAACGCGAATTTGTAAATC
1 ACAACGCGAATCTGTAAATC
2851734 ACAAC
1 ACAAC
2851739 ACAAAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (20 bp):
ACAACGCGAATCTGTAAATC
Found at i:2852324 original size:19 final size:21
Alignment explanation
Indices: 2852269--2852331 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
2852259 TCGCGTTTCT
* * *
2852269 TTTTCATTTTCACATTGTG-A
1 TTTTCATTTTCGCGTTGCGAA
2852289 TTTTCATTTTCGCGTTGC-AA
1 TTTTCATTTTCGCGTTGCGAA
*
2852309 TTTTCA-TTTCGTGTTGCGAA
1 TTTTCATTTTCGCGTTGCGAA
2852329 TTT
1 TTT
2852332 AAGTTTCAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTTCATTTTCGCGTTGCGAA
Found at i:2854300 original size:21 final size:21
Alignment explanation
Indices: 2854274--2854349 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
2854264 CCTATCATCA
*
2854274 TTCAAGAGGCGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
2854295 TTCAAGAGGCCCCT-CTCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * *
2854315 ATCGAAGAAGCCCCTCCCATCG
1 TTC-AAGAGGCCCCTCCTATCG
2854337 TTCAAGAGGCCCC
1 TTCAAGAGGCCCC
2854350 CGTCATTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.09
21 38 0.84
22 3 0.07
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:2854315 original size:42 final size:42
Alignment explanation
Indices: 2854268--2854349 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
2854258 GATACACCTA
* * *
2854268 TCATCATTC-AAGAGGCGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCA-TCGAAGAAGCCCCTCCCATCGTTCAAGAGGCCCCTC
2854310 TCATCATCGAAGAAGCCCCTCCCATCGTTCAAGAGGCCCC
1 TCATCATCGAAGAAGCCCCTCCCATCGTTCAAGAGGCCCC
2854350 CGTCATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (42 bp):
TCATCATCGAAGAAGCCCCTCCCATCGTTCAAGAGGCCCCTC
Found at i:2855831 original size:28 final size:28
Alignment explanation
Indices: 2855786--2855839 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2855776 TTTTGATTAA
*
2855786 TTGATTTGTAAAAGTTGATTTGTAAAAG
1 TTGATTTGTAAAAGTTGATATGTAAAAG
** *
2855814 TTGATTTGTTTAATTTGATATGTAAA
1 TTGATTTGTAAAAGTTGATATGTAAA
2855840 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (28 bp):
TTGATTTGTAAAAGTTGATATGTAAAAG
Found at i:2855832 original size:14 final size:14
Alignment explanation
Indices: 2855786--2855822 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
2855776 TTTTGATTAA
2855786 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2855800 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2855814 TTGATTTGT
1 TTGATTTGT
2855823 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2856337 original size:18 final size:18
Alignment explanation
Indices: 2856314--2856349 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2856304 AAGCCGGTTG
*
2856314 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2856332 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
2856350 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2858432 original size:12 final size:12
Alignment explanation
Indices: 2858415--2858439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2858405 TCTTTGGAGA
2858415 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2858427 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2858439 C
1 C
2858440 AGGGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2858645 original size:24 final size:24
Alignment explanation
Indices: 2858618--2858664 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2858608 ATCATTAAAA
2858618 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
2858642 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
2858665 TTTCGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:2858678 original size:24 final size:24
Alignment explanation
Indices: 2858618--2858678 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
2858608 ATCATTAAAA
* *
2858618 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAATACTGACCAAGATCAAAG
** * *
2858642 TCCGGGTATTGACCAAGATCAAAT
1 TCCGAATACTGACCAAGATCAAAG
*
2858666 TTCGAATACTGAC
1 TCCGAATACTGAC
2858679 TAGTACTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (24 bp):
TCCGAATACTGACCAAGATCAAAG
Found at i:2858811 original size:12 final size:12
Alignment explanation
Indices: 2858790--2858823 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2858780 GGTTGTGGGT
*
2858790 TTTGAGATTGTG
1 TTTGATATTGTG
2858802 TTTGATATTGTG
1 TTTGATATTGTG
*
2858814 TTTGCTATTG
1 TTTGATATTG
2858824 GAAATGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.26, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2859411 original size:14 final size:15
Alignment explanation
Indices: 2859375--2859412 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2859365 AGAATCATTG
2859375 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2859390 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2859405 AAAAATTA
1 AAAAATTA
2859413 GAGATGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2859579 original size:19 final size:19
Alignment explanation
Indices: 2859551--2859622 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
2859541 AAACATTTGG
*
2859551 GTTGCAAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
2859570 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
2859589 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-C-A
2859610 GTTGCGAATTTGA
1 GTTGCGAATTTGA
2859623 CTTTTGCGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 35 0.71
20 1 0.02
21 13 0.27
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:2859633 original size:20 final size:20
Alignment explanation
Indices: 2859589--2859656 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
2859579 TTGAAATTCA
* **
2859589 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTG-ACTTTTGC
2859610 GTTGCGAATTTGACTTTTGC
1 GTTGCGAATTTGACTTTTGC
*
2859630 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGC
2859650 GTTGCGA
1 GTTGCGA
2859657 TTTACAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 31 0.72
21 12 0.28
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.41
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGC
Found at i:2864207 original size:26 final size:26
Alignment explanation
Indices: 2864178--2864231 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
2864168 AATTCATAAT
2864178 TTTTTATATATTAACTTA-AAAATATA
1 TTTTT-TATATTAACTTATAAAATATA
*
2864204 --TTTTATATTAACTTATTAAATATA
1 TTTTTTATATTAACTTATAAAATATA
2864228 TTTT
1 TTTT
2864232 ATTGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
23 12 0.50
24 10 0.42
26 2 0.08
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTTATATTAACTTATAAAATATA
Found at i:2864210 original size:23 final size:24
Alignment explanation
Indices: 2864184--2864233 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2864174 TAATTTTTTA
2864184 TATATTAACTTA-AAAATATATTT
1 TATATTAACTTATAAAATATATTT
*
2864207 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATAAAATATATTT
2864231 TAT
1 TAT
2864234 TGTTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTAACTTATAAAATATATTT
Found at i:2864279 original size:27 final size:28
Alignment explanation
Indices: 2864219--2864282 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
2864209 TATTAACTTA
*
2864219 TTAAATATATTTTATTGTTAATTTAACT
1 TTAAAAATATTTTATTGTTAATTTAACT
* *
2864247 TT-AAAATATTTTATT-TTTATTT-CCAT
1 TTAAAAATATTTTATTGTTAATTTAAC-T
2864273 TTAAAAATAT
1 TTAAAAATAT
2864283 ATATTTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 9 0.29
27 19 0.61
28 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TTAAAAATATTTTATTGTTAATTTAACT
Found at i:2866204 original size:21 final size:21
Alignment explanation
Indices: 2866167--2866206 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2866157 TATGTTTTTT
2866167 AAAATCAAACTAAAAATGAAC
1 AAAATCAAACTAAAAATGAAC
*
2866188 AAAATACAAA-TATAAATGA
1 AAAAT-CAAACTAAAAATGA
2866207 TTATATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAATCAAACTAAAAATGAAC
Found at i:2866276 original size:12 final size:12
Alignment explanation
Indices: 2866259--2866283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2866249 CATCTGATAC
2866259 ACCATACAATAA
1 ACCATACAATAA
2866271 ACCATACAATAA
1 ACCATACAATAA
2866283 A
1 A
2866284 AGAATACGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
ACCATACAATAA
Found at i:2869683 original size:36 final size:36
Alignment explanation
Indices: 2869643--2869719 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
2869633 GACTCTTTAT
2869643 TATTTAAATTTTATTATTAATAAAAATATAAAAAAA
1 TATTTAAATTTTATTATTAATAAAAATATAAAAAAA
*
2869679 TATTTAAATTTTATTATTGATAAAAATATAAAAAAA
1 TATTTAAATTTTATTATTAATAAAAATATAAAAAAA
2869715 TATTT
1 TATTT
2869720 TTAAAAACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
TATTTAAATTTTATTATTAATAAAAATATAAAAAAA
Found at i:2871875 original size:2 final size:2
Alignment explanation
Indices: 2871868--2871921 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2871858 TTGATAAATC
2871868 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
2871910 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2871922 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2872339 original size:52 final size:57
Alignment explanation
Indices: 2872275--2872384 Score: 176
Period size: 55 Copynumber: 2.0 Consensus size: 57
2872265 ATATGCGTAA
2872275 GATGATTTCCTTATCATGCATA-A-TGAGTGTAAGATTTTAAG-AA-AAGGATGAAG
1 GATGATTTCCTTATCATGCATACAGTGAGTGTAAGATTTTAAGAAATAAGGATGAAG
2872328 GATGA-TTCCTTATCATGCATACATGTGAGTGTAAGATTTTAAGAAATAAGGATGAAG
1 GATGATTTCCTTATCATGCATACA-GTGAGTGTAAGATTTTAAGAAATAAGGATGAAG
2872385 TTAAGCTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
52 16 0.31
53 6 0.12
55 18 0.35
56 2 0.04
57 10 0.19
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (57 bp):
GATGATTTCCTTATCATGCATACAGTGAGTGTAAGATTTTAAGAAATAAGGATGAAG
Found at i:2872687 original size:21 final size:19
Alignment explanation
Indices: 2872657--2872695 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
2872647 TATTTCAAAT
2872657 ATTTTTTATGATGCTTTTTA
1 ATTTTTTATG-TGCTTTTTA
*
2872677 ATTTTTGTATGTTCTTTTT
1 ATTTTT-TATGTGCTTTTT
2872696 TTTTCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
ATTTTTTATGTGCTTTTTA
Found at i:2875031 original size:19 final size:19
Alignment explanation
Indices: 2875007--2875043 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2874997 AGTTACGATG
2875007 GATGAAATTATGAGATTTT
1 GATGAAATTATGAGATTTT
*
2875026 GATGAAATTGTGAGATTT
1 GATGAAATTATGAGATTT
2875044 GAATTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (19 bp):
GATGAAATTATGAGATTTT
Found at i:2875185 original size:13 final size:13
Alignment explanation
Indices: 2875141--2875185 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
2875131 CACTTTTTAT
2875141 ATTAATTATAATC
1 ATTAATTATAATC
*
2875154 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
2875169 -TTAATTATAATC
1 ATTAATTATAATC
2875181 ATTAA
1 ATTAA
2875186 ATTAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:2878421 original size:176 final size:177
Alignment explanation
Indices: 2878115--2878514 Score: 585
Period size: 176 Copynumber: 2.3 Consensus size: 177
2878105 TTTTCATATT
* * *
2878115 TTTTATCATATTTTTACCTGTATATCGTTGTAGATC-ATATATTTTTTTAAAGTATCGACACTTT
1 TTTTATCATA-TTTTACCTGTATATCGTTGTGGATCGATACA-TTTTTTAAAGTATCGACACGTT
* *
2878179 ATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTATCGACA
64 ATAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATAAAGTACCGACA
* * * ** *
2878244 CTTTCAATATATCCGGTAGCGTTTTATCGGTTTCATCATTTTGATACCGG
129 CTTTAAATATATCCGGTACCGTTTTATCGATTTCATCA-TTCAATACCGA
2878294 TTTTATCATATTTTCACCTGT-TATCGTTGTGGATCGATACATTTTTTAAAGTATCGACACGTTA
1 TTTTATCATATTTT-ACCTGTATATCGTTGTGGATCGATACATTTTTTAAAGTATCGACACGTTA
*
2878358 TAGGCGCT-AAA-TGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTT-TATTAAAGTACCGACA
65 TAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATA-TAAAGTACCGACA
*
2878420 CTTTAAATATATCCGGTACCGTTTTATCGATTTTATCATTCAATACCGA
129 CTTTAAATATATCCGGTACCGTTTTATCGATTTCATCATTCAATACCGA
* *
2878469 TTTTGTCATAGTTTACCTGTATATCGTTGTGGATCGATACATTTTT
1 TTTTATCATATTTTACCTGTATATCGTTGTGGATCGATACATTTTT
2878515 AATTGGATCG
Statistics
Matches: 202, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
174 6 0.03
175 47 0.23
176 79 0.39
177 3 0.01
178 47 0.23
179 20 0.10
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (177 bp):
TTTTATCATATTTTACCTGTATATCGTTGTGGATCGATACATTTTTTAAAGTATCGACACGTTAT
AGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATAAAGTACCGACACT
TTAAATATATCCGGTACCGTTTTATCGATTTCATCATTCAATACCGA
Found at i:2881752 original size:19 final size:18
Alignment explanation
Indices: 2881728--2881765 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2881718 TATATGTATA
2881728 TATTTAATTATATT-TAATT
1 TATTT-ATT-TATTATAATT
2881747 TATTTATTTATTATAATT
1 TATTTATTTATTATAATT
2881765 T
1 T
2881766 TTTTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATTTATTATAATT
Found at i:2881765 original size:10 final size:9
Alignment explanation
Indices: 2881728--2881783 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 9
2881718 TATATGTATA
2881728 TATTTAATT
1 TATTTAATT
2881737 ATATTTAATT
1 -TATTTAATT
2881747 TATTT-ATT
1 TATTTAATT
2881755 TATTATAATTT
1 TATT-TAA-TT
* *
2881766 TTTTTCATT
1 TATTTAATT
2881775 T-TTTAATT
1 TATTTAATT
2881783 T
1 T
2881784 TCTTTACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 14 0.35
9 9 0.22
10 12 0.30
11 5 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TATTTAATT
Found at i:2881805 original size:10 final size:11
Alignment explanation
Indices: 2881793--2881834 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
2881783 TTCTTTACTT
2881793 TATATTATAT-
1 TATATTATATA
*
2881803 TATTTTTATATA
1 TA-TATTATATA
2881815 TATATATATATA
1 TATAT-TATATA
2881827 TATATTAT
1 TATATTAT
2881835 TTTTTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 12 0.44
12 13 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTATATA
Found at i:2882013 original size:22 final size:22
Alignment explanation
Indices: 2881973--2882015 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2881963 ATTTTTCATT
*
2881973 TATTTATTATTATTATTATTAC
1 TATTTAGTATTATTATTATTAC
2881995 TATTTAGTATTTATT-TTATTA
1 TATTTAGTA-TTATTATTATTA
2882016 TACATACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTTAGTATTATTATTATTAC
Found at i:2882036 original size:20 final size:22
Alignment explanation
Indices: 2882004--2882058 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
2881994 CTATTTAGTA
2882004 TTTATT-TTATTATACATACA-T
1 TTTATTATT-TTATACATACATT
* *
2882025 TTTA-TATTTTATATATATATT
1 TTTATTATTTTATACATACATT
2882046 TTTATTATTTTAT
1 TTTATTATTTTAT
2882059 TTATACTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 8 0.28
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATTATTTTATACATACATT
Found at i:2882054 original size:22 final size:22
Alignment explanation
Indices: 2882005--2882078 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
2881995 TATTTAGTAT
* *
2882005 TTATTTTATTATACATACATTTTA
1 TTATTTTA-TATATATA-TTTTTA
2882029 -TATTTTATATATATATTTTTA
1 TTATTTTATATATATATTTTTA
* *
2882050 TTATTTTATTTATACTATTTAT-
1 TTATTTTATATATA-TATTTTTA
2882072 TTATTTT
1 TTATTTT
2882079 CATTTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.11
22 26 0.59
23 13 0.30
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTATATATATATTTTTA
Found at i:2882206 original size:20 final size:19
Alignment explanation
Indices: 2882166--2882211 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
2882156 TTTTATCTTC
*
2882166 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATCCA
2882185 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATCCA
2882205 A-TTATTT
1 ATTTATTT
2882212 ATGTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 10 0.42
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTTATTTTATCCA
Found at i:2886431 original size:19 final size:19
Alignment explanation
Indices: 2886382--2886452 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
2886372 ACAAAAAGGG
*
2886382 CAAAAATAAAA-AAGAAAA
1 CAAAAAAAAAAGAAGAAAA
* ** *
2886400 GAAGCAAAGAAGAAGAAAA
1 CAAAAAAAAAAGAAGAAAA
*
2886419 CAAAAAAAAAAGAACAAAAA
1 CAAAAAAAAAAGAA-GAAAA
2886439 TCAAAAAGAAAAAG
1 -CAAAAA-AAAAAG
2886453 GGACAAAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
18 6 0.15
19 17 0.44
20 4 0.10
21 6 0.15
22 6 0.15
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (19 bp):
CAAAAAAAAAAGAAGAAAA
Found at i:2887083 original size:21 final size:21
Alignment explanation
Indices: 2887046--2887099 Score: 99
Period size: 21 Copynumber: 2.5 Consensus size: 21
2887036 TACCCCATCA
2887046 AAACCTTTGAGCATCAAATGCC
1 AAACCTTTGA-CATCAAATGCC
2887068 AAACCTTTGACATCAAATGCC
1 AAACCTTTGACATCAAATGCC
2887089 AAACCTTTGAC
1 AAACCTTTGAC
2887100 CAAACACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (21 bp):
AAACCTTTGACATCAAATGCC
Found at i:2887521 original size:18 final size:18
Alignment explanation
Indices: 2887498--2887533 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2887488 TTCAACATCA
* *
2887498 ATATTGGGGCATTTTTGG
1 ATATTGGGACATTATTGG
2887516 ATATTGGGACATTATTGG
1 ATATTGGGACATTATTGG
2887534 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGGGACATTATTGG
Found at i:2888096 original size:313 final size:315
Alignment explanation
Indices: 2887674--2888961 Score: 2051
Period size: 313 Copynumber: 4.1 Consensus size: 315
2887664 TTTTAGAGGC
* *
2887674 AGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAAC-AA-ACTTCTCAATTTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
2887737 TCAACTTCACAACG-AGGATATTGGACTCCA-ACAAACGCAAGTTCAACTTCACGACGAAGGGAC
66 TCAACTTCACAACGAAGGATATTGGACTCCAGAC-AACGCAAGTTCAACTTCACGACGAAGGGA-
* * * * * * *
2887800 CGCTGGTTATCAATAAATAATTTCCCAATTTTAGAGCCAATTTTAACTTCACAATGAAGGATATT
129 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
2887865 GGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCT-GTTGTCAATAAACAACTTC
194 GGACTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
2887929 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
258 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2887987 AGTTCAACTTCACGACGAAGGGA-TGCTGG-TGTCAACAAACACTTCTCAATTTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
*
2888050 TCAACTTCACAACGAAGGATATTGGACTCCA-ACAACGCATGTTCAACTTCACGACGAAGGGACG
66 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACG
*
2888114 CTGGTTGTCAACAAACAACTT-CC-ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
131 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2888177 ACTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCC-
196 ACTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * *
2888241 ATTTCAGAGCCAATTTTAACTTCACAGTGAAGAATATTGGACTCCAGACAACGCA
261 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
2888296 AGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAACACTTCTCAATTTCAGAG-CAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
2888359 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
66 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA-C
* *
2888424 GCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTG
130 GCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
2888489 GACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGA-CGCTAGTTGTCAACAAACAATTTCC
195 GACTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* * * *
2888553 CAATTTCGGAGCCAA-TTCAACTCCACAGCGAAAGTTATTGGACTCCAGACAACGCA
259 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
2888609 AGTTCAACTTCACGA-GAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ACTTCTCAATTTCAGAGCCAAT
*
2888673 TT-AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
65 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
2888737 GCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAA--TCACAACGAAGGATATTG
130 GCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
2888800 GACTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCC
195 GACTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2888865 AATTT-AGAGCCAATTTC-ACTTCACAGCGAAGGATATTGGACTCGAGACAACGCA
260 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888919 AGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
2888962 ATTCCCAACT
Statistics
Matches: 908, Mismatches: 50, Indels: 37
0.91 0.05 0.04
Matches are distributed among these distances:
309 151 0.17
310 206 0.23
311 110 0.12
312 35 0.04
313 264 0.29
314 136 0.15
315 6 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (315 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACG
CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:2888888 original size:623 final size:623
Alignment explanation
Indices: 2887674--2888961 Score: 2114
Period size: 623 Copynumber: 2.1 Consensus size: 623
2887664 TTTTAGAGGC
* *
2887674 AGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAAC-AA-ACTTCTCAATTTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
2887737 TCAACTTCACAACGAGGATATTGGACTCCAACAAACGCAAGTTCAACTTCACGACGAAGGGACCG
66 TCAACTTCACAACGAGGATATTGGACTCCAACAAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * * * * *
2887802 CTGGTTATCAATAAATAATTTCCCAATTTTAGAGCCAATTTTAACTTCACAATGAAGGATATTGG
131 CTGGTTATCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2887867 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGTTGTCAATAAACAACTTCCCA
196 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTGTCAACAAACAACTTCCCA
* *
2887932 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
261 ATTTCAGAGCCAATTTCAACTCCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
2887997 CACGACGAAGGGATGCTGGTGTCAACAAACACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
326 CACGACGAAGGGACGCTGGTGTCAACAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
2888062 CGAAGGATATTGGACTCCAACAACGCATGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAACA
391 CGAAGGATATTGGACTCCAACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAACA
*
2888127 AACAACTTCCATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAA
456 AACAACTTCCATTTCAGAGCCAATTTCAAC-TCACAACGAAGGATATTGGACTCAGACAACGCAA
2888192 GTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCATTTCAGAGCCAATTT
520 GTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCATTTCAGAGCCAATTT
*
2888257 TAACTTCACAGTGAAGAATATTGGACTCCAGACAACGCA
585 TAACTTCACAGCGAAGAATATTGGACTCCAGACAACGCA
2888296 AGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAACACTTCTCAATTTCAGAG-CAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
2888359 TCAACTTCACAACGAAGGATATTGGACTCCAGAC-AACGCAAGTTCAACTTCACGACGAAGGGAC
66 TCAACTTCACAACG-AGGATATTGGACTCCA-ACAAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2888423 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATT
129 CGCTGGTTATCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
2888488 GGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGA-CGCTAGTTGTCAACAAACAATTTC
194 GGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT-GTTGTCAACAAACAACTTC
* *
2888552 CCAATTTCGGAGCCAA-TTCAACTCCACAGCGAAAGTTATTGGACTCCAGACAACGCAAGTTCAA
258 CCAATTTCAGAGCCAATTTCAACTCCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAA
* *
2888616 CTTCACGA-GAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTT-AACT
323 CTTCACGACGAAGGGA-CGCTGG-TGTCAACAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACT
*
2888679 TCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTT
385 TCACAACGAAGGATATTGGACTCCA-ACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTT
2888744 GTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAA-TCACAACGAAGGATATTGGACTCAGA
449 GTCAACAAACAACTTC-C-ATTTCAGAGCCAATTTCAACTCACAACGAAGGATATTGGACTCAGA
2888808 CAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCAATTT-AG
512 CAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCC-ATTTCAG
* * *
2888872 AGCCAA-TTTCACTTCACAGCGAAGGATATTGGACTCGAGACAACGCA
576 AGCCAATTTTAACTTCACAGCGAAGAATATTGGACTCCAGACAACGCA
*
2888919 AGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
2888962 ATTCCCAACT
Statistics
Matches: 622, Mismatches: 31, Indels: 24
0.92 0.05 0.04
Matches are distributed among these distances:
621 21 0.03
622 104 0.17
623 288 0.46
624 185 0.30
625 5 0.01
626 19 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (623 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAATTTCAGAGCCAATT
TCAACTTCACAACGAGGATATTGGACTCCAACAAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGGTTATCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTCCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACGCTGGTGTCAACAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
CGAAGGATATTGGACTCCAACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAACA
AACAACTTCCATTTCAGAGCCAATTTCAACTCACAACGAAGGATATTGGACTCAGACAACGCAAG
TTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCATTTCAGAGCCAATTTT
AACTTCACAGCGAAGAATATTGGACTCCAGACAACGCA
Found at i:2889003 original size:103 final size:106
Alignment explanation
Indices: 2887674--2888969 Score: 2002
Period size: 104 Copynumber: 12.5 Consensus size: 106
2887664 TTTTAGAGGC
* * *
2887674 AGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAAC--A-AACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2887736 TTCAACTTCACAACG-AGGATATTGGACTCCA-ACAAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGAC-AACGCA
* * * * *
2887776 AGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAATAATTTCCCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* ** *
2887841 TTTAACTTCACAATGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
2887882 AGTTCAACTTCATGACGAAGGGACCGCT-GTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
2887946 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
2887987 AGTTCAACTTCACGACGAAGGGA-TGCTGG-TGTCAACAAAC-ACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2888049 TTCAACTTCACAACGAAGGATATTGGACTCCA-ACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888089 TGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAACAACTT-CC-ATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
2888151 TTCAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
2888191 AGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCC-ATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
2888255 TTTAACTTCACAGTGAAGAATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888296 AGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAAC-ACTTCTCAATTTCAGAG-CAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2888358 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888399 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCTAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2888464 TTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
2888505 AGTTCAACTTCACGACGAAGGGA-CGCTAGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAA-
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * *
2888568 TTCAACTCCACAGCGAAAGTTATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
2888609 AGTTCAACTTCACGA-GAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
2888673 TT-AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888713 AGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2888777 TTCAA--TCACAACGAAGGATATTGGACT-CAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
2888815 AGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCAATTT-AGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
2888879 TTC-ACTTCACAGCGAAGGATATTGGACTCGAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
2888919 AGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAA-TTCCCAA
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA
2888970 CTACTTACTT
Statistics
Matches: 1101, Mismatches: 69, Indels: 47
0.90 0.06 0.04
Matches are distributed among these distances:
101 3 0.00
102 185 0.17
103 241 0.22
104 336 0.31
105 221 0.20
106 113 0.10
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:2889115 original size:76 final size:78
Alignment explanation
Indices: 2889022--2889171 Score: 286
Period size: 77 Copynumber: 1.9 Consensus size: 78
2889012 AGGCTCAATT
2889022 CACGACGAAGGGGCCATCCGC-GTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCATCAT
1 CACGACGAAGGGGCCATCCGCGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCATCAT
2889086 CCATCTTTATTCA
66 CCATCTTTATTCA
2889099 CACGACG-AGGGGCCATCCGCGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCATCAT
1 CACGACGAAGGGGCCATCCGCGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCATCAT
2889163 CCATCTTTA
66 CCATCTTTA
2889172 GATTGGATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
76 13 0.18
77 59 0.82
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (78 bp):
CACGACGAAGGGGCCATCCGCGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCATCAT
CCATCTTTATTCA
Found at i:2889872 original size:37 final size:38
Alignment explanation
Indices: 2889781--2889878 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 38
2889771 ACTTTTCGTC
2889781 CTACTAGGATTCAAACTCCTAAAAATAGGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGGATAGAATT
* * *
2889819 TTGCTAGGATTCAAACTCCTAAAAATA-GGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGGATAGAATT
** *
2889856 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
2889879 GATATGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 27 0.52
38 25 0.48
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (38 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGGATAGAATT
Found at i:2890561 original size:65 final size:64
Alignment explanation
Indices: 2890426--2890647 Score: 254
Period size: 64 Copynumber: 3.5 Consensus size: 64
2890416 TTGAAGGTGT
** ** *
2890426 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTAGTG
2890489 C
64 C
*
2890490 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAA-TAAAACATCGAATGCAATTAGTGC
* * * * *
2890555 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCA-ATTAGTG
2890618 C
64 C
* *
2890619 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
2890648 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
63 2 0.01
64 70 0.51
65 60 0.44
66 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTAGTGC
Found at i:2891634 original size:29 final size:30
Alignment explanation
Indices: 2891548--2891636 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
2891538 TATAGACAGT
*
2891548 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
*
2891578 TTACCGAGGATCTGTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
* * *
2891608 TTACCG-GGGTCTTTGTGACATCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
2891637 GTCCTTCGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 19 0.36
30 34 0.64
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGATAG
Found at i:2896786 original size:57 final size:58
Alignment explanation
Indices: 2896698--2896814 Score: 211
Period size: 57 Copynumber: 2.0 Consensus size: 58
2896688 GGTGGTCCAA
2896698 CAGGCTGCCAGGAATCGAACTGTTTCTTTTTAGAATCTTT-GGGCTGTTCATAGTATG
1 CAGGCTGCCAGGAATCGAACTGTTTCTTTTTAGAATCTTTGGGGCTGTTCATAGTATG
2896755 CAGGCTGCCAGGAATCTGAACTG-TTCTTTTTAGAATCTTTGGGGCTGTTCATAGTATG
1 CAGGCTGCCAGGAATC-GAACTGTTTCTTTTTAGAATCTTTGGGGCTGTTCATAGTATG
2896813 CA
1 CA
2896815 AAGAATAGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 33 0.57
58 25 0.43
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (58 bp):
CAGGCTGCCAGGAATCGAACTGTTTCTTTTTAGAATCTTTGGGGCTGTTCATAGTATG
Found at i:2908619 original size:32 final size:33
Alignment explanation
Indices: 2908539--2908619 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2908529 GAATTAGTGC
* *
2908539 TGAAGCAATCAACATCGAATATTGGGGCATCTT
1 TGAAGCATTCAACATCGAATATTGGAGCATCTT
2908572 TGAAGCATTCAACATCGAATATTGGAGCATCTT
1 TGAAGCATTCAACATCGAATATTGGAGCATCTT
* *
2908605 TG-GGGATTCAACATC
1 TGAAGCATTCAACATC
2908620 TTGATGTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 11 0.25
33 33 0.75
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (33 bp):
TGAAGCATTCAACATCGAATATTGGAGCATCTT
Found at i:2908841 original size:67 final size:64
Alignment explanation
Indices: 2908690--2908905 Score: 275
Period size: 62 Copynumber: 3.4 Consensus size: 64
2908680 ATTAGTATCA
* *
2908690 TTTGAG-ATGTTTCTCTTGAAACAAATTTTT-TCTCTCGAGACAGTTTCTTTTAAG-AAAAATC
1 TTTGAGTATGTTTCTCTTGAAACAAATTTTTGTCTCTCGAGACAATTTCTTTTGAGAAAAAATC
*
2908751 TTTGAGTATGTTTCTCTGGAAACAAATTTTTGTCTCTCTTGAGACAATTTCTTTTGAGAAAAAAA
1 TTTGAGTATGTTTCTCTTGAAACAAATTTTTGTCTCTC--GAGACAATTTCTTTTGAG-AAAAAA
2908816 TC
63 TC
* *
2908818 TTTGAGTTTGTTTCAT-TTGAAACAAA-TTTTGTCTCTCGAGACAATTTCTTTTGAG-AAAAGTC
1 TTTGAGTATGTTTC-TCTTGAAACAAATTTTTGTCTCTCGAGACAATTTCTTTTGAGAAAAAATC
* *
2908880 CTTGAGTCTGTTTCT-TTGGAAACAAA
1 TTTGAGTATGTTTCTCTT-GAAACAAA
2908906 ATTTACCATC
Statistics
Matches: 139, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
61 9 0.06
62 49 0.35
63 6 0.04
64 18 0.13
65 16 0.12
66 11 0.08
67 29 0.21
68 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (64 bp):
TTTGAGTATGTTTCTCTTGAAACAAATTTTTGTCTCTCGAGACAATTTCTTTTGAGAAAAAATC
Found at i:2908928 original size:36 final size:34
Alignment explanation
Indices: 2908881--2908975 Score: 102
Period size: 36 Copynumber: 2.7 Consensus size: 34
2908871 AGAAAAGTCC
* ** *
2908881 TTGAGTCTGTTTCTTTGGAAACAAAATTTACCATCT
1 TTGAGTCTGTTTCATT-GAAACAAAA-CAAACATCT
*
2908917 TTGAGTCTGTTTCCCTTGAAACAAAACAAACATCT
1 TTGAGTCTGTTT-CATTGAAACAAAACAAACATCT
2908952 TTGAGATC-GTTTCATTGAAACAAA
1 TTGAG-TCTGTTTCATTGAAACAAA
2908976 TTTTGTCTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
34 11 0.21
35 15 0.29
36 23 0.44
37 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (34 bp):
TTGAGTCTGTTTCATTGAAACAAAACAAACATCT
Done.