Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold653
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: 77980
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:984 original size:9 final size:9
Alignment explanation
Indices: 967--1015 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
957 TTAGTGTTTC
967 AAAAA-AAA
1 AAAAAGAAA
975 AAAAAGAAA
1 AAAAAGAAA
984 AAAAAGAAGAA
1 AAAAAG-A-AA
995 TAAGAAAGAAA
1 -AA-AAAGAAA
1006 AAAAAGAAA
1 AAAAAGAAA
1015 A
1 A
1016 GGAAAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 5 0.14
9 17 0.47
10 3 0.08
11 4 0.11
12 3 0.08
13 4 0.11
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:7199 original size:588 final size:588
Alignment explanation
Indices: 6083--7259 Score: 2291
Period size: 588 Copynumber: 2.0 Consensus size: 588
6073 TGGACATTTC
* *
6083 TTTTAACTACTGTGCATTCACTATTTGAGGTTGTTTATGGATTTAATCCCATCAGCCCACTTGAT
1 TTTTAACTACTGTGCATTCACCATTTGAGGTTATTTATGGATTTAATCCCATCAGCCCACTTGAT
6148 TTGTTGTCACTACCTAATATTTCATCTATAGTGCATCGGGATGGCAATGACAAAGCTAAATTTGT
66 TTGTTGTCACTACCTAATATTTCATCTATAGTGCATCGGGATGGCAATGACAAAGCTAAATTTGT
6213 CAGGAAGTTACATGAAAAGATGAAGGCTCAAATTGAAAAGAAAGTAGAGCAACAAGCAAAATATG
131 CAGGAAGTTACATGAAAAGATGAAGGCTCAAATTGAAAAGAAAGTAGAGCAACAAGCAAAATATG
6278 CTAACAAGGGAAGCAAGAATGTGGTATTTGAACACGAAGATTGGGTTTGGGTTCATATGTGCAAG
196 CTAACAAGGGAAGCAAGAATGTGGTATTTGAACACGAAGATTGGGTTTGGGTTCATATGTGCAAG
6343 GAAAGGTTTCTAATGCAAAGGAAGTTAAAGCTTTAACCAAGAGGGGATGGACCATTCCAAGTCTT
261 GAAAGGTTTCTAATGCAAAGGAAGTTAAAGCTTTAACCAAGAGGGGATGGACCATTCCAAGTCTT
6408 GGAGAGAATTGGGGATAATGCATACAAAGTGGACTTACAAGGTGAGCATGGTGTTAGTGCTACTT
326 GGAGAGAATTGGGGATAATGCATACAAAGTGGACTTACAAGGTGAGCATGGTGTTAGTGCTACTT
6473 TCAATGTAACTAATTTATCTCTCTTTGATGTAGGTGATGAAGAGCCAAATTCGAAGATGAATTCT
391 TCAATGTAACTAATTTATCTCTCTTTGATGTAGGTGATGAAGAGCCAAATTCGAAGATGAATTCT
6538 CTTGAAAAAGGAGGGGTTGATGAGAACCAAGGAAGGTCCATTGAAGACAAGGCTTGTAGGCATTG
456 CTTGAAAAAGGAGGGGTTGATGAGAACCAAGGAAGGTCCATTGAAGACAAGGCTTGTAGGCATTG
6603 GAAAGGTTTCAAGTACCAATGATGAGGGCAAAGGCAAAGAGGACAAAGGGAGACCTAGAGAAGAT
521 GAAAGGTTTCAAGTACCAATGATGAGGGCAAAGGCAAAGAGGACAAAGGGAGACCTAGAGAAGAT
6668 GGT
586 GGT
6671 TTTTAACTACTGTGCATTCACCATTTGAGGTTATTTATGGATTTAATCCCATCAGCCCACTTGAT
1 TTTTAACTACTGTGCATTCACCATTTGAGGTTATTTATGGATTTAATCCCATCAGCCCACTTGAT
*
6736 TTGTTGTCACTACCTAATATTTCATCTATAGTGCATTGGGATGGCAATGACAAAGCTAAATTTGT
66 TTGTTGTCACTACCTAATATTTCATCTATAGTGCATCGGGATGGCAATGACAAAGCTAAATTTGT
*
6801 CAGGAAGTTGCATGAAAAGATGAAGGCTCAAATTGAAAAGAAAGTAGAGCAACAAGCAAAATATG
131 CAGGAAGTTACATGAAAAGATGAAGGCTCAAATTGAAAAGAAAGTAGAGCAACAAGCAAAATATG
* *
6866 CTAACAAGGGAAGCAAGAATGTGGTATTTGAACCCGAAGATTGGTTTTGGGTTCATATGTGCAAG
196 CTAACAAGGGAAGCAAGAATGTGGTATTTGAACACGAAGATTGGGTTTGGGTTCATATGTGCAAG
6931 GAAAGGTTTCTAATGCAAAGGAAGTTAAAGCTTTAACCAAGAGGGGATGGACCATTCCAAGTCTT
261 GAAAGGTTTCTAATGCAAAGGAAGTTAAAGCTTTAACCAAGAGGGGATGGACCATTCCAAGTCTT
6996 GGAGAGAATTGGGGATAATGCATACAAAGTGGACTTACAAGGTGAGCATGGTGTTAGTGCTACTT
326 GGAGAGAATTGGGGATAATGCATACAAAGTGGACTTACAAGGTGAGCATGGTGTTAGTGCTACTT
*
7061 TCAATGTATCTAATTTATCTCTCTTTGATGTAGGTGATGAAGAGCCAAATTCGAAGATGAATTCT
391 TCAATGTAACTAATTTATCTCTCTTTGATGTAGGTGATGAAGAGCCAAATTCGAAGATGAATTCT
7126 CTTGAAAAAGGAGGGGTTGATGAGAACCAAGGAAGGTCCATTGAAGACAAGGCTTGTAGGCATTG
456 CTTGAAAAAGGAGGGGTTGATGAGAACCAAGGAAGGTCCATTGAAGACAAGGCTTGTAGGCATTG
7191 GAAAGGTTTCAAGTACCAATGATGAGGGCAAAGGCAAAGAGGACAAAGGGAGACCTAGAGAAGAT
521 GAAAGGTTTCAAGTACCAATGATGAGGGCAAAGGCAAAGAGGACAAAGGGAGACCTAGAGAAGAT
7256 GGT
586 GGT
7259 T
1 T
7260 GCTACCCTAT
Statistics
Matches: 582, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
588 582 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (588 bp):
TTTTAACTACTGTGCATTCACCATTTGAGGTTATTTATGGATTTAATCCCATCAGCCCACTTGAT
TTGTTGTCACTACCTAATATTTCATCTATAGTGCATCGGGATGGCAATGACAAAGCTAAATTTGT
CAGGAAGTTACATGAAAAGATGAAGGCTCAAATTGAAAAGAAAGTAGAGCAACAAGCAAAATATG
CTAACAAGGGAAGCAAGAATGTGGTATTTGAACACGAAGATTGGGTTTGGGTTCATATGTGCAAG
GAAAGGTTTCTAATGCAAAGGAAGTTAAAGCTTTAACCAAGAGGGGATGGACCATTCCAAGTCTT
GGAGAGAATTGGGGATAATGCATACAAAGTGGACTTACAAGGTGAGCATGGTGTTAGTGCTACTT
TCAATGTAACTAATTTATCTCTCTTTGATGTAGGTGATGAAGAGCCAAATTCGAAGATGAATTCT
CTTGAAAAAGGAGGGGTTGATGAGAACCAAGGAAGGTCCATTGAAGACAAGGCTTGTAGGCATTG
GAAAGGTTTCAAGTACCAATGATGAGGGCAAAGGCAAAGAGGACAAAGGGAGACCTAGAGAAGAT
GGT
Found at i:8889 original size:52 final size:51
Alignment explanation
Indices: 8800--8899 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
8790 GATAAATAAA
* * * * *
8800 TAAATGTGTCAATTCATTTCCAAATGTAGCGATACATTCATGCATTTTGGC
1 TAAATGTATCAATACATCTCCAAATGTAGCAATACATTCAGGCATTTTGGC
* * *
8851 TAAATGTATCAATACAATCTCCAACTGTATCAATACATTTAGGCATTTT
1 TAAATGTATCAATAC-ATCTCCAAATGTAGCAATACATTCAGGCATTTT
8900 TCTCCATATG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
51 13 0.32
52 27 0.68
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (51 bp):
TAAATGTATCAATACATCTCCAAATGTAGCAATACATTCAGGCATTTTGGC
Found at i:12783 original size:29 final size:29
Alignment explanation
Indices: 12706--12777 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
12696 TGAATATAAT
12706 CAAATTGGGCTCCATTCTTCTTGGACATG
1 CAAATTGGGCTCCATTCTTCTTGGACATG
* *
12735 TAAATTGGGCTCCATTCTTCTTGGTCATG
1 CAAATTGGGCTCCATTCTTCTTGGACATG
*
12764 CAAATTAGGCTCCA
1 CAAATTGGGCTCCA
12778 AGCTTCATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (29 bp):
CAAATTGGGCTCCATTCTTCTTGGACATG
Found at i:17740 original size:49 final size:49
Alignment explanation
Indices: 17664--17793 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
17654 CACAATTTTT
*
17664 ATCGATACATTGTTCATTGTATCGATACATTTTGGGTTTTACCTAGATGG
1 ATCGATACATTGTT-ATTGTATCGATACATTTTGGGTTTTACCCAGATGG
* *
17714 ATTGATACATTGTTATTGTATCGATACATTTTGGGTTTTACCCAGATGT
1 ATCGATACATTGTTATTGTATCGATACATTTTGGGTTTTACCCAGATGG
* * *
17763 ATCGATACATTTTTTAATGTATTGATACATT
1 ATCGATACA-TTGTTATTGTATCGATACATT
17794 CAGGCATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 41 0.57
50 31 0.43
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (49 bp):
ATCGATACATTGTTATTGTATCGATACATTTTGGGTTTTACCCAGATGG
Found at i:20283 original size:79 final size:79
Alignment explanation
Indices: 20112--21019 Score: 1002
Period size: 79 Copynumber: 11.6 Consensus size: 79
20102 ATTCATGTTT
* * *
20112 TTATTTCCGAGGGGATACTTCAACCCCGGTTTTATTTCCAAAACA-TCAA-TTTTCACAATCGAG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTTCACAATCGGG
* *
20175 GATACTCCAACCTCG
65 GATACTCTAACCCCG
* * * **
20190 TTATTTTTGAGGGGATTCTCCAACCTCGGTTTTATTTTTAAAACACTAATTTTTCACAATCGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
* *
20255 ATACTTTAACTCCG
66 ATACTCTAACCCCG
* * *
20269 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCATAAT-GGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
* *
20333 TATACTC-CACCCCC
66 -ATACTCTAACCCCG
* * * * ** *
20347 TTTTTTTCGAGGGGACACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATTAGGC
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
*
20412 ATACTCCAACCCCG
66 ATACTCTAACCCCG
* * * * * * *
20426 TTATTTCCAAGGGGATACTTCAACCCCGGTTTT-TTTCCAAAAGACCAATTTTTCATAATTAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAA-TCGGG
20490 G-TACTCTAACCCCG
65 GATACTCTAACCCCG
* * * ** *
20504 TTA-TTTCTGA-GAGATACTTCAACCACAATTTTATTTTCAAAACA-TAAATTTTTCACAATCGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTTCACAATCGG
*
20566 GGATACTCTAACCCCA
64 GGATACTCTAACCCCG
* ** *
20582 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTTAAAACATTAATTTTTCCACAATCGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTT-CACAATCGGG
*
20647 GATACTCTAACCTCG
65 GATACTCTAACCCCG
* *
20662 TTATTTTC--GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATTGGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
*
20725 ATACTCT-ACCCTG
66 ATACTCTAACCCCG
* * * * **
20738 TTTTTTTCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAGTTAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
*
20803 ATACTCCAACCCCG
66 ATACTCTAACCCCG
* * ***
20817 TTA-TTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATCAAA
1 TTATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGG
*
20881 GATACTCCAACCCCG
65 GATACTCTAACCCCG
* * * * *
20896 TTA-TTTCTGAGGAGATACTTCAACCTCGATTTTATTTTCAAAACACTAA-TTTTCTACAATCGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTC-ACAATCGG
*
20959 GGATACTCTAACCCCA
64 GGATACTCTAACCCCG
* *
20975 TTATTTAT-GAGGGGATACTCCAACCTCGATTTTATTTCCAAAACA
1 TTATTT-TCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACA
21020 TCGATTTTCC
Statistics
Matches: 701, Mismatches: 108, Indels: 41
0.82 0.13 0.05
Matches are distributed among these distances:
76 11 0.02
77 43 0.06
78 286 0.41
79 326 0.47
80 34 0.05
81 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
ATACTCTAACCCCG
Found at i:20368 original size:157 final size:157
Alignment explanation
Indices: 20112--21019 Score: 915
Period size: 157 Copynumber: 5.8 Consensus size: 157
20102 ATTCATGTTT
* * * *
20112 TTATTTCCGAGGGGATACTTCAACCCCGGTTTTATTTCCAAAACATCAA-TTTTCACAATCGAGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
* * * * * *
20176 ATACTCCAACCTCGTTATTTTT-GAGGGGATTCTCCAACCTCGGTTTTATTTTTAAAACACTAAT
66 ATACTCC-ACCCCCTT-TTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAAT
* *
20240 TTTTCACAATCGGGGATACTTTAACTCCG
129 TTTTCACAATCGGGGATACTCTAACCCCG
* *
20269 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCATAAT-GGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
20333 TATACTCCACCCCCTTTTTTTCGAGGGGACACTCCAACCCCGATTTTATTTTCAAAACACTAATT
66 -ATACTCCACCCCCTTTTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATT
** * *
20398 TTTCACAATTAGGCATACTCCAACCCCG
130 TTTCACAATCGGGGATACTCTAACCCCG
* * * * * *
20426 TTATTTCCAAGGGGATACTTCAACCCCGGTTTT-TTTCCAAAAGACCAATTTTTCATAATTAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAA-TCGGG
* * * * * * * *
20490 G-TACTCTAACCCCGTTATTTCTGA-GAGATACTTCAACCACAATTTTATTTTCAAAACA-TAAA
65 GATACTCCACCCCCTTTTTTTC-GAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT-AA
*
20552 TTTTTCACAATCGGGGATACTCTAACCCCA
128 TTTTTCACAATCGGGGATACTCTAACCCCG
* ** **
20582 TTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTTTAAAACATTAATTTTTCCACAATCGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTT-CACAATCGGG
* * * * * * *
20647 GATACTCTAACCTCGTTATTTTC--GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAAT
65 GATACTC-CACCCCCTTTTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAAT
* *
20710 TTTTCACAATTGGGGATACTCT-ACCCTG
129 TTTTCACAATCGGGGATACTCTAACCCCG
* * * * * **
20738 TTTTTTTCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAGTTAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
* * * * * * *
20803 ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATT
66 ATACTCCACCCCCTTTTTTTC-GAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATT
*** *
20868 TTTCACAATCAAAGATACTCCAACCCCG
130 TTTCACAATCGGGGATACTCTAACCCCG
* * * * * *
20896 TTA-TTTCTGAGGAGATACTTCAACCTCGATTTTATTTTCAAAACACTAA-TTTTCTACAATCGG
1 TTATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTC-ACAATCGG
* * * * *
20959 GGATACTCTAACCCCATTATTTAT-GAGGGGATACTCCAACCTCGATTTTATTTCCAAAACA
64 GGATACTC-CACCCCCTT-TTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
21020 TCGATTTTCC
Statistics
Matches: 623, Mismatches: 107, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
154 8 0.01
155 15 0.02
156 181 0.29
157 284 0.46
158 119 0.19
159 13 0.02
160 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (157 bp):
TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
ATACTCCACCCCCTTTTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTT
TTCACAATCGGGGATACTCTAACCCCG
Found at i:34232 original size:15 final size:15
Alignment explanation
Indices: 34212--34241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34202 GTTCATCGAT
34212 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
34227 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
34242 CTCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:38342 original size:13 final size:13
Alignment explanation
Indices: 38324--38348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38314 AATTTTTTTG
38324 TGTATCGATACAA
1 TGTATCGATACAA
38337 TGTATCGATACA
1 TGTATCGATACA
38349 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38361 original size:32 final size:34
Alignment explanation
Indices: 38300--38368 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 34
38290 CGTTACAAGC
**
38300 CAATGTATCGATACAATTTTTTTGTGTATCGATA
1 CAATGTATCGATACAATTACTTTGTGTATCGATA
38334 CAATGTATCGATAC-A-TACTTTGTGTATCGATA
1 CAATGTATCGATACAATTACTTTGTGTATCGATA
38366 CAA
1 CAA
38369 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 18 0.55
33 1 0.03
34 14 0.42
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (34 bp):
CAATGTATCGATACAATTACTTTGTGTATCGATA
Found at i:38424 original size:21 final size:21
Alignment explanation
Indices: 38398--38474 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
38388 ATCCCAATGA
38398 CATGTATCGATACATCTTTTT
1 CATGTATCGATACATCTTTTT
****
38419 CATGTATCGATACAT-TGCAA
1 CATGTATCGATACATCTTTTT
38439 CATGTATCGATACATCTTTTT
1 CATGTATCGATACATCTTTTT
38460 CATGTATCGATACAT
1 CATGTATCGATACAT
38475 TGCAACATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (21 bp):
CATGTATCGATACATCTTTTT
Found at i:38444 original size:20 final size:20
Alignment explanation
Indices: 38419--38492 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
38409 ACATCTTTTT
38419 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
38439 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
38460 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
38480 CATGTATCGATAC
1 CATGTATCGATAC
38493 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:38449 original size:41 final size:41
Alignment explanation
Indices: 38397--38492 Score: 192
Period size: 41 Copynumber: 2.3 Consensus size: 41
38387 AATCCCAATG
38397 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
1 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
38438 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
1 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
38479 ACATGTATCGATAC
1 ACATGTATCGATAC
38493 TTTGAATTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (41 bp):
ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
Found at i:44369 original size:61 final size:60
Alignment explanation
Indices: 44262--44772 Score: 562
Period size: 61 Copynumber: 8.4 Consensus size: 60
44252 AACCTTTTAT
* * *
44262 CTTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCAC
1 CTTTT-AGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
44324 CTTCTGGTCCCCAAAGAGCAGGACGCCTTTCCTTTTTAAAGCCCATACAAACTT-GTGGCAA
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCAC
* * * ** *
44385 CTTTTAGTCCTTAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACATGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * ** *
44446 CTTCTAGTCCTCAAAGAGTAAGA-AACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * ** *
44505 CTTCATA-TCTTCAAAGAATAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTT-TTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
44566 CTTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* ** * * *
44627 CTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTTTTAAAGCCCATATGAA-CTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACA-CAAGTTGGTGGCAC
* * *
44687 CTTTTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
44748 CTTTTAGTCCCCAAAGAGCAGGACG
1 CTTTTAGTCCTCAAAGAGCAGGACG
44773 TGCTTTTTTT
Statistics
Matches: 377, Mismatches: 60, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
59 45 0.12
60 68 0.18
61 253 0.67
62 11 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (60 bp):
CTTTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:44426 original size:122 final size:121
Alignment explanation
Indices: 44262--44771 Score: 584
Period size: 121 Copynumber: 4.2 Consensus size: 121
44252 AACCTTTTAT
* ** *
44262 CTTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTT
1 CTTTT-AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * *
44327 CTGGTCCCCAAAGAGCAGGACGCCTTTCCTTTTTAAAGCCCATACAAACTT-GTGGCAA
65 CTAGTCCTCAAAGAGCAAGACGCCTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCAC
* ** ** *
44385 CTTTTAGTCCTTAAAGAGCAGGA-TGCTTTCTCCTTGCAAAGCCCACACATGTTGGTGGCACCTT
1 CTTTTAGTCCTCAAAGAGCAGGACACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* ** *
44449 CTAGTCCTCAAAGAGTAAGA-AACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
65 CTAGTCCTCAAAGAGCAAGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * **
44505 CTTCATA-TCTTCAAAGAATAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTT-TTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
44569 -TCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
65 CT-AGTCCTCAAAGAGCAAGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
44627 CTTTTAGTCCTCAAAGAGCAGGACACCTTTT-TTTTTAAAGCCCATATGAA-CTGGTGGCACCTT
1 CTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACA-CAAGTTGGTGGCACCTT
* * * * *
44690 TTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGTAAAGCCCACACAAGTTGGTGGCAC
65 CTAGTCCTCAAAGAGCAAGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
44748 CTTTTAGTCCCCAAAGAGCAGGAC
1 CTTTTAGTCCTCAAAGAGCAGGAC
44772 GTGCTTTTTT
Statistics
Matches: 332, Mismatches: 45, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
119 5 0.02
120 82 0.25
121 121 0.36
122 119 0.36
123 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (121 bp):
CTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
TAGTCCTCAAAGAGCAAGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:44599 original size:181 final size:181
Alignment explanation
Indices: 44268--44772 Score: 597
Period size: 181 Copynumber: 2.8 Consensus size: 181
44258 TTATCTTTTC
** *
44268 AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTGGTC
1 AGTCCTCAAAGAGCAAGACACC-TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCT-ATC
* * * * *
44333 CCCAAAGAGCAGGACGCC-TTTCCTTTTTAAAGCCCATACAAACTT-GTGGCAACTTTTAGTCCT
64 CTCAAAGAGCAGGACACCTTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTTAGTCCT
* * * *
44396 TAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACATGTTGGTGGCACCTTCT
127 CAAAGAGCAGGACGCCTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
44451 AGTCCTCAAAGAGTAAGA-AACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCATATCT
1 AGTCCTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTC-TATCC
** *
44515 TCAAAGAATAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
65 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
* ** *
44580 AGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
130 AGAGCAGGACGCCTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** * * *
44632 AGTCCTCAAAGAGCAGGACACCTTTTTTTTTAAAGCCCATATGAA-CTGGTGGCACCTTTTAGTC
1 AGTCCTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCATA-CAAGTTGGTGGCACCTTCTA-TC
** * *
44696 CTCAAAGAGCAGGA-TGCTTTCTCCTTGTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCC
64 CTCAAAGAGCAGGACACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
44760 AAAGAGCAGGACG
128 AAAGAGCAGGACG
44773 TGCTTTTTTT
Statistics
Matches: 273, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
180 4 0.01
181 149 0.55
182 101 0.37
183 19 0.07
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (181 bp):
AGTCCTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTATCCT
CAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
GAGCAGGACGCCTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:44847 original size:42 final size:41
Alignment explanation
Indices: 44754--44850 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
44744 GCACCTTTTA
* **
44754 GTCCCCAAAGAGCAGGACGTGCTTTTTTTCCTTTACCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTTTTTCCTTTACCCTTT
* * * *
44795 ATCCTAAAAGAGTAGGACGCACTTTATTTT-CTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-TTTTCCTTTAC-CCTTT
44837 GTCCTCAAAGAGCA
1 GTCCTCAAAGAGCA
44851 AGACACATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 24 0.55
42 20 0.45
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACGCACTTTTTTTCCTTTACCCTTT
Found at i:48034 original size:79 final size:79
Alignment explanation
Indices: 47945--48687 Score: 847
Period size: 79 Copynumber: 9.4 Consensus size: 79
47935 CACATTTTTA
* ** * * *
47945 TTTCTGAGGGGATACTCTAACCTTGGTTTTATTTCCAAAATACTAGTTTTTCACAATCGGGGATA
1 TTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATA
48010 CTCCAACCCCGTTAT
65 CTCCAACCCCGTTAT
48025 TTTCGAGGGGTATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATA
1 TTTCGAGGGG-ATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATA
48090 CTCCAA-CCCGTTAT
65 CTCCAACCCCGTTAT
* *
48104 TTTCGAGGGGATACTCCAACCGCGATTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATAC
1 TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATAC
*
48169 TCTAACCCCGTTAT
66 TCCAACCCCGTTAT
* * * **
48183 TTTCGAGGGGATACTCCAACCGCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATAC
1 TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATAC
*
48248 TCTAACCCCGTTAT
66 TCCAACCCCGTTAT
* * * * * * *
48262 TTTTGAGGGGATACTACAACCCTGGTTTTATTTACAAAACAATAATTTTTCATAATC-GAGGAGA
1 TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAG-GGATA
48326 CTCCAACCCCGTTAT
65 CTCCAACCCCGTTAT
* * *** * * * *
48341 TTGCAAGGGGATACTCCAACCCTAATTTTATTTCTAAAATACTAATTTTTCATAATCGGGGATAC
1 TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATAC
*
48406 TCCAACCCTGTTAT
66 TCCAACCCCGTTAT
* * * *
48420 TTAT-GAAGGGATACTCCAACTCCAGTTTTATTTCCAAAACACCT-ATTTTTCACAATCAAGGAT
1 TT-TCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CTAATTTTTCACAATCAGGGAT
48483 ACTCCAACCCCGTTA-
64 ACTCCAACCCCGTTAT
* * * *
48498 TTTCTGAGGGGATACTCCAACCTCGGCTTTATTTTCAAAACACTAATTTTTCATAATCAGGGATA
1 TTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATA
** *
48563 CTTTAACCCTGTTAT
65 CTCCAACCCCGTTAT
* * ** * * * *
48578 TTTTGAGGGGATACTCTAACCCCAATTTTATTTCCAAAACA-TCGATTTTCCA-ACATTAAGGAT
1 TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTTCACA-ATCAGGGAT
*
48641 GCTCCAACCCCGTTA-
64 ACTCCAACCCCGTTAT
* *
48656 TTTCTGAGAGGG-TACTCCGACCCCGTTTTTAT
1 TTTC-GAG-GGGATACTCCAACCCCGGTTTTAT
48688 CTCTAAAATA
Statistics
Matches: 570, Mismatches: 79, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.00
78 67 0.12
79 435 0.76
80 67 0.12
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATAC
TCCAACCCCGTTAT
Found at i:53642 original size:52 final size:52
Alignment explanation
Indices: 53573--53692 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
53563 AAAATTTATT
*
53573 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
53625 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
53677 TGCATGTATCGATACA
1 TGCATGTATCGATACA
53693 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:53803 original size:33 final size:33
Alignment explanation
Indices: 53766--53832 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
53756 AGTAGCTTAA
53766 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
53799 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
53832 A
1 A
53833 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:53806 original size:13 final size:13
Alignment explanation
Indices: 53788--53812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53778 CAAAAAAATA
53788 TGTATCGATACAT
1 TGTATCGATACAT
53801 TGTATCGATACA
1 TGTATCGATACA
53813 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57553 original size:51 final size:51
Alignment explanation
Indices: 57505--57680 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 51
57495 TAAAAGATTG
* * * *
57505 ATAGAGTCAATTTTTCTTTTTATCTACTTCATTCAG-TTATATGAAAGATCA
1 ATAGAGTTAATTTTTCTTTTTGTCTACTTCATT-AGATTACAAGAAAGATCA
** ** * * *
57556 ACGGAGTTAGGTTTTCTCTTTGTCTACTTCATTTGATTACAAGGAAGATCA
1 ATAGAGTTAATTTTTCTTTTTGTCTACTTCATTAGATTACAAGAAAGATCA
* * * * **
57607 ATAGAGTTAATTTTTCTTTTTGTCTACTTCATTTGGTCATATCAAAGATCA
1 ATAGAGTTAATTTTTCTTTTTGTCTACTTCATTAGATTACAAGAAAGATCA
*
57658 AT-GAAGTTAATTTTTCTTCTTGT
1 ATAG-AGTTAATTTTTCTTTTTGT
57681 TCGCTTCATT
Statistics
Matches: 100, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
50 2 0.02
51 98 0.98
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (51 bp):
ATAGAGTTAATTTTTCTTTTTGTCTACTTCATTAGATTACAAGAAAGATCA
Found at i:65403 original size:28 final size:29
Alignment explanation
Indices: 65345--65471 Score: 142
Period size: 28 Copynumber: 4.5 Consensus size: 29
65335 CAAGCTAGTG
*
65345 TGGGCTTT--AAAGCGGTGCCACT-ACCTCA
1 TGGGCTTTGAAAAG-GGTGCCACTGA-CTTA
*
65373 TGGGCTTT-AAAAGGGTGCCACTGATTTA
1 TGGGCTTTGAAAAGGGTGCCACTGACTTA
*
65401 TGGGCTTTGAAAA-GGTGCCA-TGAACTTG
1 TGGGCTTTGAAAAGGGTGCCACTG-ACTTA
*
65429 TGGGCTTTGAAAA-GGTGGCACTGACTTA
1 TGGGCTTTGAAAAGGGTGCCACTGACTTA
65457 TGGGCTTTGAAAAGG
1 TGGGCTTTGAAAAGG
65472 ATTGGTAGTC
Statistics
Matches: 87, Mismatches: 6, Indels: 11
0.84 0.06 0.11
Matches are distributed among these distances:
27 2 0.02
28 73 0.84
29 12 0.14
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGCTTTGAAAAGGGTGCCACTGACTTA
Found at i:65536 original size:36 final size:36
Alignment explanation
Indices: 65447--65968 Score: 193
Period size: 36 Copynumber: 14.6 Consensus size: 36
65437 GAAAAGGTGG
* * * *
65447 CACTGAC-T-TATGGGCTTTGAAAAGGATTGGTAGT
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* *
65481 CACCGACTTG-AGTGAACTTT-AGAAAGGTTTGGTTGC
1 CACTGACTTGTA-TGGACTTTGA-AAAGGTTTGGTTGC
* * * *
65517 CACTGAGTTGTACGGACTTTGAAAAAGGTCTGCTTGC
1 CACTGACTTGTATGGACTTTG-AAAAGGTTTGGTTGC
** *
65554 CACCAACTTGTTTGGACTTTGAAAAGGTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * * *
65590 AATTGACTTGTGTGGACTTTGAAAAGGTTTAGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
** * * * * *
65626 CACCAAGTTGTGTGGACTTTGAAAAAGTCTGGTTAC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * * * * * * ***
65662 CGCCGACTTATGTAGACTTTGAATAGGGTT--CCAC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * *
65696 CAACTTGTGCCATCGACTTCTGTAGACTTTGAAAAGGTTTGGTTGC
1 C-AC---TGAC-TTG---TATG--GACTTTGAAAAGGTTTGGTTGC
* * * * * *
65742 CACTAACTTATGTAGACTTTGAATA-G---GATT-C
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* *
65773 CA-TCCACTTGTGTGGACTTTGAAAAGGTTTGGTTGC
1 CACT-GACTTGTATGGACTTTGAAAAGGTTTGGTTGC
*
65809 CACTGACTTGTGTGGACTTTGAAAAGGTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * ** *
65845 CA-TCAGTT-TATGTGGACTTTGAATGGGTTTAGTTGC
1 CACTGACTTGTA--TGGACTTTGAAAAGGTTTGGTTGC
* * * * *
65881 CACTAACCTGTGTGGAATTTG-AATGG---GGTAT--
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGT-TGC
** ** *
65912 CACCAACTCATGTGGACTTTGAAAAGGTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
*
65948 CACTGACTTGTGTGGACTTTG
1 CACTGACTTGTATGGACTTTG
65969 GCTGGGGTGT
Statistics
Matches: 356, Mismatches: 95, Indels: 72
0.68 0.18 0.14
Matches are distributed among these distances:
30 1 0.00
31 36 0.10
32 10 0.03
33 1 0.00
34 11 0.03
35 18 0.05
36 216 0.61
37 33 0.09
38 6 0.02
39 1 0.00
41 1 0.00
42 4 0.01
44 14 0.04
45 2 0.01
46 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (36 bp):
CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
Found at i:65975 original size:67 final size:67
Alignment explanation
Indices: 65720--66010 Score: 291
Period size: 67 Copynumber: 4.3 Consensus size: 67
65710 GACTTCTGTA
* * * * **
65720 GACTTTGAAAAGGTTTGGTTGCCACTAACTTATGTAGACTTTGAATAGGATTCCATCC-ACTTGT
1 GACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTGAATGGGGTTCCA-CCAACTCAT
65784 GTG
65 GTG
* * * **
65787 GACTTTGAAAAGGTTTGGTTGCCACTGACTTGTGTGGACTTTGAAAAGGTTTGGTTGCCATCAGT
1 GACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTG-AATGG---GGTT-CCACCAAC
*
65852 TTATGTG
61 TCATGTG
** * * *
65859 GACTTTGAATGGGTTTAGTTGCCACTAACCTGTGTGGAATTTGAATGGGGTAT-CACCAACTCAT
1 GACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTGAATGGGGT-TCCACCAACTCAT
65923 GTG
65 GTG
* ** *
65926 GACTTTGAAAAGGTTTGGTTGCCACTGACTTGTGTGGACTTTGGCTGGGGTGT-CACCAACTCCT
1 GACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTGAATGGGGT-TCCACCAACTCAT
*
65990 GCG
65 GTG
65993 GACTTTGAAAAGGTTTGG
1 GACTTTGAAAAGGTTTGG
66011 CACGGGTGTC
Statistics
Matches: 185, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
67 124 0.67
68 6 0.03
69 1 0.01
71 8 0.04
72 46 0.25
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (67 bp):
GACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTGAATGGGGTTCCACCAACTCATG
TG
Found at i:68033 original size:44 final size:44
Alignment explanation
Indices: 67984--68076 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
67974 TTGTTATTTT
*
67984 GGTTTAATTAAGAATTGGGCTTGTTAGCAGAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCAGAATAAGTCCATTAA
*
68028 GGTTTAATTAAGAATTGGGCTTGTTAGCATAATAAGTCCATTAA
1 GGTTTAATTAAGAATTGGGCTTGTTAGCAGAATAAGTCCATTAA
68072 GGTTT
1 GGTTT
68077 GTGTTTGTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.37
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTTGTTAGCAGAATAAGTCCATTAA
Found at i:69841 original size:13 final size:13
Alignment explanation
Indices: 69823--69848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69813 CAATTTTTTG
69823 TGTATCGATACAT
1 TGTATCGATACAT
69836 TGTATCGATACAT
1 TGTATCGATACAT
69849 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69913 original size:21 final size:21
Alignment explanation
Indices: 69887--69962 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
69877 CTGCCAAGAA
69887 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
69908 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
69928 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
69949 ATGTATCGATACAT
1 ATGTATCGATACAT
69963 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:69932 original size:20 final size:20
Alignment explanation
Indices: 69907--69980 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
69897 ACATCTTTTT
69907 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
69927 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
69948 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
69968 CATGTATCGATAC
1 CATGTATCGATAC
69981 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:69944 original size:41 final size:41
Alignment explanation
Indices: 69887--69980 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
69877 CTGCCAAGAA
69887 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
69928 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
69969 ATGTATCGATAC
1 ATGTATCGATAC
69981 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:72449 original size:13 final size:13
Alignment explanation
Indices: 72431--72469 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
72421 ATAATCACCC
*
72431 TGTATCGATACAG
1 TGTATCGATACAA
72444 TGTATCGATACAA
1 TGTATCGATACAA
72457 TGTATCGATACAA
1 TGTATCGATACAA
72470 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:72480 original size:20 final size:20
Alignment explanation
Indices: 72455--72533 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
72445 GTATCGATAC
72455 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
72475 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
72500 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
72520 CATGTATCGATACA
1 AATGTATCGATACA
72534 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:72684 original size:8 final size:8
Alignment explanation
Indices: 72671--72702 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
72661 CATCATTCAA
72671 CACAAAAT
1 CACAAAAT
72679 CACAAAAT
1 CACAAAAT
72687 CACAAAAT
1 CACAAAAT
72695 CACAAAAT
1 CACAAAAT
72703 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:77023 original size:21 final size:20
Alignment explanation
Indices: 76998--77041 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
76988 TTGCAAGTTG
* *
76998 AAATAAAGAAGTTGGCTATGA
1 AAATAAAG-AGTTAGCTAAGA
*
77019 AAATAATGAGTTAGCTAAGA
1 AAATAAAGAGTTAGCTAAGA
77039 AAA
1 AAA
77042 ATGAACACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.52, C:0.05, G:0.20, T:0.23
Consensus pattern (20 bp):
AAATAAAGAGTTAGCTAAGA
Done.