Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 20 of 25
Found at i:2873418 original size:79 final size:77
Alignment explanation
Indices: 2873285--2873969 Score: 524
Period size: 79 Copynumber: 8.7 Consensus size: 77
2873275 TCATTCATAT
* * * **
2873285 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATGCTCCAACCCTATTATTTCAAAGGGGA
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTC-AAGGGGA
* *
2873350 TACTCTAACCGCGG
65 TACTCCAACC-CAG
* * ** ** *
2873364 TTTTATTTCTAAAATATTAATTTTTCACAATCGAAGATACTCCAACTTCGTTATTTTCAAAGGGA
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCAAGGGGA
* *
2873429 TATTCCAACCCCG
65 TACTCCAACCCAG
* **
2873442 ATTTTATTT-TCAAAATA-TCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAGG
1 -TTTTATTTCT-AAAATACT-GATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCAAGG
2873505 GGATACTCCAACCCCAG
62 GGATACTCCAA-CCCAG
* * * * * * *
2873522 TTTTATTT-TCAAAACACCGATTTTCCACCATC-AGGATACTCGAACCCCGTTATTTCTAGGGGA
1 TTTTATTTCT-AAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCAAGGGGA
* *
2873585 AACTCCAATCCCTG
65 TACTCCAA-CCCAG
* * * * * * * * **
2873599 TTTTATTTCCAAAACACTAATTTTTCACCATCGGGAATACTCTAATCCTGTTATTTTTTAGGGGA
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCAAGGGGA
*
2873664 TACTTCAACCCTAG
65 TACTCCAACCC-AG
* * * * * *
2873678 TTTTATTTCCAAAACACTAATTTTTTACAATCGGGGATACTCCAACCTCGTTATTTTTGAA-GGG
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTA--TTTCAAGGGG
2873742 ATACTCCAACCCTAG
64 ATACTCCAACCC-AG
* * * * * *
2873757 TTTTATTCCCAAAGTACTGATTTTTCACAATCGGAGATACTCCAACCTCGTTATTTC-CGAGGGA
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCAAG-GGGA
* *
2873821 TACTCTAACCCCGG
65 TACTCCAA-CCCAG
** * * * *
2873835 CCTTATTTCTAAAACA-TCAATTTTTCACAAT-GGGGATACTCCAACCCCGTTATTTTCGAGAGG
1 TTTTATTTCTAAAATACT-GATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCAAGGGG
*
2873898 ATACTCTAACCCTAG
64 ATACTCCAACCC-AG
* * * ***
2873913 TTTTATTTCCAAAATA-TCGATATTTCACCATTAAGGATACTCCAACCCCGTTATTTC
1 TTTTATTTCTAAAATACT-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTC
2873970 CGAGAAAATA
Statistics
Matches: 495, Mismatches: 92, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
77 73 0.15
78 117 0.24
79 292 0.59
80 13 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (77 bp):
TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCAAGGGGAT
ACTCCAACCCAG
Found at i:2873653 original size:156 final size:155
Alignment explanation
Indices: 2873285--2873926 Score: 542
Period size: 156 Copynumber: 4.1 Consensus size: 155
2873275 TCATTCATAT
* * * * * * * * ***
2873285 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATGCTCCAACCCTATTATTTCAAAGGGGA
1 TTTTATTTCCAAAACACTAATTTTTCACAATCGGGAATACTCCAA-CCTGTTATTTTTGAGGGGA
* * * * ** * **
2873350 TACTCTAACCGCGGTTTTA-TTTCTAAAATATTAATTTTTCACAATCGAAGATACTCCAACTTCG
65 TACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTTCACAATCG-GGATACTCCAACCCCG
* * * *
2873414 TTATTTTCAAAGGGATATTCCAACCC-CG
128 TTA-TTTCTAGGGGATACTCCAACCCTAG
* * * * **
2873442 ATTTTATTTTCAAAATA-TCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGG
1 -TTTTATTTCCAAAACACT-AATTTTTCACAATCGGGAATACTCCAA-CCTGTTATTTTTGAGGG
* * * * *
2873506 GATACTCCAACCCCAGTTTTATTTTCAAAACACCGATTTTCCACCATCAGGATACTCGAACCCCG
63 GATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGATACTCCAACCCCG
*
2873571 TTATTTCTAGGGGAAACTCCAATCCCT-G
128 TTATTTCTAGGGGATACTCCAA-CCCTAG
* * *
2873599 TTTTATTTCCAAAACACTAATTTTTCACCATCGGGAATACTCTAATCCTGTTATTTTTTAGGGGA
1 TTTTATTTCCAAAACACTAATTTTTCACAATCGGGAATACTCCAA-CCTGTTATTTTTGAGGGGA
* * * * * *
2873664 TACTTCAACCCTAGTTTTATTTCCAAAACACTAATTTTTTACAATCGGGGATACTCCAACCTCGT
65 TACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCACAATC-GGGATACTCCAACCCCGT
* *
2873729 TATTTTTGAAGGGATACTCCAACCCTAG
129 TATTTCT-AGGGGATACTCCAACCCTAG
* ** * **
2873757 TTTTATTCCCAAAGTACTGATTTTTCACAATC-GGAGATACTCCAACCTCGTTATTTCCGA-GGG
1 TTTTATTTCCAAAACACTAATTTTTCACAATCGGGA-ATACTCCAACCT-GTTATTTTTGAGGGG
* * ** * *
2873820 ATACTCTAACCCCGGCCTTA-TTTCTAAAACATCAATTTTTCACAATGGGGATACTCCAACCCCG
64 ATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTTCACAATCGGGATACTCCAACCCCG
* * *
2873884 TTATTTTCGAGAGGATACTCTAACCCTAG
128 TTA-TTTCTAGGGGATACTCCAACCCTAG
2873913 TTTTATTTCCAAAA
1 TTTTATTTCCAAAA
2873927 TATCGATATT
Statistics
Matches: 393, Mismatches: 79, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
156 157 0.40
157 90 0.23
158 142 0.36
159 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (155 bp):
TTTTATTTCCAAAACACTAATTTTTCACAATCGGGAATACTCCAACCTGTTATTTTTGAGGGGAT
ACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGATACTCCAACCCCGTTA
TTTCTAGGGGATACTCCAACCCTAG
Found at i:2873941 original size:314 final size:313
Alignment explanation
Indices: 2873285--2873969 Score: 749
Period size: 314 Copynumber: 2.2 Consensus size: 313
2873275 TCATTCATAT
* * *
2873285 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATGCTCCAACCCTATTATTTCAAAGGGGA
1 TTTTATTTCCAAAATACTGATTTT-CACCATCGGGAATACTCCAACCCTATTATTTCAAAGGGGA
* * * * *
2873350 TACTCTAACCGCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGAAGATACTCCAACTTCGT
65 TACTCTAACCGCAGTTTTATTTCCAAAACACTAATTTTTCACAATCGAAGATACTCCAACCTCGT
* * ** *
2873415 TATTTTCAAAGGGATATTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTCACAATCGGGGA
130 TATTTTCAAAGGGATACTCCAACCCAGATTTTATTCCCAAAATATCGATTTTTCACAATCGGAGA
** ** *
2873480 TACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCGATTT
195 TACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTCAAAACACCAATTT
* * * *
2873545 TCCACCATCAGGATACTCGAACCCCGTTATTTCTAGGGGAAACTCCAATCCCTG
260 TCCACAATCAGGATACTCCAACCCCGTTATTTCGAGAGGAAACTCCAATCCCTG
* * * * * ***
2873599 TTTTATTTCCAAAACACTAATTTTTCACCATCGGGAATACTCTAATCCTGTTATTTTTTAGGGGA
1 TTTTATTTCCAAAATACTGA-TTTTCACCATCGGGAATACTCCAACCCTATTATTTCAAAGGGGA
* **
2873664 TACT-TCAACC-CTAGTTTTATTTCCAAAACACTAATTTTTTACAATCGGGGATACTCCAACCTC
65 TACTCT-AACCGC-AGTTTTATTTCCAAAACACTAATTTTTCACAATCGAAGATACTCCAACCTC
** *
2873727 GTTATTTTTGAAGGGATACTCCAACCCTAG-TTTTATTCCCAAAGTA-CTGATTTTTCACAATCG
128 GTTATTTTCAAAGGGATACTCCAACCC-AGATTTTATTCCCAAAATATC-GATTTTTCACAATCG
* * * * *
2873790 GAGATACTCCAACCTCGTTATTTCCGA-GGGATACTCTAACCCCGGCCTTA-TTTCTAAAACATC
191 GAGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTC-AAAACACC
* ** * *
2873853 AATTTTTCACAATGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCTAA-CCCTAG
255 AATTTTCCACAATCAGGATACTCCAACCCCGTTA-TTTCGAGAGGAAACTCCAATCCCT-G
** **
2873913 TTTTATTTCCAAAATA-TCGATATTTCACCATTAAGG-ATACTCCAACCCCGTTATTTC
1 TTTTATTTCCAAAATACT-GAT-TTTCACCA-TCGGGAATACTCCAACCCTATTATTTC
2873970 CGAGAAAATA
Statistics
Matches: 306, Mismatches: 54, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
312 4 0.01
313 63 0.21
314 231 0.75
315 8 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (313 bp):
TTTTATTTCCAAAATACTGATTTTCACCATCGGGAATACTCCAACCCTATTATTTCAAAGGGGAT
ACTCTAACCGCAGTTTTATTTCCAAAACACTAATTTTTCACAATCGAAGATACTCCAACCTCGTT
ATTTTCAAAGGGATACTCCAACCCAGATTTTATTCCCAAAATATCGATTTTTCACAATCGGAGAT
ACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTCAAAACACCAATTTT
CCACAATCAGGATACTCCAACCCCGTTATTTCGAGAGGAAACTCCAATCCCTG
Found at i:2873953 original size:235 final size:234
Alignment explanation
Indices: 2873285--2873968 Score: 734
Period size: 235 Copynumber: 2.9 Consensus size: 234
2873275 TCATTCATAT
* * * *
2873285 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATGCTCCAACCCTATTATTTCAAAGGGGA
1 TTTTATTTCCAAAATACTGATTTTCCACCATC-GGGATACTCCAACCC-GTTATTTCCAAGGGGA
* * * ** **
2873350 TACTCTAACCGCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGAAGATACTCCAACTTCGT
64 TACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGT
* * * * *
2873415 TATTTTCAAAGGGATATTCCAACCC-CGATTTTATTTTCAAAATATCGATTTTTCACAATCGGGG
129 TATTTTCAGA-GGATACTCTAACCCTAG-TTTTATTTCCAAAATATCGATTTTTCACAATCGGGG
* *
2873479 ATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCAG
192 ATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAG
* * * * * * *
2873522 TTTTATTTTCAAAACACCGATTTTCCACCATCAGGATACTCGAACCCCGTTATTT-CTAGGGGAA
1 TTTTATTTCCAAAATACTGATTTTCCACCATCGGGATACTCCAA-CCCGTTATTTCCAAGGGGAT
* * * * * * * * *
2873586 ACTCCAATCCCTGTTTTATTTCCAAAACA-CTAATTTTTCACCATCGGGAATACTCTAATCCTGT
65 ACTCTAACCCCGGTTTTATTTCTAAAACATC-AATTTTTCACAATCGGGGATACTCCAACCCCGT
* * * * *
2873650 TATTTTTTAGGGGATACT-TCAACCCTAGTTTTATTTCCAAAACA-CTAATTTTTTACAATCGGG
129 TA-TTTTCAGAGGATACTCT-AACCCTAGTTTTATTTCCAAAATATC-GATTTTTCACAATCGGG
* *
2873713 GATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCTAG
191 GATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAG
* * * * *
2873757 TTTTATTCCCAAAGTACTGATTTTTCACAATCGGAGATACTCCAACCTCGTTATTTCCGA-GGGA
1 TTTTATTTCCAAAATACTGATTTTCCACCATCGG-GATACTCCAACC-CGTTATTTCCAAGGGGA
**
2873821 TACTCTAACCCCGGCCTTATTTCTAAAACATCAATTTTTCACAAT-GGGGATACTCCAACCCCGT
64 TACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGT
* * ***
2873885 TATTTTCGAGAGGATACTCTAACCCTAGTTTTATTTCCAAAATATCGATATTTCACCATTAAGGA
129 TATTTTC-AGAGGATACTCTAACCCTAGTTTTATTTCCAAAATATCGATTTTTCACAATCGGGGA
2873950 TACTCCAACCCCGTTATTT
193 TACTCCAACCCCGTTATTT
2873969 CCGAGAAAAT
Statistics
Matches: 360, Mismatches: 74, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
234 5 0.01
235 242 0.67
236 79 0.22
237 34 0.09
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (234 bp):
TTTTATTTCCAAAATACTGATTTTCCACCATCGGGATACTCCAACCCGTTATTTCCAAGGGGATA
CTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA
TTTTCAGAGGATACTCTAACCCTAGTTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATAC
TCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAG
Found at i:2874038 original size:79 final size:79
Alignment explanation
Indices: 2873792--2874024 Score: 204
Period size: 79 Copynumber: 3.0 Consensus size: 79
2873782 CACAATCGGA
* ** ** ** * * *
2873792 GATACTCCAACCTCGTTATTTCCGAG-GGATACTCTAACCCCGGCCTTATTTCTAAAACATCAAT
1 GATACTCCAACCCCGTTATTTCCGAGAAAATACTCTAACCCTAGTTTTATCTCCAAAATATCAAT
* *
2873856 TTTTCACAATGG--G
66 ATTTCACCA-GGAAG
* ** * *
2873869 GATACTCCAACCCCGTTATTTTCGAGAGGATACTCTAACCCTAGTTTTATTTCCAAAATATCGAT
1 GATACTCCAACCCCGTTATTTCCGAGAAAATACTCTAACCCTAGTTTTATCTCCAAAATATCAAT
**
2873934 ATTTCACCATTAAG
66 ATTTCACCAGGAAG
* * *
2873948 GATACTCCAACCCCGTTATTTCCGAGAAAATACTCTGATCCC-ATTTTTATCTCCAAAATATTAA
1 GATACTCCAACCCCGTTATTTCCGAGAAAATACTCT-AACCCTAGTTTTATCTCCAAAATATCAA
* *
2874012 TTTTTCATCAGGA
65 TATTTCACCAGGA
2874025 GATGTATTCC
Statistics
Matches: 127, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
77 24 0.19
78 38 0.30
79 61 0.48
80 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTCCGAGAAAATACTCTAACCCTAGTTTTATCTCCAAAATATCAAT
ATTTCACCAGGAAG
Found at i:2874038 original size:314 final size:313
Alignment explanation
Indices: 2873363--2874038 Score: 665
Period size: 314 Copynumber: 2.2 Consensus size: 313
2873353 TCTAACCGCG
* * *
2873363 GTTTTATTTCTAAAATATTAATTTTTCA-CAATCGA-AGATACTCCAACTTCGTTATTTTCAAAG
1 GTTTTATTTCCAAAATATTAATTTTTCATC-A-GGAGAG-TACTCCAACCTCGTTATTTTCAAAG
* * ** *
2873426 GGATATTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTCACAATCGGGGATACTCCAACCC
63 GGATACTCCAACCCAGATTTTATTCCCAAAATATCGATTTTTCACAATCGGAGATACTCCAACCC
** ** * *
2873491 CATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCGATTTTCCACCATCAG
128 CATTATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTCAAAACACCAATTTTCCACAATCAG
* * * *
2873556 GATACTCGAACCCCGTTATTTCTAGGGGAAACTCCAATCCCTGTTTTATTTCCAAAACACTAATT
193 GATACTCCAACCCCGTTATTTCGAGAGGAAACTCCAATCCCTGTTTTATTTCCAAAACACTAATA
** * * * *** ***
2873621 TTTCACCATCGGGAATACTCTAATCCTGTTATTTTTTAGGGGATACTTCAACCCTA
258 TTTCACCATAAGGAATACTCCAACCCCGTTATTTCCGAGAAAATACTTCAACCCTA
* * * **
2873677 GTTTTATTTCCAAAACACTAATTTTTTACAATC-GGGGA-TACTCCAACCTCGTTATTTTTGAAG
1 GTTTTATTTCCAAAATATTAA-TTTTT-C-ATCAGGAGAGTACTCCAACCTCGTTATTTTCAAAG
*
2873740 GGATACTCCAACCCTAG-TTTTATTCCCAAAGTA-CTGATTTTTCACAATCGGAGATACTCCAAC
63 GGATACTCCAACCC-AGATTTTATTCCCAAAATATC-GATTTTTCACAATCGGAGATACTCCAAC
* * * * * *
2873803 CTCGTTATTTCCGA-GGGATACTCTAACCCCGGCCTTA-TTTCTAAAACATCAATTTTTCACAAT
126 CCCATTATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTC-AAAACACCAATTTTCCACAAT
** * * *
2873866 GGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCTAA-CCCTAGTTTTATTTCCAAAATA-
190 CAGGATACTCCAACCCCGTTA-TTTCGAGAGGAAACTCCAATCCCT-GTTTTATTTCCAAAACAC
* * *
2873929 TCGATATTTCACCATTAAGG-ATACTCCAACCCCGTTATTTCCGAGAAAATACTCTGATCCC-A
253 T-AATATTTCACCA-TAAGGAATACTCCAACCCCGTTATTTCCGAGAAAATACT-TCAACCCTA
* * *
2873991 TTTTTATCTCCAAAATATTAATTTTTCATCAGGAGATGTATTCCAACC
1 GTTTTATTTCCAAAATATTAATTTTTCATCAGGAGA-GTACTCCAACC
2874039 GCATACCCCG
Statistics
Matches: 291, Mismatches: 55, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
311 3 0.01
312 9 0.03
313 65 0.22
314 195 0.67
315 15 0.05
316 2 0.01
317 1 0.00
318 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (313 bp):
GTTTTATTTCCAAAATATTAATTTTTCATCAGGAGAGTACTCCAACCTCGTTATTTTCAAAGGGA
TACTCCAACCCAGATTTTATTCCCAAAATATCGATTTTTCACAATCGGAGATACTCCAACCCCAT
TATTTCCGAGGGGATACTCCAACCCCAGCCTTATTTTCAAAACACCAATTTTCCACAATCAGGAT
ACTCCAACCCCGTTATTTCGAGAGGAAACTCCAATCCCTGTTTTATTTCCAAAACACTAATATTT
CACCATAAGGAATACTCCAACCCCGTTATTTCCGAGAAAATACTTCAACCCTA
Found at i:2875701 original size:22 final size:23
Alignment explanation
Indices: 2875660--2875707 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2875650 AAGCTTTTAA
*
2875660 TAATTAAAAAATATTTTAAAT-T
1 TAATTAAAAAATATTATAAATAT
2875682 TAATTATAAAAATA-TATAAATAT
1 TAATTA-AAAAATATTATAAATAT
2875705 TAA
1 TAA
2875708 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTAAAAAATATTATAAATAT
Found at i:2876664 original size:17 final size:19
Alignment explanation
Indices: 2876633--2876676 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
2876623 AATTTACATC
2876633 ATATAAAT-TATTAAT-TT
1 ATATAAATATATTAATATT
2876650 ATATAAATATA-TAATATT
1 ATATAAATATATTAATATT
2876668 -T-TAAATATA
1 ATATAAATATA
2876677 ATTATAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 13 0.52
18 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATAAATATATTAATATT
Found at i:2881679 original size:14 final size:14
Alignment explanation
Indices: 2881660--2881699 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2881650 TTCATATAAA
2881660 TTTTTTAAAAATAT
1 TTTTTTAAAAATAT
* *
2881674 TTTTTTAAAATTTT
1 TTTTTTAAAAATAT
*
2881688 TTTTTTACAAAT
1 TTTTTTAAAAAT
2881700 GTATTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTAAAAATAT
Found at i:2881692 original size:13 final size:13
Alignment explanation
Indices: 2881659--2881691 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2881649 CTTCATATAA
*
2881659 ATTTTTTAAAAAT
1 ATTTTTTTAAAAT
2881672 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
2881685 -TTTTTTT
1 ATTTTTTT
2881692 TTACAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTTAAAAT
Found at i:2882295 original size:23 final size:23
Alignment explanation
Indices: 2882252--2882295 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2882242 TTTAAAGTTA
* *
2882252 TTTTATTTTAAGGTATGATTTAT
1 TTTTATTTTAAGATATAATTTAT
2882275 TTTTATTTGTAAGAT-TAATTT
1 TTTTATTT-TAAGATATAATTT
2882296 GATTAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (23 bp):
TTTTATTTTAAGATATAATTTAT
Found at i:2882395 original size:70 final size:70
Alignment explanation
Indices: 2882298--2882517 Score: 221
Period size: 70 Copynumber: 3.1 Consensus size: 70
2882288 ATTAATTTGA
* * * **
2882298 TTAAAGTTATTATTTATTTCTATTTGTAGAAGTTTAAATTTATTTTTATTTGATTATACAGGTTT
1 TTAAAG-TATAATTTATTT-TATTTGTAAAAATTTAAATTTATTTTTATTTGATTATACAAATTT
2882363 -AAATTT
64 AAAATTT
* * * *
2882369 TTAAAGTATAATTTATTTTGATTTGTAAAAATTTAAATATATTTTT-TTAGGTATGATATAAATT
1 TTAAAGTATAATTTATTTT-ATTTGTAAAAATTTAAATTTATTTTTATT-TG-ATTATACAAATT
2882433 TAAAATTT
63 TAAAATTT
* * * *
2882441 TGATAGTATAATTTATTTTTATTTATAAAAATTTAAGATTTATTTTTTAATTTGATTATA-AAAC
1 TTAAAGTATAATTTA-TTTTATTTGTAAAAATTTAA-ATTTA-TTTTT-ATTTGATTATACAAAT
2882505 TTAAAATTT
62 TTAAAATTT
2882514 TTAA
1 TTAA
2882518 GATCGGTATT
Statistics
Matches: 122, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
69 3 0.02
70 35 0.29
71 15 0.12
72 34 0.28
73 22 0.18
74 10 0.08
75 1 0.01
76 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.54
Consensus pattern (70 bp):
TTAAAGTATAATTTATTTTATTTGTAAAAATTTAAATTTATTTTTATTTGATTATACAAATTTAA
AATTT
Found at i:2882501 original size:72 final size:71
Alignment explanation
Indices: 2882300--2882514 Score: 222
Period size: 72 Copynumber: 3.0 Consensus size: 71
2882290 TAATTTGATT
* * * * *
2882300 AAAGTTATTATTTATTTCTATTTGTAGAAGTTTAAATTTA-TTTTT-ATTTGATTATACAGGTTT
1 AAAG-TATAATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATTTGATTATA-A-ATTT
*
2882363 -AAATTTTT
63 AAAATTTTG
* * * *
2882371 AAAGTATAATTTATTTTGATTTGTAAAAATTTAAATATATTTTTTTAGGTATGA-TATAAATTTA
1 AAAGTATAATTTATTTTTATTTGTAAAAATTTAAATTTA-TTTTTTA-ATTTGATTATAAATTTA
2882435 AAATTTTG
64 AAATTTTG
* * *
2882443 ATAGTATAATTTATTTTTATTTATAAAAATTTAAGATTTATTTTTTAATTTGATTATAAAACTTA
1 AAAGTATAATTTATTTTTATTTGTAAAAATTTAA-ATTTATTTTTTAATTTGATTAT-AAATTTA
2882508 AAATTTT
64 AAATTTT
2882515 TAAGATCGGT
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
70 29 0.24
71 11 0.09
72 54 0.45
73 21 0.18
74 4 0.03
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.53
Consensus pattern (71 bp):
AAAGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATTTGATTATAAATTTAAA
ATTTTG
Found at i:2882578 original size:19 final size:18
Alignment explanation
Indices: 2882554--2882590 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2882544 TGTAAATTTT
*
2882554 GAAGAAGAAATGAAAAAAA
1 GAAGAA-AAAAGAAAAAAA
2882573 GAAGAAAAAAGAAAAAAA
1 GAAGAAAAAAGAAAAAAA
2882591 AAAAGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
GAAGAAAAAAGAAAAAAA
Found at i:2890764 original size:45 final size:45
Alignment explanation
Indices: 2890715--2890816 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
2890705 CTCGTTTAAA
2890715 ATTTGT-TTGTTATTCAAT-TATAATATAATTAATAATATTAATATT
1 ATTTGTATT-TTATT-AATCTATAATATAATTAATAATATTAATATT
*
2890760 ATTTGTATTTTATTAATCTATAATATAATTAATAATATTTATATT
1 ATTTGTATTTTATTAATCTATAATATAATTAATAATATTAATATT
2890805 -TTAT-TATTTTAT
1 ATT-TGTATTTTAT
2890817 ATTTAAAACT
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
44 13 0.25
45 38 0.72
46 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (45 bp):
ATTTGTATTTTATTAATCTATAATATAATTAATAATATTAATATT
Found at i:2890907 original size:22 final size:22
Alignment explanation
Indices: 2890870--2890942 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
2890860 TATTTACATT
2890870 TATTTGTTTATTATTTATGAACA
1 TATTTG-TTATTATTTATGAACA
* *
2890893 TATTT-TTAATTATTTACGAATA
1 TATTTGTT-ATTATTTATGAACA
*
2890915 TATTTGATTATATATTTATAAACA
1 TATTTG-TTAT-TATTTATGAACA
2890939 TATT
1 TATT
2890943 CATTTCGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 17 0.41
23 7 0.17
24 15 0.37
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTGTTATTATTTATGAACA
Found at i:2893102 original size:24 final size:24
Alignment explanation
Indices: 2893055--2893098 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
2893045 TGATAAATTT
2893055 TTTCTTTTTTTTCTTCTTTCTTCC
1 TTTCTTTTTTTTCTTCTTTCTTCC
2893079 TTTC-TTTTTTT-TTCTTTCTT
1 TTTCTTTTTTTTCTTCTTTCTT
2893099 TTCCATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTTTTCTTCTTTCTTCC
Found at i:2894286 original size:16 final size:15
Alignment explanation
Indices: 2894265--2894306 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
2894255 TTTTTCTCCC
2894265 ATATATAAAATAAAT
1 ATATATAAAATAAAT
*
2894280 -TATATATAA-AAAT
1 ATATATAAAATAAAT
2894293 ATATATAAAATAAA
1 ATATATAAAATAAA
2894307 ATCAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATATAAAATAAAT
Found at i:2894419 original size:19 final size:19
Alignment explanation
Indices: 2894397--2894437 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2894387 AATTTTTTCC
2894397 TTTTT-TTTCTTTTTTGCT
1 TTTTTGTTTCTTTTTTGCT
*
2894415 TTTTTGTTTCTTTTTTTCT
1 TTTTTGTTTCTTTTTTGCT
2894434 TTTT
1 TTTT
2894438 CACCTGAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (19 bp):
TTTTTGTTTCTTTTTTGCT
Found at i:2895962 original size:4 final size:4
Alignment explanation
Indices: 2895953--2896025 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
2895943 ATATAATTTT
* * * *
2895953 TTTC TTTC TTT- TTTT TTTC TTTT TTTC -TTC TTTC ATTC ATTC TTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
2895998 TTTT TTTC TTAC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
2896026 CCAGCCAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 9 0.16
4 49 0.84
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:2895979 original size:23 final size:23
Alignment explanation
Indices: 2895949--2896025 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
2895939 CAACATATAA
*
2895949 TTTTTTTCTTTCTTTTTTTTTTC
1 TTTTTTTCTTTCTTTTTTCTTTC
* *
2895972 TTTTTTTC-TTCTTTCATTCATTC
1 TTTTTTTCTTTCTTT-TTTCTTTC
*
2895995 TTTTTTT-TTTCTTACTTTCTTTC
1 TTTTTTTCTTTCTT-TTTTCTTTC
*
2896018 TTTCTTTC
1 TTTTTTTC
2896026 CCAGCCAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 6 0.14
23 37 0.86
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTTCTTTCTTTTTTCTTTC
Found at i:2896086 original size:3 final size:3
Alignment explanation
Indices: 2896078--2896121 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
2896068 GTATAGATAG
2896078 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2896122 CCTTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2896272 original size:23 final size:23
Alignment explanation
Indices: 2896244--2896294 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 23
2896234 TAGATATAAA
2896244 TTTTTTTCTTTCTTTCTTTTTTTTC
1 TTTTTTTC--TCTTTCTTTTTTTTC
2896269 TTTTTTTCTCTTTCTTTTTTTTC
1 TTTTTTTCTCTTTCTTTTTTTTC
2896292 TTT
1 TTT
2896295 CTCTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 18 0.69
25 8 0.31
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTCTCTTTCTTTTTTTTC
Found at i:2896301 original size:17 final size:17
Alignment explanation
Indices: 2896244--2896304 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 17
2896234 TAGATATAAA
*
2896244 TTTTTTTCTTTCTTTCT
1 TTTTTTTCTTTCTCTCT
2896261 TTTTTTTCTTTTTTTCTCTTTCT
1 TTTTTTTC----TTTCTC--TCT
2896284 TTTTTTTCTTTCTCTCT
1 TTTTTTTCTTTCTCTCT
2896301 TTTT
1 TTTT
2896305 CGGCTGCACC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 15 0.41
19 6 0.16
21 5 0.14
23 11 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTCTCTCT
Found at i:2896305 original size:23 final size:23
Alignment explanation
Indices: 2896254--2896305 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
2896244 TTTTTTTCTT
* *
2896254 TCTTTCTTTTTTTTCTTTTTTTC
1 TCTTTCTTTTTTTTCTTTCTCTC
2896277 TCTTTCTTTTTTTTCTTTCTCTC
1 TCTTTCTTTTTTTTCTTTCTCTC
*
2896300 TTTTTC
1 TCTTTC
2896306 GGCTGCACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTCTTTTTTTTCTTTCTCTC
Found at i:2900504 original size:14 final size:14
Alignment explanation
Indices: 2900485--2900524 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2900475 TCGATAATAG
2900485 TAAATATAATTAAA
1 TAAATATAATTAAA
2900499 TAAATATAA-TATAA
1 TAAATATAATTA-AA
2900513 -AAAT-TAATTAAA
1 TAAATATAATTAAA
2900525 ATATGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 8 0.33
14 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAATATAATTAAA
Found at i:2900520 original size:26 final size:27
Alignment explanation
Indices: 2900486--2900545 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
2900476 CGATAATAGT
*
2900486 AAATATAATTAAATAAAT-ATAATATAA
1 AAATATAATTAAA-AAATGATAAGATAA
*
2900513 AAAT-TAATTAAAATATGATAAGATAA
1 AAATATAATTAAAAAATGATAAGATAA
2900539 AAATATA
1 AAATATA
2900546 TAAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 20 0.69
27 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
AAATATAATTAAAAAATGATAAGATAA
Found at i:2900613 original size:18 final size:19
Alignment explanation
Indices: 2900569--2900615 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2900559 ATTATATAAT
2900569 ATAAATTATTAATATATCA
1 ATAAATTATTAATATATCA
*
2900588 A-AATTTATATAA-ATAT-A
1 ATAAATTAT-TAATATATCA
2900605 ATAAATTATTA
1 ATAAATTATTA
2900616 TTAGATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATTATTAATATATCA
Found at i:2902268 original size:20 final size:19
Alignment explanation
Indices: 2902239--2902291 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
2902229 AACTCTCATT
*
2902239 TGTATCGATACATGCCAAAA
1 TGTATTGATACATG-CAAAA
*
2902259 TGTATTGATACAATGCACAA
1 TGTATTGATAC-ATGCAAAA
2902279 TGT-TTCGATACAT
1 TGTATT-GATACAT
2902292 TATATGAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 22 0.76
21 3 0.10
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (19 bp):
TGTATTGATACATGCAAAA
Found at i:2902371 original size:112 final size:112
Alignment explanation
Indices: 2902165--2902380 Score: 256
Period size: 112 Copynumber: 1.9 Consensus size: 112
2902155 GTTTAAGTTG
*
2902165 AATGTATCAATACATCATATGAATGTACTGATACATCTGTTAATAGTAGCTAAAAAAGTGTTAAA
1 AATGTATCAATACATCATATGAATGTACTGATACATCTGTTAATAGTAGCTAAAAAAGTCTTAAA
* * * *
2902230 ACTCTCATTTGTATCGATACATGCCAAAATGTATTGATACAATGCAC
66 ACTATCATTTGTACCGATACATACCAAAATGTATCGATACAATGCAC
* * * * * * *
2902277 AATGTTTCGATACATTATATGAATGTATTGATACATCTGATTGATAGTAGTTAGAGAAA-TCTT-
1 AATGTATCAATACATCATATGAATGTACTGATACATCTG-TTAATAGTAGCTA-AAAAAGTCTTA
* * **
2902340 GAACTATCATTTGTACCGGTACATATGAAAATGTATCGATA
64 AAACTATCATTTGTACCGATACATACCAAAATGTATCGATA
2902381 TTTTAAGTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
112 68 0.79
113 14 0.16
114 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (112 bp):
AATGTATCAATACATCATATGAATGTACTGATACATCTGTTAATAGTAGCTAAAAAAGTCTTAAA
ACTATCATTTGTACCGATACATACCAAAATGTATCGATACAATGCAC
Found at i:2903424 original size:17 final size:18
Alignment explanation
Indices: 2903403--2903473 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
2903393 TAATAAATAA
2903403 TTAAAAATTATATTATA-
1 TTAAAAATTATATTATAC
* **
2903420 TTAAATAATAATTAAAATTAC
1 TTAAA-AATTA-TATTA-TAC
*
2903441 TTAAAAATTATATTTATAT
1 TTAAAAATTATA-TTATAC
2903460 TTAAAAATTA-ATTA
1 TTAAAAATTATATTA
2903474 AATAAATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 8 0.19
18 5 0.12
19 17 0.40
20 7 0.17
21 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAAATTATATTATAC
Found at i:2903489 original size:40 final size:38
Alignment explanation
Indices: 2903397--2903490 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 38
2903387 TTTATGTAAT
2903397 AAAT-AATTAAAAATTATATTATATTAAATAATAATTA
1 AAATAAATTAAAAATTATATTATATTAAATAATAATTA
* *
2903434 AAATTACTTAAAAATTATATTTATATTTAAA-AATTAATT-
1 AAATAAATTAAAAATTATA-TTATA-TTAAATAA-TAATTA
*
2903473 AAATAAATATAGAAATTA
1 AAATAAAT-TAAAAATTA
2903491 ATAATAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
37 4 0.08
38 13 0.27
39 13 0.27
40 18 0.38
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (38 bp):
AAATAAATTAAAAATTATATTATATTAAATAATAATTA
Found at i:2903927 original size:31 final size:28
Alignment explanation
Indices: 2903859--2903928 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
2903849 TTAAATATTC
* * *
2903859 AAATAAATTAATCATATTATAAATTTAT
1 AAATATATTTATCATATTATAAATTTAA
*
2903887 AAATTTATTTATCATATTAAATAAGATTTAA
1 AAATATATTTATCATATT--ATAA-ATTTAA
2903918 AAATATATTTA
1 AAATATATTTA
2903929 AATAACTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 15 0.44
30 4 0.12
31 15 0.44
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
AAATATATTTATCATATTATAAATTTAA
Found at i:2906668 original size:15 final size:15
Alignment explanation
Indices: 2906648--2906685 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2906638 GAATAAATAA
2906648 AAAATTATTGAAAAT
1 AAAATTATTGAAAAT
*
2906663 AAAATTCTTGAAAAT
1 AAAATTATTGAAAAT
2906678 AAAATTAT
1 AAAATTAT
2906686 CGAACTAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATTATTGAAAAT
Found at i:2910506 original size:735 final size:735
Alignment explanation
Indices: 2909096--2910571 Score: 2916
Period size: 735 Copynumber: 2.0 Consensus size: 735
2909086 GCTTTTTTAA
*
2909096 GTGGTTATATAAACGAAGAGGTTTTTGTTGAAAAACCTCTCGATTTTGAAAATCTTTTATTTCTA
1 GTGGTTATATAAACGAAGAGGTTTTTGTTGAAAAACCTCTCAATTTTGAAAATCTTTTATTTCTA
2909161 AATCACGTTTTCAAACTTTTTAAAGCTTTATATGGTTTAAAACAAGCTCCTCGAGCTTGGTATGA
66 AATCACGTTTTCAAACTTTTTAAAGCTTTATATGGTTTAAAACAAGCTCCTCGAGCTTGGTATGA
2909226 AAGGCTTTCAAAATTTTTGATTGAAAAAGGTTTTAATAGAGAAAATATTGATAAAACACTTTTTA
131 AAGGCTTTCAAAATTTTTGATTGAAAAAGGTTTTAATAGAGAAAATATTGATAAAACACTTTTTA
2909291 TTAAAACAAAAAGAAAAAATATTTTAATAGTACAAGTATATATGGATAATATTATTTTTGGTGCT
196 TTAAAACAAAAAGAAAAAATATTTTAATAGTACAAGTATATATGGATAATATTATTTTTGGTGCT
2909356 ACTAATGAATCCTTGTGTCAAGAATTTTCTAAGTTAATGCAAGGTGAATTCGAGATGAGCATGAT
261 ACTAATGAATCCTTGTGTCAAGAATTTTCTAAGTTAATGCAAGGTGAATTCGAGATGAGCATGAT
2909421 GGGAGAACTATCATTCTTTTTGGGGCTTCAAGTGAAACAAACAAAAGACGAGATCTTCATCAATC
326 GGGAGAACTATCATTCTTTTTGGGGCTTCAAGTGAAACAAACAAAAGACGAGATCTTCATCAATC
2909486 AAGCAAAATATACAAAAGAGCTACTCAAAAGGTTTCAAATGGATCAAGTCAAACCGTGTGAAACA
391 AAGCAAAATATACAAAAGAGCTACTCAAAAGGTTTCAAATGGATCAAGTCAAACCGTGTGAAACA
2909551 CCGATATGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAATTATATCAGCACTAAACTCTA
456 CCGATATGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAATTATATCAGCACTAAACTCTA
*
2909616 TAAGTCTATGATAGGTTCATTGTTATACTTACCGTTAGTAGATCGACTATTATGTTTAGTGTTTG
521 TAAGTCTACGATAGGTTCATTGTTATACTTACCGTTAGTAGATCGACTATTATGTTTAGTGTTTG
2909681 CCTTTTTGCCCGTTTCCAATGCACCTAAGGAGTCTCATTTACTTGCGGTAAAAATTTTTTTTAAA
586 CCTTTTTGCCCGTTTCCAATGCACCTAAGGAGTCTCATTTACTTGCGGTAAAAATTTTTTTTAAA
2909746 TATTTACGAGACATCCCAAACCTAAGATTATGGTACCTTAAAGAATCCTCCCTAACCTTACATGC
651 TATTTACGAGACATCCCAAACCTAAGATTATGGTACCTTAAAGAATCCTCCCTAACCTTACATGC
2909811 ATATTCGGATATGAATTTTG
716 ATATTCGGATATGAATTTTG
2909831 GTGGTTATATAAACGAAGAGGTTTTTGTTGAAAAACCTCTCAATTTTGAAAATCTTTTATTTCTA
1 GTGGTTATATAAACGAAGAGGTTTTTGTTGAAAAACCTCTCAATTTTGAAAATCTTTTATTTCTA
*
2909896 AATCACGTTTTCAAACTTTTTAAAGTTTTATATGGTTTAAAACAAGCTCCTCGAGCTTGGTATGA
66 AATCACGTTTTCAAACTTTTTAAAGCTTTATATGGTTTAAAACAAGCTCCTCGAGCTTGGTATGA
2909961 AAGGCTTTCAAAATTTTTGATTGAAAAAGGTTTTAATAGAGAAAATATTGATAAAACACTTTTTA
131 AAGGCTTTCAAAATTTTTGATTGAAAAAGGTTTTAATAGAGAAAATATTGATAAAACACTTTTTA
2910026 TTAAAACAAAAAGAAAAAATATTTTAATAGTACAAGTATATATGGATAATATTATTTTTGGTGCT
196 TTAAAACAAAAAGAAAAAATATTTTAATAGTACAAGTATATATGGATAATATTATTTTTGGTGCT
2910091 ACTAATGAATCCTTGTGTCAAGAATTTTCTAAGTTAATGCAAGGTGAATTCGAGATGAGCATGAT
261 ACTAATGAATCCTTGTGTCAAGAATTTTCTAAGTTAATGCAAGGTGAATTCGAGATGAGCATGAT
2910156 GGGAGAACTATCATTCTTTTTGGGGCTTCAAGTGAAACAAACAAAAGACGAGATCTTCATCAATC
326 GGGAGAACTATCATTCTTTTTGGGGCTTCAAGTGAAACAAACAAAAGACGAGATCTTCATCAATC
2910221 AAGCAAAATATACAAAAGAGCTACTCAAAAGGTTTCAAATGGATCAAGTCAAACCGTGTGAAACA
391 AAGCAAAATATACAAAAGAGCTACTCAAAAGGTTTCAAATGGATCAAGTCAAACCGTGTGAAACA
*
2910286 CCGATATGTACTTTAACAAAGCTTGAAAAGGATGAAGGAGGTAATTATATCAGCACTAAACTCTA
456 CCGATATGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAATTATATCAGCACTAAACTCTA
2910351 TAAGTCTACGATAGGTTCATTGTTATACTTACCGTTAGTAGATCGACTATTATGTTTAGTGTTTG
521 TAAGTCTACGATAGGTTCATTGTTATACTTACCGTTAGTAGATCGACTATTATGTTTAGTGTTTG
2910416 CCTTTTTGCCCGTTTCCAATGCACCTAAGGAGTCTCATTTACTTGCGGTAAAAATTTTTTTTAAA
586 CCTTTTTGCCCGTTTCCAATGCACCTAAGGAGTCTCATTTACTTGCGGTAAAAATTTTTTTTAAA
2910481 TATTTACGAGACATCCCAAACCTAAGATTATGGTACCTTAAAGAATCCTCCCTAACCTTACATGC
651 TATTTACGAGACATCCCAAACCTAAGATTATGGTACCTTAAAGAATCCTCCCTAACCTTACATGC
2910546 ATATTCGGATATGAATTTTG
716 ATATTCGGATATGAATTTTG
2910566 GTGGTT
1 GTGGTT
2910572 GTAAAATAGA
Statistics
Matches: 737, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
735 737 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (735 bp):
GTGGTTATATAAACGAAGAGGTTTTTGTTGAAAAACCTCTCAATTTTGAAAATCTTTTATTTCTA
AATCACGTTTTCAAACTTTTTAAAGCTTTATATGGTTTAAAACAAGCTCCTCGAGCTTGGTATGA
AAGGCTTTCAAAATTTTTGATTGAAAAAGGTTTTAATAGAGAAAATATTGATAAAACACTTTTTA
TTAAAACAAAAAGAAAAAATATTTTAATAGTACAAGTATATATGGATAATATTATTTTTGGTGCT
ACTAATGAATCCTTGTGTCAAGAATTTTCTAAGTTAATGCAAGGTGAATTCGAGATGAGCATGAT
GGGAGAACTATCATTCTTTTTGGGGCTTCAAGTGAAACAAACAAAAGACGAGATCTTCATCAATC
AAGCAAAATATACAAAAGAGCTACTCAAAAGGTTTCAAATGGATCAAGTCAAACCGTGTGAAACA
CCGATATGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAATTATATCAGCACTAAACTCTA
TAAGTCTACGATAGGTTCATTGTTATACTTACCGTTAGTAGATCGACTATTATGTTTAGTGTTTG
CCTTTTTGCCCGTTTCCAATGCACCTAAGGAGTCTCATTTACTTGCGGTAAAAATTTTTTTTAAA
TATTTACGAGACATCCCAAACCTAAGATTATGGTACCTTAAAGAATCCTCCCTAACCTTACATGC
ATATTCGGATATGAATTTTG
Found at i:2913334 original size:27 final size:25
Alignment explanation
Indices: 2913286--2913335 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
2913276 AATAAATTTG
*
2913286 AAAAAGGGAGAGTTTTTTTGGAAAC
1 AAAAAGGGAGAGTTTTTGTGGAAAC
2913311 AAAAAGGGAGAGAATTTTTGTGGAA
1 AAAAAGGGAGAG--TTTTTGTGGAA
2913336 GGAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
27 10 0.45
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (25 bp):
AAAAAGGGAGAGTTTTTGTGGAAAC
Found at i:2914146 original size:20 final size:20
Alignment explanation
Indices: 2914103--2914154 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2914093 ACCACTGTTT
* *
2914103 GTATCGATACATAGGATAAT
1 GTATCGATACATAGGAAAAA
*
2914123 GTATCGATACATAGTAAAAA
1 GTATCGATACATAGGAAAAA
*
2914143 GTATCTATACAT
1 GTATCGATACAT
2914155 TATGCCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACATAGGAAAAA
Found at i:2915876 original size:17 final size:16
Alignment explanation
Indices: 2915839--2915886 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
2915829 GGGTTTTGGC
*
2915839 ATTTGGAATTCGGATT
1 ATTTTGAATTCGGATT
2915855 ATTTTGAATTC-GAGTT
1 ATTTTGAATTCGGA-TT
*
2915871 ATTTTTAAATTCGGAT
1 A-TTTTGAATTCGGAT
2915887 CGATCAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 13 0.48
17 10 0.37
18 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.48
Consensus pattern (16 bp):
ATTTTGAATTCGGATT
Found at i:2916172 original size:14 final size:16
Alignment explanation
Indices: 2916154--2916198 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
2916144 TTTTAACTTT
2916154 TAATTTTA-TATTAAA
1 TAATTTTATTATTAAA
*
2916169 -AATTATATTATTAAA
1 TAATTTTATTATTAAA
2916184 TAATTTT-TTA-TAAA
1 TAATTTTATTATTAAA
2916198 T
1 T
2916199 TATAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 10 0.38
16 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTTTATTATTAAA
Found at i:2917255 original size:16 final size:16
Alignment explanation
Indices: 2917203--2917331 Score: 68
Period size: 16 Copynumber: 8.1 Consensus size: 16
2917193 GGTTCGTTCA
* *
2917203 AGTTTGAGTTCATTCG
1 AGTTTGAATTTATTCG
*
2917219 -GATTTGAATTCATTCG
1 AG-TTTGAATTTATTCG
* *
2917235 GGTTTGAATTTGTTCG
1 AGTTTGAATTTATTCG
* * *
2917251 AGTTTGAGTTTTTTTG
1 AGTTTGAATTTATTCG
* *
2917267 AGTTTAAACTTATTCG
1 AGTTTGAATTTATTCG
*
2917283 -GATTTGAACTTATTC-
1 AG-TTTGAATTTATTCG
* *
2917298 AGATTCGAGTTTATTCG
1 AG-TTTGAATTTATTCG
*
2917315 AATTTGAACTTT-TTCG
1 AGTTTGAA-TTTATTCG
2917331 A
1 A
2917332 ATTTAAACTT
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
15 2 0.02
16 81 0.92
17 5 0.06
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.47
Consensus pattern (16 bp):
AGTTTGAATTTATTCG
Found at i:2917308 original size:48 final size:48
Alignment explanation
Indices: 2917203--2917350 Score: 111
Period size: 48 Copynumber: 3.1 Consensus size: 48
2917193 GGTTCGTTCA
* * * * * * *
2917203 AGTTTGAGTTCATTCGGATTTGAA-TTCATTCGGGTTTGAATTTGTTCG
1 AGTTCGAGTTTATTCGAATTTAAACTT-ATTCGGATTTGAACTTATTCG
* * * *
2917251 AGTTTGAGTTTTTTTGAGTTTAAACTTATTCGGATTTGAACTTATTC-
1 AGTTCGAGTTTATTCGAATTTAAACTTATTCGGATTTGAACTTATTCG
* * * * * *
2917298 AGATTCGAGTTTATTCGAATTTGAACTTTTTCGAATTTAAACTTTTTTG
1 AG-TTCGAGTTTATTCGAATTTAAACTTATTCGGATTTGAACTTATTCG
2917347 AGTT
1 AGTT
2917351 AAAATTTAAA
Statistics
Matches: 78, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
47 2 0.03
48 72 0.92
49 4 0.05
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (48 bp):
AGTTCGAGTTTATTCGAATTTAAACTTATTCGGATTTGAACTTATTCG
Found at i:2917315 original size:64 final size:64
Alignment explanation
Indices: 2917214--2917341 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
2917204 GTTTGAGTTC
* * * * * ** * *
2917214 ATTCGGATTTGAATTCATTCGGGTTTGAATTTGTTCGAGTTTGAGTTTTTTTGAGTTTAAACTT
1 ATTCGGATTTGAATTCATTCAGATTCGAATTTATTCGAATTTGAACTTTTTCGAATTTAAACTT
*
2917278 ATTCGGATTTGAACTT-ATTCAGATTCGAGTTTATTCGAATTTGAACTTTTTCGAATTTAAACTT
1 ATTCGGATTTGAA-TTCATTCAGATTCGAATTTATTCGAATTTGAACTTTTTCGAATTTAAACTT
2917342 TTTTGAGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 51 0.96
65 2 0.04
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (64 bp):
ATTCGGATTTGAATTCATTCAGATTCGAATTTATTCGAATTTGAACTTTTTCGAATTTAAACTT
Found at i:2917332 original size:16 final size:16
Alignment explanation
Indices: 2917237--2917344 Score: 60
Period size: 16 Copynumber: 6.8 Consensus size: 16
2917227 TTCATTCGGG
*
2917237 TTTGAA-TTTGTTCGAG
1 TTTGAACTTT-TTCGAA
** * *
2917253 TTTGAGTTTTTTTGAG
1 TTTGAACTTTTTCGAA
* * *
2917269 TTTAAACTTATTCGGA
1 TTTGAACTTTTTCGAA
*
2917285 TTTGAACTTATTC-AGA
1 TTTGAACTTTTTCGA-A
* *
2917301 TTCG-AGTTTATTCGAA
1 TTTGAACTTT-TTCGAA
2917317 TTTGAACTTTTTCGAA
1 TTTGAACTTTTTCGAA
*
2917333 TTTAAACTTTTT
1 TTTGAACTTTTT
2917345 TGAGTTAAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
15 3 0.04
16 59 0.84
17 8 0.11
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTGAACTTTTTCGAA
Found at i:2918040 original size:19 final size:18
Alignment explanation
Indices: 2917998--2918044 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
2917988 ATTTTAATTT
2917998 TTAAAA-TT-TTAATAAA
1 TTAAAATTTATTAATAAA
*
2918014 TAAAAATTTATTAATAATA
1 TTAAAATTTATTAATAA-A
2918033 TTAAAATTTATT
1 TTAAAATTTATT
2918045 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 2 0.08
18 7 0.27
19 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATTTATTAATAAA
Found at i:2918281 original size:14 final size:14
Alignment explanation
Indices: 2918240--2918288 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
2918230 TATTATGATT
2918240 TTAAAAGTATAAATA
1 TTAAAA-TATAAATA
2918255 TTAAAATATTAAAT-
1 TTAAAATA-TAAATA
*
2918269 TTAATAATATAAAAA
1 TTAA-AATATAAATA
2918284 TTAAA
1 TTAAA
2918289 TTTTTTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTAAAATATAAATA
Found at i:2919471 original size:2 final size:2
Alignment explanation
Indices: 2919464--2919502 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2919454 ACAAATATGC
2919464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2919503 CACTTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2923068 original size:51 final size:51
Alignment explanation
Indices: 2922992--2923090 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
2922982 TGCATATATA
2922992 TTACACTTATGAAATTTATATTATTCAAATTTTATTTTTCAATAAGTTATT
1 TTACACTTATGAAATTTATATTATTCAAATTTTATTTTTCAATAAGTTATT
2923043 TTACACTTATGAAATTTATATTATTCAAATTTTATTTTTCAATAAGTT
1 TTACACTTATGAAATTTATATTATTCAAATTTTATTTTTCAATAAGTT
2923091 GTTCTCCGTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (51 bp):
TTACACTTATGAAATTTATATTATTCAAATTTTATTTTTCAATAAGTTATT
Found at i:2923725 original size:20 final size:20
Alignment explanation
Indices: 2923691--2923730 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2923681 TATTTAAGTG
2923691 AATTTATATTATTTT-TTAA
1 AATTTATATTATTTTATTAA
*
2923710 AATTTAATATTTTTTTATTAA
1 AATTT-ATATTATTTTATTAA
2923731 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTATATTATTTTATTAA
Found at i:2924173 original size:16 final size:19
Alignment explanation
Indices: 2924152--2924192 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2924142 ATTATTTTCT
2924152 TATTTAA-AATTT-TA-TA
1 TATTTAATAATTTATATTA
2924168 TATTTAATAATTTATATTA
1 TATTTAATAATTTATATTA
2924187 TATTTA
1 TATTTA
2924193 CATTTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 2 0.09
19 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTAATAATTTATATTA
Found at i:2924913 original size:6 final size:6
Alignment explanation
Indices: 2924904--2924938 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2924894 AAAAAAAGTA
*
2924904 AAAATT AAAAATT AAAATT AAAATT TAAATT AAAA
1 AAAATT -AAAATT AAAATT AAAATT AAAATT AAAA
2924939 AAATAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:2929970 original size:166 final size:164
Alignment explanation
Indices: 2929795--2930253 Score: 476
Period size: 166 Copynumber: 2.8 Consensus size: 164
2929785 TCAAAATACG
* **
2929795 GAGTTTTCTACTTCATAAATTTTTTAGGAGGATTTTCATTGATCCAAAATTTTTAAAATTCATCA
1 GAGTTTTCTACTCCATAAATTTTTTAGGAGGATTTTC-TTGATTTAAAATTTTTAAAATTCATCA
* * ** * *
2929860 AATATTATTATTTAATTCATGTTAAATTAGTTTTTTAAAATTCATTTATTTTCATAAATGTTTCA
65 AATATTATTATTTAATTCATATTAAATTAGTCTTGAAAAATTAATTCATTTTCATAAAT-TTTCA
* ** *
2929925 ATTTTTTCCTTGAAAATTT-CTTTTTTTTGAAACA-C
129 ATTTTTTCCTTG-AAATTTCCCTTTCCTTGAAAAATC
* * **
2929960 GAAGTTTTCTACTCCATAAATTTTTTCAGGAGTATTTTTTTAGATTTTCAATTTTTAAAATTCAT
1 G-AGTTTTCTACTCCATAAATTTTTT-AGGAGGATTTTCTT-GATTTAAAATTTTTAAAATTCAT
* * * *
2930025 CAAATATTATTATTTGATTCATATTAAATTAGTCTTGAAAAATTAATTCATTTTCATGAGTTTTG
63 CAAATATTATTATTTAATTCATATTAAATTAGTCTTGAAAAATTAATTCATTTTCATAAATTTTC
*
2930090 AATTTTTTCTTTGAAATTTCCCTTTCCTTGAAAAATC
128 AATTTTTTCCTTGAAATTTCCCTTTCCTTGAAAAATC
* * * *
2930127 GAGTTTTCTACTCCATAAGCATTTTTGAGGA-GATTTTTCTCGGTTTAAAACTTTTAAAATTCAT
1 GAGTTTTCTACTCCATAA--ATTTTTTAGGAGGA-TTTTCTTGATTTAAAATTTTTAAAATTCAT
* * * * ** ** * *
2930191 CTACTATTGTTATTTAACTCCCATTAAATCGGTTTTGAAAAATTTAATTTA-TTTCATAAATTT
63 CAAATATTATTATTTAATTCATATTAAATTAGTCTTGAAAAA-TTAATTCATTTTCATAAATTT
2930254 ATTGCTACGT
Statistics
Matches: 242, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
165 7 0.03
166 130 0.54
167 99 0.41
168 6 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (164 bp):
GAGTTTTCTACTCCATAAATTTTTTAGGAGGATTTTCTTGATTTAAAATTTTTAAAATTCATCAA
ATATTATTATTTAATTCATATTAAATTAGTCTTGAAAAATTAATTCATTTTCATAAATTTTCAAT
TTTTTCCTTGAAATTTCCCTTTCCTTGAAAAATC
Found at i:2935743 original size:79 final size:79
Alignment explanation
Indices: 2935648--2935998 Score: 373
Period size: 79 Copynumber: 4.4 Consensus size: 79
2935638 ATTCATGTTT
* * * * * *
2935648 TTATTTCCGAGAGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTTCATAATTGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
*
2935713 ATACTCCAACCCTA
66 ATACTCCAACCCCA
* * * *
2935727 TTATTTTTGAGGGGATACTCCAACCTCGGTTTTA-TTTCTATAACACCAATTTTTCACAATCGGA
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTTCACAATCGGA
2935791 GATACTCCAACCCCA
65 GATACTCCAACCCCA
* * * *
2935806 TTATTTCCGAGGGGATATTCCAACCCCAATTTTATTTTCAAAACACTAATTTTTCACAATCGGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
* * *
2935871 ATTCTCTAACCCCG
66 ATACTCCAACCCCA
* ** * * * * * * *
2935885 TTATTT-TAGAGGGGATACTCTAACTTCGATTTTATTTTCAAATCATCGATTTTCCACCATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGA
*
2935949 GATACTCCAACCCCG
65 GATACTCCAACCCCA
* * * *
2935964 TTATTTCTGAGGGGGTATTCTAACCCCGTTTTTAT
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTAT
2935999 CTCCAAAATA
Statistics
Matches: 225, Mismatches: 43, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
78 4 0.02
79 216 0.96
80 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (79 bp):
TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
ATACTCCAACCCCA
Found at i:2936006 original size:158 final size:158
Alignment explanation
Indices: 2935648--2935998 Score: 427
Period size: 158 Copynumber: 2.2 Consensus size: 158
2935638 ATTCATGTTT
* * * * * *
2935648 TTATTTCCGAGAGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTTTCATAATTGGGG
1 TTATTTCCGAGGGGATATTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
* * *
2935713 ATACTCCAACCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCTATAACACCAATT
66 ATACTCCAACCCCATTATTTTAGAGGGGATACTCCAACCTCGATTTTATTTCTATAACACCAATT
*
2935778 TTTCACAATCGGAGATACTCCAACCCCA
131 TTCCACAATCGGAGATACTCCAACCCCA
* *
2935806 TTATTTCCGAGGGGATATTCCAACCCCAATTTTATTTTCAAAACACTAATTTTTCACAATCGGAG
1 TTATTTCCGAGGGGATATTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
* * * * * * *
2935871 ATTCTCTAACCCCGTTATTTTAGAGGGGATACTCTAACTTCGATTTTATTT-TCA-AATCATCGA
66 ATACTCCAACCCCATTATTTTAGAGGGGATACTCCAACCTCGATTTTATTTCT-ATAA-CACCAA
* * * *
2935934 TTTTCCACCATTGGGGATACTCCAACCCCG
129 TTTTCCACAATCGGAGATACTCCAACCCCA
* * * *
2935964 TTATTTCTGAGGGGGTATTCTAACCCCGTTTTTAT
1 TTATTTCCGAGGGGATATTCCAACCCCGATTTTAT
2935999 CTCCAAAATA
Statistics
Matches: 163, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
157 3 0.02
158 160 0.98
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (158 bp):
TTATTTCCGAGGGGATATTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGAG
ATACTCCAACCCCATTATTTTAGAGGGGATACTCCAACCTCGATTTTATTTCTATAACACCAATT
TTCCACAATCGGAGATACTCCAACCCCA
Found at i:2938055 original size:4 final size:4
Alignment explanation
Indices: 2938046--2938078 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
2938036 TATTTTGAGG
*
2938046 TATT TATT TATT TATT TATT CATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
2938079 TGTTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:2946297 original size:27 final size:27
Alignment explanation
Indices: 2946259--2946315 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
2946249 GCGATAGCAA
*
2946259 ACTTTTTAGCAAGCCGTGCAATGGAAG
1 ACTTTTTAGCAAACCGTGCAATGGAAG
* *
2946286 ACTTTTTAGCAAACTGTGCGATGGAAG
1 ACTTTTTAGCAAACCGTGCAATGGAAG
2946313 ACT
1 ACT
2946316 ATCAGCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (27 bp):
ACTTTTTAGCAAACCGTGCAATGGAAG
Found at i:2948221 original size:16 final size:15
Alignment explanation
Indices: 2948169--2948244 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 15
2948159 CTTCTTTTTC
*
2948169 AAAAAAAAAAAAAACG
1 AAAAAAAGAAAAAA-G
*
2948185 AAACAAAA-AAGAACAAC
1 AAA-AAAAGAA-AA-AAG
2948202 AAAAAAATGAAAAAAG
1 AAAAAAA-GAAAAAAG
2948218 -AAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
2948232 -AGAAAAGAAAAAA
1 AAAAAAAGAAAAAA
2948245 ACCTGTTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
14 20 0.38
15 6 0.12
16 11 0.21
17 11 0.21
18 4 0.08
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.01
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:2948241 original size:21 final size:22
Alignment explanation
Indices: 2948189--2948244 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
2948179 AAAACGAAAC
*
2948189 AAAAAAGAACAACA-AAAAAATG
1 AAAAAAGAA-AAAAGAAAAAATG
2948211 AAAAAAGAAAAAAGAAAAAA-G
1 AAAAAAGAAAAAAGAAAAAATG
*
2948232 AGAAAAGAAAAAA
1 AAAAAAGAAAAAA
2948245 ACCTGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAGAAAAAATG
Found at i:2949487 original size:61 final size:61
Alignment explanation
Indices: 2949200--2951052 Score: 1915
Period size: 61 Copynumber: 31.0 Consensus size: 61
2949190 TCAGTCCTTG
* * * * * *
2949200 AAGAACAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTTGTGGCACTTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* *
2949261 AAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC-CTA
1 AAGAGCAGGAC-GC-TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC-A
* *
2949324 AAGAGTAGGATAC-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTTCTCA
1 AAGAGCAGG--ACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * *
2949386 AAGAGTAGGACGC--TTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
*
2949445 AAGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTA-TCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCA
* * * *
2949506 AAGAGCATGACGC-TTTT-CTTTCAAAGCCCACAAAAGTTGGTGGCACATT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* *
2949565 AAGAGCAAGACG-TCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
** * *
2949626 AAGAGCTTGACGC--TCTCC-TTT-----CTACACAAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* * * * *
2949679 AAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACAC-A--TGGTGGCACCTTTTAGTCCTTA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * *
2949737 AAGAGCAGGATG-TCTTTCCTTTTTAAAGCCCACACGAA-CTGGTGGCACCTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCTAGTCCTCA
* ** * * *
2949798 AAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* *
2949859 AAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC-CTA
1 AAGAGCAGGAC-GC-TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC-A
* *
2949922 AAGAGTAGGATAC-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTTCTCA
1 AAGAGCAGG--ACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * *
2949984 AAGAGTAGGACGC--TTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
*
2950043 AAGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTA-TCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCA
* * * *
2950104 AAGAGCATGACGC-TTTT-CTTTCAAAGCCCACAAAAGTTGGTGGCACATT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* *
2950163 AAGAGCAAGACG-TCTTCTCCTTTTAAAGCCCACACACAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACA-AGTTGGTGGCACCTTCT-AGTCCTCA
** *
2950225 AAGAGCTTGACGC--TCTCC-TTT-----CCACACAAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* * * * *
2950278 AAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACAC-A--TGGTGGCACCTTTTAGTCCTTA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * * *
2950336 AAGAGTAGGATG-TCTTTCCTTTTTAAAGCCCACACGAA-CTGGTGGCACCTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCTAGTCCTCA
* ** * * *
2950397 AAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* *
2950458 AAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC-CTA
1 AAGAGCAGGAC-GC-TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC-A
* *
2950521 AAGAGTAGGATAC-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTTCTCA
1 AAGAGCAGG--ACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * *
2950583 AAGAGTAGGACGC--TTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
*
2950642 AAGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTA-TCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCA
* * * *
2950703 AAGAGCATGACGC-TTTT-CTTTCAAAGCCCACAAAAGTTGGTGGCACATT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* *
2950762 AAGAGCAAGACG-TCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
** *
2950823 AAGAGCTTGACGC--TCTCC-TTT-----CCACACAAGTTGGTGGCACCTT-TCAGTCCTCA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* * * * *
2950876 AAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACAC-A--TGGTGGCACCTTTTAGTCCTTA
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * * *
2950934 AAGAGTAGGATG-TCTTTCCTTTTTAAAGCCCACACGAA-CTGGTGGCACCTTTTAGTCCTCA
1 AAGAGCAGGACGCTTTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCTAGTCCTCA
* ** *
2950995 AAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCATCTTCTAGTCC
1 AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
2951053 CTAAATATCA
Statistics
Matches: 1548, Mismatches: 150, Indels: 188
0.82 0.08 0.10
Matches are distributed among these distances:
53 121 0.08
54 7 0.00
55 12 0.01
56 9 0.01
57 12 0.01
58 142 0.09
59 313 0.20
60 44 0.03
61 502 0.32
62 226 0.15
63 154 0.10
65 6 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
Found at i:2950571 original size:599 final size:598
Alignment explanation
Indices: 2949186--2951041 Score: 3597
Period size: 598 Copynumber: 3.1 Consensus size: 598
2949176 AACCTTTTAT
* ** * ** *
2949186 CCTTTCAGTCCTTGAAGAACAGGACGCCTTT-TCCTTTTAAAGCCTACACAAGTTTGTGGCACTT
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTT
2949250 TTTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
65 TTTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
2949315 TAGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
130 TAGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
2949380 TTCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCA
195 TTCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCA
2949445 AAGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGA
260 AAGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGA
2949510 GCATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGA
325 GCATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGA
2949575 CGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCT
390 CGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCT
*
2949640 CTCCTTTCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAA
455 CTCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAA
*
2949705 AGCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGCAGGATGTCTTTCCTTTTTAAAGCCCAC
520 AGCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCAC
2949770 ACGAACTGGTGGCA
585 ACGAACTGGTGGCA
2949784 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTT
2949849 TTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
66 TTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
2949914 AGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
131 AGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
2949979 TCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCAA
196 TCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCAA
2950044 AGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGAG
261 AGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGAG
2950109 CATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGAC
326 CATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGAC
2950174 GTCTTCTCCTTTTAAAGCCCACACACAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCT
391 GTCTTCTCCTTTTAAAGCCCACACA-AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCT
2950239 CTCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAA
455 CTCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAA
2950304 AGCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCAC
520 AGCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCAC
2950369 ACGAACTGGTGGCA
585 ACGAACTGGTGGCA
2950383 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTT
2950448 TTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
66 TTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
2950513 AGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
131 AGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
2950578 TCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCAA
196 TCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCAA
2950643 AGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGAG
261 AGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGAG
2950708 CATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGAC
326 CATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGAC
2950773 GTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCTC
391 GTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCTC
2950838 TCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAA
456 TCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAA
2950903 GCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCACA
521 GCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCACA
2950968 CGAACTGGTGGCA
586 CGAACTGGTGGCA
*
2950981 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCA
2951042 TCTTCTAGTC
Statistics
Matches: 1246, Mismatches: 10, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
597 4 0.00
598 646 0.52
599 596 0.48
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (598 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACACAAGTTTGTGGCACTTT
TTAGTCCTCAAAGAGTAGGACACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCCTAAAGAGTAGGATACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
TCTCAAAGAGTAGGACGCTTTCCTTTTAAAGCCCACATAAATTGGTGGTACCTTCTAGTCCTCAA
AGAGCAGGACTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTATCCTCAAAGAG
CATGACGCTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAAGAC
GTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCTTGACGCTC
TCCTTTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAA
GCCCACACATGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGTCTTTCCTTTTTAAAGCCCACA
CGAACTGGTGGCA
Found at i:2951435 original size:12 final size:11
Alignment explanation
Indices: 2951418--2951456 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2951408 GAAAATCCAC
2951418 TTTCTTTTATTT
1 TTTCTTTT-TTT
*
2951430 TTTCTTCTTTT
1 TTTCTTTTTTT
*
2951441 TTTCTCTTTTT
1 TTTCTTTTTTT
2951452 TTTCT
1 TTTCT
2951457 ACTTTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:2965051 original size:18 final size:18
Alignment explanation
Indices: 2965028--2965064 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2965018 GCAACATTAA
2965028 TAAAGATATTGGGACAAC
1 TAAAGATATTGGGACAAC
*
2965046 TAAAGATATTGGGAGAAC
1 TAAAGATATTGGGACAAC
2965064 T
1 T
2965065 GAACTTACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
TAAAGATATTGGGACAAC
Found at i:2966055 original size:2 final size:2
Alignment explanation
Indices: 2966048--2966075 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2966038 GGAACCCATA
2966048 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
2966076 CCAAAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2966525 original size:2 final size:2
Alignment explanation
Indices: 2966518--2966550 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2966508 TTAAATGGCT
2966518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2966551 TCTTAGGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2967029 original size:2 final size:2
Alignment explanation
Indices: 2967022--2967064 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2967012 GTAAAGCTAC
2967022 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2967064 C
1 C
2967065 CCCCCTTAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:2967639 original size:1 final size:1
Alignment explanation
Indices: 2967635--2967659 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2967625 CCCAAAAAGT
2967635 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2967660 GGTAAACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2968470 original size:2 final size:2
Alignment explanation
Indices: 2968463--2968500 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2968453 CCACCCGGGT
2968463 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
2968501 AAATATTTAT
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:2969509 original size:53 final size:54
Alignment explanation
Indices: 2969414--2969521 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 54
2969404 GTATGGATAC
** * *
2969414 TTTGTAATATAAATATACTGCTACTTTTTCTTTACACAAAGTATGGATATTTTGT
1 TTTGTAATATAAATATAAAGCTA-TTTTTCTTTACACAAAGTACGAATATTTTGT
*
2969469 TTTGTAATATAAATATAAAG-T-TTTTTTTATTACACAAAGTACGAATATTTTGT
1 TTTGTAATATAAATATAAAGCTATTTTTCT-TTACACAAAGTACGAATATTTTGT
2969522 ATAAAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 6 0.13
53 22 0.47
54 1 0.02
55 18 0.38
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.47
Consensus pattern (54 bp):
TTTGTAATATAAATATAAAGCTATTTTTCTTTACACAAAGTACGAATATTTTGT
Found at i:2971588 original size:32 final size:32
Alignment explanation
Indices: 2971521--2971589 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
2971511 AAAAATTGTA
* * ** *
2971521 AAATAATATTTTAGTAATAATTATATTATTAT
1 AAATAATATTTTAATAACAACCATAATATTAT
*
2971553 AAATAATATTTTAATAACAACCATAATATTTT
1 AAATAATATTTTAATAACAACCATAATATTAT
2971585 AAATA
1 AAATA
2971590 TTTATATGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (32 bp):
AAATAATATTTTAATAACAACCATAATATTAT
Found at i:2975150 original size:2 final size:2
Alignment explanation
Indices: 2975143--2975180 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
2975133 TTAGTTAAGC
*
2975143 AT AT AT AT AT AT AT AT AT AT AT AT CT AT A- AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2975181 TAAAATTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2976238 original size:18 final size:19
Alignment explanation
Indices: 2976207--2976242 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2976197 AACATTTAAA
2976207 TAAATATATATTAAAATTT
1 TAAATATATATTAAAATTT
2976226 TAAATAT-TATTAAAATT
1 TAAATATATATTAAAATT
2976243 AAGTTACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATATATTAAAATTT
Found at i:2977246 original size:43 final size:43
Alignment explanation
Indices: 2977190--2977280 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
2977180 TAAATATCTT
* *
2977190 AATATATA-TATAATATATATTAATTTAA-TAATAATAAAA-ATA
1 AATATAAATTATAATATAAATTAA-TTAATTAA-AATAAAATATA
*
2977232 ATTATAAATTATAATATAAATTAATTAATTAAAATAAAATATA
1 AATATAAATTATAATATAAATTAATTAATTAAAATAAAATATA
2977275 AATATA
1 AATATA
2977281 TACCTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 17 0.40
43 25 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (43 bp):
AATATAAATTATAATATAAATTAATTAATTAAAATAAAATATA
Found at i:2977300 original size:31 final size:31
Alignment explanation
Indices: 2977265--2977342 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
2977255 ATTAATTAAA
*
2977265 ATAAAATATAAATATATACCTTAAAATTTAT
1 ATAAAATATAAATATATACATTAAAATTTAT
* *
2977296 ATAAAATA-AATTATTATTATATTAAAATTTAT
1 ATAAAATATAAATA-TA-TACATTAAAATTTAT
*
2977328 -TTAAATAT-AATATAT
1 ATAAAATATAAATATAT
2977343 TTTAAATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.03
30 6 0.15
31 19 0.49
32 13 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAAAATATAAATATATACATTAAAATTTAT
Found at i:2977301 original size:36 final size:32
Alignment explanation
Indices: 2977261--2977342 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 32
2977251 ATTAATTAAT
2977261 TAAAATAAAATATAAATATATACCTTAAAATTTATA
1 TAAAATAAAATAT-AAT-TATA--TTAAAATTTATA
* * *
2977297 TAAAATAAATTATTATTATATTAAAATTTATT
1 TAAAATAAAATATAATTATATTAAAATTTATA
*
2977329 TAAATATAATATAT
1 TAAA-ATAAAATAT
2977343 TTTAAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 15 0.38
33 7 0.17
34 4 0.10
35 2 0.05
36 12 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (32 bp):
TAAAATAAAATATAATTATATTAAAATTTATA
Found at i:2977380 original size:29 final size:29
Alignment explanation
Indices: 2977345--2977400 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
2977335 TAATATATTT
*
2977345 TAAATATAATTATAACATAA-TAAAATATA
1 TAAATATAA-TATAAAATAATTAAAATATA
2977374 TAAATATAATATAAAATAATTAAAATA
1 TAAATATAATATAAAATAATTAAAATA
2977401 AAATAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAATATAATATAAAATAATTAAAATATA
Found at i:2977397 original size:20 final size:19
Alignment explanation
Indices: 2977364--2977401 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
2977354 TTATAACATA
2977364 ATAAAATATATAAATATAAT
1 ATAAAATATATAAA-ATAAT
2977384 ATAAAATA-ATTAAAATAA
1 ATAAAATATA-TAAAATAA
2977402 AATAGTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAATATATAAAATAAT
Found at i:2977733 original size:13 final size:13
Alignment explanation
Indices: 2977717--2977760 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2977707 ATATTTTAAT
2977717 AAATATTAAATAA
1 AAATATTAAATAA
* * *
2977730 AAATTTTGAATAT
1 AAATATTAAATAA
2977743 AAATATTTAAATAA
1 AAATA-TTAAATAA
2977757 AAAT
1 AAAT
2977761 TTTGAATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAATATTAAATAA
Found at i:2977745 original size:26 final size:28
Alignment explanation
Indices: 2977713--2977773 Score: 108
Period size: 27 Copynumber: 2.2 Consensus size: 28
2977703 ATTTATATTT
2977713 TAATAAATA-TTAAATAAAAATTTTGAA
1 TAATAAATATTTAAATAAAAATTTTGAA
2977740 T-ATAAATATTTAAATAAAAATTTTGAA
1 TAATAAATATTTAAATAAAAATTTTGAA
2977767 TAATAAA
1 TAATAAA
2977774 AGAGTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 7 0.22
27 20 0.62
28 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (28 bp):
TAATAAATATTTAAATAAAAATTTTGAA
Found at i:2978015 original size:18 final size:18
Alignment explanation
Indices: 2977994--2978031 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2977984 ATTAATTTTT
*
2977994 TTAATTACATA-AAAATAA
1 TTAATTA-ATATAAAAAAA
2978012 TTAATTAATATAAAAAAA
1 TTAATTAATATAAAAAAA
2978030 TT
1 TT
2978032 TACGTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATTAATATAAAAAAA
Found at i:2978091 original size:2 final size:2
Alignment explanation
Indices: 2978086--2978119 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2978076 AATTAGATGA
2978086 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2978120 TCACATCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2978502 original size:20 final size:22
Alignment explanation
Indices: 2978479--2978525 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
2978469 AATTTTATTT
2978479 AAATTA-TT-ATTTAATAATAA
1 AAATTATTTAATTTAATAATAA
*
2978499 AAATTATTTAAATTTAATTATAA
1 AAATTATTT-AATTTAATAATAA
2978522 AAAT
1 AAAT
2978526 ATATAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
23 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTATTTAATTTAATAATAA
Found at i:2978525 original size:88 final size:89
Alignment explanation
Indices: 2978385--2978551 Score: 300
Period size: 88 Copynumber: 1.9 Consensus size: 89
2978375 TGTTGGATTC
*
2978385 TATTTAAATTATTATTTAATAATAAAAAAATATTTAAATTTAATTATAAAAATATATAAATATGA
1 TATTTAAATTATTATTTAATAATAAAAAAATATTTAAATTTAATTATAAAAATATATAAATATAA
2978450 ATACAAAAATAATTATATTAATTT
66 ATACAAAAATAATTATATTAATTT
*
2978474 TATTTAAATTATTATTTAATAAT-AAAAATTATTTAAATTTAATTATAAAAATATATAAATATAA
1 TATTTAAATTATTATTTAATAATAAAAAAATATTTAAATTTAATTATAAAAATATATAAATATAA
*
2978538 ATATAAAAATAATT
66 ATACAAAAATAATT
2978552 TTTTATTATA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 52 0.69
89 23 0.31
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (89 bp):
TATTTAAATTATTATTTAATAATAAAAAAATATTTAAATTTAATTATAAAAATATATAAATATAA
ATACAAAAATAATTATATTAATTT
Found at i:2979293 original size:57 final size:57
Alignment explanation
Indices: 2979205--2979318 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
2979195 ATGATAATAA
* * *
2979205 GCAATTGATGTTTTCACCATCATAATTAAATATTATTCATAGATAGAAGATAAGTTT
1 GCAATGGATGTTTTCACCATCATAATTAAATATGATTCACAGATAGAAGATAAGTTT
*
2979262 GCAATGGATGTTTTCACCATCATAATTAAATATGATTCACAGATAGAAGATAGGTTT
1 GCAATGGATGTTTTCACCATCATAATTAAATATGATTCACAGATAGAAGATAAGTTT
2979319 AAGAGACCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (57 bp):
GCAATGGATGTTTTCACCATCATAATTAAATATGATTCACAGATAGAAGATAAGTTT
Found at i:2979434 original size:6 final size:7
Alignment explanation
Indices: 2979414--2979440 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2979404 ATAAAATTTT
2979414 AATAAAA
1 AATAAAA
2979421 AATAAAA
1 AATAAAA
2979428 AATAAAA
1 AATAAAA
2979435 AATAAA
1 AATAAA
2979441 GTAAAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:2979665 original size:22 final size:22
Alignment explanation
Indices: 2979640--2979684 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2979630 ATATTTTATT
*
2979640 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAAAATA
2979662 TAAATATTAATATAAAAAAATA
1 TAAATATTAATATAAAAAAATA
2979684 T
1 T
2979685 TTTTTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAAAATA
Found at i:2979671 original size:29 final size:32
Alignment explanation
Indices: 2979611--2979669 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
2979601 TTGAATTATT
**
2979611 ATTTAATAATAAAAAATATATATTTTATTTAA
1 ATTTAATAATAAAAAATATATATAATATTTAA
*
2979643 ATTTAATTAT-AAAAATATATA-AATATT
1 ATTTAATAATAAAAAATATATATAATATT
2979670 AATATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 11 0.46
32 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTTAATAATAAAAAATATATATAATATTTAA
Found at i:2980664 original size:10 final size:10
Alignment explanation
Indices: 2980644--2980687 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
2980634 AATATAATAT
2980644 TTTTATTAAAA
1 TTTT-TTAAAA
2980655 TTTTTTAAAA
1 TTTTTTAAAA
2980665 TTTTTTAAAA
1 TTTTTTAAAA
**
2980675 AATTTT-AAA
1 TTTTTTAAAA
2980684 TTTT
1 TTTT
2980688 AATAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 5 0.17
10 20 0.69
11 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:2980674 original size:20 final size:20
Alignment explanation
Indices: 2980644--2980698 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2980634 AATATAATAT
**
2980644 TTTTATTAAAATTTTTTAAAA
1 TTTTATTAAAAAATTTT-AAA
2980665 TTTT-TTAAAAAATTTTAAA
1 TTTTATTAAAAAATTTTAAA
* *
2980684 TTTTAATAAATAATT
1 TTTTATTAAAAAATT
2980699 CAATTATGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.24
20 18 0.62
21 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTAAAAAATTTTAAA
Found at i:2981341 original size:22 final size:22
Alignment explanation
Indices: 2981316--2981384 Score: 52
Period size: 25 Copynumber: 3.0 Consensus size: 22
2981306 TTAATTTAAT
2981316 TAATTAATATAACTATTTTTTA
1 TAATTAATATAACTATTTTTTA
* *
2981338 TAATAAAATAAATTAACTA-TTTTAA
1 TAAT-TAAT--A-TAACTATTTTTTA
*
2981363 TAATTAAATATAA-AATTTTTTA
1 TAATT-AATATAACTATTTTTTA
2981385 CAATATACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
21 1 0.03
22 12 0.33
23 4 0.11
25 13 0.36
26 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTAATATAACTATTTTTTA
Found at i:2981341 original size:26 final size:25
Alignment explanation
Indices: 2981312--2981372 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2981302 ACATTTAATT
* *
2981312 TAATT-AATTAATATAACTATTTTTTA
1 TAATTAAATAAAT-TAACTA-TTTTAA
*
2981338 TAATAAAATAAATTAACTATTTTAA
1 TAATTAAATAAATTAACTATTTTAA
2981363 TAATTAAATA
1 TAATTAAATA
2981373 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 14 0.47
26 10 0.33
27 6 0.20
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATTAAATAAATTAACTATTTTAA
Found at i:2981461 original size:55 final size:54
Alignment explanation
Indices: 2981339--2981461 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 54
2981329 TATTTTTTAT
**
2981339 AATAAAATAAATTAACTATTTTAATAATTAAATATAAAATTTTTTACAATATAC
1 AATAAAATAAATTAAAAATTTTAATAATTAAATATAAAATTTTTTACAATATAC
* ** * *
2981393 AATAAAAACAAATTAAAAATTTTAAT-ATCTAAATATAATTTTTTTTACAGTTTAC
1 AAT-AAAATAAATTAAAAATTTTAATAAT-TAAATATAAAATTTTTTACAATATAC
*
2981448 GATAAAAGTAAATT
1 AATAAAA-TAAATT
2981462 TGTCTTATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
54 9 0.16
55 48 0.84
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (54 bp):
AATAAAATAAATTAAAAATTTTAATAATTAAATATAAAATTTTTTACAATATAC
Found at i:2983006 original size:11 final size:11
Alignment explanation
Indices: 2982990--2983025 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
2982980 ACAATCAATG
2982990 TATTTATATTA
1 TATTTATATTA
2983001 TATTTATATTA
1 TATTTATATTA
*
2983012 TTTTTTATATTA
1 -TATTTATATTA
2983024 TA
1 TA
2983026 ATCATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATATTA
Found at i:2983576 original size:16 final size:15
Alignment explanation
Indices: 2983555--2983591 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2983545 ATTTAAATTT
2983555 TTTTAATAATATATAA
1 TTTTAA-AATATATAA
2983571 TTTT-AAATATATAA
1 TTTTAAAATATATAA
2983585 TTTTAAA
1 TTTTAAA
2983592 TTACAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.65
15 3 0.15
16 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAAAATATATAA
Found at i:2983581 original size:14 final size:14
Alignment explanation
Indices: 2983562--2983592 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2983552 TTTTTTTAAT
2983562 AATATATAATTTTA
1 AATATATAATTTTA
2983576 AATATATAATTTTA
1 AATATATAATTTTA
2983590 AAT
1 AAT
2983593 TACAGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATATAATTTTA
Found at i:2983709 original size:5 final size:5
Alignment explanation
Indices: 2983699--2983738 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
2983689 AAAAATTAAG
2983699 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
2983739 CAAATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:2983867 original size:2 final size:2
Alignment explanation
Indices: 2983860--2983906 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
2983850 ACCAACACGC
* *
2983860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2983902 AT AT A
1 AT AT A
2983907 GATGGTGTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2984877 original size:170 final size:170
Alignment explanation
Indices: 2984625--2985227 Score: 758
Period size: 170 Copynumber: 3.6 Consensus size: 170
2984615 ATCTATCTAC
* * * * *
2984625 ATAAATATTTATTATTTAATGAT-C---ACGTATATAATAAATAATT--TTTTTTTGATATATTA
1 ATAAATATTTATTATTTAATAATACATAAGGTATGTAATAAATAATTGATTTTTTTAATATATAA
*
2984684 TTTGGAGTTGAGATAAGGATATTAGGATTTGAATTCAAACTTTCATACCAATATAAACTTCTTGT
66 TTTGAAGTTGAGATAAGGATATTAGGATTTGAATTCAAACTTTCATACCAATATAAACTTCTTGT
*
2984749 CACTCGATAAAAAGATTTCTATCATTAATTAATCTTTTGAA
131 CACTCGATAAAAAGATTGCTA-CATTAATTAATCTTTTGAA
* * * *
2984790 ATAAATATTTATTATTTGATAAT-CATATGATATGTAATAAATAATTGATTTTTTTAATTTATAA
1 ATAAATATTTATTATTTAATAATACATAAGGTATGTAATAAATAATTGATTTTTTTAATATATAA
** * * * *
2984854 TTTGAAGTTGAGACGAGGATATTAGAATTTGAATTCAAACTTTTATACCAATATAAATTTTTTGT
66 TTTGAAGTTGAGATAAGGATATTAGGATTTGAATTCAAACTTTCATACCAATATAAACTTCTTGT
* * *
2984919 CACTCAATAAAAAGATTGCTACAATTAATTAATCTCTTAAA
131 CACTCGATAAAAAGATTGCTAC-ATTAATTAATCTTTTGAA
* *
2984960 ATAAATATTTATTATTTAATAATCACATAAGGTATGTAATAGATAATTGGTTTTTTTTTAATATA
1 ATAAATATTTATTATTTAATAAT-ACATAAGGTATGTAATAAATAATT-G-ATTTTTTTAATATA
* * * * * * *
2985025 TAATTT-AGGTTGGGATAAGGATATTAAGTTTTGAATTCAAACTTTCATACCGATATAGACCTCT
63 TAATTTGAAGTTGAGATAAGGATATTAGGATTTGAATTCAAACTTTCATACCAATATAAACTTCT
* * *
2985089 TGTCACTCGGTAAAAAGATTGCTAACAATAATTAATTTTTTGAA
128 TGTCACTCGATAAAAAGATTGCT-ACATTAATTAATCTTTTGAA
*
2985133 ATAAATATTTATTATTTAATAATCACATAAGGTATGTAATAAATAATTAATTTTTTT-ATATATA
1 ATAAATATTTATTATTTAATAAT-ACATAAGGTATGTAATAAATAATTGATTTTTTTAATATATA
*
2985197 ATTTGAGGTTGAGATGAA-GATATTAGGATTT
65 ATTTGAAGTTGAGAT-AAGGATATTAGGATTT
2985228 AATAAGATAG
Statistics
Matches: 374, Mismatches: 51, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
165 22 0.06
168 15 0.04
169 1 0.00
170 139 0.37
171 27 0.07
172 22 0.06
173 128 0.34
174 20 0.05
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (170 bp):
ATAAATATTTATTATTTAATAATACATAAGGTATGTAATAAATAATTGATTTTTTTAATATATAA
TTTGAAGTTGAGATAAGGATATTAGGATTTGAATTCAAACTTTCATACCAATATAAACTTCTTGT
CACTCGATAAAAAGATTGCTACATTAATTAATCTTTTGAA
Found at i:2994106 original size:19 final size:19
Alignment explanation
Indices: 2994082--2994149 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2994072 AATTCAACAA
2994082 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2994101 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2994116 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2994133 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2994150 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2994121 original size:13 final size:13
Alignment explanation
Indices: 2994103--2994127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2994093 ACATAAGTTT
2994103 TGTATCGATACAA
1 TGTATCGATACAA
2994116 TGTATCGATACA
1 TGTATCGATACA
2994128 TAAGTATTGT
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:2994125 original size:32 final size:32
Alignment explanation
Indices: 2994084--2994146 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2994074 TTCAACAATT
*
2994084 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2994116 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2994147 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2994207 original size:13 final size:13
Alignment explanation
Indices: 2994189--2994214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2994179 CATTTTTCTG
2994189 TGTATCGATACAT
1 TGTATCGATACAT
2994202 TGTATCGATACAT
1 TGTATCGATACAT
2994215 GGATCTTTGT
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:2994211 original size:33 final size:33
Alignment explanation
Indices: 2994169--2994235 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2994159 GCCAAGGAAA
***
2994169 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2994202 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2994235 T
1 T
2994236 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2996782 original size:31 final size:28
Alignment explanation
Indices: 2996699--2996768 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
2996689 CTTCACAATC
* * ***
2996699 GGGGACACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
2996726 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
2996754 GGGGATACTCCAACC
1 GGGGATACTCCAACC
2996769 TCGACTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.20
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:2996813 original size:51 final size:51
Alignment explanation
Indices: 2996754--2996926 Score: 204
Period size: 52 Copynumber: 3.4 Consensus size: 51
2996744 TTATTTCCGA
* ***
2996754 GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
* * * * * *
2996805 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTC-ATAATC
*
2996857 GGGGATACTCCAACAC-CGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CTCGATTTTATTTCC-AAAATACCAATTTTTCATAATC
*
2996909 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
2996927 TTATTTCATC
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
51 37 0.37
52 49 0.49
53 15 0.15
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
Found at i:2996870 original size:52 final size:52
Alignment explanation
Indices: 2996579--2996923 Score: 193
Period size: 51 Copynumber: 6.6 Consensus size: 52
2996569 TTGAGTTGCT
* * * * * *
2996579 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTACTTT-C-AAAACAT
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTA-TTTCCAAAAACAC
* * *
2996630 TAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACAC
* * * * * *** * *
2996683 CAATTTCTTCACAATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTC
1 CAATTT-TCCATAATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACAC
** * * * * * *
2996736 CAA--CCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCC-AAAATAT
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
** * * *
2996790 TGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
2996841 CAATTTTCCTTTAATCGGGGATACTCCAACACCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
2996894 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
2996924 TCGTTATTTC
Statistics
Matches: 215, Mismatches: 62, Indels: 33
0.69 0.20 0.11
Matches are distributed among these distances:
50 4 0.02
51 71 0.33
52 53 0.25
53 36 0.17
54 26 0.12
55 18 0.08
56 3 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:2996997 original size:211 final size:211
Alignment explanation
Indices: 2996590--2996997 Score: 579
Period size: 211 Copynumber: 1.9 Consensus size: 211
2996580 AATTCTCCAC
* * **
2996590 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTTTCTATAATCGGGGATACTC
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
2996655 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * * * *
2996720 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCAA
131 ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
2996785 AATATTGATTTTTCAT
196 AATATTGATTTTTCAT
* * * *
2996801 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * *
2996866 CCAACACCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
65 CCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
* *
2996929 ATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGAACACTCCAACCCCG-TTATTATCTC
130 A-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCTC
2996993 CAAAA
193 CAAAA
2996998 CATTAAATTT
Statistics
Matches: 173, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
210 28 0.16
211 110 0.64
212 35 0.20
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (211 bp):
AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AATATTGATTTTTCAT
Found at i:3002341 original size:25 final size:24
Alignment explanation
Indices: 3002312--3002394 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
3002302 AAAAATGATG
*
3002312 AAAAAGTCAAAAGTAAACACACAA
1 AAAAAGTCAAAAGAAAACACACAA
*
3002336 ACAAAAGTC-AAAGCAAACACA-AA
1 A-AAAAGTCAAAAGAAAACACACAA
* *
3002359 AAACAGAACAAAA-AAAACACACAA
1 AAAAAG-TCAAAAGAAAACACACAA
3002383 AAAAAGTGCAAA
1 AAAAAGT-CAAA
3002395 TGCAAAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
22 4 0.08
23 11 0.23
24 26 0.54
25 7 0.15
ACGTcount: A:0.69, C:0.18, G:0.08, T:0.05
Consensus pattern (24 bp):
AAAAAGTCAAAAGAAAACACACAA
Found at i:3002373 original size:14 final size:13
Alignment explanation
Indices: 3002349--3002387 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
3002339 AAAGTCAAAG
*
3002349 CAAACACAAAAAA
1 CAAACAAAAAAAA
3002362 CAGAACAAAAAAAA
1 CA-AACAAAAAAAA
*
3002376 CACACAAAAAAA
1 CAAACAAAAAAA
3002388 GTGCAAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.77, C:0.21, G:0.03, T:0.00
Consensus pattern (13 bp):
CAAACAAAAAAAA
Found at i:3002378 original size:47 final size:48
Alignment explanation
Indices: 3002326--3002423 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 48
3002316 AGTCAAAAGT
3002326 AAACACACAAACAAAAGT-CAAA-GCAAACACAAAAAACAGAACAA-AAA
1 AAACACACAAA-AAAAGTGCAAATGCAAA-ACAAAAAACAGAACAACAAA
* **
3002373 AAACACACAAAAAAAGTGCAAATGCAAAATAAAAAAGGGAACAACAAA
1 AAACACACAAAAAAAGTGCAAATGCAAAACAAAAAACAGAACAACAAA
3002421 AAA
1 AAA
3002424 GTCAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
46 6 0.13
47 28 0.62
48 11 0.24
ACGTcount: A:0.69, C:0.17, G:0.09, T:0.04
Consensus pattern (48 bp):
AAACACACAAAAAAAGTGCAAATGCAAAACAAAAAACAGAACAACAAA
Found at i:3003757 original size:31 final size:31
Alignment explanation
Indices: 3003682--3003834 Score: 150
Period size: 31 Copynumber: 4.9 Consensus size: 31
3003672 ATACCTTCTT
* * *
3003682 AAAGTTCACGACTCAGTGGCATTTTGTC-CT
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
*
3003712 AAAGTCTACGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
3003743 AAAGTCCACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* *
3003774 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * * *
3003805 AAAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGTCCACGACTCAGTGGCA-TTTTTTCT
3003835 TTTCAAAGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
29 3 0.03
30 28 0.27
31 58 0.57
32 9 0.09
33 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:3003845 original size:34 final size:34
Alignment explanation
Indices: 3003767--3003934 Score: 166
Period size: 35 Copynumber: 5.0 Consensus size: 34
3003757 AGTGGCAATC
* * * *
3003767 TCTTTTCAAAGTCCACGACTCAGTGGCATC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
3003800 TC--TTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
3003832 TCTTTTCAAAGCCCACAATTCCGTGGTACCCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTTT
* *
3003867 TCTTTTTAAAGCCCACAACTCCATGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* * *
3003902 TCCCTTTT--AAGTCCACAATTTCGTGGCACCTTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACCTTT
3003935 AAGTCCACAA
Statistics
Matches: 114, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
31 22 0.19
32 5 0.04
33 2 0.02
34 27 0.24
35 53 0.46
37 5 0.04
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.36
Consensus pattern (34 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:3003936 original size:25 final size:25
Alignment explanation
Indices: 3003907--3003959 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
3003897 CTTTTTCCCT
* *
3003907 TTTAAGTCCACAATTTCGTGGCACC
1 TTTAAGTCCACAACTCCGTGGCACC
*
3003932 TTTAAGTCCACAACTCCGTGGCATC
1 TTTAAGTCCACAACTCCGTGGCACC
3003957 TTT
1 TTT
3003960 CTCCTTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (25 bp):
TTTAAGTCCACAACTCCGTGGCACC
Found at i:3004241 original size:42 final size:43
Alignment explanation
Indices: 3004177--3004442 Score: 266
Period size: 42 Copynumber: 5.9 Consensus size: 43
3004167 CCTTCGTCAT
* *
3004177 CTTTAAGACCAATGTCGCTGGCCTTGAATAAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
3004220 C-TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* * * *
3004263 TTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATCGACAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3004311 CTTTAAGTCCAATATCGCTGGCCTCTTGAATCAGCATATTGGCACC
1 CTTTAAGACCAATATCGCTGG-C-CTTGAATCAGCACATTGGCA-C
*
3004357 TTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA-TGGCAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3004404 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTG
3004443 CTCCTTCGTC
Statistics
Matches: 183, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
42 68 0.37
43 22 0.12
44 1 0.01
45 17 0.09
46 1 0.01
47 1 0.01
48 7 0.04
49 46 0.25
50 1 0.01
51 19 0.10
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3004347 original size:94 final size:91
Alignment explanation
Indices: 3004125--3004442 Score: 503
Period size: 94 Copynumber: 3.4 Consensus size: 91
3004115 GCACCTTCAT
* *
3004125 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-GTCTTTAAGACCAAT
* *
3004190 GTCGCTGGCCTTGAATAAGCACATTGGCAC
63 GTCGCTGGCCTTGAATCAGCACA-TGACAC
* *
3004220 C-TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
3004284 GCTGGCCTTGAATCAGCACATCGACAC
66 GCTGGCCTTGAATCAGCACAT-GACAC
3004311 CTTTAAGTCCAATATCGCTGGCCTCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
1 CTTTAAGTCCAATATCGCTGG-C-CTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
*
3004376 TCGCTGGCCTTGAATCAGCACATGGCAC
64 TCGCTGGCCTTGAATCAGCACATGACAC
3004404 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
3004443 CTCCTTCGTC
Statistics
Matches: 210, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
90 1 0.00
91 57 0.27
92 20 0.10
93 26 0.12
94 105 0.50
95 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (91 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGCACATGACAC
Found at i:3004490 original size:51 final size:52
Alignment explanation
Indices: 3004404--3004648 Score: 229
Period size: 51 Copynumber: 4.8 Consensus size: 52
3004394 CACATGGCAC
* * *
3004404 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-GCTCCTTCGTCAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTACGTCAT
*
3004455 CTTTAAGTCCAA-ATCACTGGCCTTGAATTAGGCATATTGGCACCTACGTCAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCA-GCATATTGGCACCTACGTCAT
* * * *
3004507 CTTTAAGTCCAATGTCGCTGGCCTTAAATCA-CACATTGGCACCT---TCAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTACGTCAT
* * *
3004555 CTTTAAGTCCAA-A--ACGTGTGGCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAATATCAC-TG-GCCTTGAATCAGCATATTGGCACCTACGTCAT
* ** * ** *
3004606 CTTAAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 CTT-TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCA
3004649 TTCTTCTCAT
Statistics
Matches: 157, Mismatches: 24, Indels: 24
0.77 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 9 0.06
48 27 0.17
50 16 0.10
51 38 0.24
52 29 0.18
53 33 0.21
54 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (52 bp):
CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTACGTCAT
Found at i:3004530 original size:145 final size:146
Alignment explanation
Indices: 3004028--3004608 Score: 416
Period size: 143 Copynumber: 4.0 Consensus size: 146
3004018 GCGTTTTCTT
* * **
3004028 TTTAAGCCCAATATCGCTTGG-C-CTTGAATCAGCATATTGGCACCTTTGTC-TTAAGACCAATG
1 TTTAAGTCCAATATCAC-TGGCCTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* *
3004090 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG-GCCTTGAAT
65 TCGCTGGCCTTAAATCA-CACATTGGCA-C--CA-CTTTAAGTCCAA-AACG-TGTGCCTTGAAT
3004154 CAGCATATTGGCGCCTTCGTCATC
123 CAGCATATTGGCGCCTTCGTCATC
* * * * * * *
3004178 TTTAAGACCAATGTCGCTGG-C-CTTGAATAAGCACATTGGCA----C--C-TTAAGTCCAATAT
1 TTTAAGTCCAATATCACTGGCCTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
* * * * * *
3004234 CGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACC--AATGTTGCTGGCCTTGAAT
66 CGCTGGCCTTAAATCA-CACATTGGCACC----ACTTTAAGTCCAAAACG-TG-T-GCCTTGAAT
* * *
3004297 CAGC--A-------CATCGACACC
123 CAGCATATTGGCGCCTTCGTCATC
* **
3004312 TTTAAGTCCAATATCGCTGGCCTCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
1 TTTAAGTCCAATATCACTGGCCTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
* *
3004377 CGCTGGCCTTGAATCAGCACA-TGGCA-C-CTTTAAGTCCAATATCGCTG-GCCTTGAATCAGCA
66 CGCTGGCCTTAAATCA-CACATTGGCACCACTTTAAGTCCAA-AACG-TGTGCCTTGAATCAGCA
*
3004438 TATT-GCTCCTTCGTCATC
128 TATTGGCGCCTTCGTCATC
* *
3004456 TTTAAGTCCAA-ATCACTGG-C-CTTGAATTAGGCATATTGGCACCTACGTCATCTTTAAGTCCA
1 TTTAAGTCCAATATCACTGGCCTCTTGAATCA-GCATATTGGCACCT---TCATCTTTAAGACCA
*
3004518 ATGTCGCTGGCCTTAAATCACACATTGGCACCTTCATCTTTAAGTCCAAAACGTGTGGCTTGAAT
62 ATGTCGCTGGCCTTAAATCACACATTGGCA-C--CA-CTTTAAGTCCAAAACGTGTGCCTTGAAT
3004583 CAGCATATTGGCGCCTTCGTCATC
123 CAGCATATTGGCGCCTTCGTCATC
3004607 TT
1 TT
3004609 AAAAACCCAA
Statistics
Matches: 349, Mismatches: 42, Indels: 79
0.74 0.09 0.17
Matches are distributed among these distances:
134 25 0.07
135 1 0.00
136 40 0.11
138 1 0.00
139 4 0.01
140 5 0.01
141 10 0.03
142 22 0.06
143 96 0.28
144 22 0.06
145 36 0.10
149 25 0.07
150 35 0.10
151 27 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (146 bp):
TTTAAGTCCAATATCACTGGCCTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
CGCTGGCCTTAAATCACACATTGGCACCACTTTAAGTCCAAAACGTGTGCCTTGAATCAGCATAT
TGGCGCCTTCGTCATC
Found at i:3004622 original size:100 final size:100
Alignment explanation
Indices: 3004412--3004648 Score: 266
Period size: 100 Copynumber: 2.3 Consensus size: 100
3004402 ACCTTTAAGT
* * * *
3004412 CCAATATCGCTGGCCTTGAATCAGCATATT-GCTCCTTCGTCATCTTTAAGTCCAAATCACTGGC
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACC-T--TCATCTTTAAGTCCAAA-CACTGGC
* * **
3004476 CTTGAATTAGGCATATTGGCACCTACGTCATCTTTAAGT
62 CTTGAATCAGGCATATTGGCACCTACGTCATCTTAAAAC
*
3004515 CCAATGTCGCTGGCCTTAAATCA-CACATTGGCACCTTCATCTTTAAGTCCAAA-ACGTGTGGCT
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAACAC-TG-GCCT
* *
3004578 TGAATCA-GCATATTGGCGCCTTCGTCATCTTAAAAAC
64 TGAATCAGGCATATTGGCACCTACGTCATCTT-AAAAC
* *
3004615 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCA
3004649 TTCTTCTCAT
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
98 2 0.02
99 24 0.21
100 49 0.42
101 10 0.09
102 6 0.05
103 25 0.22
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (100 bp):
CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAACACTGGCCTTG
AATCAGGCATATTGGCACCTACGTCATCTTAAAAC
Found at i:3004637 original size:53 final size:52
Alignment explanation
Indices: 3004404--3004667 Score: 267
Period size: 53 Copynumber: 5.2 Consensus size: 52
3004394 CACATGGCAC
*
3004404 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-GCTCCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
* * *
3004455 CTTTAAGTCCAA-ATCACTGGCCTTGAATTAGGCATATTGGCACCTACGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCA-GCATATTGGCACCTTCGTCAT
* * *
3004507 CTTTAAGTCCAATGTCGCTGGCCTTAAATCA-CACATTGGCACC-T--TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
* * *
3004555 CTTTAAGTCCAA-AACG-TGTGGCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAATATCGCTG-GCCTTGAATCAGCATATTGGCACCTTCGTCAT
* ** * * * *
3004606 CTTAAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTC-TCAT
1 CTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCGTCAT
*
3004659 CTTCAAGTC
1 CTTTAAGTC
3004668 TAAATGGCGT
Statistics
Matches: 173, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
46 2 0.01
47 11 0.06
48 26 0.15
49 1 0.01
50 16 0.09
51 37 0.21
52 32 0.18
53 42 0.24
54 6 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
Found at i:3004679 original size:53 final size:53
Alignment explanation
Indices: 3004404--3004700 Score: 242
Period size: 53 Copynumber: 5.8 Consensus size: 53
3004394 CACATGGCAC
* * * *
3004404 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATT-GCTCCTTCGTCAT
1 CTTTAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCGTCAT
** * * *
3004455 CTTTAAGTCCAAA--TCACTGGCCTTGAATTAGGCATATTGGCACCTACGTCAT
1 CTTTAAGTCCAAATGTCGTTGGCCTTGAATCA-GCACATTGGCACCTTCGTCAT
* *
3004507 CTTTAAGTCC-AATGTCGCTGGCCTTAAATCA-CACATTGGCACC-T--TCAT
1 CTTTAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCGTCAT
* * *
3004555 CTTTAAGTCCAAA--ACGTGTGG-CTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAAATGTCGT-TGGCCTTGAATCAGCACATTGGCACCTTCGTCAT
* ** * *
3004606 CTTAAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTC-TCAT
1 CTTTAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTTCGTCAT
* * * * *
3004659 CTTCAAGTCTAAATGGCGTTGACCGTGAGAATCAGCACATTG
1 CTTTAAGTCCAAATGTCGTTGGCC-T-TGAATCAGCACATTG
3004701 ACATCCTCTT
Statistics
Matches: 199, Mismatches: 30, Indels: 30
0.77 0.12 0.12
Matches are distributed among these distances:
47 10 0.05
48 27 0.14
49 3 0.02
50 15 0.08
51 43 0.22
52 26 0.13
53 56 0.28
54 5 0.03
55 14 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (53 bp):
CTTTAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCGTCAT
Found at i:3004746 original size:55 final size:52
Alignment explanation
Indices: 3004602--3004747 Score: 123
Period size: 55 Copynumber: 2.7 Consensus size: 52
3004592 GGCGCCTTCG
* * * * *
3004602 TCATCTTAAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTC
1 TCATCTT-AAAACCTAATATCGTTGGCCGTGAATCAGCACATTGACATTCTTA
* ** *
3004655 TCATCTTCAAGTCTAA-ATGGCGTTGACCGTGAGAATCAGCACATTGACATCCTCTTTA
1 TCATCTTAAAACCTAATAT--CGTTGGCCGT--GAATCAGCACATTGACAT--TC-TTA
*
3004713 TCATCTTTAAACCTAATATCGTTGGCCGTGAATCA
1 TCATCTTAAAACCTAATATCGTTGGCCGTGAATCA
3004748 ACGTATGGTC
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
51 1 0.01
52 5 0.07
53 15 0.21
55 23 0.32
57 11 0.15
58 15 0.21
59 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (52 bp):
TCATCTTAAAACCTAATATCGTTGGCCGTGAATCAGCACATTGACATTCTTA
Found at i:3005436 original size:13 final size:13
Alignment explanation
Indices: 3005418--3005442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3005408 ACATAAGTGT
3005418 TGTATCGATACAA
1 TGTATCGATACAA
3005431 TGTATCGATACA
1 TGTATCGATACA
3005443 TAAGTTTTGT
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
Done.