Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 14 of 15
Found at i:2141298 original size:28 final size:28
Alignment explanation
Indices: 2141267--2141479 Score: 187
Period size: 28 Copynumber: 7.5 Consensus size: 28
2141257 CGTTCATCTC
* *
2141267 TTCAAAGCCCACAGGTCAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2141295 TTCAAAGTCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2141323 TTCAAAGCCCGCCAGTTAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
2141351 CTCAAAGCCAACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2141379 TTCAAAGCCCACAAGTCAATGGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2141407 TTCAAAGCCTACAAGTCGGTAGCA-CTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
2141435 TTCAAAGCCAACATAGGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA-A-GTCAGTGGC-A-TCCT
2141467 TTCAAAGCCCACA
1 TTCAAAGCCCACA
2141480 CAAGTTAATA
Statistics
Matches: 151, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.01
28 123 0.81
29 2 0.01
30 8 0.05
31 1 0.01
32 14 0.09
33 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2141410 original size:84 final size:84
Alignment explanation
Indices: 2141263--2141479 Score: 227
Period size: 84 Copynumber: 2.5 Consensus size: 84
2141253 AGAACGTTCA
* * * * * *
2141263 TCTCTTCAAAGCCCACAGGTCAGTGACATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTTCAA
1 TCTC-TCAAAGCCAACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCATCCTTTCAA
* * * *
2141328 AGCCCGCCAGTTAGTGGCAC
65 AGCCCACAAGTCAGTAGCAC
* *
2141348 TCTCTCAAAGCCAACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGTATCTTTTCAAA
1 TCTCTCAAAGCCAACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAA
* *
2141413 GCCTACAAGTCGGTAGCAC
66 GCCCACAAGTCAGTAGCAC
* * * *
2141432 TTTTTCAAAGCCAACATAGGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TCTCTCAAAGCCAACA-A-GTCAGTGGC-A-TCATTTCAAAGCCCACA
2141480 CAAGTTAATA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
84 80 0.73
85 5 0.05
86 8 0.07
87 1 0.01
88 16 0.15
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (84 bp):
TCTCTCAAAGCCAACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAA
GCCCACAAGTCAGTAGCAC
Found at i:2142444 original size:21 final size:20
Alignment explanation
Indices: 2142420--2142476 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2142410 TTTGATGTAT
*
2142420 AATGTATCAATACATTATATG
1 AATGTATCAATACATTAT-TC
* * *
2142441 AATGTATCGATGCATTCTTC
1 AATGTATCAATACATTATTC
2142461 AATGTATCAATACATT
1 AATGTATCAATACATT
2142477 TTATCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTATTC
Found at i:2147176 original size:15 final size:15
Alignment explanation
Indices: 2147156--2147187 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2147146 CTTCATCTTT
2147156 AATGCTTAAAAATAA
1 AATGCTTAAAAATAA
2147171 AATGCTTAAAAATAA
1 AATGCTTAAAAATAA
2147186 AA
1 AA
2147188 CCCAAGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (15 bp):
AATGCTTAAAAATAA
Found at i:2150614 original size:13 final size:13
Alignment explanation
Indices: 2150596--2150626 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2150586 ACAATTCATC
2150596 ATGTATCGATACA
1 ATGTATCGATACA
2150609 ATGTATCGATACA
1 ATGTATCGATACA
*
2150622 TTGTA
1 ATGTA
2150627 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2150614 original size:33 final size:33
Alignment explanation
Indices: 2150574--2150642 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
2150564 CCATTACAAG
*
2150574 CAATGTATAAATACAATT-CATCATGTATCGATA
1 CAATGTATAAATAC-ATTGCACCATGTATCGATA
** *
2150607 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATAAATACATTGCACCATGTATCGATA
2150640 CAA
1 CAA
2150643 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATAAATACATTGCACCATGTATCGATA
Found at i:2150696 original size:20 final size:20
Alignment explanation
Indices: 2150671--2150725 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2150661 CTGCCAATTT
***
2150671 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
2150691 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
2150710 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2150726 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:2150729 original size:13 final size:13
Alignment explanation
Indices: 2150711--2150737 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2150701 TACAATAAAC
2150711 ATGTATCGATACA
1 ATGTATCGATACA
2150724 ATGTATCGATACA
1 ATGTATCGATACA
2150737 A
1 A
2150738 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2154049 original size:32 final size:33
Alignment explanation
Indices: 2153990--2154051 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2153980 TTAGGCACAA
* *
2153990 TGTATCGATACAATTCTTCATGTATCGATATAT
1 TGTATCGATACAACTCTCCATGTATCGATATAT
2154023 TGTATCGATACAACTC-CCATGTATCGATA
1 TGTATCGATACAACTCTCCATGTATCGATA
2154052 CAAACAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAACTCTCCATGTATCGATATAT
Found at i:2160714 original size:155 final size:156
Alignment explanation
Indices: 2159976--2160676 Score: 730
Period size: 156 Copynumber: 4.5 Consensus size: 156
2159966 TCCTTAGGGG
* * * * * * *
2159976 ATACCTTCGACGTGAAACTAT-CAGGATAACCCTAAAGGACTTAAAAAGATTAGAGATGGGATGA
1 ATACCTTCGACGTAAAAGTATCCCGG-CAACTCTAAAGGACTTAAAAAGACTAAAGATGGGATGA
* * *
2160040 ACCTATCCTAAATGCCCTCCTTCAGCATAAAAGCAAA-CTCGGTGACAACCTAA-GACT-TAGTT
65 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCT-GGTGACAACCTAAGGACTCGA-TT
* * *
2160102 TTAGGAAATTATGAAAATGCCCCTATGGGT
128 CTA-GAAATTACGAAAATACCCCTATGGGT
*
2160132 ATACCTTCGACGTAAAAGTATCCCGGCAACTCTGAAGGACTTAAAAAGA-TAAAGAGTGAAATGG
1 ATACCTTCGACGTAAAAGTATCCCGGCAACTCTAAAGGACTTAAAAAGACT-AA-A--G--ATGG
* * * * * *
2160196 GATAAACCTATTCTAAATGCCCACCTTCGGTATAAAAGCAGACTTGGCGACAACC-AAGGAC-CT
60 GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGACAACCTAAGGACTC-
* *
2160259 GATTCTAGGAAATTACGAAAAAACCCTTATGGGT
124 GATTCTA-GAAATTACGAAAATACCCCTATGGGT
* * * *
2160293 ATATCTTCGACATAAAAGTATCCC-G--AC-CTAAAGGACTTAAAAAGACTAGAGATGGAATGAA
1 ATACCTTCGACGTAAAAGTATCCCGGCAACTCTAAAGGACTTAAAAAGACTAAAGATGGGATGAA
* * * * * * *
2160354 CCTATCCTAAATGCCCACCTTGGGCATGAAAGCGAACTTGGTGAAAACCT-AGGACTCAATTTTA
66 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGACAACCTAAGGACTCGATTCT-
2160418 AGAAATTACGAAAATACCCCTATGGGT
130 AGAAATTACGAAAATACCCCTATGGGT
* * * * *
2160445 ATACCTTCGACGTAAAAGTATCCAGGCAA-TCCTAAAAGATTTTAAAAGACTAAAGATGGGATAA
1 ATACCTTCGACGTAAAAGTATCCCGGCAACT-CTAAAGGACTTAAAAAGACTAAAGATGGGATGA
* * * * * *
2160509 ACCCATCCTAAATGCCCACCTTCGACATAAAATCAAACCCGATGACAACCTGA-GACTCGATTCT
65 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGACAACCTAAGGACTCGATTCT
* *
2160573 A-AAAGTTATGAAAATGCCCCTATGGGT
130 AGAAA-TTACGAAAATACCCCTATGGGT
* *
2160600 ATACCTTTGACGTAAAAGTATCCCGACAACTCTAAAGGACTTAAAAAGACTAAAGATGGGATGAA
1 ATACCTTCGACGTAAAAGTATCCCGGCAACTCTAAAGGACTTAAAAAGACTAAAGATGGGATGAA
2160665 CCTATCCTAAAT
66 CCTATCCTAAAT
2160677 ATGCACTTTC
Statistics
Matches: 452, Mismatches: 70, Indels: 47
0.79 0.12 0.08
Matches are distributed among these distances:
152 103 0.23
153 3 0.01
154 4 0.01
155 90 0.20
156 119 0.26
157 23 0.05
158 3 0.01
159 1 0.00
160 3 0.01
161 101 0.22
162 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (156 bp):
ATACCTTCGACGTAAAAGTATCCCGGCAACTCTAAAGGACTTAAAAAGACTAAAGATGGGATGAA
CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGACAACCTAAGGACTCGATTCTA
GAAATTACGAAAATACCCCTATGGGT
Found at i:2160964 original size:46 final size:46
Alignment explanation
Indices: 2160907--2161003 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
2160897 ATTCATTTGC
*
2160907 TGCTA-CTTTTTTTCATTATT-GTCACCTCCATACATGAAATTGAGT
1 TGCTACCTTTTTTTCATTATTACT-ACCTCCATACATGAAATTGAGT
* * *
2160952 TGCTACCTTTTTTTCATTATTACTACGTCTATGCATGAAATTGAGT
1 TGCTACCTTTTTTTCATTATTACTACCTCCATACATGAAATTGAGT
2160998 TGCTAC
1 TGCTAC
2161004 ATTTCCGCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 5 0.11
46 40 0.87
47 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (46 bp):
TGCTACCTTTTTTTCATTATTACTACCTCCATACATGAAATTGAGT
Found at i:2162611 original size:20 final size:19
Alignment explanation
Indices: 2162558--2162612 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2162548 GTATCGATAC
* *
2162558 ATTGTATCAATACATGTAA
1 ATTGTATCGATACATGGAA
*
2162577 ATTGTATCGACACATGGACA
1 ATTGTATCGATACATGGA-A
*
2162597 ATTGTATTGATACATG
1 ATTGTATCGATACATG
2162613 AGAATGGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (19 bp):
ATTGTATCGATACATGGAA
Found at i:2162685 original size:33 final size:33
Alignment explanation
Indices: 2162641--2162707 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
2162631 CTACCACTAT
*
2162641 TTGTATTGATACATGAT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
2162674 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
2162707 T
1 T
2162708 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:2162687 original size:13 final size:13
Alignment explanation
Indices: 2162655--2162687 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2162645 ATTGATACAT
*
2162655 GATACAATGTATC
1 GATACATTGTATC
2162668 GATACATTGTATC
1 GATACATTGTATC
2162681 GATACAT
1 GATACAT
2162688 GATGAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:2165621 original size:20 final size:20
Alignment explanation
Indices: 2165596--2165668 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
2165586 TTTACCCAGA
2165596 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
2165616 TGTATCGATACA--TTGCTAT
1 TGTATCGATACATTTTGC-AT
* * * *
2165635 TCTATAGATACATTTTACAA
1 TGTATCGATACATTTTGCAT
2165655 TGTATCGATACATT
1 TGTATCGATACATT
2165669 CAGGCATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.09
19 12 0.27
20 25 0.57
21 3 0.07
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:2167987 original size:51 final size:51
Alignment explanation
Indices: 2167883--2168098 Score: 188
Period size: 51 Copynumber: 4.2 Consensus size: 51
2167873 TTCATCTCGA
* * * * ** *
2167883 GGATACTCCAA-TCCCGGTTTCATTTCCAAAACA-TCAATTTTTCTTAATTGG
1 GGATACTCCAACT-CCGATTTTATTTCTAAAACACTCAA-TTTCCACAATCGG
* * * * * *
2167934 GGATACTCCAACTCCAAGTTTATTTTTAAAAGACTCACTTTCCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACTCAATTTCCACAATCGG
* * *
2167985 GGATACTCCAACTCTGATTTTATTTCTAAAATAC-CAATTCTCCACAATCAG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACTCAATT-TCCACAATCGG
* * *
2168036 GGATATTCCAACTCCGATTTTATTTCCAAAACACT-AATTTTTCACAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACTCAA-TTTCCACAATCGG
*
2168087 GGATACTTCAAC
1 GGATACTCCAAC
2168099 CCCGTTATTT
Statistics
Matches: 133, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
50 4 0.03
51 123 0.92
52 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCTAAAACACTCAATTTCCACAATCGG
Found at i:2168118 original size:28 final size:28
Alignment explanation
Indices: 2168082--2168155 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2168072 ATTTTTCACA
* *
2168082 ATCGGGGATACTTCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
2168110 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
***
2168138 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
2168156 TCGGCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:2168193 original size:158 final size:158
Alignment explanation
Indices: 2167983--2168280 Score: 354
Period size: 158 Copynumber: 1.9 Consensus size: 158
2167973 TTCCATAATC
*
2167983 GGGGATACTCCAACTCTGATTTTATTTCTAAAATACCAATTCTCCACAATCAGGGATA-TTCCAA
1 GGGGATACTCCAACTCTGACTTTATTTCTAAAATACCAATTCTCCACAATCAGGGATACTT-CAA
* ** * *
2168047 CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTT-CAACCCCGTTA-TTTC
65 CCCCGACCTTATTTCCAAAACACTAATTTCTCACAATCGGGGATA-TTCCAACCCCATTATTTTC
2168110 ATCGGGGATACTCCAACCCCATTATTTCCGA
129 A-CGGGGATACTCCAACCCCATTATTTCCGA
* *** *
2168141 GGGGATACTCCAAC-CTCGGCTTTATTTCTAAAATATTGATT-TCTCATAATCAGGGATACTTCA
1 GGGGATACTCCAACTCT-GACTTTATTTCTAAAATACCAATTCTC-CACAATCAGGGATACTTCA
* * * * * * *
2168204 ACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTGGGGATATTCCAACCCCATTATTTTC
64 ACCCCGACCTTATTTCCAAAACACTAATTTCTCACAATCGGGGATATTCCAACCCCATTATTTTC
2168269 ACGGGGATACTC
129 ACGGGGATACTC
2168281 AAATCCCGAT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
157 6 0.05
158 104 0.89
159 7 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACTCTGACTTTATTTCTAAAATACCAATTCTCCACAATCAGGGATACTTCAAC
CCCGACCTTATTTCCAAAACACTAATTTCTCACAATCGGGGATATTCCAACCCCATTATTTTCAC
GGGGATACTCCAACCCCATTATTTCCGA
Found at i:2168206 original size:51 final size:51
Alignment explanation
Indices: 2168142--2168259 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
2168132 TATTTCCGAG
* *
2168142 GGGATACTCCAACCTCGGCTTTATTTCTAAAATATTGATTTCTCATAATCA
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCA
* **
2168193 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCA
*
2168244 GGGATATTCCAACCCC
1 GGGATACTCCAACCCC
2168260 ATTATTTTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCA
Found at i:2168255 original size:130 final size:128
Alignment explanation
Indices: 2168110--2168415 Score: 368
Period size: 130 Copynumber: 2.4 Consensus size: 128
2168100 CCGTTATTTC
* * *
2168110 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACC-CGACTTTATTTCTAAAAC
*
2168175 AT-TGA-TTTCTCATAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAA-ATATTGATTTCTC
65 ATCT-ATTTTCT-ATAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAATA-ATCGATTT-TC
*
2168237 ATA
126 ACA
* * * * * *
2168240 ATTGGGGATATTCCAACCCCATTATTTTC-ACGGGGATACTCAAATCCCGATTTTATTTTTGAAA
1 ATCGGGGATACTCCAACCCCATTATTTTCGA-GGGGATACTCCAA-CCCGACTTTATTTCTAAAA
* ** *
2168304 CATCTATTTTCTATAATCGGGGATACTTCAACCCTTGCTTTATTTCTAAATAATCGATTTTCACA
64 CATCTATTTTCTATAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAATAATCGATTTTCACA
* *
2168369 ATCGGGGATACCCCAACCCCCTTATTTTCGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCC
2168416 CATTATTATC
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
128 3 0.02
129 42 0.28
130 96 0.64
131 9 0.06
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (128 bp):
ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCGACTTTATTTCTAAAACA
TCTATTTTCTATAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAATAATCGATTTTCACA
Found at i:2170491 original size:4 final size:4
Alignment explanation
Indices: 2170482--2170514 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2170472 TATTTTGAGG
2170482 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
2170515 GTTTTATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2180799 original size:1 final size:1
Alignment explanation
Indices: 2180793--2180885 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
2180783 CTTCTCTTCT
* * * * * * * * *
2180793 AAAAAAAACAAAAACAAAAACAAAAAAACAAAAACAAAAACAAAAAAAACAAAAACAAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
2180858 AAAAAAAAACAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
2180886 GAGAGAAAAG
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:2180807 original size:6 final size:6
Alignment explanation
Indices: 2180796--2180869 Score: 82
Period size: 6 Copynumber: 12.3 Consensus size: 6
2180786 CTCTTCTAAA
2180796 AAAAAC AAAAAC AAAAAC AAAAAAAC AAAAAC AAAAAC --AAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC --AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
* *
2180843 AAAAAC AAAAAA ATAAAAA AAAAAC AA
1 AAAAAC AAAAAC A-AAAAC AAAAAC AA
2180870 CAAAACAAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
4 3 0.05
5 3 0.05
6 42 0.70
7 6 0.10
8 6 0.10
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:2180819 original size:14 final size:14
Alignment explanation
Indices: 2180794--2180883 Score: 100
Period size: 14 Copynumber: 6.5 Consensus size: 14
2180784 TTCTCTTCTA
2180794 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
2180808 --AAAAACAAAAA-
1 AAAAAAACAAAAAC
2180819 AACAAAAACAAAAAC
1 AA-AAAAACAAAAAC
2180834 AAAAAAAACAAAAAC
1 -AAAAAAACAAAAAC
*
2180849 AAAAAAATAAAAA-
1 AAAAAAACAAAAAC
2180862 AAAAACAAC-AAAAC
1 AAAAA-AACAAAAAC
2180876 AAAGAAAA
1 AAA-AAAA
2180884 AAGAGAGAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
12 11 0.17
13 9 0.14
14 30 0.45
15 14 0.21
16 2 0.03
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:2180819 original size:21 final size:21
Alignment explanation
Indices: 2180793--2180884 Score: 127
Period size: 20 Copynumber: 4.4 Consensus size: 21
2180783 CTTCTCTTCT
2180793 AAAAAAAACAAAAACAAAAAC
1 AAAAAAAACAAAAACAAAAAC
2180814 -AAAAAAACAAAAACAAAAAC
1 AAAAAAAACAAAAACAAAAAC
2180834 AAAAAAAACAAAAACAAAAA-
1 AAAAAAAACAAAAACAAAAAC
*
2180854 AATAAAAA-AAAAACAACAAAAC
1 AAAAAAAACAAAAAC-A-AAAAC
2180876 AAAGAAAAA
1 AAA-AAAAA
2180885 AGAGAGAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
19 6 0.09
20 28 0.44
21 23 0.36
22 2 0.03
23 5 0.08
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (21 bp):
AAAAAAAACAAAAACAAAAAC
Found at i:2180885 original size:21 final size:20
Alignment explanation
Indices: 2180793--2180885 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 20
2180783 CTTCTCTTCT
2180793 AAAAAAAACAAAAACAAAAA
1 AAAAAAAACAAAAACAAAAA
*
2180813 CAAAAAAACAAAAACAAAAA
1 AAAAAAAACAAAAACAAAAA
2180833 CAAAAAAAACAAAAACAAAAA
1 -AAAAAAAACAAAAACAAAAA
*
2180854 AATAAAAAAAAAACAACAAAACA
1 AA-AAAAAACAAA-AACAAAA-A
2180877 AAGAAAAAA
1 AA-AAAAAA
2180886 GAGAGAAAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
20 21 0.32
21 28 0.43
22 7 0.11
23 9 0.14
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (20 bp):
AAAAAAAACAAAAACAAAAA
Found at i:2182035 original size:100 final size:99
Alignment explanation
Indices: 2181855--2182143 Score: 405
Period size: 100 Copynumber: 2.9 Consensus size: 99
2181845 ATCTAAACTT
*
2181855 TCTCCTTTCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
* * *
2181920 GTGGTACCTGTTAGTCCTCAAAGAGTAGGACTCTC
66 GTGGCACCT-TTAGTCCTCAAAGAGCAGGACGCTC
*
2181955 TCTCCTTTCACCCTTT-AGTCCTCATAGAGCA-GAGCGCCTTTTCCTTTTAAAGCCCACACAAGT
1 TCTCCTTTCA-CCTTTCAGTCCTCAAAGAGCAGGA-CGCCTTTTCCTTTTAAAGCCCACACAAGT
*
2182018 TAGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
64 TGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCTC
* *
2182055 TCTCCTTTCACCTTTCAGTCCTCAAAGAACAGGATGCC-TTT-C----AAAGCCCACACAAGTTG
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
2182114 GTGGCACCTTTCAGTCCTCAAAGAGCAGGA
66 GTGGCACCTTT-AGTCCTCAAAGAGCAGGA
2182144 TGCCTTTCAA
Statistics
Matches: 173, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.01
94 44 0.25
98 1 0.01
99 11 0.06
100 110 0.64
101 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (99 bp):
TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
GTGGCACCTTTAGTCCTCAAAGAGCAGGACGCTC
Found at i:2182128 original size:55 final size:55
Alignment explanation
Indices: 2182063--2182486 Score: 476
Period size: 55 Copynumber: 7.5 Consensus size: 55
2182053 TCTCTCCTTT
*
2182063 CACCTTTCAGTCCTCAAAGAACAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
*
2182118 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTCGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
** * * *
2182173 CATTTTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCTCACACAAGTTAGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
2182228 CACCTTTCAGTCCTCAAAGAGCAGGATTCCTTTTAAAGCCCACACAAGTCGATGG
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
** * * * *
2182283 CATTTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTAGTGG
1 CA--CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
2182340 CACC-TTCAAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTAAAGCCCACATAAGCTGGTGA
1 CACCTTTC-AGTCCTCAAAGAGCAGGATGCC--TTTC----AAAGCCCACACAAGTTGGTGG
*
2182401 CACC-TTCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGT
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTT-T-C----AAAGCCCACACAAGTTGGTGG
*
2182461 CA-CTTCCTAGTCCTCAAAGAGCAGGA
1 CACCTTTC-AGTCCTCAAAGAGCAGGA
2182487 CGCTCTCTCC
Statistics
Matches: 316, Mismatches: 40, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.01
55 170 0.54
57 50 0.16
58 2 0.01
59 2 0.01
60 48 0.15
61 41 0.13
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (55 bp):
CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:2182557 original size:215 final size:214
Alignment explanation
Indices: 2182294--2182918 Score: 950
Period size: 215 Copynumber: 2.9 Consensus size: 214
2182284 ATTTTTTTCA
* * * *
2182294 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTCAAGTCCTCAAAA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAA
* * * * * * * *
2182359 AGCAGGATGCCTTTTTCTTTTAAAGCCCACATAAGCTGGTGACAC-CTTCAGTCCTCAAAGAGCA
65 AGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAATAGCA
* *
2182423 GGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGTCA-CTTCCTAGTCCTCAAAGAGCAGG
130 GGATG-CTT-TCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGG
**
2182486 ACGCTCTCTCCTTTTGCCTTTTT
192 ACGCTCTCTCCTTTCACCTTTTT
2182509 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAA
*
2182574 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTCAGTCCTCAAATAGCAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAATAGCAG
*
2182639 GATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
131 GATGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG
2182704 CTCTCTCCTTTCACCTTTTT
195 CTCTCTCCTTTCACCTTTTT
* *
2182724 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAA
* *
2182789 GCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAATAGCAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAATAGCAG
* * *
2182854 GATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGGGCAAGACG
131 GATGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG
2182919 TCTTTCTTTT
Statistics
Matches: 379, Mismatches: 27, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
213 6 0.02
214 52 0.14
215 317 0.84
216 4 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (214 bp):
GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAA
GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAATAGCAG
GATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGC
TCTCTCCTTTCACCTTTTT
Found at i:2182659 original size:61 final size:60
Alignment explanation
Indices: 2182528--2182714 Score: 245
Period size: 61 Copynumber: 3.1 Consensus size: 60
2182518 GAGCAGGATG
* *
2182528 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAAAGCAGGACGCCTTCT
* * *
2182588 CCTTTTAAAGCCCACACAAGTTGGCGGCACTTTTCAGTCCTCAAATAGCAGGATG-CTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAAAGCAGGACGCCTTCT
* *
2182647 CTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTCTCT
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAAAGCAGGACGCCT-TCT
2182710 CCTTT
1 CCTTT
2182715 CACCTTTTTG
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
59 6 0.05
60 31 0.28
61 67 0.60
62 2 0.02
63 5 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAAAGCAGGACGCCTTCT
Found at i:2182881 original size:61 final size:61
Alignment explanation
Indices: 2182745--2182974 Score: 279
Period size: 61 Copynumber: 3.8 Consensus size: 61
2182735 GCAGGATGCC
* * *
2182745 TTTT-AAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAAGACGCCTTCTCC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTT-TCT
* * * *
2182805 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAATAGCAGGATG-CTTTCT
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTTCT
* * *
2182864 TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGGGCAAGACGTCTTTCT
1 TTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTTCT
** * * *
2182926 TTTTCAAAGCCCACATGAGTTGGTGGTACTTTTCAGTCCTCAAAGAGCA
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCA
2182975 GGACACACTT
Statistics
Matches: 146, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
59 6 0.04
60 33 0.23
61 97 0.66
62 10 0.07
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTTCT
Found at i:2182935 original size:122 final size:121
Alignment explanation
Indices: 2182725--2182977 Score: 340
Period size: 122 Copynumber: 2.1 Consensus size: 121
2182715 CACCTTTTTG
* *
2182725 TCCTCAAAGAGCAGGATGC---C-TTTT--AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTC
1 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTC
2182784 AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
66 AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
* *
2182840 TCCTCAAATAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCT
1 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTT-CAATCCT
* * * ** * *
2182905 CAAAGGGCAAGACGTCTT-TCTTTTTCAAAGCCCACATGAGTTGGTGGTACTTTTCAG
65 CAAAGAGCAAGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAA
2182962 TCCTCAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
2182978 CACACTTCCT
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
115 18 0.15
118 1 0.01
119 4 0.03
121 32 0.27
122 63 0.53
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (121 bp):
TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTC
AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
Found at i:2183095 original size:42 final size:42
Alignment explanation
Indices: 2182962--2183095 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 42
2182952 TACTTTTCAG
* **
2182962 TCCTCAAAGAGCAGGACACAC-TTCCTTCCCTTTTTTTCTCTTTCA
1 TCCTCAAAGAGCAGGACATACTTTATTTCCC--TTTTTC-CTTT-A
* * ** *
2183007 TCCTCAAAGAGCAGGGCATACTTTATTTTCCTTTTTATTTTG
1 TCCTCAAAGAGCAGGACATACTTTATTTCCCTTTTTCCTTTA
* *
2183049 TCCTCATAGAGCAGGACGTA-TTTCATTTCCCTTTTTCCTTTA
1 TCCTCAAAGAGCAGGACATACTTT-ATTTCCCTTTTTCCTTTA
2183091 TCCTC
1 TCCTC
2183096 GAAAAAAGAG
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.04
42 36 0.50
43 3 0.04
44 5 0.07
45 19 0.26
46 6 0.08
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACATACTTTATTTCCCTTTTTCCTTTA
Found at i:2183174 original size:42 final size:40
Alignment explanation
Indices: 2183121--2183214 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 40
2183111 CTCTTTTTCA
*
2183121 CTTTGTCCTCAAGAAGCAAGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
2183163 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
2183203 CTTTGTCCTCAA
1 CTTTGTCCTCAA
2183215 AAAGTGGGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 18 0.38
41 5 0.11
42 24 0.51
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:2183921 original size:13 final size:13
Alignment explanation
Indices: 2183903--2183928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2183893 CATTATTCAA
2183903 TGTATCGATACAT
1 TGTATCGATACAT
2183916 TGTATCGATACAT
1 TGTATCGATACAT
2183929 CGATCTTTAT
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:2183992 original size:20 final size:19
Alignment explanation
Indices: 2183967--2184040 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
2183957 TTTACCCAGA
2183967 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
2183987 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2184007 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
2184027 TGTATCCATACATT
1 TGTATCGATACATT
2184041 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2186386 original size:51 final size:51
Alignment explanation
Indices: 2186323--2186518 Score: 245
Period size: 51 Copynumber: 3.8 Consensus size: 51
2186313 TTTTCATCTT
* * * *
2186323 GGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCC-TAATC
1 GGGGATACTCCAACT-CCGATTTTATTTCTAAAACACCAA-TTTTCCATAATC
* *
2186374 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATA
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATC
* *
2186425 GAGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTCTCCATAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATC
* * *
2186476 GGGGATATTCCAACTCTGATTTTATTT-TCAAAACACTAATTTT
1 GGGGATACTCCAACTCCGATTTTATTTCT-AAAACACCAATTTT
2186519 TCACAATTGA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
50 7 0.06
51 119 0.94
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATC
Found at i:2186501 original size:102 final size:103
Alignment explanation
Indices: 2186325--2186553 Score: 270
Period size: 102 Copynumber: 2.2 Consensus size: 103
2186315 TTCATCTTGG
* * *
2186325 GGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCCTAATCGGGGATACTCCAACT
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACACCAATTTCTCCTAATCGGGGATACTCCAACT
* *
2186389 CCGATTTTA-TTTCTAAAACACCCATTTTCCATAATAGA
66 CCGATTTTATTTTC-AAAACACCAATTTTCCACAATAGA
* * *
2186427 GGATACTCCAACT-CCGATTTTATTTCTAAAACACCAA-TTCTCCATAATCGGGGATATTCCAAC
1 GGATACTCCAACTCCCGATTTCATTTCCAAAACACCAATTTCTCC-TAATCGGGGATACTCCAAC
* * * *
2186490 TCTGATTTTATTTTCAAAACACTAATTTTTCACAATTGA
65 TCCGATTTTATTTTCAAAACACCAATTTTCCACAATAGA
*
2186529 GGATACTTCAAC-CCCGTTATTTCAT
1 GGATACTCCAACTCCCG--ATTTCAT
2186554 CGGGGATACT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
101 5 0.05
102 91 0.85
103 5 0.05
104 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (103 bp):
GGATACTCCAACTCCCGATTTCATTTCCAAAACACCAATTTCTCCTAATCGGGGATACTCCAACT
CCGATTTTATTTTCAAAACACCAATTTTCCACAATAGA
Found at i:2186533 original size:51 final size:51
Alignment explanation
Indices: 2186325--2186540 Score: 222
Period size: 51 Copynumber: 4.2 Consensus size: 51
2186315 TTCATCTTGG
* * * * * *
2186325 GGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCC-TAATCGG
1 GGATACTCCAACT-CCGATTTTATTTCTAAAACACCAA-TTTTCCACAATCGA
* * *
2186376 GGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATAGA
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
* * *
2186427 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTCTCCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
* * * * *
2186478 GGATATTCCAACTCTGATTTTATTT-TCAAAACACTAATTTTTCACAATTGA
1 GGATACTCCAACTCCGATTTTATTTCT-AAAACACCAATTTTCCACAATCGA
*
2186529 GGATACTTCAAC
1 GGATACTCCAAC
2186541 CCCGTTATTT
Statistics
Matches: 141, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 7 0.05
51 133 0.94
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
Found at i:2186611 original size:31 final size:28
Alignment explanation
Indices: 2186529--2186600 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2186519 TCACAATTGA
*
2186529 GGATACTTCAACCCCGTTATTTCATCG--G
1 GGATACTCCAACCCCGTTATTTC--CGAAG
2186557 GGATACTCCAACCCCGTTATTTCCGAAG
1 GGATACTCCAACCCCGTTATTTCCGAAG
2186585 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
2186601 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
28 39 0.95
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCCGAAG
Found at i:2186648 original size:51 final size:51
Alignment explanation
Indices: 2186583--2186701 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
2186573 TTATTTCCGA
* *
2186583 AGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 AGGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCACACAATC
* * * *
2186634 AGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCACATAATT
1 AGGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCACACAATC
*
2186685 GGGGATACTCCAACCCC
1 AGGGATACTCCAACCCC
2186702 ATTATTTTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGGCCTTATTTCCAAAATATTGATTTCACACAATC
Found at i:2191581 original size:13 final size:13
Alignment explanation
Indices: 2191563--2191601 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2191553 ATATTCCTCA
2191563 TATCGATACATTG
1 TATCGATACATTG
*
2191576 TATCGATACACTG
1 TATCGATACATTG
2191589 TATCGATACATTG
1 TATCGATACATTG
2191602 GATACTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2193513 original size:21 final size:21
Alignment explanation
Indices: 2193491--2193563 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
2193481 TTTTATAAAA
*
2193491 GGGGAGAAATGCTTTGATTAAG
1 GGGGAGAAAT-CTTTAATTAAG
* *
2193513 GGGGAGAAATTTTTTATTAA-
1 GGGGAGAAATCTTTAATTAAG
* * *
2193533 AGGAAAAAATTCTTTAATTAAG
1 GGGGAGAAA-TCTTTAATTAAG
2193555 GGGGAGAAA
1 GGGGAGAAA
2193564 AATGAAAACT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
20 6 0.15
21 17 0.44
22 16 0.41
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (21 bp):
GGGGAGAAATCTTTAATTAAG
Found at i:2193523 original size:42 final size:42
Alignment explanation
Indices: 2193480--2193563 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
2193470 AATAAATAAA
* * *
2193480 TTTTTATAAAAGGGGAGAAATGCTTTGATTAAGGGGGAGAAAT
1 TTTTTATAAAA-GGAAAAAATGCTTTAATTAAGGGGGAGAAAT
* *
2193523 TTTTTATTAAAGGAAAAAATTCTTTAATTAAGGGGGAGAAA
1 TTTTTATAAAAGGAAAAAATGCTTTAATTAAGGGGGAGAAA
2193564 AATGAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTTTATAAAAGGAAAAAATGCTTTAATTAAGGGGGAGAAAT
Found at i:2202182 original size:4 final size:4
Alignment explanation
Indices: 2202173--2202211 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
2202163 GTGAGGTTGC
2202173 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
2202212 TACTTTTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:2206294 original size:23 final size:25
Alignment explanation
Indices: 2206268--2206315 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2206258 TATAAGTACG
*
2206268 AGCTGAT-TT-TATATTTATATATA
1 AGCTGATATTATACATTTATATATA
2206291 AGCTGATATTATACATTTATATATA
1 AGCTGATATTATACATTTATATATA
2206316 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 2 0.09
25 13 0.59
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (25 bp):
AGCTGATATTATACATTTATATATA
Found at i:2206315 original size:2 final size:2
Alignment explanation
Indices: 2206308--2206348 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2206298 ATTATACATT
2206308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2206349 GTAAATATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2212349 original size:39 final size:39
Alignment explanation
Indices: 2212304--2212381 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
2212294 AAAAATCTTA
2212304 CTCCATAATTCCCTTACTATCAAACTGTTACACAACTAT
1 CTCCATAATTCCCTTACTATCAAACTGTTACACAACTAT
2212343 CTCCATAATTCCCTTACTATCAAACTGTTACACAACTAT
1 CTCCATAATTCCCTTACTATCAAACTGTTACACAACTAT
2212382 ATAAGCAGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (39 bp):
CTCCATAATTCCCTTACTATCAAACTGTTACACAACTAT
Found at i:2213256 original size:19 final size:22
Alignment explanation
Indices: 2213221--2213275 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 22
2213211 ACAAATTTAA
*
2213221 TATATTTAATATTTTTAAAAT-T
1 TATATTT-ATATATTTAAAATAT
2213243 T-T-TTTATATATTTAAAATAT
1 TATATTTATATATTTAAAATAT
2213263 TATATTTATATAT
1 TATATTTATATAT
2213276 ATCAGTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 2 0.07
22 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTATATATTTAAAATAT
Found at i:2214836 original size:4 final size:4
Alignment explanation
Indices: 2214829--2214858 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2214819 TTTTTAATAA
2214829 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
2214859 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:2215783 original size:20 final size:20
Alignment explanation
Indices: 2215752--2215808 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2215742 GTCAAAACCC
*
2215752 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2215772 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2215792 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2215809 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2215812 original size:13 final size:13
Alignment explanation
Indices: 2215794--2215820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2215784 ATACAGATTG
2215794 CATTGTATCGATA
1 CATTGTATCGATA
2215807 CATTGTATCGATA
1 CATTGTATCGATA
2215820 C
1 C
2215821 TTGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2215912 original size:13 final size:13
Alignment explanation
Indices: 2215894--2215919 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2215884 AAACACAGTA
2215894 TGTATCGATACAT
1 TGTATCGATACAT
2215907 TGTATCGATACAT
1 TGTATCGATACAT
2215920 CATAAAATGT
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:2222091 original size:13 final size:13
Alignment explanation
Indices: 2222072--2222110 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2222062 ACAGCATTCT
2222072 CTGTATCGATACA
1 CTGTATCGATACA
* *
2222085 TTGTATCGATATA
1 CTGTATCGATACA
*
2222098 CTATATCGATACA
1 CTGTATCGATACA
2222111 AGGGGATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:2222277 original size:20 final size:20
Alignment explanation
Indices: 2222242--2222282 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2222232 CAAATTTCTT
2222242 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
2222264 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
2222283 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:2222576 original size:20 final size:21
Alignment explanation
Indices: 2222544--2222595 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
2222534 CCCCTAGGCA
*
2222544 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
2222565 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
2222586 GCAGCCCCCA
1 GCA-CCCCCA
2222596 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.50, G:0.27, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:2224700 original size:13 final size:13
Alignment explanation
Indices: 2224682--2224707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2224672 ACACACAGTA
2224682 TGTATCGATACAT
1 TGTATCGATACAT
2224695 TGTATCGATACAT
1 TGTATCGATACAT
2224708 CATAAAATGT
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:2224720 original size:20 final size:20
Alignment explanation
Indices: 2224695--2224760 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2224685 ATCGATACAT
2224695 TGTATCGATACATCATAAAA
1 TGTATCGATACATCATAAAA
2224715 TGTATCGAT--AT-AT----
1 TGTATCGATACATCATAAAA
2224728 TGTATCGATACATCATAAAA
1 TGTATCGATACATCATAAAA
2224748 TGTATCGATACAT
1 TGTATCGATACAT
2224761 TGGCTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
15 2 0.05
16 2 0.05
17 2 0.05
18 2 0.05
20 22 0.56
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATCATAAAA
Found at i:2224723 original size:33 final size:33
Alignment explanation
Indices: 2224662--2224762 Score: 159
Period size: 33 Copynumber: 3.1 Consensus size: 33
2224652 GTAGCCAAAC
* **
2224662 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACATCATAAAATGTATCGATACA
*
2224694 TTGTATCGATACATCATAAAATGTATCGATATA
1 TTGTATCGATACATCATAAAATGTATCGATACA
2224727 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACATCATAAAATGTATCGATACA
2224760 TTG
1 TTG
2224763 GCTTGTAACG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 13 0.21
33 50 0.79
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATCATAAAATGTATCGATACA
Found at i:2226791 original size:6 final size:6
Alignment explanation
Indices: 2226780--2226806 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2226770 AGATAATCTA
2226780 ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATA
2226807 TATAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:2229743 original size:13 final size:13
Alignment explanation
Indices: 2229725--2229755 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2229715 GAAAGTGAGC
*
2229725 ATGAACCCAAGGT
1 ATGAACCCAAGGA
2229738 ATGAACCCAAGGA
1 ATGAACCCAAGGA
2229751 ATGAA
1 ATGAA
2229756 GGTAGTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (13 bp):
ATGAACCCAAGGA
Found at i:2230951 original size:14 final size:15
Alignment explanation
Indices: 2230916--2230944 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2230906 AAATTTGAAG
2230916 ATATAATTATTTTTT
1 ATATAATTATTTTTT
2230931 ATATAATTATTTTT
1 ATATAATTATTTTT
2230945 ATTTAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATAATTATTTTTT
Found at i:2231887 original size:68 final size:68
Alignment explanation
Indices: 2231773--2231913 Score: 264
Period size: 68 Copynumber: 2.1 Consensus size: 68
2231763 TATTATCTAC
*
2231773 TACTTAATTTTAATTTTCAAAGAATCTCTTACTCTAATCTTTTAGCATAAATTAGTAAACTTAAA
1 TACTTAATTTTAATTTTCAAAGAATCTCTTACTCTAATCTTCTAGCATAAATTAGTAAACTTAAA
2231838 AAT
66 AAT
*
2231841 TACTTAATTTTAATTTTCAAAGAATCTTTTACTCTAATCTTCTAGCATAAATTAGTAAACTTAAA
1 TACTTAATTTTAATTTTCAAAGAATCTCTTACTCTAATCTTCTAGCATAAATTAGTAAACTTAAA
2231906 AAT
66 AAT
2231909 TACTT
1 TACTT
2231914 CAAGGAGATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (68 bp):
TACTTAATTTTAATTTTCAAAGAATCTCTTACTCTAATCTTCTAGCATAAATTAGTAAACTTAAA
AAT
Found at i:2232380 original size:21 final size:21
Alignment explanation
Indices: 2232355--2232399 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2232345 GTTGAACTTA
2232355 ATTAATAATAATTTAT-TATAT
1 ATTAAT-ATAATTTATATATAT
* *
2232376 ATTAATTTAATTTATATTTAT
1 ATTAATATAATTTATATATAT
2232397 ATT
1 ATT
2232400 TAAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTAATATAATTTATATATAT
Found at i:2232383 original size:15 final size:15
Alignment explanation
Indices: 2232352--2232393 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2232342 ATTGTTGAAC
* *
2232352 TTAATTAATAATAAT
1 TTAATTTATATTAAT
2232367 TT-ATTATATATTAAT
1 TTAATT-TATATTAAT
2232382 TTAATTTATATT
1 TTAATTTATATT
2232394 TATATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTTATATTAAT
Found at i:2232392 original size:17 final size:17
Alignment explanation
Indices: 2232370--2232402 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2232360 TAATAATTTA
2232370 TTATATATTA-ATTTAAT
1 TTATAT-TTATATTTAAT
2232387 TTATATTTATATTTAA
1 TTATATTTATATTTAA
2232403 AAATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTTATATTTAAT
Found at i:2233556 original size:28 final size:29
Alignment explanation
Indices: 2233517--2233583 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
2233507 TTTTTATAAT
* *
2233517 AAAT-TTTAATTTTTTATAATTAAAAATA
1 AAATATTTAATTTTATATAATAAAAAATA
*
2233545 AAATATTT-ATTTTATATTATAAAAAATA
1 AAATATTTAATTTTATATAATAAAAAATA
2233573 AAATA-TTAATT
1 AAATATTTAATT
2233584 AAAAATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.85
29 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATTTAATTTTATATAATAAAAAATA
Found at i:2233580 original size:17 final size:18
Alignment explanation
Indices: 2233558--2233600 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2233548 TATTTATTTT
2233558 ATATT-ATAAAAAATAAA
1 ATATTAATAAAAAATAAA
*
2233575 ATATTAATTAAAAATAAA
1 ATATTAATAAAAAATAAA
*
2233593 ATTTTAAT
1 ATATTAAT
2233601 TTAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATTAATAAAAAATAAA
Found at i:2233584 original size:21 final size:20
Alignment explanation
Indices: 2233564--2233636 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 20
2233554 TTTTATATTA
2233564 TAAAAAATAAAATATTAA-T
1 TAAAAAATAAAATATTAATT
*
2233583 T-AAAAATAAAATTTTAATT
1 TAAAAAATAAAATATTAATT
* * * *
2233602 TAATAATTATAATTTTTAATT
1 TAAAAAATA-AAATATTAATT
* *
2233623 AAAAAAATCAAATA
1 TAAAAAATAAAATA
2233637 CAACTCACTA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 15 0.37
19 3 0.07
20 8 0.20
21 15 0.37
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAAATAAAATATTAATT
Found at i:2233589 original size:18 final size:18
Alignment explanation
Indices: 2233566--2233601 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2233556 TTATATTATA
2233566 AAAAATAAAATATTAATT
1 AAAAATAAAATATTAATT
*
2233584 AAAAATAAAATTTTAATT
1 AAAAATAAAATATTAATT
2233602 TAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATAAAATATTAATT
Found at i:2234938 original size:75 final size:72
Alignment explanation
Indices: 2234783--2234938 Score: 154
Period size: 75 Copynumber: 2.1 Consensus size: 72
2234773 GTATTATTAT
* * * * *
2234783 TTTTTTTAATAAAAAATAAGAAATTAAGTAATTTGATGATTAATAAGTGTAAAAATATTAAAATG
1 TTTTTTTAATAAAAAATAAGAAATTAACTAATTTCATAATTAATAAATGTAAAAATATGAAAATG
2234848 CAATAATA
66 C-ATAATA
* * *
2234856 TCCTTTTTTACTAAAAAATAAGAAATTAACTAATTTCCTAATATAATGTAAATGTAACAATAATG
1 T--TTTTTTAATAAAAAATAAGAAATTAACTAATTTCATAAT-TAA--TAAATGTAAAAAT-ATG
2234921 AACAATGC-TAA-A
60 AA-AATGCATAATA
2234933 TTTTTT
1 TTTTTT
2234939 AAATGATTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
73 1 0.01
75 39 0.57
76 3 0.04
77 2 0.03
78 14 0.21
79 4 0.06
80 5 0.07
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (72 bp):
TTTTTTTAATAAAAAATAAGAAATTAACTAATTTCATAATTAATAAATGTAAAAATATGAAAATG
CATAATA
Found at i:2235627 original size:20 final size:20
Alignment explanation
Indices: 2235604--2235648 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2235594 TTGATTTTGT
2235604 CACAAATTATAATA-TTTTAC
1 CACAAATTATAA-ACTTTTAC
* *
2235624 CACAACTTATAAACTTTTAT
1 CACAAATTATAAACTTTTAC
2235644 CACAA
1 CACAA
2235649 TTTCAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (20 bp):
CACAAATTATAAACTTTTAC
Found at i:2235742 original size:21 final size:19
Alignment explanation
Indices: 2235703--2235744 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
2235693 CATTCCATGG
2235703 CAAATAAAATAACCATAAC
1 CAAATAAAATAACCATAAC
*
2235722 CAAATAAATATTAATCATAAC
1 CAAATAAA-A-TAACCATAAC
2235743 CA
1 CA
2235745 CTTAACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (19 bp):
CAAATAAAATAACCATAAC
Found at i:2237342 original size:20 final size:20
Alignment explanation
Indices: 2237303--2237346 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2237293 TACCTAGATA
* *
2237303 TATCGATACATTTTTCAATG
1 TATCGATACATGTATCAATG
*
2237323 TATCGATACATGTATGAATG
1 TATCGATACATGTATCAATG
2237343 TATC
1 TATC
2237347 AATCGATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACATGTATCAATG
Found at i:2237408 original size:20 final size:20
Alignment explanation
Indices: 2237378--2237428 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2237368 TACCCAGATG
*
2237378 TATCAATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* *
2237398 TATTGATACATTTTTCAATG
1 TATCGATACATTTTTCAATA
2237418 TATCGATACAT
1 TATCGATACAT
2237429 CTAGTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:2237418 original size:75 final size:71
Alignment explanation
Indices: 2237253--2237428 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 71
2237243 TACCTAGATG
* * *
2237253 TATCGATACATTTTTCAATGTAT-TGATACATTCTGTCTTTTACCTAGATATATCGATACATTTT
1 TATCGATACATTTTTCAATGTATCTGATACATTCTATCTTTTACCCAGATATATCAATACATTTT
*
2237317 TCAATG
66 TCAATA
* * * *
2237323 TATCGATACATGTATGAATGTATCAATCGATACATTCTATCTTTTTACCCAGATGTATCAATACA
1 TATCGATACATTTTTCAATGTATC--T-GATACATTCTATC-TTTTACCCAGATATATCAATACA
2237388 TTTTTCAATA
62 TTTTTCAATA
*
2237398 TATTGATACATTTTTCAATGTATC-GATACAT
1 TATCGATACATTTTTCAATGTATCTGATACAT
2237429 CTAGTTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
70 20 0.22
71 7 0.08
73 1 0.01
74 12 0.13
75 49 0.55
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (71 bp):
TATCGATACATTTTTCAATGTATCTGATACATTCTATCTTTTACCCAGATATATCAATACATTTT
TCAATA
Found at i:2238329 original size:20 final size:22
Alignment explanation
Indices: 2238289--2238329 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2238279 TAGCCTTTAA
*
2238289 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
2238311 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
2238330 CTAGCATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:2242131 original size:51 final size:52
Alignment explanation
Indices: 2242022--2242136 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
2242012 ACAACGGGGC
* *
2242022 TAGAGTATCCCCGATTATGGAAAAACGGTATTCTAAAAAATAAAATCGGGGT
1 TAGAGTATCCCCGATTATGGAAAAACGGTATTCTAAAAAATAAAACCGAGGT
** * * *
2242074 TAGAGTATCCCCGATTAT-GAAAAATTG-ATGTTTTAGAAATAAAACCGAGGT
1 TAGAGTATCCCCGATTATGGAAAAACGGTAT-TCTAAAAAATAAAACCGAGGT
*
2242125 TGGAGTATCCCC
1 TAGAGTATCCCC
2242137 TCGGAAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.04
51 34 0.63
52 18 0.33
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (52 bp):
TAGAGTATCCCCGATTATGGAAAAACGGTATTCTAAAAAATAAAACCGAGGT
Found at i:2242205 original size:79 final size:79
Alignment explanation
Indices: 2242068--2242401 Score: 553
Period size: 79 Copynumber: 4.2 Consensus size: 79
2242058 AAAATAAAAT
* *
2242068 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2242133 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
2242147 TGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTACAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2242212 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
2242226 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
2242291 CGCCTCGAAAATAA
66 CCCCTCGGAAATAA
2242305 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA-AAGATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAA-ATAAAACCGGGGTTGGAGTA
2242369 TCCCCTCGGAAATAA
65 TCCCCTCGGAAATAA
2242384 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2242402 TCGAAAATAA
Statistics
Matches: 234, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 2 0.01
79 232 0.99
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2242396 original size:28 final size:28
Alignment explanation
Indices: 2242356--2242429 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
2242346 AAGATAAAAC
*
2242356 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
2242384 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
* *
2242412 TGGGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2242430 GATTGTGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:2243083 original size:40 final size:41
Alignment explanation
Indices: 2243037--2243130 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
2243027 CACTTTTTTT
* * *
2243037 TTGAGGACAAAGAAAA-AGGGAATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* *
2243077 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAA-GAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
2243119 TTGAGGACAAAG
1 TTGAGGACAAAG
2243131 TGAAAAAGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 11 0.24
41 8 0.17
42 27 0.59
ACGTcount: A:0.41, C:0.13, G:0.29, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:2243216 original size:41 final size:42
Alignment explanation
Indices: 2243169--2243281 Score: 99
Period size: 41 Copynumber: 2.7 Consensus size: 42
2243159 GACAAAGGAA
* *
2243169 AAAAAGGGAAACGAAA-TACTTCCTGCTCTCTAAGGATAAAG
1 AAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTAAGGATAAAG
* * * *
2243210 AAAAA-GGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAGG
1 AAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTAAGGATAAA-G
**
2243252 AAAAGAAGGG-AAAG-AAGTGTGTCCTGCTCT
1 -AAA-AAGGGAAAAGAAAGTACGTCCTGCTCT
2243282 TTGAGGACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
40 8 0.14
41 25 0.42
42 1 0.02
43 18 0.31
44 5 0.08
45 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (42 bp):
AAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTAAGGATAAAG
Found at i:2243280 original size:43 final size:43
Alignment explanation
Indices: 2243189--2243328 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 43
2243179 ACGAAATACT
* * * * *
2243189 TCCTGCTCTCTAAGGATAAAG-AAA-AAGGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGATAAAGAAAAGAAGGGAAACAAAGTGTG
*
2243230 TCCTGCTCTTTGAGGATAAAGGAAAAGAAGGGAAA-GAAGTGTG
1 TCCTGCTCTTTGAGGATAAA-GAAAAGAAGGGAAACAAAGTGTG
* *
2243273 TCCTGCTCTTTGAGGA-CAA-AAGAGAAGGGAAA-AAAGTGTG
1 TCCTGCTCTTTGAGGATAAAGAAAAGAAGGGAAACAAAGTGTG
2243313 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
2243329 CTGAAAAGTG
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
40 35 0.40
41 18 0.20
42 3 0.03
43 25 0.28
44 7 0.08
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGATAAAGAAAAGAAGGGAAACAAAGTGTG
Found at i:2243446 original size:61 final size:62
Alignment explanation
Indices: 2243313--2243458 Score: 167
Period size: 61 Copynumber: 2.4 Consensus size: 62
2243303 AAAAAGTGTG
* * * * *
2243313 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGTCTTTGGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTAGTGTGGTATTTGCAAAGAAAAAGCA
* *
2243374 TCCTGCACTTTGAGGACTGGAAGA-TGCCACCAACTAGTGTGAG-ATTTGCAAA-AAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTAGTGTG-GTATTTGCAAAGAA-AAAGCA
*
2243435 TCCTACTCTTTGAGGACT-GAAAAG
1 TCCTGCTCTTTGAGGACTGGAAAAG
2243459 AAAAGAAGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
60 6 0.08
61 60 0.85
62 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTAGTGTGGTATTTGCAAAGAAAAAGCA
Found at i:2243626 original size:29 final size:29
Alignment explanation
Indices: 2243591--2243679 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
2243581 CTTTGAGGAC
2243591 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* ** * * *
2243620 TGAAAGGAGTCCTGC-TCTT-TGAGGAC--
1 TGAAAGGTG-CCACCAACTTGTGTGGGCTT
*
2243646 TGAAAGGTGCCACCAACTTGTATGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
2243675 TGAAA
1 TGAAA
2243680 AAAGAAAGCA
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 3 0.07
26 11 0.26
27 4 0.10
28 5 0.12
29 16 0.38
30 3 0.07
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:2243638 original size:55 final size:56
Alignment explanation
Indices: 2243573--2243819 Score: 320
Period size: 55 Copynumber: 4.3 Consensus size: 56
2243563 AGGAGAGAGC
* * *
2243573 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
*
2243628 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAAGAAA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAGAAA
*
2243687 GCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAA
1 G--TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAA
* **
2243745 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-GC
1 G--TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
*
2243802 GTCCTGCTCCTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
2243820 AAAAAGGCGA
Statistics
Matches: 174, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
55 62 0.36
57 1 0.01
58 40 0.23
59 27 0.16
60 25 0.14
61 19 0.11
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
Found at i:2243654 original size:94 final size:94
Alignment explanation
Indices: 2243479--2243654 Score: 273
Period size: 94 Copynumber: 1.9 Consensus size: 94
2243469 AAAGAAGTGT
* * * *
2243479 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAGGCGTCCTGCTTT
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAGTCCTGCTCT
*
2243544 TTGAGGACTAGGAGGTGAAAGGAGAGAGC
66 TTGAGGACTAGAAGGTGAAAGGAGAGAGC
* *
2243573 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCT
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAGTCCTGCTCT
2243638 TTGAGGACT-GAAAGGTG
66 TTGAGGACTAG-AAGGTG
2243655 CCACCAACTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 73 0.99
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (94 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAGTCCTGCTCT
TTGAGGACTAGAAGGTGAAAGGAGAGAGC
Found at i:2243775 original size:119 final size:115
Alignment explanation
Indices: 2243574--2243798 Score: 344
Period size: 119 Copynumber: 1.9 Consensus size: 115
2243564 GGAGAGAGCG
* * *
2243574 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTT
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGAAGTCCTGCTCTT
*
2243639 TGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAAGAAAGCA
66 TGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTT-AAAAAAGAAAGCA
*
2243690 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAGCATCCTGC
1 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTT-AAAAG-AAG--TCCTGC
*
2243754 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
62 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAA
2243799 GGCGTCCTGC
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
115 26 0.26
116 22 0.22
117 2 0.02
118 4 0.04
119 45 0.45
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (115 bp):
TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGAAGTCCTGCTCTT
TGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAAAGAAAGCA
Found at i:2243802 original size:268 final size:267
Alignment explanation
Indices: 2243480--2243980 Score: 774
Period size: 268 Copynumber: 1.9 Consensus size: 267
2243470 AAGAAGTGTG
* * **
2243480 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAGGCGTCCTGCTTTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCCT
* ** *
2243545 TGAGGACTAGGAGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACT
66 TGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAA-GTGCCACCAACT
*
2243609 TGTGTGGGCTTTGAAAGG-AGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGC
130 TGTGTGGGCTTTAAAAGGCA-TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGC
*
2243673 TTTGAAAA-AAGAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTA
194 TTT-AAAAGAA-AAAGCATCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTA
2243737 AAAAGAAAGCA
257 AAAAGAAAGCA
*
2243748 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCCT
* *
2243813 TGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTT
66 TGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTT
* *
2243878 GTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTT
131 GTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTT
* **
2243943 TAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTGAAGG
196 TAAAA-GAAAAAGCATCCTACTCTTTGAGGACTGAAGG
2243981 GCTAAAAGAG
Statistics
Matches: 211, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
267 4 0.02
268 201 0.95
269 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (267 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCCT
TGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTT
GTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTT
TAAAAGAAAAAGCATCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAA
GAAAGCA
Found at i:2243926 original size:55 final size:54
Alignment explanation
Indices: 2243842--2243949 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 54
2243832 GGAGAGAGCG
2243842 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
2243897 TCCTGCTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTAGAA--GTGCCACCAACTTGTGTGGGCTTTAAAAGG
2243950 AAAAGGTGTC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
53 3 0.06
55 48 0.94
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:2250192 original size:51 final size:52
Alignment explanation
Indices: 2250085--2250205 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 52
2250075 GAGATAACAA
* * * *
2250085 CGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTGTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTATAAAAAATAAAAC
* *
2250137 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTTAT-AGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATGTTATAAAAAATAAAAC
*
2250188 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
2250206 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 32 0.52
52 29 0.48
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTATAAAAAATAAAAC
Found at i:2250268 original size:79 final size:79
Alignment explanation
Indices: 2250137--2250565 Score: 669
Period size: 79 Copynumber: 5.4 Consensus size: 79
2250127 AAAATAAAAT
* *
2250137 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTATAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2250202 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
2250216 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2250281 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * * *
2250295 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
2250360 CCCCTTGAAAATAA
66 CCCCTCGGAAATAA
* * * * *
2250374 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2250439 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
2250453 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
2250518 CTCCTCAGAAATAA
66 CCCCTCGGAAATAA
* *
2250532 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
2250566 GAAACTTAAC
Statistics
Matches: 323, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 323 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2251841 original size:35 final size:35
Alignment explanation
Indices: 2251775--2251928 Score: 240
Period size: 35 Copynumber: 4.4 Consensus size: 35
2251765 TCATTTTTAT
*
2251775 CCATCATTCCATGCCTTCAATTTT-TATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
* *
2251809 CCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATCAT-TCCATGCCTTCATTTTTATATTCCATGC
2251844 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
* *
2251879 CCATCATTCCATGTCTTCATTTTTAGATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
2251914 CCATCATTCCATGCC
1 CCATCATTCCATGCC
2251929 CATCATATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
34 21 0.19
35 89 0.81
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.42
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGC
Found at i:2251923 original size:49 final size:49
Alignment explanation
Indices: 2251870--2251975 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
2251860 TCATTTTTAT
*
2251870 ATTCCATGCCCATCAT-TCCATGTCTTCATTTTTAGATTCCATGCCCATC
1 ATTCCATGCCCATCATAT-CATGCCTTCATTTTTAGATTCCATGCCCATC
* ** **
2251919 ATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCCATGCTTATC
1 ATTCCATGCCCATCATATCATGCCTTCATTTTTAGATTCCATGCCCATC
2251968 ATTCCATG
1 ATTCCATG
2251976 TTTTTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
49 49 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (49 bp):
ATTCCATGCCCATCATATCATGCCTTCATTTTTAGATTCCATGCCCATC
Found at i:2251942 original size:14 final size:14
Alignment explanation
Indices: 2251905--2251934 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2251895 TCATTTTTAG
2251905 ATTCCATGCCCATC
1 ATTCCATGCCCATC
2251919 ATTCCATGCCCATC
1 ATTCCATGCCCATC
2251933 AT
1 AT
2251935 ATTATGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:2252364 original size:22 final size:22
Alignment explanation
Indices: 2252329--2252385 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
2252319 TTTTCTTAAT
2252329 TTATATAGTAATATACTATAAC-AC
1 TTATATA-T-ATATA-TATAACAAC
*
2252353 TTATATATATATATATTACAAC
1 TTATATATATATATATAACAAC
2252375 TTA-ATAT-TATA
1 TTATATATATATA
2252386 AAATTACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 10 0.32
23 1 0.03
24 7 0.23
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATATATATATATATAACAAC
Found at i:2253134 original size:18 final size:18
Alignment explanation
Indices: 2253111--2253162 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
2253101 AAAAAAATGC
2253111 TCATTATTTTCATCATCA
1 TCATTATTTTCATCATCA
*
2253129 TCATTATTATCAT-AGTCA
1 TCATTATTTTCATCA-TCA
*
2253147 T-ATTCATTTTCTTCAT
1 TCATT-ATTTTCATCAT
2253163 TTTTTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 23 0.82
19 1 0.04
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (18 bp):
TCATTATTTTCATCATCA
Found at i:2261132 original size:6 final size:6
Alignment explanation
Indices: 2261114--2261143 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2261104 AGTAAAAATT
2261114 TTTAAA TTTTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAA
2261144 CTTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:2261212 original size:19 final size:19
Alignment explanation
Indices: 2261164--2261232 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
2261154 TTATCTAAAC
2261164 TTAAATTATTATTTATTATA
1 TTAAA-TATTATTTATTATA
*
2261184 TTAAAAATTATTT-TTATA
1 TTAAATATTATTTATTATA
*
2261202 TTAATATATTATATATTTTATAA
1 TTAA-ATATTAT-T-TATTAT-A
2261225 TTAAATAT
1 TTAAATAT
2261233 AAAAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.21
19 13 0.31
20 6 0.14
21 1 0.02
22 8 0.19
23 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAAATATTATTTATTATA
Found at i:2262718 original size:36 final size:38
Alignment explanation
Indices: 2262677--2262779 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 38
2262667 AAATCGATTC
2262677 AATTTAAATTATTATTTAAATAATAA-AAAATATTTTT
1 AATTTAAATTATTATTTAAATAATAATAAAATATTTTT
* * * *
2262714 -ATTTAAATT-TAATTATAAATATTAATATAATTTTTTT
1 AATTTAAATTATTATT-TAAATAATAATAAAATATTTTT
*
2262751 AATTTTTAA-TATTATTTTAAATAATAATA
1 AA-TTTAAATTATTA-TTTAAATAATAATA
2262780 TGAGTTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
35 4 0.08
36 18 0.34
37 9 0.17
38 2 0.04
39 18 0.34
40 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (38 bp):
AATTTAAATTATTATTTAAATAATAATAAAATATTTTT
Found at i:2263595 original size:2 final size:2
Alignment explanation
Indices: 2263588--2263612 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2263578 TTATTTCTTT
2263588 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 T
2263613 GTATGAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2264484 original size:17 final size:17
Alignment explanation
Indices: 2264457--2264489 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
2264447 ATTTAAATAA
2264457 AAATAAAAATAAATTTTT
1 AAATAAAAAT-AATTTTT
2264475 AAAT-AAAATAATTTT
1 AAATAAAAATAATTTT
2264490 ACTATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAAAAATAATTTTT
Found at i:2269938 original size:16 final size:15
Alignment explanation
Indices: 2269906--2269950 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2269896 TATATGCAAA
2269906 TATAAATTTTAAAAT
1 TATAAATTTTAAAAT
*
2269921 TATAAATATTTAATAT
1 TATAAAT-TTTAAAAT
* *
2269937 TAAAAATTGTAAAA
1 TATAAATTTTAAAA
2269951 GATCAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TATAAATTTTAAAAT
Found at i:2270166 original size:45 final size:45
Alignment explanation
Indices: 2270076--2270167 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
2270066 GAGAAAAAGT
* ***
2270076 TTAGGAATCAGTGGAAATAATCAAATAAATAATATATTTTTTATA
1 TTAGGAATCAGTGGAAATAATCAAATAAATAATATAATAAATATA
2270121 TTAGGAATCAGTGGAAATAATCAAATAAATAA-ATAAATAAATATA
1 TTAGGAATCAGTGGAAATAATCAAATAAATAATAT-AATAAATATA
2270166 TT
1 TT
2270168 TTAACAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (45 bp):
TTAGGAATCAGTGGAAATAATCAAATAAATAATATAATAAATATA
Found at i:2271689 original size:15 final size:15
Alignment explanation
Indices: 2271671--2271727 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
2271661 CGTTGAAATT
2271671 TTAAATTTAAAAAAA
1 TTAAATTTAAAAAAA
*
2271686 TTAAATTTTAAAAAAT
1 TTAAA-TTTAAAAAAA
2271702 TTCAAATCTT-AAAAAA
1 TT-AAAT-TTAAAAAAA
*
2271718 TAAAATTTAA
1 TTAAATTTAA
2271728 TAAAGTCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 18 0.51
17 5 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAATTTAAAAAAA
Found at i:2271708 original size:17 final size:16
Alignment explanation
Indices: 2271670--2271718 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 16
2271660 ACGTTGAAAT
2271670 TTTAAA-TTTAAAAAA
1 TTTAAATTTTAAAAAA
*
2271685 ATTAAATTTTAAAAAA
1 TTTAAATTTTAAAAAA
*
2271701 TTTCAAATCTTAAAAAA
1 TTT-AAATTTTAAAAAA
2271718 T
1 T
2271719 AAAATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 5 0.17
16 11 0.38
17 13 0.45
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAATTTTAAAAAA
Found at i:2272463 original size:16 final size:15
Alignment explanation
Indices: 2272437--2272476 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
2272427 TAAATTAAAC
*
2272437 AATACATTTAAACAA
1 AATATATTTAAACAA
*
2272452 AATATTATTTAAATAA
1 AATA-TATTTAAACAA
2272468 AATATATTT
1 AATATATTT
2272477 TTCAATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATATTTAAACAA
Found at i:2272838 original size:50 final size:50
Alignment explanation
Indices: 2272779--2272999 Score: 307
Period size: 50 Copynumber: 4.4 Consensus size: 50
2272769 AGATGCTTAA
* * *
2272779 AGTCAACAATTACGGTCACCTTTTTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
*
2272829 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAGGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * *
2272879 AGTCAACAATTACGGCCAACTCTCTTGATTGTCAAAGGGTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * * *
2272929 AGTCAATAATTACGGCCACCTTTCTCGATTATCAAAAGTTTGTGAAAAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
2272979 AGTCAATAATTACGACCACCT
1 AGTCAACAATTACGGCCACCT
2273000 CTTTTACACC
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 152 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:2273139 original size:77 final size:78
Alignment explanation
Indices: 2273006--2273161 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
2272996 ACCTCTTTTA
2273006 CACCCATTTAGTCAACAATTCTCCCACTTGGAGATTCGATTGAGAACCAATCAATCTCCACACCA
1 CACCCATTTAGTCAACAATTCTCCCACTTGGAGATTCGATTGAGAACCAATCAATCTCCACACCA
2273071 TCCTTTGTCTTTG
66 TCCTTTGTCTTTG
* * * *
2273084 CACCTATTTAGTCAACAATTTTCCCA-TTGGAGATTCGATTGAGAACTAATCAATCTCTACACCA
1 CACCCATTTAGTCAACAATTCTCCCACTTGGAGATTCGATTGAGAACCAATCAATCTCCACACCA
2273148 TCCTTTGTCTTTG
66 TCCTTTGTCTTTG
2273161 C
1 C
2273162 CACCATCATG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 50 0.68
78 24 0.32
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (78 bp):
CACCCATTTAGTCAACAATTCTCCCACTTGGAGATTCGATTGAGAACCAATCAATCTCCACACCA
TCCTTTGTCTTTG
Found at i:2277502 original size:50 final size:50
Alignment explanation
Indices: 2277443--2277615 Score: 283
Period size: 50 Copynumber: 3.5 Consensus size: 50
2277433 AGATGCTTAA
* *
2277443 AGTCAACAATTACGGTCACCTTTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
2277493 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
2277543 AGTCAACAATTACGGTCACCTTTCTCGATTGTCAAAGGTTGATGAAGAAT
1 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
*
2277593 AGTCAACAATTACGACCACCTTT
1 AGTCAACAATTACGGCCACCTTT
2277616 TTTGCACCCA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 113 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:2279916 original size:44 final size:42
Alignment explanation
Indices: 2279861--2279945 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 42
2279851 TATAAGAATC
*
2279861 ATTAATAAATAT-TGAAATAAATAAAT-ATTTATTTTTTTAATA
1 ATTAATAAATATAT--AATAAATAAATGATTTATTTTTATAATA
*
2279903 ATTATATATAATATATAATAAATAATTGATTTATTTTTATAAT
1 ATTA-ATA-AATATATAATAAATAAATGATTTATTTTTATAAT
2279946 CAAATTACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 4 0.11
43 13 0.35
44 19 0.51
45 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (42 bp):
ATTAATAAATATATAATAAATAAATGATTTATTTTTATAATA
Found at i:2279958 original size:44 final size:43
Alignment explanation
Indices: 2279876--2279958 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
2279866 TAAATATTGA
* * *
2279876 AATAAATAAATATTTATTTTTTTAATAATTATATATAATATAT
1 AATAAATAAATATTTATTTTTATAATAAATATACATAATATAT
*
2279919 AATAAATAATTGATTTATTTTTATAATCAAAT-TACATAAT
1 AATAAATAAAT-ATTTATTTTTATAAT-AAATATACATAAT
2279959 GTGATTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 10 0.29
44 21 0.62
45 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (43 bp):
AATAAATAAATATTTATTTTTATAATAAATATACATAATATAT
Found at i:2280895 original size:30 final size:28
Alignment explanation
Indices: 2280827--2280884 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
2280817 AGAATTTTTT
*
2280827 AAAAAATCACATCAAAATCTTAAATTTTAA
1 AAAAAATCAAATCAAAATC-T-AATTTTAA
2280857 AAAAAATCAAATCAAAATC-AATTTTAA
1 AAAAAATCAAATCAAAATCTAATTTTAA
2280884 A
1 A
2280885 GTTAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.33
30 18 0.67
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAAATCAAATCAAAATCTAATTTTAA
Found at i:2285804 original size:75 final size:74
Alignment explanation
Indices: 2285394--2286243 Score: 905
Period size: 74 Copynumber: 11.5 Consensus size: 74
2285384 TAAATGATGA
* * * *
2285394 GAAGAAAAATAAAAAGCATCCTACTCTTTGAGGAGC-GAAAAAGATAAATGATGCCACCAGCTTG
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGA-CTGAAAAAGATAAATGATGCCACCAGCTTG
2285458 TGTGGGCTTT
65 TGTGGGCTTT
** * * * * *
2285468 GAAGAAAAAGAAAAGGCGCCCTACACTTTGAGGACTGAAGAAGATAAATGATGCCACTAGCTTGT
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
2285533 GTGGGCTTT
66 GTGGGCTTT
* ** * * * * * *
2285542 AAAGAAAAAGAAAAAACGTCCTAG-TCTTTAAGGACT-ATAAAAGATAAATAATACCACCAACTT
1 GAAGAAAAAGAAAAGGCAT-CTTGCTCTTTGAGGACTGA-AAAAGATAAATGATGCCACCAGCTT
*
2285605 GTGTTGGC-TT
64 GTGTGGGCTTT
* * ** * * *
2285615 AAAAAAAAAGAAAAAACATCCTT-TTGTTTGAGGACTGAAAAAGATAAATGATGCCATC-GCTTG
1 GAAGAAAAAGAAAAGGCAT-CTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTG
2285678 TGTGGGCTTT
65 TGTGGGCTTT
* * *
2285688 GAAGAAAAAGAAAAAGG-ATCTTGTTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCCTG
1 GAAGAAAAAG-AAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTG
*
2285752 TGTGGACTTT
65 TGTGGGCTTT
* *
2285762 GAAGAAAAAAGAAAAGGCATCTTGCTTTTTGAGGATTGAAAAAGATAAAATGATGCCACCAGCTT
1 GAAG-AAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGAT-AAATGATGCCACCAGCTT
2285827 GTGTGGGCTTT
64 GTGTGGGCTTT
* * *
2285838 GAAGAAAAAGAAAAGGCATCTTACTCTTTGAGGACTGGAAAAGATAAATGATGCCACCAACTTGT
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
*
2285903 GTGGTCTTT
66 GTGGGCTTT
* * * * *
2285912 GAAGAAAAAGAAAAAGGCATCTTGGTTTTTGAGGACTGGAAAAGATAAATGATGCCACCAGTTTA
1 GAAGAAAAAG-AAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTG
**
2285977 TGCAGGCTTT
65 TGTGGGCTTT
* * ** * *
2285987 GAAAAAAAAGAAAAGGCATCCTAATCTTTGAGGACTGAAAAAGATAAATGATGCCACCAACTTAT
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
2286052 GTGGGCTTT
66 GTGGGCTTT
* * * * * * * *
2286061 GAAGAAAAAGAAAAGGCGTCTTGGTTTTTAAGGACTGGAAAAGATAAATGATGCCACTAACTTAT
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
2286126 GT-GGCTTT
66 GTGGGCTTT
* * * * * * *
2286134 GAAG-AAAA-AAAAGTGC--CTTTCTTTTTGAGGGCTAAAAAAGATAAATGATGCGATCAGCTTA
1 GAAGAAAAAGAAAAG-GCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTG
2286195 TGTGGGCTTT
65 TGTGGGCTTT
* ** *
2286205 GAAGACAAAGAAAAGGTGTCTTGCTCTTTAAGGACTGAA
1 GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAA
2286244 GTGGGTAATG
Statistics
Matches: 659, Mismatches: 98, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
70 38 0.06
71 15 0.02
72 23 0.03
73 110 0.17
74 310 0.47
75 132 0.20
76 31 0.05
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (74 bp):
GAAGAAAAAGAAAAGGCATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGT
GTGGGCTTT
Found at i:2289672 original size:80 final size:80
Alignment explanation
Indices: 2289521--2289720 Score: 212
Period size: 80 Copynumber: 2.5 Consensus size: 80
2289511 TGAAAGCCCA
* * * *
2289521 GGTTAGAGTATACCT-TCGGAGATGGT-GGGTTTAGAATATCCTTAGAAATGTAAAATTCAGTGT
1 GGTTAGAGTAT-CCTCTCGGAGATGGTGGGGTTT-GAGTATCCATAGAAATGAAAAATTCAGTGC
* *
2289584 TTTGGAAGTAAAAA-GG
64 TTTAGAAGTAAAAATAG
* * * *
2289600 GGTTTGGAGTATCCTCTCGGAGATGCTGGGGTTTGAGTATCCATAGAGATGAAAAATT-TGATGC
1 GG-TTAGAGTATCCTCTCGGAGATGGTGGGGTTTGAGTATCCATAGAAATGAAAAATTCAG-TGC
2289664 TTTAGAAGTAAAAATAG
64 TTTAGAAGTAAAAATAG
** *
2289681 GGTTAGAGTATCC-CTTAGAGATGGTGGGGTTGGAGTATCC
1 GGTTAGAGTATCCTCTCGGAGATGGTGGGGTTTGAGTATCC
2289721 CCTTGGAGAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
79 29 0.29
80 63 0.62
81 9 0.09
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (80 bp):
GGTTAGAGTATCCTCTCGGAGATGGTGGGGTTTGAGTATCCATAGAAATGAAAAATTCAGTGCTT
TAGAAGTAAAAATAG
Found at i:2289711 original size:27 final size:28
Alignment explanation
Indices: 2289680--2289751 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
2289670 AGTAAAAATA
*
2289680 GGGTTAGAGTAT-CCCTTAGAGATGGTG
1 GGGTTGGAGTATCCCCTTAGAGATGGTG
* *
2289707 GGGTTGGAGTATCCCCTTGGAGATTGTG
1 GGGTTGGAGTATCCCCTTAGAGATGGTG
*
2289735 AGGTTGGAGTATGCCCC
1 GGGTTGGAGTAT-CCCC
2289752 GAGATGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 11 0.28
28 24 0.62
29 4 0.10
ACGTcount: A:0.18, C:0.15, G:0.38, T:0.29
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTTAGAGATGGTG
Found at i:2289729 original size:107 final size:109
Alignment explanation
Indices: 2289598--2289815 Score: 282
Period size: 107 Copynumber: 2.0 Consensus size: 109
2289588 GAAGTAAAAA
* * * *
2289598 GGGGTTTGGAGTATCCTCTCGGAGA-TGCTGGGGTTTGAGTAT-CCATAGAGATGAAAAATTTGA
1 GGGGTTTGGAGTATCCCCTCGGAGATTG-TGAGGTTGGAGTATGCC-CAGAGATGAAAAATTTGA
* *
2289661 TGCTTTAGAAGTAAAAATAGGGTTAGAGTAT-CCCTTAGAGATGGT
64 CGCTTTAGAAGTAAAAATAGGGTTAGAGTATCCCCTCAGAGATGGT
* *
2289706 GGGG-TTGGAGTATCCCCTTGGAGATTGTGAGGTTGGAGTATGCCCCGAGATGAAAAATTTGACG
1 GGGGTTTGGAGTATCCCCTCGGAGATTGTGAGGTTGGAGTATGCCCAGAGATGAAAAATTTGACG
* * * *
2289770 TTTTGGAAGTAAAAATGGGGTTGGAGTATCCCCTCAGAGATGGT
66 CTTTAGAAGTAAAAATAGGGTTAGAGTATCCCCTCAGAGATGGT
2289814 GG
1 GG
2289816 TGGTGAGATA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
107 72 0.76
108 23 0.24
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (109 bp):
GGGGTTTGGAGTATCCCCTCGGAGATTGTGAGGTTGGAGTATGCCCAGAGATGAAAAATTTGACG
CTTTAGAAGTAAAAATAGGGTTAGAGTATCCCCTCAGAGATGGT
Found at i:2289794 original size:80 final size:79
Alignment explanation
Indices: 2289706--2290138 Score: 408
Period size: 80 Copynumber: 5.4 Consensus size: 79
2289696 TAGAGATGGT
* * * **
2289706 GGGGTTGGAGTATCCCCTTGGAGATTGTGAGGTTGGAGTATGCCCCGAGATGAAAAATTTGACGT
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGGAGTAT-CCCAAAGATGAAAAATTTGACGT
*
2289771 TTTGGAAGTAAAAAT
65 TTTGGAAGTAAAAAC
*
2289786 GGGGTTGGAGTATCCCCTCAGAGATGGTGGTGG-T-GAGATATCTCCAAAGATGAAAAATTT-AG
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGG-GGTTGGAG-TATC-CCAAAGATGAAAAATTTGA-
* *
2289848 TGTTTTAGAAGTAAAAAC
62 CGTTTTGGAAGTAAAAAC
* * * *
2289866 AGGGTTGGAGTATCCCCTCGAAGATGGTGGGGTT-GACTTATCCCTAAAAATGAAAAATTTGACG
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGGA-GTATCCC-AAAGATGAAAAATTTGACG
* **
2289930 TTTTGAAAGTAAAATT
64 TTTTGGAAGTAAAAAC
* * * ** * *
2289946 GGGGTTGCAGTAACCCCTCGAAGATGGTGGGGTTGGAGTATCCTCATGGATGAAAAATTTAACAT
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGGAGTATCC-CAAAGATGAAAAATTTGACGT
2290011 TTTGGAAGTAAAAAC
65 TTTGGAAGTAAAAAC
* * * * * * * * *
2290026 GAGCTTGGAATATCCCCTCAGAGATGGTGGGGCT-GAGTATCCCTAGAGATAAAAAATTTGGCAT
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGGAGTATCCC-AAAGATGAAAAATTTGACGT
**
2290090 TTTCAAAGTAAAAAC
65 TTTGGAAGTAAAAAC
* * * *
2290105 GGGGTTAGAGTATCCTCTCGAAGATGGTAGGGTT
1 GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTT
2290139 AGGGTGTTTT
Statistics
Matches: 287, Mismatches: 55, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.00
79 70 0.24
80 210 0.73
81 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGGAGTATCCCAAAGATGAAAAATTTGACGTT
TTGGAAGTAAAAAC
Found at i:2289881 original size:160 final size:158
Alignment explanation
Indices: 2289707--2290138 Score: 478
Period size: 160 Copynumber: 2.7 Consensus size: 158
2289697 AGAGATGGTG
* * * *
2289707 GGGTTGGAGTATCCCCTTGGAGATTGTGAGGTTGGAGTATGCCC-CGAGATGAAAAATTTGACGT
1 GGGTTGGAGTATCCCCTCGGAGATGGTGGGGTT-GAGTAT-CCCTAGAGATGAAAAATTTGACGT
*
2289771 TTTGGAAGTAAAAATGGGGTTGGAGTATCCCCTC-AGAGATGGTGGTGG-T-GAGATAT-CTCCA
64 TTTGAAAGTAAAAATGGGGTTGGAGTATCCCCTCGA-AGATGGTGG-GGTTGGAG-TATCCT-CA
***
2289832 AAGATGAAAAATTTAGTGTTTTAGAAGTAAAAAC
125 AAGATGAAAAATTTAACATTTTAGAAGTAAAAAC
* * * *
2289866 AGGGTTGGAGTATCCCCTCGAAGATGGTGGGGTTGACTTATCCCTAAAAATGAAAAATTTGACGT
1 -GGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGA-GTATCCCTAGAGATGAAAAATTTGACGT
* * * **
2289931 TTTGAAAGTAAAATTGGGGTTGCAGTAACCCCTCGAAGATGGTGGGGTTGGAGTATCCTCATGGA
64 TTTGAAAGTAAAAATGGGGTTGGAGTATCCCCTCGAAGATGGTGGGGTTGGAGTATCCTCAAAGA
*
2289996 TGAAAAATTTAACATTTTGGAAGTAAAAAC
129 TGAAAAATTTAACATTTTAGAAGTAAAAAC
* * * * * * *
2290026 GAGCTTGGAATATCCCCTCAGAGATGGTGGGGCTGAGTATCCCTAGAGATAAAAAATTTGGCATT
1 G-GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGAGTATCCCTAGAGATGAAAAATTTGACGTT
* * * * *
2290091 TTCAAAGTAAAAACGGGGTTAGAGTATCCTCTCGAAGATGGTAGGGTT
65 TTGAAAGTAAAAATGGGGTTGGAGTATCCCCTCGAAGATGGTGGGGTT
2290139 AGGGTGTTTT
Statistics
Matches: 228, Mismatches: 37, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
159 71 0.31
160 151 0.66
161 6 0.03
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (158 bp):
GGGTTGGAGTATCCCCTCGGAGATGGTGGGGTTGAGTATCCCTAGAGATGAAAAATTTGACGTTT
TGAAAGTAAAAATGGGGTTGGAGTATCCCCTCGAAGATGGTGGGGTTGGAGTATCCTCAAAGATG
AAAAATTTAACATTTTAGAAGTAAAAAC
Found at i:2295385 original size:52 final size:52
Alignment explanation
Indices: 2295300--2295448 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 52
2295290 CGAAATATGA
*
2295300 AAATTTGCCTACATGTATCGATACAT-TTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATATT-ATAGTGTATCGATACATCTAGGC
*
2295352 AAATTTGCCTGTATGTATCGATACATATTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATATTATAGTGTATCGATACATCTAGGC
* * **
2295404 AAATTTGCCTGCATGTATCAATA-AAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATATTAT-AGTGTATCGATACA
2295449 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 4 0.05
52 82 0.93
53 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATATTATAGTGTATCGATACATCTAGGC
Done.