Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 13 of 16
Found at i:2036313 original size:20 final size:19
Alignment explanation
Indices: 2036266--2036315 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2036256 TTATATCGAT
*
2036266 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
2036285 TCGTTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2036304 ACAATTGTATCG
1 AC-ATTGTATCG
2036316 GTATATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2042101 original size:20 final size:21
Alignment explanation
Indices: 2042076--2042121 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2042066 TAAATGTAGG
*
2042076 ATACATAAGTG-AATGTATCA
1 ATACATAACTGAAATGTATCA
* *
2042096 ATACATGACTGAAATGTATCG
1 ATACATAACTGAAATGTATCA
2042117 ATACA
1 ATACA
2042122 AAACCACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (21 bp):
ATACATAACTGAAATGTATCA
Found at i:2045461 original size:22 final size:24
Alignment explanation
Indices: 2045431--2045474 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2045421 CCTCTCAATC
2045431 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATACCCCAAAT
2045454 TCTT-AAGAGATTATACCCCAA
1 TCTTCAAGAGATTATACCCCAA
2045475 GGTTGAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATACCCCAAAT
Found at i:2045922 original size:20 final size:20
Alignment explanation
Indices: 2045872--2045922 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2045862 ATTAGGCTCA
* *
2045872 ATGTATTGATACATTTTACC
1 ATGTATTGATACAATTCACC
* * *
2045892 ATATATCGATACAATTCATC
1 ATGTATTGATACAATTCACC
2045912 ATGTATTGATA
1 ATGTATTGATA
2045923 TAATGTATTG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGTATTGATACAATTCACC
Found at i:2046024 original size:32 final size:33
Alignment explanation
Indices: 2045988--2046049 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2045978 TTTCAAGGTG
**
2045988 TATCGATACTGTG-AATATGTATCAATACAATA
1 TATCGATACTAAGCAATATGTATCAATACAATA
*
2046020 TATCGATACTAAGCAATATGTATCGATACA
1 TATCGATACTAAGCAATATGTATCAATACA
2046050 TCTGAGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (33 bp):
TATCGATACTAAGCAATATGTATCAATACAATA
Found at i:2054482 original size:20 final size:20
Alignment explanation
Indices: 2054457--2054511 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2054447 ATTGGGCTCA
* *
2054457 ATGTATCGATACATTTTACC
1 ATGTATCGATACAATTCACC
*
2054477 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
2054497 ATGTATCGATACAAT
1 ATGTATCGATACAAT
2054512 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:2054515 original size:13 final size:13
Alignment explanation
Indices: 2054497--2054521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2054487 ACAATTCATC
2054497 ATGTATCGATACA
1 ATGTATCGATACA
2054510 ATGTATCGATAC
1 ATGTATCGATAC
2054522 TGAATGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2064211 original size:21 final size:21
Alignment explanation
Indices: 2064187--2064239 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2064177 ACAAAGCCTA
2064187 TATCGATACATT-AGGCAAATG
1 TATCGATACATTAAGG-AAATG
* *
2064208 TATCGTTACATTAAGGGAATG
1 TATCGATACATTAAGGAAATG
*
2064229 TATTGATACAT
1 TATCGATACAT
2064240 CACCTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
TATCGATACATTAAGGAAATG
Found at i:2064684 original size:75 final size:75
Alignment explanation
Indices: 2064586--2064734 Score: 187
Period size: 75 Copynumber: 2.0 Consensus size: 75
2064576 TATACCCCCT
* * * * *
2064586 AAAGTGCACTTAACATGAAAATGCTTAAATG-GCTTTAACGGATTCTATTTTAAAATGAAATAAC
1 AAAGTGCACTTAACAGGAAAATGCTTAAATGACCTCTAA-GGACTCAATTTTAAAATGAAATAAC
2064650 TAAC-TTACCTG
65 -AACATTACCTG
* *
2064661 AAAGTGCA-TGTAACAGGAAAATGCTTACATGACCTCTAAGGACTCAATTTTAAAATGAAATGAC
1 AAAGTGCACT-TAACAGGAAAATGCTTAAATGACCTCTAAGGACTCAATTTTAAAATGAAATAAC
2064725 AACATTACCT
65 AACATTACCT
2064735 TAAATAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
74 4 0.06
75 55 0.86
76 5 0.08
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (75 bp):
AAAGTGCACTTAACAGGAAAATGCTTAAATGACCTCTAAGGACTCAATTTTAAAATGAAATAACA
ACATTACCTG
Found at i:2076610 original size:13 final size:13
Alignment explanation
Indices: 2076569--2076621 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2076559 CCGTTAGAAG
2076569 CAATGTATCGATA
1 CAATGTATCGATA
2076582 CAA--T-TC-AT-
1 CAATGTATCGATA
2076590 C-ATGTATCGATA
1 CAATGTATCGATA
*
2076602 CATTGTATCGATA
1 CAATGTATCGATA
2076615 CAATGTA
1 CAATGTA
2076622 ACATGTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2076614 original size:33 final size:33
Alignment explanation
Indices: 2076572--2076636 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2076562 TTAGAAGCAA
*
2076572 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-AACATGTATCGATACAT
*
2076605 TGTATCGATACAATGTAACATGTATTGATACA
1 TGTATCGATACAATGTAACATGTATCGATACA
2076637 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTAACATGTATCGATACAT
Found at i:2076863 original size:19 final size:18
Alignment explanation
Indices: 2076837--2076902 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
2076827 AATTTCAAAG
2076837 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
2076855 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
2076871 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
2076887 GTTTTGTATCGATACA
1 -ATTTGTATCGATACA
2076903 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.28
16 3 0.08
18 2 0.05
19 24 0.60
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:2076877 original size:13 final size:13
Alignment explanation
Indices: 2076859--2076883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2076849 ACATAAATGT
2076859 TGTATCGATACAA
1 TGTATCGATACAA
2076872 TGTATCGATACA
1 TGTATCGATACA
2076884 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2076881 original size:32 final size:32
Alignment explanation
Indices: 2076840--2076907 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
2076830 TTCAAAGATT
2076840 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
* *
2076872 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
2076904 TGTA
1 TGTA
2076908 CAGTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAATGTTGTATCGATACAA
Found at i:2089495 original size:21 final size:21
Alignment explanation
Indices: 2089471--2089517 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2089461 TTTAATGCTG
2089471 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
2089491 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
2089512 ATTTTG
1 ATTTTG
2089518 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:2089656 original size:13 final size:13
Alignment explanation
Indices: 2089638--2089676 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2089628 ATAATCACCC
*
2089638 TGTATCGATACAG
1 TGTATCGATACAA
2089651 TGTATCGATACAA
1 TGTATCGATACAA
2089664 TGTATCGATACAA
1 TGTATCGATACAA
2089677 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2089687 original size:20 final size:20
Alignment explanation
Indices: 2089662--2089740 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
2089652 GTATCGATAC
2089662 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2089682 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
2089707 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
2089727 CATGTATCGATACA
1 AATGTATCGATACA
2089741 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2091776 original size:15 final size:15
Alignment explanation
Indices: 2091756--2091786 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2091746 ATTTCGTTTG
*
2091756 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2091771 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2091786 G
1 G
2091787 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2095334 original size:13 final size:13
Alignment explanation
Indices: 2095316--2095341 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2095306 CAATTTTTTG
2095316 TGTATCGATACAT
1 TGTATCGATACAT
2095329 TGTATCGATACAT
1 TGTATCGATACAT
2095342 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2099525 original size:11 final size:10
Alignment explanation
Indices: 2099507--2099566 Score: 68
Period size: 11 Copynumber: 5.6 Consensus size: 10
2099497 CATCCTCCAT
2099507 AAAAAAAACA
1 AAAAAAAACA
2099517 AAGAAAAAACAA
1 AA-AAAAAAC-A
2099529 AAAAAAAACA
1 AAAAAAAACA
2099539 AAACAAAAA-A
1 AAA-AAAAACA
2099549 ATAAAAAAACA
1 A-AAAAAAACA
2099560 ACAAAAA
1 A-AAAAA
2099567 GGGTTCGGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
10 13 0.30
11 28 0.64
12 3 0.07
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:2099541 original size:16 final size:16
Alignment explanation
Indices: 2099520--2099566 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
2099510 AAAAACAAAG
2099520 AAAAAACAAAAAAA-A
1 AAAAAACAAAAAAATA
2099535 AACAAAACAAAAAAATA
1 AA-AAAACAAAAAAATA
2099552 AAAAAACAACAAAAA
1 AAAAAACAA-AAAAA
2099567 GGGTTCGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.07
16 19 0.66
17 8 0.28
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAACAAAAAAATA
Found at i:2099547 original size:24 final size:23
Alignment explanation
Indices: 2099507--2099566 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
2099497 CATCCTCCAT
*
2099507 AAAAAAAAC-AAAGAAAAAACAA
1 AAAAAAAACAAAAAAAAAAACAA
*
2099529 AAAAAAAACAAAACAAAAAAATAA
1 AAAAAAAACAAAA-AAAAAAACAA
*
2099553 AAAAACAACAAAAA
1 AAAAAAAACAAAAA
2099567 GGGTTCGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.27
23 4 0.12
24 20 0.61
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAAAAAAAAACAA
Found at i:2101062 original size:30 final size:30
Alignment explanation
Indices: 2100998--2101172 Score: 180
Period size: 30 Copynumber: 6.0 Consensus size: 30
2100988 CCACCCTTCA
*
2100998 AAAGCCCACAAGTCAGTGGCATC-TTTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
2101027 AAAGCCCACAAGTCAGTGGCATCATTTTCC
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
** *
2101057 AAAGCCCACAAGTCAGTGGCA--ACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
* * * * *
2101085 AAAGCCCACAATTCAGTGACACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
* ** *
2101115 AAAGCCCACAAATCAGTGGCA--ACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
* *
2101143 AAAGCCCACAAGTCCGTGGCATCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCATTTTCC
2101173 TTTTAAGCCC
Statistics
Matches: 117, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
28 44 0.38
29 23 0.20
30 50 0.43
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCATCATTTTCC
Found at i:2101100 original size:28 final size:28
Alignment explanation
Indices: 2100992--2101163 Score: 177
Period size: 28 Copynumber: 6.0 Consensus size: 28
2100982 CATTCCCCAC
*
2100992 CCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
2101020 CTTTTTC-AAAGCCCACAAGTCAGTGGCATCA
1 C--CTTCAAAAGCCCACAAGTCAGTGGCA--A
** *
2101051 TTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
2101079 CCTTCAAAAGCCCACAATTCAGTGACAC
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
2101107 CCTTTTTC-AAAGCCCACAAATCAGTGGCAA
1 CC---TTCAAAAGCCCACAAGTCAGTGGCAA
*
2101137 CCTTCAAAAGCCCACAAGTCCGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA
2101164 TCTTTTTCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
27 3 0.02
28 45 0.37
29 25 0.21
30 45 0.37
31 3 0.02
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:2101118 original size:58 final size:58
Alignment explanation
Indices: 2100998--2101156 Score: 221
Period size: 58 Copynumber: 2.7 Consensus size: 58
2100988 CCACCCTTCA
* * * *
2100998 AAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCATCATTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCAGTGACACCATTTTCC
* * *
2101057 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAATTCAGTGACACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGACACCATTTTCC
*
2101115 AAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACAAGTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTC
2101157 CGTGGCATCT
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
57 3 0.03
58 65 0.72
59 22 0.24
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.20
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGACACCATTTTCC
Found at i:2101233 original size:32 final size:32
Alignment explanation
Indices: 2101144--2101233 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
2101134 CAACCTTCAA
* *
2101144 AAGCCCACAAGTCCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
* ** * *
2101177 AAGCCCACAACTCCATACCGCCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
*
2101209 AAGTCCACAACTCCGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
2101234 AAGTCCAATA
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:2101627 original size:55 final size:54
Alignment explanation
Indices: 2101557--2101789 Score: 169
Period size: 55 Copynumber: 4.4 Consensus size: 54
2101547 AGTCTAATGC
*
2101557 CGTTGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAT
1 CGTTGGCCGTGAATCAGCACATTGACAT-CTTTTTCTCATCTTTAAGCCCAATAT
* ** * ** ** *
2101612 CGTTGGCCTTGAATCAGCGTATTGGCATC--TTTAACATCCCTAAGCCCAATGT
1 CGTTGGCCGTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAGCCCAATAT
* ** ** * * * **
2101664 CGTTGGCCTTGTCTCAATACATTGACA--TTCTTCTC--C---AAGTCTAATGC
1 CGTTGGCCGTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAGCCCAATAT
* * *
2101711 CGCTGACCATGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAT
1 CGTTGGCCGTGAATCAGCACATTGACAT-CTTTTTCTCATCTTTAAGCCCAATAT
*
2101766 CGTTGGCCGTGAATCAGCATATTG
1 CGTTGGCCGTGAATCAGCACATTG
2101790 GTATCTTTCT
Statistics
Matches: 129, Mismatches: 39, Indels: 20
0.69 0.21 0.11
Matches are distributed among these distances:
47 28 0.22
50 8 0.06
52 42 0.33
54 1 0.01
55 50 0.39
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (54 bp):
CGTTGGCCGTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAGCCCAATAT
Found at i:2101754 original size:154 final size:149
Alignment explanation
Indices: 2101444--2101797 Score: 600
Period size: 154 Copynumber: 2.3 Consensus size: 149
2101434 TTTCTCACCT
*
2101444 TCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCC
1 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCC
* * *
2101509 CAATGTTGTTGGCCTTGTCACATTGACATTCTTCTCCAAGTCTAATGCCGTTGACCGTGAATCAG
66 CAATGTCGTTGGCCTTGTCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCATGAATCAG
2101574 CACATTGACATCCTTTTTC
131 CACATTGACATCCTTTTTC
2101593 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCC
1 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCC
2101658 CAATGTCGTTGGCCTTGTCTCAATACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCATGA
66 CAATGTCGTTGGCCTTG--TC---ACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCATGA
2101723 ATCAGCACATTGACATCCTTTTTC
126 ATCAGCACATTGACATCCTTTTTC
* * *
2101747 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGTATCTTT
1 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTT
2101798 CTCACTCTTC
Statistics
Matches: 193, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
149 80 0.41
151 2 0.01
154 111 0.58
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (149 bp):
TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCC
CAATGTCGTTGGCCTTGTCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCATGAATCAG
CACATTGACATCCTTTTTC
Found at i:2102347 original size:13 final size:13
Alignment explanation
Indices: 2102329--2102353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2102319 AAATAAGTGT
2102329 TGTATCGATACAA
1 TGTATCGATACAA
2102342 TGTATCGATACA
1 TGTATCGATACA
2102354 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2102351 original size:32 final size:32
Alignment explanation
Indices: 2102310--2102377 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
2102300 TTCAATGATT
*
2102310 TGTATCGATAAATAAGTGTTGTATCGATACAA
1 TGTATCGATAAATAAGTGTTGTATCGACACAA
* *
2102342 TGTATCGATACATAAGTTTTGTATCGACACAA
1 TGTATCGATAAATAAGTGTTGTATCGACACAA
2102374 TGTA
1 TGTA
2102378 CAGTTACGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATAAATAAGTGTTGTATCGACACAA
Found at i:2102366 original size:19 final size:19
Alignment explanation
Indices: 2102308--2102368 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
2102298 ATTTCAATGA
*
2102308 TTTGTATCGATAAATAAGT
1 TTTGTATCGATACATAAGT
*
2102327 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2102342 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2102359 TTTGTATCGA
1 TTTGTATCGA
2102369 CACAATGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 11 0.32
15 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2102443 original size:13 final size:13
Alignment explanation
Indices: 2102425--2102449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2102415 ATTACTCAAA
2102425 TGTATCGATACAT
1 TGTATCGATACAT
2102438 TGTATCGATACA
1 TGTATCGATACA
2102450 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2102501 original size:52 final size:52
Alignment explanation
Indices: 2102458--2102583 Score: 243
Period size: 52 Copynumber: 2.4 Consensus size: 52
2102448 CACTGATCTT
*
2102458 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
2102510 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
2102562 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
2102584 ATTTCATATT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2105740 original size:13 final size:13
Alignment explanation
Indices: 2105722--2105748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2105712 TACAATGAAC
2105722 ATGTATCGATACA
1 ATGTATCGATACA
2105735 ATGTATCGATACA
1 ATGTATCGATACA
2105748 A
1 A
2105749 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:2106922 original size:15 final size:15
Alignment explanation
Indices: 2106902--2106968 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
2106892 TTTTTTATAT
2106902 AAAATTAAAAATCAA
1 AAAATTAAAAATCAA
*
2106917 AAAATTAAAAATTAA
1 AAAATTAAAAATCAA
*
2106932 AAAA-T--CAATCAAA
1 AAAATTAAAAATC-AA
*
2106945 AAAATCAAAAATCAA
1 AAAATTAAAAATCAA
2106960 AAAA-TAAAA
1 AAAATTAAAA
2106969 TATAAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
12 3 0.07
13 6 0.14
14 5 0.12
15 24 0.57
16 4 0.10
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAATCAA
Found at i:2106946 original size:28 final size:27
Alignment explanation
Indices: 2106911--2106964 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
2106901 TAAAATTAAA
* *
2106911 AATCAAAAAATTAAAAATTAAAAAATC
1 AATCAAAAAATCAAAAATCAAAAAATC
2106938 AATCAAAAAAATCAAAAATCAAAAAAT
1 AATC-AAAAAATCAAAAATCAAAAAAT
2106965 AAAATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (27 bp):
AATCAAAAAATCAAAAATCAAAAAATC
Found at i:2106968 original size:7 final size:7
Alignment explanation
Indices: 2106902--2106976 Score: 53
Period size: 7 Copynumber: 10.4 Consensus size: 7
2106892 TTTTTTATAT
*
2106902 AAAATTA
1 AAAATAA
2106909 AAAATCAA
1 AAAAT-AA
2106917 AAAATTAA
1 AAAA-TAA
*
2106925 AAATTAA
1 AAAATAA
*
2106932 AAAATCA
1 AAAATAA
**
2106939 ATCA-AA
1 AAAATAA
*
2106945 AAAATCA
1 AAAATAA
2106952 AAAATCAA
1 AAAAT-AA
2106960 AAAATAA
1 AAAATAA
*
2106967 AATATAA
1 AAAATAA
2106974 AAA
1 AAA
2106977 TAATAATTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
6 3 0.06
7 31 0.61
8 16 0.31
9 1 0.02
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAATAA
Found at i:2107930 original size:56 final size:56
Alignment explanation
Indices: 2107755--2107937 Score: 206
Period size: 56 Copynumber: 3.3 Consensus size: 56
2107745 GAAGAAATTG
* * *
2107755 CAGCAACTCCAAGAAACGAACAGGA-AAAAATAGTAGCAACCAACAGCTACACGGA
1 CAGCAACTCCAAGCAACGAACAGGAGAAAAATAGCAGCAACCAGCAGCTACACGGA
* * * * * **
2107810 TAGCAACTCTAAGCAACGAACAGGAGAAAAATAGCACCAACTAGCAACTACACAAA
1 CAGCAACTCCAAGCAACGAACAGGAGAAAAATAGCAGCAACCAGCAGCTACACGGA
** * *
2107866 CAGCAACTCCAAGCAATAAACAGGAGAAAAACAGCAGCAACCAGTAGCTACACGGA
1 CAGCAACTCCAAGCAACGAACAGGAGAAAAATAGCAGCAACCAGCAGCTACACGGA
* * *
2107922 CGGTAACTCAAAGCAA
1 CAGCAACTCCAAGCAA
2107938 TGTACCGAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
55 22 0.21
56 81 0.79
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (56 bp):
CAGCAACTCCAAGCAACGAACAGGAGAAAAATAGCAGCAACCAGCAGCTACACGGA
Found at i:2118404 original size:20 final size:20
Alignment explanation
Indices: 2118381--2118452 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
2118371 ACAATTTAAA
2118381 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2118401 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2118422 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2118442 GTATCGATACA
1 GTATCGATACA
2118453 AAAAAAAGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2118425 original size:21 final size:21
Alignment explanation
Indices: 2118399--2118474 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2118389 ACATGTTGCA
2118399 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2118420 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
**
2118440 ATGTATCGATACAAAAAAAAG
1 ATGTATCGATACATGAAAAAG
2118461 ATGTATCGATACAT
1 ATGTATCGATACAT
2118475 TTCTTGGAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2118432 original size:41 final size:41
Alignment explanation
Indices: 2118381--2118474 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2118371 ACAATTTAAA
**
2118381 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
2118422 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
2118463 GTATCGATACAT
1 GTATCGATACAT
2118475 TTCTTGGAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
Found at i:2118531 original size:13 final size:13
Alignment explanation
Indices: 2118513--2118538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2118503 TACAGCAAGT
2118513 ATGTATCGATACA
1 ATGTATCGATACA
2118526 ATGTATCGATACA
1 ATGTATCGATACA
2118539 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2122620 original size:15 final size:15
Alignment explanation
Indices: 2122600--2122630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2122590 TAAAAATGTC
*
2122600 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2122615 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2122630 C
1 C
2122631 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2124713 original size:20 final size:21
Alignment explanation
Indices: 2124644--2124721 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
2124634 AATGTCCAAA
*
2124644 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2124664 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2124689 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2124709 TTGTATCGATACA
1 ATGTATCGATACA
2124722 GGGTGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2126551 original size:36 final size:36
Alignment explanation
Indices: 2126504--2126575 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
2126494 AGTGCAAATA
*
2126504 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
1 AATTTTGATATGAATTACTTGATTAAGGGGGAGATT
2126540 AATTTTGATATGAATTACTTGATTAAGGGGGAGATT
1 AATTTTGATATGAATTACTTGATTAAGGGGGAGATT
2126576 TATTAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (36 bp):
AATTTTGATATGAATTACTTGATTAAGGGGGAGATT
Found at i:2127222 original size:20 final size:20
Alignment explanation
Indices: 2127199--2127270 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
2127189 ACAATTTAAA
2127199 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2127219 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2127240 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2127260 GTATCGATACA
1 GTATCGATACA
2127271 AAAAAAAGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2127243 original size:21 final size:21
Alignment explanation
Indices: 2127217--2127292 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2127207 ACATGTTGCA
2127217 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2127238 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
**
2127258 ATGTATCGATACAAAAAAAAG
1 ATGTATCGATACATGAAAAAG
2127279 ATGTATCGATACAT
1 ATGTATCGATACAT
2127293 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2127250 original size:41 final size:41
Alignment explanation
Indices: 2127199--2127292 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2127189 ACAATTTAAA
**
2127199 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
2127240 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
2127281 GTATCGATACAT
1 GTATCGATACAT
2127293 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACAAAAAAAAGAT
Found at i:2127349 original size:13 final size:13
Alignment explanation
Indices: 2127331--2127356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2127321 TACAGCAAGT
2127331 ATGTATCGATACA
1 ATGTATCGATACA
2127344 ATGTATCGATACA
1 ATGTATCGATACA
2127357 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2131830 original size:13 final size:13
Alignment explanation
Indices: 2131812--2131837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2131802 CAATTTTTTG
2131812 TGTATCGATACAT
1 TGTATCGATACAT
2131825 TGTATCGATACAT
1 TGTATCGATACAT
2131838 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2131902 original size:21 final size:21
Alignment explanation
Indices: 2131876--2131951 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2131866 CTGCCAAGAA
*
2131876 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2131897 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2131917 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2131938 ATGTATCGATACAT
1 ATGTATCGATACAT
2131952 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2131922 original size:20 final size:20
Alignment explanation
Indices: 2131897--2131969 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2131887 CATCTTTTTT
2131897 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2131917 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2131938 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2131958 ATGTATCGATAC
1 ATGTATCGATAC
2131970 TTTAAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2131933 original size:41 final size:41
Alignment explanation
Indices: 2131876--2131969 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2131866 CTGCCAAGAA
*
2131876 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2131917 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2131958 ATGTATCGATAC
1 ATGTATCGATAC
2131970 TTTAAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2132637 original size:36 final size:36
Alignment explanation
Indices: 2132593--2132664 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
2132583 TTTATTAATA
*
2132593 AATCTCCCCCTTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
2132629 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
2132665 TATTTGCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (36 bp):
AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
Found at i:2134436 original size:13 final size:13
Alignment explanation
Indices: 2134418--2134456 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2134408 ATAATCACCC
*
2134418 TGTATCGATACAG
1 TGTATCGATACAA
2134431 TGTATCGATACAA
1 TGTATCGATACAA
2134444 TGTATCGATACAA
1 TGTATCGATACAA
2134457 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2134467 original size:20 final size:20
Alignment explanation
Indices: 2134442--2134520 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2134432 GTATCGATAC
2134442 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2134462 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2134487 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2134507 CATGTATCGATACA
1 AATGTATCGATACA
2134521 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2136555 original size:15 final size:15
Alignment explanation
Indices: 2136535--2136565 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2136525 ATTTCGTTTG
*
2136535 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2136550 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2136565 G
1 G
2136566 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2140720 original size:21 final size:21
Alignment explanation
Indices: 2140694--2140769 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2140684 CTGCCAAGAA
*
2140694 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2140715 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2140735 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2140756 ATGTATCGATACAT
1 ATGTATCGATACAT
2140770 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2140740 original size:20 final size:20
Alignment explanation
Indices: 2140715--2140787 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2140705 CATCTTTTTT
2140715 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2140735 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2140756 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2140776 ATGTATCGATAC
1 ATGTATCGATAC
2140788 TTTAAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2140751 original size:41 final size:41
Alignment explanation
Indices: 2140694--2140787 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2140684 CTGCCAAGAA
*
2140694 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2140735 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2140776 ATGTATCGATAC
1 ATGTATCGATAC
2140788 TTTAAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2141582 original size:7 final size:7
Alignment explanation
Indices: 2141570--2141636 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
2141560 TCCTTCGTAA
2141570 AAAAAAC
1 AAAAAAC
2141577 AAAAAAC
1 AAAAAAC
2141584 AAAAAA-
1 AAAAAAC
*
2141590 AAAAGCAC
1 AAAA-AAC
2141598 AAAAAA-
1 AAAAAAC
2141604 ACAAAAAC
1 A-AAAAAC
2141612 AAAAAAC
1 AAAAAAC
*
2141619 -AAATA-
1 AAAAAAC
2141624 AAAAAAC
1 AAAAAAC
2141631 AAAAAA
1 AAAAAA
2141637 TAAGAAAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 13 0.26
7 32 0.64
8 5 0.10
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:2141615 original size:35 final size:33
Alignment explanation
Indices: 2141571--2141636 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 33
2141561 CCTTCGTAAA
2141571 AAAAACAAAAAACAAAAAAAAAAGCACAAAAAAAC
1 AAAAACAAAAAACAAAAAAAAAA--ACAAAAAAAC
*
2141606 AAAAACAAAAAACAAATAAAAAAACAAAAAA
1 AAAAACAAAAAACAAAAAAAAAAACAAAAAA
2141637 TAAGAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 8 0.27
35 22 0.73
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.02
Consensus pattern (33 bp):
AAAAACAAAAAACAAAAAAAAAAACAAAAAAAC
Found at i:2142996 original size:28 final size:28
Alignment explanation
Indices: 2142938--2143005 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
2142928 TTCTCAAAGC
* *
2142938 CCACTAGTCAGTGGCACCTCTTCAAAGT
1 CCACAAGTCAGTGGCACCTCTTCAAACT
* *
2142966 CCACAAGTCAGTGGCATCT-TGTCGAACT
1 CCACAAGTCAGTGGCACCTCT-TCAAACT
2142994 CCACAA-TCAGTG
1 CCACAAGTCAGTG
2143006 ACACTTGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.20
28 28 0.80
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCTCTTCAAACT
Found at i:2143258 original size:32 final size:33
Alignment explanation
Indices: 2143187--2143261 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
2143177 AGAAACTTTC
* * *
2143187 TCTAAAACCCACACAAGTTGGTGGCAACCTTCT
1 TCTAAAGCCCACAAAAGTTGGTGGCAACCCTCT
**
2143220 TC-AAAGCCCACAAAAGTTGGTGGTGACCCT-T
1 TCTAAAGCCCACAAAAGTTGGTGGCAACCCTCT
2143251 TCTAAAGCCCA
1 TCTAAAGCCCA
2143262 TACAAGACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 3 0.08
32 31 0.86
33 2 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (33 bp):
TCTAAAGCCCACAAAAGTTGGTGGCAACCCTCT
Found at i:2143364 original size:52 final size:52
Alignment explanation
Indices: 2143291--2143817 Score: 442
Period size: 52 Copynumber: 9.8 Consensus size: 52
2143281 TTTCTTTCTC
* * * * *
2143291 AAGTCCAATATCACTGACCTTGAATCAGCATATTGGCGCCTTTATCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
* *
2143343 AAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCT-TC-T-TTCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCATCTT-T
* * * ** * * *
2143394 CAAGTCTAATATCACTAACTTTGAATCAACATATTGGCACCTTTATCATCTTT
1 -AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
* *
2143447 AAGTCCAATGTTGCTGGCCCTGAATCAGCACATTGGCACCTTCT-TC-T-TTCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCATCTT-T
* * * *
2143498 CAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTT
1 -AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
* * * *
2143551 AAGTCCAATATCGCTGGCCTTGAATCAGCAAATTAGTACCTTTATCATCCTTTTAATCCTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCAT-C------T--TT
*
2143612 AAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGCACC---ATCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
* * * * * * *
2143661 AAATCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATCTCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
* * *
2143713 AAGCCCAATGTCGCTGGCCTTGAACCAGCACATTAGCATTGTTCTCATCTTCATCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C-C-T-TT-ATCATCTTT
*
2143774 AAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTA
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
2143818 AGGCCAATAT
Statistics
Matches: 377, Mismatches: 65, Indels: 66
0.74 0.13 0.13
Matches are distributed among these distances:
49 36 0.10
50 4 0.01
51 7 0.02
52 225 0.60
53 9 0.02
54 5 0.01
55 1 0.00
56 1 0.00
57 1 0.00
58 6 0.02
59 2 0.01
60 2 0.01
61 78 0.21
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTT
Found at i:2143592 original size:104 final size:104
Alignment explanation
Indices: 2143274--2143815 Score: 500
Period size: 104 Copynumber: 5.1 Consensus size: 104
2143264 CAAGACACTA
* *
2143274 GCACCTTTTTCTTTCTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCGCCTTTATCAT
1 GCACCTTCTTCTTTCTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCACCTTTATCAT
* *
2143339 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTG
66 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * * *
2143378 GCACATTCTTCTTTCTCAAGTCTAATATCACTAACTTTGAATCAACATATTGGCACCTTTATCAT
1 GCACCTTCTTCTTTCTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCACCTTTATCAT
* * *
2143443 CTTTAAGTCCAATGTTGCTGGCCCTGAATCAGCACATTG
66 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* ** *
2143482 GCACCTTCTTCTTTCTCAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
1 GCACCTTCTTCTTTCTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCACCTTTATCAT
* *
2143547 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTA
66 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * * * * * *
2143586 GTACCTTTATCATCCTTTTAATCCTTAAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGCAC
1 GCACC--T-TC-T--TCTT--T-CTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCAC
* * *
2143651 C---ATCATCTTTAAATCCGATATCGCTGGCCTTGAATCAGCATATTG
57 CTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * * * * * * * *
2143696 GCATCTT-TAAC-ATCTCTAAGCCCAATGTCGCTGGCCTTGAACCAGCACATTAGCATTGTTCTC
1 GCACCTTCT-TCTTTCTC-AAGTCCAATATCACTGACCTTGAATCAGCATATTGGCA-----C-C
* *
2143759 ATCTTCATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTG
58 -T-TT-ATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
2143809 GCACCTT
1 GCACCTT
2143816 TAAGGCCAAT
Statistics
Matches: 367, Mismatches: 49, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
100 2 0.01
101 35 0.10
104 192 0.52
105 1 0.00
106 2 0.01
107 4 0.01
108 2 0.01
110 46 0.13
112 1 0.00
113 82 0.22
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (104 bp):
GCACCTTCTTCTTTCTCAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCACCTTTATCAT
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
Found at i:2143704 original size:110 final size:111
Alignment explanation
Indices: 2143499--2143709 Score: 289
Period size: 110 Copynumber: 1.9 Consensus size: 111
2143489 CTTCTTTCTC
* * * *
2143499 AAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--TATCATCTTTAAATCCAATATCG
* *
2143564 CTGGCCTTGAATCAGCAAATTAGTACCTTTATCATCCTTTTAATCCTT
64 CTGGCCTTGAATCAGCAAATTAGCACCTTTAACATCCTTTTAATCCTT
* * *
2143612 AAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGCACC-ATCATCTTTAAATCCGATATCGCT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTATCATCTTTAAATCCAATATCGCT
* * *
2143676 GGCCTTGAATCAGCATATTGGCATCTTTAACATC
66 GGCCTTGAATCAGCAAATTAGCACCTTTAACATC
2143710 TCTAAGCCCA
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
110 51 0.59
113 35 0.41
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (111 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTATCATCTTTAAATCCAATATCGCT
GGCCTTGAATCAGCAAATTAGCACCTTTAACATCCTTTTAATCCTT
Found at i:2143734 original size:162 final size:161
Alignment explanation
Indices: 2143445--2143860 Score: 513
Period size: 162 Copynumber: 2.6 Consensus size: 161
2143435 TTTATCATCT
* * * *
2143445 TTAAGTCCAATGTTGCTGGCCCTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCTAATAT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATC-TC-TT-T-AAGTCCAATAT
* * * * *
2143510 CGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAA
62 CGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATCTCTAAGCCCAATATCGCTGGCCTTGAA
* * *
2143575 TCAGCAAATTAGTACCT-TTATCATCCTT-TTAATCC
127 CCAGCAAATTAGCA-CTGTTATCAT-CTTCATAATCC
* * *
2143610 TTAAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGCACCATCATCTTTAAATCCGATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATC-TCTTTAAGTCCAATATCGC
*
2143675 TGGCCTTGAATCAGCATATTGGCATCTTTAACATCTCTAAGCCCAATGTCGCTGGCCTTGAACCA
65 TGGCCTTGAATCAGCATATTGGCATCTTTAACATCTCTAAGCCCAATATCGCTGGCCTTGAACCA
* * * * *
2143740 GCACATTAGCATTGTTCTCATCTTCATCATCT
130 GCAAATTAGCACTGTTATCATCTTCATAATCC
* *
2143772 TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGG---CA-C-CTTTAAGGCCAATATCGCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATCTCTTTAAGTCCAATATCGCT
2143832 GGCCTTGAATCAGCATATTGGCATCTTTA
66 GGCCTTGAATCAGCATATTGGCATCTTTA
2143861 TCACTCTTCT
Statistics
Matches: 222, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
156 45 0.20
158 1 0.00
159 2 0.01
161 4 0.02
162 124 0.56
163 1 0.00
164 2 0.01
165 43 0.19
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (161 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATCTCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTTAACATCTCTAAGCCCAATATCGCTGGCCTTGAACCAG
CAAATTAGCACTGTTATCATCTTCATAATCC
Found at i:2143834 original size:43 final size:43
Alignment explanation
Indices: 2143770--2143860 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
2143760 TCTTCATCAT
* *
2143770 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGGCCAATATCACTGGCCTTGAATCAGCACATTGGCAC
* * *
2143813 CTTTAAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTTAAGGCCAATATCACTGGCCTTGAATCAGCACATTGGCAC
2143856 CTTTA
1 CTTTA
2143861 TCACTCTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGGCCAATATCACTGGCCTTGAATCAGCACATTGGCAC
Found at i:2144678 original size:19 final size:18
Alignment explanation
Indices: 2144640--2144679 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2144630 GCTTACGAAA
2144640 CATTTCATGCATTGCATT
1 CATTTCATGCATTGCATT
* *
2144658 CATTTCAATGTATTGCTTT
1 CATTTC-ATGCATTGCATT
2144677 CAT
1 CAT
2144680 GCATACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (18 bp):
CATTTCATGCATTGCATT
Found at i:2145482 original size:56 final size:54
Alignment explanation
Indices: 2145367--2145552 Score: 194
Period size: 56 Copynumber: 3.4 Consensus size: 54
2145357 AAATTGCAGC
* * * *
2145367 AACTCCAAGCCACGAACAGGAG-AAAACAACAGCAACCAGCAGCTACACAGACAAC
1 AACTCCAAGCAACGAACAGGAGAAAAACAGCAGC-ACCAGCAGCTACACGGAC-AT
* * * **
2145422 AACTCCAAGCAATGAACAGGGGAAAAACAGCAACTACCAGTTGCTACACGGACAGT
1 AACTCCAAGCAACGAACAGGAGAAAAACAGCAGC-ACCAGCAGCTACACGGACA-T
* *
2145478 AACTCCAAGCAACGAATAGGAGAAAAACAGCAGCAGCCAGCAGCTACATGGACAT
1 AACTCCAAGCAACGAACAGGAGAAAAACAGCAGCA-CCAGCAGCTACACGGACAT
* *
2145533 CAACTCAAAGCAATGAACAG
1 -AACTCCAAGCAACGAACAG
2145553 AAATAGCAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
55 22 0.21
56 85 0.79
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.09
Consensus pattern (54 bp):
AACTCCAAGCAACGAACAGGAGAAAAACAGCAGCACCAGCAGCTACACGGACAT
Found at i:2149874 original size:69 final size:69
Alignment explanation
Indices: 2149741--2149875 Score: 153
Period size: 69 Copynumber: 2.0 Consensus size: 69
2149731 GCTTCCCGTA
* * ** * * **
2149741 CTTTTCATGCCGCTTCTCATGTCTATCATGCTTCTCATTCTTTTCATATTGCTTCTCATTTCTCT
1 CTTTTCACGCCGCTTCTCATGTCCATCATGCTTAACATGCTTTTCATACTGCTTCTCACGTCTCT
2149806 TGTG
66 TGTG
* * * * *
2149810 CTTTTCACGCCGCTTCTCATGTCCATCATTCTTAAGATGCTTTTCCTGCTGCTTCTCCCGTCTCT
1 CTTTTCACGCCGCTTCTCATGTCCATCATGCTTAACATGCTTTTCATACTGCTTCTCACGTCTCT
2149875 T
66 T
2149876 TCTCTTCCTG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.11, C:0.31, G:0.11, T:0.47
Consensus pattern (69 bp):
CTTTTCACGCCGCTTCTCATGTCCATCATGCTTAACATGCTTTTCATACTGCTTCTCACGTCTCT
TGTG
Found at i:2155118 original size:21 final size:21
Alignment explanation
Indices: 2155094--2155141 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2155084 AAGTTCGAGA
*
2155094 GGCTTTCGTGCTTGCTTCCCC
1 GGCTTTCGTGCTTGCTACCCC
* *
2155115 GGCTTACGTGCTTGCTACCCT
1 GGCTTTCGTGCTTGCTACCCC
2155136 GGCTTT
1 GGCTTT
2155142 GCCATCGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.33, G:0.25, T:0.38
Consensus pattern (21 bp):
GGCTTTCGTGCTTGCTACCCC
Found at i:2155343 original size:14 final size:14
Alignment explanation
Indices: 2155295--2155341 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2155285 TATTCATTGA
*
2155295 AAATTTAAAAAATTT
1 AAATTTAAAATA-TT
*
2155310 AAA-TAAAAATATT
1 AAATTTAAAATATT
2155323 AAATTTAAAATA-T
1 AAATTTAAAATATT
2155336 AAATTT
1 AAATTT
2155342 TAGTAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTTAAAATATT
Found at i:2155452 original size:22 final size:23
Alignment explanation
Indices: 2155415--2155465 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2155405 ACGTAAATAA
* *
2155415 AATTTTTTAATTATAA-AATTTT
1 AATTTTTTAATAATAATAATTAT
2155437 ATATTTTTT-ATAATAATAATTAT
1 A-ATTTTTTAATAATAATAATTAT
2155460 AATTTT
1 AATTTT
2155466 ATTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTTTTAATAATAATAATTAT
Found at i:2155583 original size:23 final size:24
Alignment explanation
Indices: 2155555--2155600 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2155545 TATTTAACTA
*
2155555 TTTAAAACT-AAAATAAAATATAT
1 TTTAAAAATAAAAATAAAATATAT
*
2155578 TTTAAAAATAAAAATATAATATA
1 TTTAAAAATAAAAATAAAATATA
2155601 ATCAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTTAAAAATAAAAATAAAATATAT
Found at i:2156099 original size:15 final size:15
Alignment explanation
Indices: 2156079--2156113 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2156069 TAACTAAAAC
2156079 TAATAAAATATT-TAT
1 TAATAAAAT-TTGTAT
2156094 TAATAAAATTTGTAT
1 TAATAAAATTTGTAT
2156109 TAATA
1 TAATA
2156114 GATGAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TAATAAAATTTGTAT
Found at i:2156272 original size:12 final size:12
Alignment explanation
Indices: 2156255--2156281 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2156245 TTACCTTTTA
2156255 AAATTAATAAAT
1 AAATTAATAAAT
2156267 AAATTAATAAAT
1 AAATTAATAAAT
2156279 AAA
1 AAA
2156282 AAACAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTAATAAAT
Found at i:2156672 original size:23 final size:26
Alignment explanation
Indices: 2156646--2156704 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 26
2156636 AAATCACAAA
2156646 ATAAAAAATTAAT-AA-TTTAAAT-G
1 ATAAAAAATTAATAAATTTTAAATGG
*
2156669 AT-AAAAATTCATAAATTTTAAATGG
1 ATAAAAAATTAATAAATTTTAAATGG
*
2156694 ATAAAATATTA
1 ATAAAAAATTA
2156705 TTTTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.31
23 4 0.14
24 7 0.24
25 3 0.10
26 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (26 bp):
ATAAAAAATTAATAAATTTTAAATGG
Found at i:2157119 original size:2 final size:2
Alignment explanation
Indices: 2157112--2157147 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2157102 AGTTGTCTTA
2157112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2157148 GATTTAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2157650 original size:19 final size:19
Alignment explanation
Indices: 2157628--2157671 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2157618 TTAAAATTTT
*
2157628 TATTTATAA-ATTGAATAAA
1 TATTTATAATAAT-AATAAA
*
2157647 TATTTTTAATAATAATAAA
1 TATTTATAATAATAATAAA
2157666 TATTTA
1 TATTTA
2157672 GAAAGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTTATAATAATAATAAA
Found at i:2161366 original size:80 final size:78
Alignment explanation
Indices: 2161228--2161453 Score: 208
Period size: 80 Copynumber: 2.8 Consensus size: 78
2161218 GAGAAATTTA
* * * * * *
2161228 ATATTTTGGAGATAATAA-CGGGGTTGGAGTGTCCCCT-TGAAAATGACGGGGCTAGAGTATCCC
1 ATATTTAGGA-ATAA-AACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCC
* *
2161291 CGGTTGTGAGAAATCG
63 CGATTATGAGAAATCG
*
2161307 ATGA-TTAGAGAA-AAAACATCGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC
1 AT-ATTTAG-GAATAAAAC--CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC
**
2161370 CTAATTATGAGAAATCG
62 CCGATTATGAGAAATCG
* * * **
2161387 ATATTTTTGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCG
1 ATA-TTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
2161452 AT
65 AT
2161454 GAAATAACGA
Statistics
Matches: 119, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
77 2 0.02
78 2 0.02
79 50 0.42
80 57 0.48
81 8 0.07
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (78 bp):
ATATTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGA
TTATGAGAAATCG
Found at i:2161461 original size:28 final size:28
Alignment explanation
Indices: 2161405--2161476 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2161395 GGAATAAAGC
** **
2161405 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2161433 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2161461 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2161477 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2161468 original size:107 final size:108
Alignment explanation
Indices: 2161326--2161530 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 108
2161316 GAAAAAACAT
* *
2161326 CGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC-CTAATTATGAGAAATCGATA
1 CGGGATTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTC-AATTATGAAAAATCGATA
* *
2161390 TTTTTGG-AATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAA
65 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
* * * * *
2161433 CGGGGTTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCAATTGTGAAAAATTGATG
1 CGGGATTGGAGTATCCCCTCA-GAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCGATA
*
2161497 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
2161531 GATTAAAGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
106 1 0.01
107 60 0.71
108 24 0.28
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCGATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
Found at i:2161672 original size:51 final size:51
Alignment explanation
Indices: 2161464--2161849 Score: 266
Period size: 52 Copynumber: 7.4 Consensus size: 51
2161454 GAAATAACGA
* * * *
2161464 GGTTGGAGTATCCTCAATTGTGAAAAATTGATGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATG-TTTTGGAAATAAAATCGG
* * * ** *
2161516 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAATGTTTTGGAAATAAAATCGG
* * * * *
2161568 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAATGTTTTGGAAATAAAATCGG
* *
2161620 GGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGG
* * * ** *
2161671 GGTTGGAGTATCCCC---T-CG-GAAA-TAACGGGGTTGGAGTATCCCTGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAA-TGTTTTGGA--A------AT-A-AAATCGG
* **
2161726 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAATG--TTTTGGAAATAAAATCGG
* * *
2161780 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAATGTTTTGGAAATAAAATCGG
* * *
2161831 AGTTGGAATATCCCTGATT
1 GGTTGGAGTATCCCCGATT
2161850 GTGGAGAATT
Statistics
Matches: 264, Mismatches: 46, Indels: 49
0.74 0.13 0.14
Matches are distributed among these distances:
45 2 0.01
46 9 0.03
47 1 0.00
48 2 0.01
51 73 0.28
52 95 0.36
53 21 0.08
54 26 0.10
55 21 0.08
56 1 0.00
58 1 0.00
59 1 0.00
61 5 0.02
62 1 0.00
63 5 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGG
Found at i:2161688 original size:263 final size:263
Alignment explanation
Indices: 2161354--2161854 Score: 785
Period size: 263 Copynumber: 1.9 Consensus size: 263
2161344 TCAGAAATAA
* *
2161354 CGGGGTTGGAGTATCCCTAATTATGAGAAATCGATATTTTTGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTTGGAATAAAGCCGGGGTTGGAGTAT
** *
2161419 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCAATTG
*
2161484 TGAA-AAATTGATG-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
130 TGAAGAAATTGATGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATTA
* *
2161547 GTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
194 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
2161612 AAAAC
259 AAAAC
* *
2161617 CGGGGTTGGAGTATCCCCGATTATGAAAAATC-A-ATGTTTTGGAAATAAAGTCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATAT-TTTTGG-AATAAAGCCGGGGTTGGAGT
* * * *
2161680 ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTGATGATTAACGGGGTTGGAGTATCCCCGATT
64 ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCAATT
* *
2161745 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTA
129 GTGAAGAAATTGATGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTA
*
2161810 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCTGATTGTGGA
194 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
2161855 GAATTGAGAA
Statistics
Matches: 217, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
261 2 0.01
262 35 0.16
263 140 0.65
264 40 0.18
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTTGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCAATTGT
GAAGAAATTGATGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:2161695 original size:31 final size:28
Alignment explanation
Indices: 2161668--2161740 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
2161658 GAAATAAAGT
2161668 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
*
2161696 CGGGGTTGGAGTAT-CCCT--GATGATTAA
1 CGGGGTTGGAGTATCCCCTCGGA--AATAA
2161723 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2161741 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 2 0.05
27 22 0.54
28 17 0.41
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:2163573 original size:12 final size:13
Alignment explanation
Indices: 2163556--2163590 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2163546 GGAATATGGA
2163556 GTTTTTGGAGGT-
1 GTTTTTGGAGGTG
*
2163568 GTTTTTGGTGGTG
1 GTTTTTGGAGGTG
2163581 GTTTTTGGAG
1 GTTTTTGGAG
2163591 CTACGGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.06, C:0.00, G:0.43, T:0.51
Consensus pattern (13 bp):
GTTTTTGGAGGTG
Found at i:2164205 original size:13 final size:13
Alignment explanation
Indices: 2164187--2164212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2164177 ACAAAGATCC
2164187 ATGTATCGATACA
1 ATGTATCGATACA
2164200 ATGTATCGATACA
1 ATGTATCGATACA
2164213 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2164208 original size:33 final size:33
Alignment explanation
Indices: 2164166--2164232 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2164156 AAAATTTCCA
***
2164166 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2164199 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2164232 A
1 A
2164233 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2164276 original size:19 final size:18
Alignment explanation
Indices: 2164252--2164321 Score: 87
Period size: 19 Copynumber: 4.1 Consensus size: 18
2164242 CAGTAGCTAA
2164252 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2164271 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2164286 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2164303 TTATGTATCGATACAAAC
1 TTATGTATCGATACAAAC
2164321 T
1 T
2164322 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 6 0.13
19 25 0.56
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2164292 original size:13 final size:13
Alignment explanation
Indices: 2164274--2164298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2164264 ACAATACTTA
2164274 TGTATCGATACAT
1 TGTATCGATACAT
2164287 TGTATCGATACA
1 TGTATCGATACA
2164299 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2164296 original size:32 final size:32
Alignment explanation
Indices: 2164255--2164317 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2164245 TAGCTAATTA
*
2164255 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2164287 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2164318 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2165118 original size:119 final size:116
Alignment explanation
Indices: 2164919--2165130 Score: 261
Period size: 119 Copynumber: 1.8 Consensus size: 116
2164909 GGATGTCCAC
* * *
2164919 TTTTCAAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAAGACCAAGGAAGAGAAGA
1 TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCTTGCTCCTTGAAGACAAAAGAAGAGAAGA
2164984 AAAGGAAAGTGTCCTGCT-TCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
66 AAAGGAAAGTGTCCTGCTCT-TTGAGGACAAAGTGAAAAAGAGTACGTCCCA
* * *
2165035 TTTTCCAAGGACAACGGAAAAAGGGAAATGAAATACGTCTTGCT-CTCTGAGGACAAAAGAA-AG
1 TTTT-CAAGGACAAAGG-AAAAGAG-AATGAAATACGTCTTGCTCCT-TGAAGACAAAAGAAGAG
* *
2165098 AGGAAAA-TAAAGTGTATCCTGCTCTTTGAGGAC
62 AAGAAAAGGAAAGTG--TCCTGCTCTTTGAGGAC
2165131 TAAAAAGTGC
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
116 4 0.05
117 17 0.21
118 16 0.20
119 43 0.53
120 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (116 bp):
TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCTTGCTCCTTGAAGACAAAAGAAGAGAAGA
AAAGGAAAGTGTCCTGCTCTTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
Found at i:2165198 original size:55 final size:55
Alignment explanation
Indices: 2165114--2165688 Score: 620
Period size: 55 Copynumber: 10.0 Consensus size: 55
2165104 ATAAAGTGTA
* * * *
2165114 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCCACTCGTGTGGGTTTTG-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
2165169 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
2165224 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
2165279 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
2165334 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
* *
2165395 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCG
** * *
2165456 TCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTATGTGGGCTTTAAGAGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAA-AATGCCACCAACTTGTGTGGGCTTT----GAAAAGGCG
* * *
2165516 TCCCGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT----GAAAAGGCG
* **
2165575 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTCATGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT----GAAAAGGCG
* *
2165635 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGG
2165689 AAAAGGCATC
Statistics
Matches: 473, Mismatches: 29, Indels: 35
0.88 0.05 0.07
Matches are distributed among these distances:
54 4 0.01
55 195 0.41
56 14 0.03
59 51 0.11
60 94 0.20
61 109 0.23
65 6 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
Found at i:2166714 original size:26 final size:27
Alignment explanation
Indices: 2166685--2166746 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
2166675 AGTAGGTTCT
2166685 TTTTCTTTTCTTCTCTTTTTTCTTTG-
1 TTTTCTTTTCTTCTCTTTTTTCTTTGC
* * * * *
2166711 TTTTGTTTTGTTTTGTTTTTTTTTTGC
1 TTTTCTTTTCTTCTCTTTTTTCTTTGC
*
2166738 TTTTTTTTT
1 TTTTCTTTT
2166747 TTGAAGAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (27 bp):
TTTTCTTTTCTTCTCTTTTTTCTTTGC
Found at i:2179261 original size:80 final size:78
Alignment explanation
Indices: 2179160--2179344 Score: 208
Period size: 78 Copynumber: 2.3 Consensus size: 78
2179150 GTTCCCTTGA
* * * * * *
2179160 AAATGACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGATGATTAGAGAAAAAACATCGGGATT
1 AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCGAT-ATTAGAGAAAAAA-AGCGGGATT
2179225 GGAGTATCCCCTCGG
64 GGAGTATCCCCTCGG
** *** * * *
2179240 AAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCGATATTTTTGGAATAAAGCGGGGTTGG
1 AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCGATATTAGAGAAAAAAAGCGGGATTGG
2179305 AGTATCCCCTCGG
66 AGTATCCCCTCGG
**
2179318 AGGTAACGGGGTTGGAGTATCCCCGAT
1 AAATAACGGGGTTGGAGTATCCCCGAT
2179345 GAAATAACGA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 45 0.52
79 8 0.09
80 34 0.39
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (78 bp):
AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCGATATTAGAGAAAAAAAGCGGGATTGG
AGTATCCCCTCGG
Found at i:2179351 original size:106 final size:108
Alignment explanation
Indices: 2179218--2179421 Score: 261
Period size: 106 Copynumber: 1.9 Consensus size: 108
2179208 GAAAAAACAT
** * *
2179218 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC-CTAATTATGAGAAATCGATA
1 CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTC-AATTATGAAAAATCGATA
*
2179282 TTTTTGG-AAT-AAAGCGGGGTTGGAGTATCCCCTCGGAGGTAA
65 TTTTTGGAAATAAAAGCGGAGTTGGAGTATCCCCTCGGAGGTAA
* * * * * *
2179324 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGT
1 CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCGATAT
**
2179389 TTTTGGAAATAAAATTGGAGTTGGAGTATCCCC
66 TTTTGGAAATAAAAGCGGAGTTGGAGTATCCCC
2179422 GATTAAAGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 59 0.72
107 4 0.05
108 19 0.23
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCGATAT
TTTTGGAAATAAAAGCGGAGTTGGAGTATCCCCTCGGAGGTAA
Found at i:2179352 original size:28 final size:28
Alignment explanation
Indices: 2179296--2179367 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2179286 TGGAATAAAG
** **
2179296 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2179324 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2179352 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2179368 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2179563 original size:51 final size:51
Alignment explanation
Indices: 2179355--2179740 Score: 255
Period size: 52 Copynumber: 7.4 Consensus size: 51
2179345 GAAATAACGA
* * * * **
2179355 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * * *
2179407 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * *
2179459 GGTTAGAGTATCCCCAATTGTGGAAAAATTAGTGTTTTAGTAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * **
2179511 GGTTGGAGTATCCCCGATTATGAAAAATCAATGCTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * ** * *
2179562 GGTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGGAGTATCCCT-GATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTGT-TTTGGA-AATAAAACCGG
* * *
2179617 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGGAAATAAAACCGG
* * *
2179671 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGGAAATAAAACCGG
* *
2179722 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
2179741 GTGGAGAATT
Statistics
Matches: 260, Mismatches: 52, Indels: 45
0.73 0.15 0.13
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
51 75 0.29
52 93 0.36
53 27 0.10
54 24 0.09
55 18 0.07
56 5 0.02
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:2179593 original size:28 final size:28
Alignment explanation
Indices: 2179559--2179631 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
2179549 GAAATAAAGT
2179559 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCCTCATG-AATAA
* *
2179587 CGGGGTTGGAGTAT-CCCTGATGATTAA
1 CGGGGTTGGAGTATCCCCTCATGAATAA
2179614 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2179632 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCATGAATAA
Found at i:2179594 original size:263 final size:262
Alignment explanation
Indices: 2179246--2179745 Score: 747
Period size: 263 Copynumber: 1.9 Consensus size: 262
2179236 TCGGAAATAA
* * *
2179246 CGGGGTTGGAGTATCCCTAATTATGAGAAATCGATATTTTTGGAATAAAGCGGGGTTGGAGTATC
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATCTTTGGAATAAAGCGGGGTTGGAGTATC
* ** *
2179311 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTGT
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCAATTGT
* *
2179376 GAA-AAATTGGTG-TTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
130 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATTAG
* *
2179439 TGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCAATTGTGGAAAAATTAGTGTTTTAGTAATA
194 TGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCAATTGTGGAAAAATTAGTGTTTTAGTAATA
2179504 AAAC
259 AAAC
*
2179508 CGGGGTTGGAGTATCCCCGATTATGAAAAATC-A-ATGCTTTGGAAATAAAGTCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATAT-CTTTGG-AATAAAG-CGGGGTTGGAGT
* * * *
2179571 ATCCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGATTAACGGGGTTGGAGTATCCCCGATT
63 ATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCAATT
*
2179636 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTA
128 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTA
* * *
2179701 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
193 GTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCAATTGTGGA
2179746 GAATTGAGAA
Statistics
Matches: 213, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
260 2 0.01
261 6 0.03
262 64 0.30
263 102 0.48
264 39 0.18
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATCTTTGGAATAAAGCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCAATTGTG
AAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TTTTGAAAATAAAACCGGAGTTAGAATATCCCCAATTGTGGAAAAATTAGTGTTTTAGTAATAAA
AC
Found at i:2182127 original size:13 final size:13
Alignment explanation
Indices: 2182109--2182134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2182099 ACAAAGATCC
2182109 ATGTATCGATACA
1 ATGTATCGATACA
2182122 ATGTATCGATACA
1 ATGTATCGATACA
2182135 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2182130 original size:33 final size:33
Alignment explanation
Indices: 2182088--2182154 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2182078 AAAATTTCCA
***
2182088 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2182121 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2182154 A
1 A
2182155 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2182642 original size:13 final size:13
Alignment explanation
Indices: 2182624--2182660 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
2182614 TGATGCTTTA
2182624 TATCGATACATTG
1 TATCGATACATTG
2182637 TATCGATACCA-TG
1 TATCGATA-CATTG
2182650 TATCGATACAT
1 TATCGATACAT
2182661 GGACAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2182747 original size:13 final size:13
Alignment explanation
Indices: 2182726--2182755 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2182716 TGATACATGG
*
2182726 TACATTGTATCGA
1 TACAATGTATCGA
2182739 TACAATGTATCGA
1 TACAATGTATCGA
2182752 TACA
1 TACA
2182756 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:2182748 original size:33 final size:33
Alignment explanation
Indices: 2182711--2182775 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2182701 TACCACTGTT
* *
2182711 TGTATTGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
2182744 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
2182776 TTACTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:2183307 original size:31 final size:33
Alignment explanation
Indices: 2183215--2183312 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 33
2183205 CGAAATGATT
2183215 GAGAGG-TTCTATCTTAGCCTTTGAAAAAGATACGGA
1 GAGAGGTTTCTATCTTAGCC-TTG-AAAAGATA--GA
*
2183251 GAGAGGTTT-TATCTTAGCTCGTGAAAAGATAG-
1 GAGAGGTTTCTATCTTAGC-CTTGAAAAGATAGA
*
2183283 G-GAGGTTTCTATCGTAGCCTTG-AAAGATAG
1 GAGAGGTTTCTATCTTAGCCTTGAAAAGATAG
2183313 TATTGTAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
30 8 0.14
31 10 0.18
32 9 0.16
33 1 0.02
35 8 0.14
36 17 0.30
37 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (33 bp):
GAGAGGTTTCTATCTTAGCCTTGAAAAGATAGA
Found at i:2183311 original size:30 final size:31
Alignment explanation
Indices: 2183253--2183312 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2183243 GATACGGAGA
*
2183253 GAGGTTTTATCTTAGCTCGTGAAAAGATAGG
1 GAGGTTTTATCGTAGCTCGTGAAAAGATAGG
*
2183284 GAGGTTTCTATCGTAGC-CTTG-AAAGATAG
1 GAGGTTT-TATCGTAGCTCGTGAAAAGATAG
2183313 TATTGTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 10 0.38
32 8 0.31
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (31 bp):
GAGGTTTTATCGTAGCTCGTGAAAAGATAGG
Found at i:2184917 original size:21 final size:21
Alignment explanation
Indices: 2184868--2184952 Score: 54
Period size: 21 Copynumber: 4.0 Consensus size: 21
2184858 TAATATTCTT
*
2184868 GAAAAG-AAATTAAGTGAATTA
1 GAAAAGAAAATGAA-TGAATTA
*
2184889 -AAGGAGAAAATGAATGAATTA
1 GAA-AAGAAAATGAATGAATTA
*
2184910 GAAAAGAAAA-GAAATGAGTT-
1 GAAAAGAAAATG-AATGAATTA
*
2184930 GCAAAATGAAAATG-ATGAGTTA
1 G-AAAA-GAAAATGAATGAATTA
2184952 G
1 G
2184953 CTAATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 4 0.08
21 33 0.63
22 14 0.27
23 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.24, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATGAATGAATTA
Found at i:2187920 original size:32 final size:32
Alignment explanation
Indices: 2187879--2187945 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
2187869 TATTGATACA
2187879 ATGTATCGATACATGAACAGTGATGAACAGTG
1 ATGTATCGATACATGAACAGTGATGAACAGTG
* * *
2187911 ATGTATCGATATATGAATAGTGATGAATAGTG
1 ATGTATCGATACATGAACAGTGATGAACAGTG
2187943 ATG
1 ATG
2187946 AATAGTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACATGAACAGTGATGAACAGTG
Found at i:2188000 original size:13 final size:13
Alignment explanation
Indices: 2187982--2188006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2187972 CGTCAATTTT
2187982 ATGTATCGATACA
1 ATGTATCGATACA
2187995 ATGTATCGATAC
1 ATGTATCGATAC
2188007 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2189498 original size:13 final size:13
Alignment explanation
Indices: 2189480--2189506 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2189470 ACATTATGCT
2189480 TTGTATCGATACA
1 TTGTATCGATACA
2189493 TTGTATCGATACA
1 TTGTATCGATACA
2189506 T
1 T
2189507 GTTCATTGTA
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2189540 original size:20 final size:19
Alignment explanation
Indices: 2189490--2189542 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2189480 TTGTATCGAT
* *
2189490 ACATTGTATCGATACATGT
1 ACATTATATCGATACATGG
* *
2189509 TCATTGTATCGATACATGG
1 ACATTATATCGATACATGG
2189528 ACAATTATATCGATA
1 AC-ATTATATCGATA
2189543 TATGAAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
ACATTATATCGATACATGG
Found at i:2189612 original size:13 final size:13
Alignment explanation
Indices: 2189591--2189620 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2189581 TGATACATGG
*
2189591 TACATTGTATCGA
1 TACAATGTATCGA
2189604 TACAATGTATCGA
1 TACAATGTATCGA
2189617 TACA
1 TACA
2189621 TGAAGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:2190125 original size:36 final size:33
Alignment explanation
Indices: 2190080--2190172 Score: 104
Period size: 36 Copynumber: 2.8 Consensus size: 33
2190070 CGAAGTGATT
2190080 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATA---A
*
2190116 GAGAGGTTCTATCTTAG-CTCGTG-AAAAGATAA
1 GAGAGGTTCTATCTTAGCCT-TTGAAAAAGATAA
2190148 G-GAGGTTTCTATCTTAGCC-TTGAAA
1 GAGAGG-TTCTATCTTAGCCTTTGAAA
2190173 GATAGTTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
31 6 0.12
32 15 0.29
33 1 0.02
35 10 0.20
36 19 0.37
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAA
Found at i:2190959 original size:13 final size:13
Alignment explanation
Indices: 2190941--2190966 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2190931 CAATTTTTTG
2190941 TGTATCGATACAT
1 TGTATCGATACAT
2190954 TGTATCGATACAT
1 TGTATCGATACAT
2190967 ACTTTGTGTA
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:2190978 original size:32 final size:33
Alignment explanation
Indices: 2190921--2190984 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2190911 TACAAGCCAA
**
2190921 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2190954 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2190985 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2193076 original size:13 final size:13
Alignment explanation
Indices: 2193058--2193083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2193048 TACAGCAAGT
2193058 ATGTATCGATACA
1 ATGTATCGATACA
2193071 ATGTATCGATACA
1 ATGTATCGATACA
2193084 CAAAAAATCG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2195334 original size:21 final size:21
Alignment explanation
Indices: 2195301--2195345 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2195291 TTGCAAGTTG
*
2195301 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2195323 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2195343 AAA
1 AAA
2195346 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Done.