Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold432
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: 1706767
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 187295 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:929136 original size:24 final size:24
Alignment explanation
Indices: 929065--929138 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
929055 GTGCTGATTC
*
929065 AAGGCTAGCAACATTGAGCTAATA
1 AAGGCTAGCGACATTGAGCTAATA
* * * *
929089 AAGG-T-G-GACAATGTGTTGATTA
1 AAGGCTAGCGACATTGAGCT-AATA
929111 AAGGCTAGCGACATTGAGCTAATA
1 AAGGCTAGCGACATTGAGCTAATA
929135 AAGG
1 AAGG
929139 TGCCAATATG
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 7 0.19
22 8 0.22
23 2 0.05
24 12 0.32
25 8 0.22
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (24 bp):
AAGGCTAGCGACATTGAGCTAATA
Found at i:929343 original size:28 final size:28
Alignment explanation
Indices: 929280--930282 Score: 843
Period size: 28 Copynumber: 34.5 Consensus size: 28
929270 CACCGACTTA
929280 TGTGGGCTTTGAAAGGGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* * *
929310 TATGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
929338 TGTGGGCTGTGAAAAGATGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
929366 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
929394 TGTAGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
929423 GTGTGGGCTTTGAAAGGGTATGCCACTGACC
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
929454 TGTGGGTTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
929482 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
929510 TGTGGGCTTTGGAAGGGTGCCACTAAGTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* *
929539 GTGTGGGCTTTGAAAAGGTACGCCACCGACT
1 -TGTGGGCTTTGAAAGGGT--GCCACTGACT
* * *
929570 TGCGGGCTTTGAAAGGATACGCCACCGACT
1 TGTGGGCTTTGAAAGGGT--GCCACTGACT
** * *
929600 TGCAGGCTTTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
929628 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
929656 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* * * **
929685 TGTAGGCTTTAAAAAGAGTTGCCACCCACTT
1 TGTGGGCTTT-GAAAG-GGTGCCACTGAC-T
929716 GTGTGGGCTTTGAAAGGGTGCCA-TCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACT-GACT
*
929745 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
929773 TGTGGGCTTTGGAA-GGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
929801 GTGTGGGCTTTGAAAGGGTACGCCACTGACT
1 -TGTGGGCTTTGAAAGGGT--GCCACTGACT
* * * *
929832 TGCGGGTTTTAAAAGGGTGCCACTCG-TT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* ** *
929860 TGTGGTCTTTGAAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
929888 TGTAGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
929917 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
929947 TGTATAGGCTTTGAAAAGGTGCCACTGAGT
1 TG--TGGGCTTTGAAAGGGTGCCACTGACT
*
929977 TGTGGGCTTTGAAAGGGTATGCCACTAACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*** *
930007 TGTGGGCTTTGAAAAAATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
930035 TTTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
930064 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
930095 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
*
930124 TGTGGGCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
930153 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
* *
930184 ATGTGGGCTTTGAAAAGGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
930213 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* * * * *
930242 TGTAGGCTTTGAAAAGATGCTACTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
930270 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
930283 GAGATGAACG
Statistics
Matches: 801, Mismatches: 126, Indels: 94
0.78 0.12 0.09
Matches are distributed among these distances:
27 11 0.01
28 339 0.42
29 129 0.16
30 241 0.30
31 19 0.02
32 62 0.08
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:931554 original size:11 final size:10
Alignment explanation
Indices: 931532--931619 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 10
931522 TCTAGACCCC
*
931532 TTTTTATTTG
1 TTTTTTTTTG
931542 TTTATTTTTTG
1 TTT-TTTTTTG
*
931553 TTGGTTTTTTG
1 TT-TTTTTTTG
931564 TTTGTTTTTTTCG
1 -TT-TTTTTTT-G
*
931577 ATTTTTTTTG
1 TTTTTTTTTG
931587 TTTTTTTTCTTGG
1 -TTTTTTT-TT-G
*
931600 CTTTTTTTTG
1 TTTTTTTTTG
931610 TTTTGTTTTT
1 TTTT-TTTTT
931620 TTTGGTACGA
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
10 8 0.13
11 35 0.56
12 18 0.29
13 2 0.03
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.80
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:931583 original size:23 final size:23
Alignment explanation
Indices: 931557--931621 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
931547 TTTTTGTTGG
931557 TTTTTTGTTTGTTTTTTTCGATT
1 TTTTTTGTTTGTTTTTTTCGATT
* *
931580 TTTTTTGTTT-TTTTTCTTGGCTT
1 TTTTTTGTTTGTTTTT-TTCGATT
931603 TTTTTTGTTTTGTTTTTTT
1 TTTTTTG-TTTGTTTTTTT
931622 TGGTACGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 5 0.14
23 22 0.59
24 5 0.14
25 5 0.14
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.82
Consensus pattern (23 bp):
TTTTTTGTTTGTTTTTTTCGATT
Found at i:932807 original size:20 final size:19
Alignment explanation
Indices: 932782--932878 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 19
932772 ATTCAACGAT
932782 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
932802 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
932816 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
932834 TTGTATCGATGC--AA---
1 TTGTATCGATACATAAGTG
*
932848 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
932866 TTGTATCGATACA
1 TTGTATCGATACA
932879 ATATAAGCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 22 0.35
20 12 0.19
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:932821 original size:13 final size:13
Alignment explanation
Indices: 932803--932859 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
932793 CATAAAGTGT
932803 TGTATCGATACAA
1 TGTATCGATACAA
932816 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
932831 GTGTTGTATCGATGCAA
1 ----TGTATCGATACAA
932848 TGTATCGATACA
1 TGTATCGATACA
932860 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:932838 original size:32 final size:32
Alignment explanation
Indices: 932783--932880 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
932773 TTCAACGATT
932783 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
932816 TGTATCGATACATAAGTGTTGTATCGATGCAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
932848 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
932880 T
1 T
932881 ATAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:932937 original size:13 final size:13
Alignment explanation
Indices: 932919--932943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932909 ACATTTCAAA
932919 TGTATCGATACAT
1 TGTATCGATACAT
932932 TGTATCGATACA
1 TGTATCGATACA
932944 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:941237 original size:30 final size:30
Alignment explanation
Indices: 941198--941390 Score: 264
Period size: 30 Copynumber: 6.3 Consensus size: 30
941188 ATACCTTCTT
941198 AAAGTCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTC
* *
941228 AACGTCCACGACTCAGTGGCATTTTATCTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTC
* *
941258 AAAGACCACGACTCAGTGGCATTTTCTCTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTC
941288 AAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
1 AAAGTCCACGACTCAGTGGCAT--TTTGTC-TC
* *
941320 AAAGTCAACGACTCAGTGGCGTTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTC
941350 AAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
1 AAAGTCCACGACTCAGTGGCAT--TTTGTC-TC
941382 AAAGTCCAC
1 AAAGTCCAC
941391 AACTTCGTGG
Statistics
Matches: 146, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
30 101 0.69
31 6 0.04
32 39 0.27
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTC
Found at i:941350 original size:62 final size:62
Alignment explanation
Indices: 941193--941466 Score: 319
Period size: 62 Copynumber: 4.4 Consensus size: 62
941183 TTCAAATACC
*
941193 TTCTT-AAAGTCCACGACTCAGTGGCATTTTGTCTCAACGTCCACGACTCAGTGGCAT--TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
* *
941252 TATC-TCAAAGACCACGACTCAGTGGCATTTTCTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
* *
941314 TTCTTCAAAGTCAACGACTCAGTGGCGTTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
* ** ** *
941376 TTCTTCAAAGTCCACAACTTC-GTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCA-CC-
1 TTCTTCAAAGTCCACGAC-TCAGTGGCATTTTG-T-C-TCAAAGTCCACGACTCAGTGGCATCCT
941438 T
62 T
* * *
941439 TCCTTTCAAAGTCCGCGACTCCGTGGCA
1 TTC-TTCAAAGTCCACGACTCAGTGGCA
941467 CCTTCTTTTC
Statistics
Matches: 186, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
59 2 0.01
60 51 0.27
61 2 0.01
62 81 0.44
63 8 0.04
64 22 0.12
65 20 0.11
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (62 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
Found at i:941458 original size:31 final size:32
Alignment explanation
Indices: 941256--941833 Score: 403
Period size: 31 Copynumber: 17.9 Consensus size: 32
941246 GCATTTTATC
* * * * *
941256 TCAAAGACCACGACTCAGTGGCA--TTTTCTC
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* * *
941286 TCAAAGTCCACGACTCAGTGGCATCCTTTTC-T
1 TCAAAGTCCACAACTCCGTGGCA-CCTTTCCTT
* * * * ** *
941318 TCAAAGTCAACGACTCAGTGG--CGTTTTGTC
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* * *
941348 TCAAAGTCCACGACTCAGTGGCATCCTTTTC-T
1 TCAAAGTCCACAACTCCGTGGCA-CCTTTCCTT
*
941380 TCAAAGTCCACAACTTCGTGGCACCTTGTTCCTT
1 TCAAAGTCCACAACTCCGTGGCACC-T-TTCCTT
* *
941414 T-TAAGTCCACGACTCCGTGGCACC-TTCCTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* * *
941444 TCAAAGTCCGCGACTCCGTGGCACC-TTCTTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* *
941475 TCAAAGCCCACAATTCCGTGGCACTCTTTTACCCTT
1 TCAAAGTCCACAACTCCGTGGCAC-C-TTT--CCTT
* * *
941511 TTAAAGTCCACAACCCCGTGGCACCTTGTTCTT
1 TCAAAGTCCACAACTCCGTGGCACCTT-TCCTT
* * *
941544 T-TAAGTCCACGACTCTGTGGCACC-TTCCTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* *
941574 TCAAAGTCCACGACTCCGTGGCACC-TTCTTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
* * *
941605 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACC--TTTCCTT
* *
941639 TCAAAGCCCACAACTCCGTGGCACCTTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACC-TTTCCTT
* *
941672 TTAAAGTCCACAACCCCGTGGCACCTTGTTCCTT
1 TCAAAGTCCACAACTCCGTGGCACC-T-TTCCTT
* *
941706 T-TAAGTCCACAACTCCGTGGCACC-TTCTTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
**
941736 TCAAAACCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TCAAAGTCCACAACTCCGTGGCAC-C--TTT-CCTT
* * *
941772 TTAAAGCCCACAACTCTGTGGCACCTTGTTCCTT
1 TCAAAGTCCACAACTCCGTGGCACC-T-TTCCTT
* * * *
941806 T-TAAGTCCACAACTTCATGGCATCTTTC
1 TCAAAGTCCACAACTCCGTGGCACCTTTC
941834 ACCCTTTCTA
Statistics
Matches: 457, Mismatches: 62, Indels: 57
0.79 0.11 0.10
Matches are distributed among these distances:
29 5 0.01
30 60 0.13
31 119 0.26
32 63 0.14
33 107 0.23
34 49 0.11
35 7 0.02
36 47 0.10
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (32 bp):
TCAAAGTCCACAACTCCGTGGCACCTTTCCTT
Found at i:941518 original size:67 final size:64
Alignment explanation
Indices: 941350--941798 Score: 453
Period size: 67 Copynumber: 6.9 Consensus size: 64
941340 GTTTTGTCTC
* * * * * *
941350 AAAGTCCACGACTCAGTGGCATCCTTTT-C-TTCAAAGTCCACAACTTCGTGGCACCTTGTTCCT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTT--T
941413 TT
63 TT
* * * * * * *
941415 TAAGTCCACGACTCCGTGGCACC--TTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTT
* * *
941477 AAAGCCCACAATTCCGTGGCACTCTTTTACCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTT--CCTTTTAAAGTCCACAACTCCGTGGCACCTTCTT-
941542 TTT
62 TTT
* * * * * *
941545 TAAGTCCACGACTCTGTGGCACC--TTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTT
* *
941607 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT-AAAGTCCACAACTCCGTGGCACC--TTCTTT
941672 TT
63 TT
* * *
941674 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTT-TTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTT
* * *
941738 AAAACCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTT
941799 GTTCCTTTTA
Statistics
Matches: 322, Mismatches: 44, Indels: 34
0.81 0.11 0.09
Matches are distributed among these distances:
62 44 0.14
63 32 0.10
64 61 0.19
65 47 0.15
66 29 0.09
67 83 0.26
68 26 0.08
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (64 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTT
Found at i:941564 original size:130 final size:130
Alignment explanation
Indices: 941289--941815 Score: 630
Period size: 130 Copynumber: 4.1 Consensus size: 130
941279 TTTTCTCTCA
* * * * *
941289 AAGTCCACGACTCAGTGGCATCCTT-TTCTTCAAAGTCAACGACTCAGTGG--CGTT-TTGTCTC
1 AAGTCCACGACTCCGTGGCA-CCTTCCT-TTCAAAGTCCACGACTCCGTGGCACCTTCTT-T-TC
* * * * * *
941350 AAAGTCCACGACTCAGTGGCA-TCCTTTT--C-TTCAAAGTCCACAACTTCGTGGCACCTTGTTC
62 AAAGCCCACAACTCCGTGGCACT-CTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTC
941411 CTTTT
126 CTTTT
*
941416 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAG
1 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
* * *
941481 CCCACAATTCCGTGGCACTCTTTTACCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTT-CTTT
66 CCCACAACTCCGTGGCACTCTTTT-CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTT
941545 T
130 T
* *
941546 AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTTAAAG
1 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
* *
941611 CCCACAACTCCGTGGCAC-CTTTT-TCTTTTCAAAGCCCACAACTCCGTGGCACCTT-TTCTTTT
66 CCCACAACTCCGTGGCACTCTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTGTTCCTTT
941673 T
130 T
* * * *
941674 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTT-TAAGTCCACAACTCCGTGGCACCTTCTTTTC
1 -AAGTCCACGACTCCGTGGCACC---TTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
941738 AAAACCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTTGTTC
62 AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTC
941803 CTTTT
126 CTTTT
941808 AAGTCCAC
1 AAGTCCAC
941816 AACTTCATGG
Statistics
Matches: 350, Mismatches: 31, Indels: 32
0.85 0.08 0.08
Matches are distributed among these distances:
126 23 0.07
127 51 0.15
128 32 0.09
129 26 0.07
130 85 0.24
131 77 0.22
132 8 0.02
133 36 0.10
134 12 0.03
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (130 bp):
AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
CCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
Found at i:941623 original size:161 final size:158
Alignment explanation
Indices: 941350--941798 Score: 544
Period size: 161 Copynumber: 2.8 Consensus size: 158
941340 GTTTTGTCTC
* * * **
941350 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTCAAAGTCCACAACT-TCGTGGCACCTTGTTCCT
1 AAAGTCCACAACCCCGTGGCA-CCTTGTTCTTTTAAGTCCACAACTCT-GTGGCACC---TTCCT
* * * * *
941413 TT-TAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTC
61 TTCAAAGTCCACGACTCCGTGGCACCTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTC
*
941477 AAAGCCCACAATTCCGTGGCACTCTTTTACCCTTTT
126 AAAGCCCACAACTCCGTGGCAC-CTTTT--CCTTTT
*
941513 AAAGTCCACAACCCCGTGGCACCTTGTTCTTTTAAGTCCACGACTCTGTGGCACCTTCCTTTCAA
1 AAAGTCCACAACCCCGTGGCACCTTGTTCTTTTAAGTCCACAACTCTGTGGCACCTTCCTTTCAA
*
941578 AGTCCACGACTCCGTGGCACCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAA
66 AGTCCACGACTCCGTGGCACCTTCCTTTTAAAGCCCACAACTCCGTGGCACC---TTCTTTTCAA
*
941643 AGCCCACAACTCCGTGGCACCTTTTCTTTTT
128 AGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
941674 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCA
1 AAAGTCCACAACCCCGTGGCACCTTGTT-CTTTTAAGTCCACAACTCTGTGGCACCTTCCTTTCA
** * *
941739 AAACCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTT
65 AAGTCCACGACTCCGTGGCAC-C---TT-CCTTTTAAAGCCCACAACTCCGTGGCACCTT
941799 GTTCCTTTTA
Statistics
Matches: 252, Mismatches: 22, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
160 7 0.03
161 81 0.32
162 55 0.22
163 48 0.19
164 32 0.13
166 2 0.01
167 27 0.11
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (158 bp):
AAAGTCCACAACCCCGTGGCACCTTGTTCTTTTAAGTCCACAACTCTGTGGCACCTTCCTTTCAA
AGTCCACGACTCCGTGGCACCTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
CCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:941881 original size:32 final size:32
Alignment explanation
Indices: 941840--942026 Score: 250
Period size: 32 Copynumber: 5.8 Consensus size: 32
941830 TTTCACCCTT
941840 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
* * *
941872 TCTAAAGCCCACACAAGTCGGTGG-AAACCCT
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
* *
941903 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCT-AAAGCCCACACAAGTTGGTGGCAACCCCC
* *
941936 TCTAAAGCCCACACAAGTTAGTGACAACCCCC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
* * *
941968 TCTAAAGCCCACACAAGTAGGTGGCAACCTTCT
1 TCTAAAGCCCACACAAGTTGGTGGCAACC-CCC
*
942001 TCAAAAGCCCACACAAGTTGGTGGCA
1 TCTAAAGCCCACACAAGTTGGTGGCA
942027 TCTTCCTTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
31 8 0.06
32 95 0.70
33 32 0.24
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
Found at i:941942 original size:96 final size:97
Alignment explanation
Indices: 941834--942026 Score: 309
Period size: 96 Copynumber: 2.0 Consensus size: 97
941824 GGCATCTTTC
* * * *
941834 ACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCTAAAGCCCACACAAGTCGGTGGAAA
1 ACCCTCTCTAAAGCCCACACAAGTTAGTGACAACCCCCTCTAAAGCCCACACAAGTAGGTGGAAA
941899 CCCTTC-TC-AAAGCCCACACAAGTCGGTGGCA
66 -CCTTCTTCAAAAGCCCACACAAGTCGGTGGCA
*
941930 ACCCTCTCTAAAGCCCACACAAGTTAGTGACAACCCCCTCTAAAGCCCACACAAGTAGGTGGCAA
1 ACCCTCTCTAAAGCCCACACAAGTTAGTGACAACCCCCTCTAAAGCCCACACAAGTAGGTGGAAA
*
941995 CCTTCTTCAAAAGCCCACACAAGTTGGTGGCA
66 CCTTCTTCAAAAGCCCACACAAGTCGGTGGCA
942027 TCTTCCTTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 5 0.06
96 62 0.70
97 22 0.25
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.17
Consensus pattern (97 bp):
ACCCTCTCTAAAGCCCACACAAGTTAGTGACAACCCCCTCTAAAGCCCACACAAGTAGGTGGAAA
CCTTCTTCAAAAGCCCACACAAGTCGGTGGCA
Found at i:942092 original size:49 final size:47
Alignment explanation
Indices: 942022--942676 Score: 692
Period size: 49 Copynumber: 14.0 Consensus size: 47
942012 CACAAGTTGG
* *
942022 TGGCATCTTC-CTTTAAGTCCAATATAGCTGGCCTTCAATCAACATAT
1 TGGCA-CTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * *
942069 TGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
942118 TGGCAC--CT-TTAAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
942162 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
942211 TGGCAC--CT-TTAAAGTCCAATATCA-CTGGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATAT
* * * *
942255 TCGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
942304 TGGCA---C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
** *
942347 TGGCATCTTCATCTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
942396 TGGCA---C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
942439 TGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
942488 TGGCA---C-CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * *
942531 TAGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACAT
1 TGGCA-CTTC-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
942580 TGGCA---C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * *
942623 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATTAGCACAT
1 TGGCA-C--TT-C-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
942675 TG
1 TG
942677 ACATCCTTTT
Statistics
Matches: 510, Mismatches: 57, Indels: 77
0.79 0.09 0.12
Matches are distributed among these distances:
43 152 0.30
44 71 0.14
45 9 0.02
46 2 0.00
47 14 0.03
48 5 0.01
49 221 0.43
50 1 0.00
52 35 0.07
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (47 bp):
TGGCACTTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
Found at i:942330 original size:43 final size:43
Alignment explanation
Indices: 942174--942632 Score: 506
Period size: 43 Copynumber: 10.1 Consensus size: 43
942164 GCACCTTCAT
*
942174 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
942217 CTTTAAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTCGCATCTTC
1 CTTT-AAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA----C
* *
942265 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
942310 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
**
942357 ATCTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
942402 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
942449 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
942494 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTAGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
942541 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
942586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
942629 CTTT
1 CTTT
942633 TCCATCTTTA
Statistics
Matches: 353, Mismatches: 36, Indels: 54
0.80 0.08 0.12
Matches are distributed among these distances:
43 161 0.46
44 33 0.09
45 5 0.01
47 3 0.01
48 2 0.01
49 145 0.41
50 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:942369 original size:92 final size:92
Alignment explanation
Indices: 942031--942685 Score: 1076
Period size: 92 Copynumber: 7.1 Consensus size: 92
942021 GTGGCATCTT
* * *
942031 CCTTTAAGTCCAATATAGCTGGCCTTCAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
942096 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
942123 CCTTTAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
942188 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
942216 CCTTTAAAGTCCAATATCACTGGCCTTGAATCAGCATATTCGCATCTTCATCTTTAAGTCCAATG
1 CCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
942281 TAGCTGGCCTTGAATTAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
942309 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGC
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
942374 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
942401 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
942466 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
942493 CCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTAGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
942558 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
942585 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
* *
942650 TGTAGCTGGCCTTGAATTAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
942680 TCCTTT
1 -CCTTT
942686 TTCTCATCTT
Statistics
Matches: 531, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
92 307 0.58
93 177 0.33
94 2 0.00
95 40 0.08
96 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:942610 original size:22 final size:22
Alignment explanation
Indices: 942543--942610 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
942533 GCACCTTCTT
*
942543 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
942565 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
942586 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
942608 CTT
1 CTT
942611 GAATCAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:942664 original size:52 final size:55
Alignment explanation
Indices: 942586--942707 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 55
942576 ACATTGGCAC
* *
942586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * *
942638 CTTTAAGTTCAATGTAGCTGGCCTTGAATTAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
942693 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
942708 CATTGGTCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
52 37 0.63
53 2 0.03
54 5 0.08
55 15 0.25
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:944701 original size:11 final size:10
Alignment explanation
Indices: 944679--944761 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
944669 TCTAGACCCC
*
944679 TTTTTATTTG
1 TTTTTTTTTG
944689 TTTATTTTTTG
1 TTT-TTTTTTG
** *
944700 TTGGTTTTTA
1 TTTTTTTTTG
*
944710 TTTTTTTTCG
1 TTTTTTTTTG
*
944720 ATTTTTTTTG
1 TTTTTTTTTG
944730 TTTTTTTCTTGG
1 TTTTTTT-TT-G
944742 TTTTTTTTTG
1 TTTTTTTTTG
944752 TTTTGTTTTT
1 TTTT-TTTTT
944762 TTTGGTACGA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
10 33 0.57
11 17 0.29
12 8 0.14
ACGTcount: A:0.05, C:0.02, G:0.12, T:0.81
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:944717 original size:19 final size:18
Alignment explanation
Indices: 944693--944758 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 18
944683 TATTTGTTTA
944693 TTTTTTGTTGGTTTTTATT
1 TTTTTTGTTGGTTTTT-TT
944712 TTTTTTCGATT--TTTTTTGT
1 TTTTTT-G-TTGGTTTTTT-T
*
944731 TTTTTTCTTGGTTTTTTT
1 TTTTTTGTTGGTTTTTTT
944749 TTGTTTTGTT
1 TT-TTTTGTT
944759 TTTTTTGGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
17 2 0.05
18 4 0.10
19 30 0.77
20 1 0.03
21 2 0.05
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.80
Consensus pattern (18 bp):
TTTTTTGTTGGTTTTTTT
Found at i:944744 original size:38 final size:36
Alignment explanation
Indices: 944693--944765 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
944683 TATTTGTTTA
*
944693 TTTTTTGTTGGTTTTTATTTT-TTTTCGATTTTTTTTGT
1 TTTTTTCTTGGTTTTT-TTTTGTTTT-G-TTTTTTTTGT
944731 TTTTTTCTTGGTTTTTTTTTGTTTTGTTTTTTTTG
1 TTTTTTCTTGGTTTTTTTTTGTTTTGTTTTTTTTG
944766 GTACGAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 9 0.27
37 5 0.15
38 19 0.58
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.81
Consensus pattern (36 bp):
TTTTTTCTTGGTTTTTTTTTGTTTTGTTTTTTTTGT
Found at i:946170 original size:13 final size:13
Alignment explanation
Indices: 946152--946208 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
946142 CATAAAGTGT
946152 TGTATCGATACAA
1 TGTATCGATACAA
946165 TGTATCGATACATAA
1 TGTATCGATAC--AA
946180 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
946197 TGTATCGATACA
1 TGTATCGATACA
946209 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:946187 original size:32 final size:32
Alignment explanation
Indices: 946132--946229 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
946122 TTCAACGATT
*
946132 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
946165 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
946197 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
946229 T
1 T
946230 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 51 0.81
33 12 0.19
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:946189 original size:19 final size:18
Alignment explanation
Indices: 946130--946227 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
946120 ATTTCAACGA
*
946130 TTTGTATTGATACATAAAG
1 TTTGTATCGATACAT-AAG
946149 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
946165 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
946181 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
946197 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
946213 TTTTGTATCGATACA
1 -TTTGTATCGATACA
946228 ATATAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 24 0.37
20 11 0.17
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:946286 original size:13 final size:13
Alignment explanation
Indices: 946268--946292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
946258 ACATTTCAAA
946268 TGTATCGATACAT
1 TGTATCGATACAT
946281 TGTATCGATACA
1 TGTATCGATACA
946293 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:961679 original size:51 final size:51
Alignment explanation
Indices: 961622--961806 Score: 280
Period size: 51 Copynumber: 3.6 Consensus size: 51
961612 TTTTAACTAG
*
961622 ATGTATCGATACATTGAAAAATGTATCGATACGTCTGGGAAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGAAAAAAGATAGA
*
961673 ATGTATCAATACATTGAAGAATGTATCGATACGTCTGGGAAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGAAAAAAGATAGA
* * * *
961724 ATGTATCAATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGAAAAAAGATAGA
* * * *
961775 ATGTATCGATACATTCATACATGTATCGATAC
1 ATGTATCAATACATTGAAAAATGTATCGATAC
961807 ATTGAAAAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 124 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (51 bp):
ATGTATCAATACATTGAAAAATGTATCGATACGTCTGGGAAAAAAGATAGA
Found at i:961776 original size:31 final size:31
Alignment explanation
Indices: 961741--961869 Score: 100
Period size: 31 Copynumber: 3.9 Consensus size: 31
961731 AATACATTGA
*
961741 AGAATGTATCGATACATCTGGGTAAAAAGAC
1 AGAATGTATCGATACATCTAGGTAAAAAGAC
* *
961772 AGAATGTATCGATACATTCATACATGTATCGATACATTGA-
1 AGAATGTATCGATACA-TC-T--AGGTA---A-A-A-AGAC
* *
961812 AAAATGTATCGATACATCTGGGTAAAAAGAC
1 AGAATGTATCGATACATCTAGGTAAAAAGAC
*
961843 AGAATGTATTGAT-CATCTAGGTAAAAA
1 AGAATGTATCGATACATCTAGGTAAAAA
961870 TGTAACGTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
30 15 0.19
31 28 0.36
32 3 0.04
33 2 0.03
35 3 0.04
36 3 0.04
38 2 0.03
39 3 0.04
40 16 0.21
41 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (31 bp):
AGAATGTATCGATACATCTAGGTAAAAAGAC
Found at i:961800 original size:20 final size:20
Alignment explanation
Indices: 961774--961828 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
961764 AAAAAGACAG
*
961774 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
961794 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
961814 AATGTATCGATACAT
1 AATGTATCGATACAT
961829 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:962575 original size:17 final size:16
Alignment explanation
Indices: 962551--962597 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
962541 TCATTTAATT
962551 TTAA-TTATTTTTAAA
1 TTAATTTATTTTTAAA
* *
962566 TTAATTTTATATTTAAT
1 TTAA-TTTATTTTTAAA
*
962583 TTAATTCATTTTTAA
1 TTAATTTATTTTTAA
962598 GCAAAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.15
16 9 0.35
17 13 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATTTTTAAA
Found at i:964984 original size:6 final size:6
Alignment explanation
Indices: 964973--964997 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
964963 AAGGTTAGTA
964973 AAAGTG AAAGTG AAAGTG AAAGTG A
1 AAAGTG AAAGTG AAAGTG AAAGTG A
964998 GAGCCATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAAGTG
Found at i:965830 original size:80 final size:80
Alignment explanation
Indices: 965684--965832 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 80
965674 ACAAGGACTC
* * * * * *
965684 TCCTATCTAATAAGGAAAAGTCTATTCCTTATCCTAATCTAATTAGGACCTATCTAAACAATTTA
1 TCCTATCTAATAAGGAAAAATCTACTCCTTATCATAATATAATTAGGAACTATCTAAACAAATTA
965749 AAATCCTAAACACAA
66 AAATCCTAAACACAA
* * * *
965764 TCCTAATC-AATAAGGATAAAATCTACTCCTTTTCATAATATGATTAGGAATTATTTAAA-AAAT
1 TCCT-ATCTAATAAGGA-AAAATCTACTCCTTATCATAATATAATTAGGAACTATCTAAACAAAT
965827 TAAAAT
64 TAAAAT
965833 TGAAAAGTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
80 21 0.37
81 36 0.63
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.34
Consensus pattern (80 bp):
TCCTATCTAATAAGGAAAAATCTACTCCTTATCATAATATAATTAGGAACTATCTAAACAAATTA
AAATCCTAAACACAA
Found at i:970922 original size:28 final size:28
Alignment explanation
Indices: 970890--970948 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
970880 GAAAAAGATC
* *
970890 AAGGAAATGAAATCAA-CAAGAAATATGA
1 AAGGAAACGAAAT-AAGCAAGAAATATCA
970918 AAGGAAACGAAATAAGCAAGAAATATCA
1 AAGGAAACGAAATAAGCAAGAAATATCA
970946 AAG
1 AAG
970949 AAAGAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.61, C:0.08, G:0.19, T:0.12
Consensus pattern (28 bp):
AAGGAAACGAAATAAGCAAGAAATATCA
Found at i:970957 original size:28 final size:28
Alignment explanation
Indices: 970890--970958 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
970880 GAAAAAGATC
* *
970890 AAGGAAATGAAATCAACAAGAAATATGA
1 AAGGAAAAGAAATCAACAAGAAATATCA
*
970918 AAGGAAACGAAAT-AAGCAAGAAATATCA
1 AAGGAAAAGAAATCAA-CAAGAAATATCA
970946 AA-GAAAGAGAAAT
1 AAGGAAA-AGAAAT
970959 TAATGAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.17
28 30 0.83
ACGTcount: A:0.62, C:0.07, G:0.19, T:0.12
Consensus pattern (28 bp):
AAGGAAAAGAAATCAACAAGAAATATCA
Found at i:971072 original size:12 final size:11
Alignment explanation
Indices: 971053--971083 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
971043 ATACTAGAAC
971053 ACTTTTTTTTT
1 ACTTTTTTTTT
971064 ACTTTTTTTTT
1 ACTTTTTTTTT
971075 ACTTTTTTT
1 ACTTTTTTT
971084 ATGGATAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (11 bp):
ACTTTTTTTTT
Found at i:973057 original size:16 final size:16
Alignment explanation
Indices: 973021--973063 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
973011 TACTATTTAT
973021 TATTAAAATATTAATTA
1 TATTAAAAT-TTAATTA
973038 TATTAAAATTTGAA-TA
1 TATTAAAATTT-AATTA
*
973054 TATTATAATT
1 TATTAAAATT
973064 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TATTAAAATTTAATTA
Found at i:973211 original size:14 final size:15
Alignment explanation
Indices: 973184--973213 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
973174 TTATTATTAT
*
973184 AATTTAATATTTTTA
1 AATTAAATATTTTTA
973199 AATTAAATATTTTTA
1 AATTAAATATTTTTA
973214 TTTTTCCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTAAATATTTTTA
Found at i:973250 original size:22 final size:21
Alignment explanation
Indices: 973225--973266 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
973215 TTTTCCAGTC
*
973225 AAATTAATTATGATTATAAAAA
1 AAATTAAGT-TGATTATAAAAA
*
973247 AAATTAAGTTGCTTATAAAA
1 AAATTAAGTTGATTATAAAA
973267 GCTCCTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AAATTAAGTTGATTATAAAAA
Found at i:973345 original size:14 final size:15
Alignment explanation
Indices: 973326--973358 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
973316 CAAACACCAA
*
973326 AAAATTTATAAAA-T
1 AAAATTTAAAAAATT
973340 AAAATTTAAAAAATT
1 AAAATTTAAAAAATT
973355 AAAA
1 AAAA
973359 GTAACCGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTTAAAAAATT
Found at i:975809 original size:3 final size:3
Alignment explanation
Indices: 975801--975834 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
975791 GTCTCAGTTT
975801 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
975835 CAAACCGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:976956 original size:175 final size:173
Alignment explanation
Indices: 976657--977001 Score: 519
Period size: 175 Copynumber: 2.0 Consensus size: 173
976647 GTGGATGAAG
* * *** *
976657 TGGGAGTTTTGTGAAGGTGGTGTTTGAAGGATGTATCAGCTTTTCTTGTTTCTATTTTTATCATC
1 TGGGAGTTTTGTGAAGGTGATGTTTGAAGGATGTATCAGCTTTGCACATTTCTATTTTCATCATC
*
976722 TATTTGATTCTTTGCATGAGATGCGCATATTCTTTTTGAATATTTTGGCAGTAGTTTTTGAGACG
66 GATTTGATTCTTTGCATGAGATGCGCATATTCTTTTTGAATATTTTGGCAGTAGTTTTTGAGACG
976787 TATCAGTTTTGCTCTTGTCAATTTTTGTAATCATCAATTCAAC
131 TATCAGTTTTGCTCTTGTCAATTTTTGTAATCATCAATTCAAC
*
976830 TGGGAGTTTTGTGAAGGTGATGTTTGAAGGATGTGTCAGCTTTGCACATTTCTATTTCATCATCA
1 TGGGAGTTTTGTGAAGGTGATGTTTGAAGGATGTATCAGCTTTGCACATTTCTATTT--TCATCA
* * * * *
976895 TCGATTTGATTCTTTGCCTGAGATGTGCATTTTCTTTTTGCATATTTTGGGAGTAGTTTTTGAGA
64 TCGATTTGATTCTTTGCATGAGATGCGCATATTCTTTTTGAATATTTTGGCAGTAGTTTTTGAGA
* * * *
976960 TGTATCAGTTTTGCTCTTTTCAATTTTTTTAATCATCGATTC
129 CGTATCAGTTTTGCTCTTGTCAATTTTTGTAATCATCAATTC
977002 TACGTGGATT
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 51 0.33
175 102 0.67
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (173 bp):
TGGGAGTTTTGTGAAGGTGATGTTTGAAGGATGTATCAGCTTTGCACATTTCTATTTTCATCATC
GATTTGATTCTTTGCATGAGATGCGCATATTCTTTTTGAATATTTTGGCAGTAGTTTTTGAGACG
TATCAGTTTTGCTCTTGTCAATTTTTGTAATCATCAATTCAAC
Found at i:982102 original size:16 final size:17
Alignment explanation
Indices: 982076--982107 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
982066 TATTTTTTCT
982076 AGTATTTTATTTACTAA
1 AGTATTTTATTTACTAA
982093 AGTA-TTTATTTACTA
1 AGTATTTTATTTACTA
982108 GCATATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
AGTATTTTATTTACTAA
Found at i:982418 original size:29 final size:29
Alignment explanation
Indices: 982358--982418 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
982348 AAACATGGTT
*
982358 AATTAAGTCAAAATTGATAGAAAAAGCAAA
1 AATTAAGTCAAAATTGATAAAAAAAG-AAA
982388 AATTAAGTC-AAATTGATAAAAATCAAGAAA
1 AATTAAGTCAAAATTGATAAAAA--AAGAAA
982418 A
1 A
982419 GTCAACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 12 0.43
30 13 0.46
31 3 0.11
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (29 bp):
AATTAAGTCAAAATTGATAAAAAAAGAAA
Found at i:982838 original size:27 final size:27
Alignment explanation
Indices: 982808--982890 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
982798 ATTTTCACAC
*
982808 AATTTTTCAATGAACTTTTATTTATTA
1 AATTTTTCAATAAACTTTTATTTATTA
** *
982835 AATTTTT-AATTAAA-TTTTCATACATGA
1 AATTTTTCAA-TAAACTTTT-ATTTATTA
* *
982862 AATTTGTCATTAAACTTCTTATTTATTA
1 AATTTTTCAATAAACTT-TTATTTATTA
982890 A
1 A
982891 TTAAACCTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
26 6 0.14
27 25 0.60
28 9 0.21
29 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (27 bp):
AATTTTTCAATAAACTTTTATTTATTA
Found at i:982964 original size:14 final size:14
Alignment explanation
Indices: 982947--982985 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
982937 TATTTTTAAT
*
982947 TGGACTTTCACATA
1 TGGAATTTCACATA
982961 TGGAATTTCACATA
1 TGGAATTTCACATA
*
982975 TAGGATTTTCA
1 T-GGAATTTCA
982986 ATTATACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (14 bp):
TGGAATTTCACATA
Found at i:984466 original size:36 final size:35
Alignment explanation
Indices: 984411--984557 Score: 102
Period size: 36 Copynumber: 4.2 Consensus size: 35
984401 AAAAATCTTC
* *
984411 TCAAAAGAGGCTTTGGAAAGTCTCTAAAAATTATCT
1 TCAAGAGAAGCTTTGGAAAGTCTCTAAAAA-TATCT
* * *
984447 TCAAGAGAAGCTTTTGAAAGTCTTTCAAAATATCT
1 TCAAGAGAAGCTTTGGAAAGTCTCTAAAAATATCT
* * * * ** *
984482 TTAAGA-AAGGC-TTAGAAAATCTCTAATAGCATCC
1 TCAAGAGAA-GCTTTGGAAAGTCTCTAAAAATATCT
* * *
984516 TCAAGA-AAGGCTTTGGAAACTCTCTGAAAAATGTCC
1 TCAAGAGAA-GCTTTGGAAAGTCTCT-AAAAATATCT
984552 TCAAGA
1 TCAAGA
984558 AAGGTTCTAA
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
34 27 0.31
35 23 0.26
36 37 0.43
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (35 bp):
TCAAGAGAAGCTTTGGAAAGTCTCTAAAAATATCT
Found at i:984631 original size:33 final size:34
Alignment explanation
Indices: 984513--984667 Score: 134
Period size: 35 Copynumber: 4.5 Consensus size: 34
984503 TCTAATAGCA
** *
984513 TCCTCAAGAAAGGCTTTGGAAACTCTCTGAAAAATG
1 TCCTCAAGAAAGGCTTTAAAAACT-T-TGAAAAACG
*
984549 TCCTCAAGAAAGG-TTCTAAAAACTTTTGAAAAAAG
1 TCCTCAAGAAAGGCTT-TAAAAAC-TTTGAAAAACG
* * * *
984584 TCTTTAAGAGAGGCTTT-AAAACTTTGTAAAACG
1 TCCTCAAGAAAGGCTTTAAAAACTTTGAAAAACG
* * *
984617 TCCTTAAGAAAGGCTTTAGAAAGCTTTGAAAAACA
1 TCCTCAAGAAAGGCTTTA-AAAACTTTGAAAAACG
* *
984652 CCCTCAAGAGAGGCTT
1 TCCTCAAGAAAGGCTT
984668 GAAGATTATC
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
33 24 0.24
34 5 0.05
35 47 0.48
36 21 0.21
37 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (34 bp):
TCCTCAAGAAAGGCTTTAAAAACTTTGAAAAACG
Found at i:998168 original size:9 final size:9
Alignment explanation
Indices: 998156--998216 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
998146 CTCCCTCTAT
998156 TATCTCTCC
1 TATCTCTCC
998165 TATCTCTCC
1 TATCTCTCC
*
998174 T-TCTAT-C
1 TATCTCTCC
* *
998181 -ATCCCTTC
1 TATCTCTCC
*
998189 TATCTCTAC
1 TATCTCTCC
998198 TATCTCTCC
1 TATCTCTCC
*
998207 TAGCTCTCC
1 TATCTCTCC
998216 T
1 T
998217 CATATCATCC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 4 0.10
8 5 0.12
9 33 0.79
ACGTcount: A:0.13, C:0.41, G:0.02, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:998178 original size:24 final size:24
Alignment explanation
Indices: 998145--998237 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 24
998135 TATCATCCCT
* *
998145 TCTCCCTCTATTATCTCTCCTATC
1 TCTCCCTCTATCATCCCTCCTATC
* *
998169 TCTCCTTCTATCATCCCTTCTATC
1 TCTCCCTCTATCATCCCTCCTATC
* *
998193 TCT---ACTATC-T--CTCCTAGC
1 TCTCCCTCTATCATCCCTCCTATC
998211 TCT-CCTCATATCATCCCTCCTATC
1 TCTCCCTC-TATCATCCCTCCTATC
998235 TCT
1 TCT
998238 TCTTTCTCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
18 9 0.17
20 2 0.04
21 9 0.17
22 1 0.02
24 33 0.61
ACGTcount: A:0.14, C:0.42, G:0.01, T:0.43
Consensus pattern (24 bp):
TCTCCCTCTATCATCCCTCCTATC
Found at i:998180 original size:42 final size:42
Alignment explanation
Indices: 998128--998246 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
998118 TTCTTCTCTC
* * * *
998128 CTCCTCCTATCATCCCTTCTCCCTCTATTATCTCTCCTATCT
1 CTCCTTCTATCATCCCTTCTACCTCTACTATCTCTCCTAGCT
*
998170 CTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCCTAGCT
1 CTCCTTCTATCATCCCTTCTACCTCTACTATCTCTCCTAGCT
* * * *
998212 CTCC-TCATATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTTC-TATCATCCCTTCTACCTCTACTATCTCT
998247 TTGAGGGCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 66 0.97
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.44
Consensus pattern (42 bp):
CTCCTTCTATCATCCCTTCTACCTCTACTATCTCTCCTAGCT
Found at i:1000086 original size:28 final size:28
Alignment explanation
Indices: 1000033--1000086 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1000023 TCAAGGAAGT
* *
1000033 AAAATCAACAAGAAATATGAAGGGAAAC
1 AAAATCAACAAGAAATATCAAAGGAAAC
1000061 AAAAT-AAGCAAGAAATATCAAAGGAA
1 AAAATCAA-CAAGAAATATCAAAGGAA
1000087 GGGAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.63, C:0.09, G:0.17, T:0.11
Consensus pattern (28 bp):
AAAATCAACAAGAAATATCAAAGGAAAC
Found at i:1009170 original size:20 final size:20
Alignment explanation
Indices: 1009145--1009200 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1009135 GTTTACCCAG
1009145 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTGCA
1009165 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTGCA
1009185 ATGTATCGATACATTT
1 ATGTATCGATACATTT
1009201 AGGCATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTGCA
Found at i:1011674 original size:51 final size:50
Alignment explanation
Indices: 1011611--1011778 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 50
1011601 TTATTTTTGA
*
1011611 GGGGATACTCCAACCTCAGTTTTATTT-TCAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAACC-CAGTTTTATTTCT-AAAACATCAATTTTTCATAATC
* *
1011662 GGGGATACTCCAACCCCGGTTGTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAA-CCCAGTTTTATTTCTAAAACATCAATTTTTCATAATC
* * * * * * *
1011713 AGGGATACTCTAACCCCGATTTTATTTCTAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCAG-TTTTATTTCTAAAACATCAATTTTTCATAATC
1011764 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1011779 ACGTTATCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
50 4 0.04
51 94 0.93
52 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCAGTTTTATTTCTAAAACATCAATTTTTCATAATC
Found at i:1011848 original size:79 final size:79
Alignment explanation
Indices: 1011714--1011934 Score: 300
Period size: 79 Copynumber: 2.8 Consensus size: 79
1011704 TTCATAATCA
* * * * *
1011714 GGGATACTCTAACCCCGATTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCATAATCAGGGATACTCCAACC
*
1011779 ACGTTATCTT-CGAG
66 ACATTAT-TTCCGAG
* * * *
1011793 GGGATACTCCAACCCCAATTTTATTTTTAAAACACCGATTTTCTATAATCAGGGATGCTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCATAATCAGGGATACTCCAACC
**
1011858 TTATTATTTCCGAG
66 ACATTATTTCCGAG
*
1011872 GGGATACTCCAACCCCGATTTTATTTCTAGAACACCGATTTTCCATAATCAGGGGATACTCCA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCATAATCA-GGGATACTCCA
1011935 GCCCCATTGT
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.02
79 111 0.90
80 10 0.08
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCATAATCAGGGATACTCCAACC
ACATTATTTCCGAG
Found at i:1017308 original size:13 final size:13
Alignment explanation
Indices: 1017290--1017315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1017280 TACAGCAAGT
1017290 ATGTATCGATACA
1 ATGTATCGATACA
1017303 ATGTATCGATACA
1 ATGTATCGATACA
1017316 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:1019567 original size:21 final size:21
Alignment explanation
Indices: 1019534--1019578 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1019524 TTGCAAGTTG
*
1019534 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1019556 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1019576 AAA
1 AAA
1019579 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
Found at i:1021402 original size:15 final size:15
Alignment explanation
Indices: 1021382--1021412 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1021372 TAAAAATGTC
*
1021382 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1021397 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1021412 C
1 C
1021413 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:1023510 original size:13 final size:13
Alignment explanation
Indices: 1023492--1023530 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1023482 CATTTTTTCT
1023492 TTGTATCGATACA
1 TTGTATCGATACA
1023505 TTGTATCGATACA
1 TTGTATCGATACA
1023518 TTGTATCGATACA
1 TTGTATCGATACA
1023531 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1026095 original size:13 final size:13
Alignment explanation
Indices: 1026077--1026102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1026067 TACAGCAAGT
1026077 ATGTATCGATACA
1 ATGTATCGATACA
1026090 ATGTATCGATACA
1 ATGTATCGATACA
1026103 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:1034265 original size:61 final size:61
Alignment explanation
Indices: 1034136--1034740 Score: 672
Period size: 61 Copynumber: 10.1 Consensus size: 61
1034126 GAGCAAGATG
* * * * * *
1034136 CCTTTCAAAGCCCACACAAGCTGGTGGCACTTTTCTAGACCTCAAAGAGCTGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTT
*
1034198 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
1034259 CCTTTTAAAGCCCACACAAGTTGGTGGCA--TTTCCCAGTCCTCAAAGAGTAGGACG-C---T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--TAGTCCTCAAAGAGCAGGACGCCTTTT
* *
1034316 --TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1034376 CCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTTAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1034437 CCTTTTAAAGACCACACAAGTTGGTGGCA--TTTCCCAGTCCTCAAAAAGCAGGA------TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--TAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1034492 CCTTTTAAAGCCCGCACAAGTTAGTGGCA-CTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * **
1034553 CCTTTTAAAGCCCACATAAGCTGGTAGCACC-TTCAGTCCTCAAAGAGCAGGACACCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1034613 CCTTTTAAAGTCAACACAAGTTGGTGGCA-CTCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1034674 CCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTTGGTCCTTAAAGAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1034735 CCTTTT
1 CCTTTT
1034741 CTCCTTTGCC
Statistics
Matches: 464, Mismatches: 55, Indels: 49
0.82 0.10 0.09
Matches are distributed among these distances:
55 71 0.15
56 23 0.05
57 4 0.01
59 6 0.01
60 48 0.10
61 250 0.54
62 62 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1034292 original size:32 final size:32
Alignment explanation
Indices: 1034195--1034292 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
1034185 CTGGACACCT
1034195 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
1034227 ---CCTTTT--AGTCCTCAAAGAGTAGGACGCCT
1 TTTCCTTTTAAAGCCCACACA-AGTTGG-TGGCA
1034256 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1034288 TTTCC
1 TTTCC
1034293 CAGTCCTCAA
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
27 7 0.16
28 5 0.11
29 8 0.18
32 13 0.29
33 5 0.11
34 7 0.16
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (32 bp):
TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1034416 original size:178 final size:178
Alignment explanation
Indices: 1034116--1034740 Score: 848
Period size: 178 Copynumber: 3.5 Consensus size: 178
1034106 TTCACCCTTT
* * * * *
1034116 AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACTTTTCTAGACCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* * * *
1034181 AGAGCTGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
* * *
1034246 TAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
131 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
* *
1034294 AGTCCTCAAAGAGTAGGACGCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* *
1034359 AGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTTAAAGAG
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
1034424 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
131 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
* * * *
1034472 AGTCCTCAAAAAGCAGGATGCCTTTTAAAGCCCGCACAAGTTAGTGGCACTTTTC-AGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* * *
1034536 AGAGCAGGATGCCTTTTCCTTTTAAAGCCCACATAAG-CTGGTAGCACCTTC-AGTCCTCAAAGA
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTC-GGTGGCACCTTCTAGTCCTCAAAGA
** * *
1034599 GCAGGACACCTCCTCCTTTTAAAGTCAACACAAGTTGGTGGCACTCTT--C
130 GCAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCA-T-TTCCC
* *
1034648 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTT-TGGT
1 AGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
* *
1034712 CCTTAAAGAGCAGGACGCATTTTCCTTTT
60 CCTCAAAGAGCAGGACGCCTTTTCCTTTT
1034741 CTCCTTTGCC
Statistics
Matches: 397, Mismatches: 40, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
176 70 0.18
177 55 0.14
178 213 0.54
182 59 0.15
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (178 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
Found at i:1037983 original size:79 final size:79
Alignment explanation
Indices: 1037848--1038054 Score: 292
Period size: 79 Copynumber: 2.6 Consensus size: 79
1037838 TCATTCATGT
* *
1037848 TTTTATTTCCAAAACACCAATTTTTTTATAATCGGGGATACTCCAACCCCGGTATTTCCGAA-GA
1 TTTTATTTTCAAAACACCAA-TTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCC-AAGGA
1037912 GATACTCCAACCGCAG
64 GATACTCCAACCGCAG
* *
1037928 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCCAAGGAGA
*
1037993 TACTCCAACCTCAG
66 TACTCCAACCGCAG
* * * *
1038007 TTTTA-TTTCTAAAACATCAATTTTTCACAATTGGGGATACTGCAACCC
1 TTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
1038055 GATTTTATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 6 0.05
79 91 0.78
80 19 0.16
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (79 bp):
TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCCAAGGAGA
TACTCCAACCGCAG
Found at i:1038080 original size:50 final size:50
Alignment explanation
Indices: 1037988--1038104 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 50
1037978 TTATTTCCAA
* * *
1037988 GGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATT
1 GGGGATACTCCAACC-CAGTTTTATTTCCAAAACATCAATTTTCCACAATC
* * *
1038039 GGGGATACTGCAACCC-GATTTTATTTCCAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCAG-TTTTATTTCCAAAACATCAATTTTCCACAATC
1038089 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1038105 TGTTATCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.74
51 14 0.24
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCAGTTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:1038173 original size:79 final size:78
Alignment explanation
Indices: 1038039--1038267 Score: 280
Period size: 79 Copynumber: 2.9 Consensus size: 78
1038029 TTTCACAATT
* * * * *
1038039 GGGGATACTGCAACCCGATTTTATTTCCAAAGCATCGATTTTCCACAATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAACC
1038104 CTGTTATCTT-CGA
66 CTGTTAT-TTACGA
* * * *
1038117 GGGGATACTCCAACCCTGATTTTATTTTTAAAACGTCGATTTTCTATAATCAGGGATGCTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAAC
* *
1038182 CCTATTATTTATGA
65 CCTGTTATTTACGA
* * * *
1038196 GGGGATACTCCAACCCCGATTTTATTTCTAGAACACCGCTTTTCCATAATCAAGGGATACTCCAG
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCGATTTTCCATAATC-AGGGATACTCCAA
1038261 CCCTGTT
64 CCCTGTT
1038268 GTCATCTCCA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 17 0.13
79 90 0.71
80 20 0.16
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAACC
CTGTTATTTACGA
Found at i:1038173 original size:129 final size:129
Alignment explanation
Indices: 1037912--1038183 Score: 318
Period size: 129 Copynumber: 2.1 Consensus size: 129
1037902 TTTCCGAAGA
* * *
1037912 GATACTCCAA-CCGCAGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
1 GATACTCCAACCCG-A-TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCC
**
1037976 CGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGG
64 CGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAG
1038041 G
129 G
* * * * *
1038042 GATACTGCAACCCGATTTTATTTCCAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCCTG
1 GATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCG
* * * * * *
1038107 TTATCTT-CGAGGGGATACTCCAACC-CTGATTTTATTTTTAAAACGTCGA-TTTTCTATAATCA
66 TTAT-TTCCAAGGGGATACTCCAACCTCAG-TTTTATTTCTAAAACATCAATTTTTC-ACAATCA
1038169 GG
128 GG
*
1038171 GATGCTCCAACCC
1 GATACTCCAACCC
1038184 TATTATTTAT
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
128 7 0.06
129 98 0.82
130 12 0.10
131 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (129 bp):
GATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCG
TTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAGG
Found at i:1043088 original size:57 final size:59
Alignment explanation
Indices: 1043022--1043137 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
1043012 TTGAGTCCAG
* * *
1043022 TTTCCAATTCCC-T-TGGTATTCCTAGTTTGTGTTTTGTATTTAAATTATTGGGTCAAT
1 TTTCCAATTCCCTTATAGTATTCCTAGTTTGTATTTTGTATTTAAATTACTGGGTCAAT
* * * *
1043079 TTTCCAATTCCCTTAATATTATTCTTGGTTTGTATTTTGTATTTAAATTACTGGTTCAA
1 TTTCCAATTCCCTT-ATAGTATTCCTAGTTTGTATTTTGTATTTAAATTACTGGGTCAA
1043138 GATTCCTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 12 0.24
58 1 0.02
60 36 0.73
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.52
Consensus pattern (59 bp):
TTTCCAATTCCCTTATAGTATTCCTAGTTTGTATTTTGTATTTAAATTACTGGGTCAAT
Found at i:1043654 original size:144 final size:144
Alignment explanation
Indices: 1043391--1043662 Score: 336
Period size: 144 Copynumber: 1.9 Consensus size: 144
1043381 CCCTAGAATC
* * * *
1043391 AAAGTTTGTCCCTAAAATGAGACAAACATTAATTCTTGCTAGAATCTCCATTCTTTTTATGATTA
1 AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
* * * *
1043456 GACACCATAGATATGTTCCCTTCATTGGGAGACATGATATTGATCTTTCAGTTTCACAAGAAAGC
66 GACACCAAAAACATGTTCCCTTCATTGGGAGACATGACATTGATCTTTCAGTTTCACAAGAAAGC
1043521 CTTTCTCTCCACCA
131 CTTTCTCTCCACCA
* * *
1043535 AAAGTTTGTCCCTCAAATAAGACAAACATGGATTCTTGTTAGAATCTCCATTCTTTTCATCATT-
1 AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
* * * * *
1043599 GTGCTA-CAAAAACATGTTATCCTT-ATTGGGATACATGACATTTATGCTTT-TGTTTCACAAGA
66 G-AC-ACCAAAAACATGTT-CCCTTCATTGGGAGACATGACATTGAT-CTTTCAGTTTCACAAGA
1043661 AA
127 AA
1043663 AGCATTTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
143 1 0.01
144 98 0.91
145 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (144 bp):
AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
GACACCAAAAACATGTTCCCTTCATTGGGAGACATGACATTGATCTTTCAGTTTCACAAGAAAGC
CTTTCTCTCCACCA
Found at i:1046472 original size:43 final size:44
Alignment explanation
Indices: 1046388--1046473 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
1046378 TAACACAAAC
*
1046388 CCTAATGGACTTATTGTGCTAACAAGCCTAATTCTTAATTAAAA
1 CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAAA
*
1046432 CCTAATGGACTTATTGTGCTAA-AAGCCCATTTCTTAATTAAA
1 CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAA
1046474 CCAAAATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 18 0.45
44 22 0.55
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (44 bp):
CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAAA
Found at i:1048250 original size:158 final size:157
Alignment explanation
Indices: 1047836--1049735 Score: 1155
Period size: 159 Copynumber: 12.0 Consensus size: 157
1047826 TAGAAACTAC
* ** * * * *
1047836 ATTC-TTTCTATGATTAGGC-TACAAAAACATGTTATCCTTATTTGGATACATGATTTTGATGCT
1 ATTCTTTTC-ATGATTGGGCAT-CAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCT
* * * *
1047899 TTGGATTTGAAAGAAAAGCTTTTTTT-TCACCATTTTCTTTGGAATCAAAAT-TTATCCCTCAAA
64 TTGGTTTTGCAAGAAAAGCTTTTTTTCT-ACCATTTTCCTTAGAATC--AATGTTATCCCTCAAA
* * * *
1047962 TAAGACAAAAATGGATTCTCATTAAAATCTCA
126 TGAGACAAACATGGATTCTCATTAGAATCTCT
* * * * ** * *
1047994 ATT-TTTTTATGATAGGGCACCATAAACATGTTGTCCTTATTAGGATACA-GAATATTGATGCTT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATG-ATATTGATGCTT
* * ** * * * *
1048057 TGATTTTGCAAGAAAAGCTTTTGTTTCCAATATTTTCATTATAATCAATGTTAGTGCCTTAAATG
65 TGGTTTTGCAAGAAAAGCTTTT-TTTCTACCATTTTCCTTAGAATCAATGTTA-TCCCTCAAATG
* * *
1048122 AGACAAAAATGGATTCTCGTTAGAATCTCA
128 AGACAAACATGGATTCTCATTAGAATCTCT
* * *
1048152 ATTCTTTTCATGATTGGTCATCAAAAACACATTCTCCTCATTATGATACATGATATTGATGGTTT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCTTT
* * * * * *
1048217 AGTTTTGTAAGAAAAGCTTTTTTTCTACCATTTTTCTTAGAATCAAAGTTCATGCCTCAAATGTG
66 GGTTTTGCAAGAAAAGCTTTTTTTCTACCATTTTCCTTAGAATCAATGTT-ATCCCTCAAATGAG
* *
1048282 ACAAACATGGATTCTCGTTAGAATCTCC
130 ACAAACATGGATTCTCATTAGAATCTCT
** ** ** * * * *
1048310 ATTTCTTTTTTTGATTGACCTAT-AAAAACATGTTCTCCTTATTAAGATGCATAATATTGATGCC
1 A-TTCTTTTCATGATTGGGC-ATCAAAAACACATTCTCCTCATTAGGATACATGATATTGATG-C
** * * ** * * *
1048374 TTTAATTTTGCACGAAAAGTTTTTCTTTCTTTCATTTTCTTTTCTTAG-ATTAATGTACATCCTT
63 TTTGGTTTTGCAAGAAAAGCTTTT-TTTCTACCATTTTC----CTTAGAATCAATGT-TATCCCT
* * *
1048438 CAAACGAGGA-AAACATGGATTCTCATTAGAATATCC
122 CAAATGA-GACAAACATGGATTCTCATTAGAATCTCT
* ** * * * * ** ** * *
1048474 ACTCTTTTGGTGGTTGGGCAACAAATAGATGTTAACATCATT-GGTATACCTG---TTGATGCTT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGG-ATACATGATATTGATGCTT
** * * * * * * * * *
1048535 TAATTTCGAAAGTAAAGTTTTTTCTTTCCACTAATTTCCTTAGAA-CAAATTTTATCCCTCAAAA
65 TGGTTTTGCAAGAAAAG-CTTTT-TTTCTACCATTTTCCTTAGAATC-AATGTTATCCCTCAAAT
*
1048599 GAGACAAACATGGATTCTCCTTAGAATCTCT
127 GAGACAAACATGGATTCTCATTAGAATCTCT
* ** * * ** *
1048630 ATTTTTTTCATGATTGCACCAT-AAAAACA-ATT-TCCT-TTTTGTGATACACAATATTGATTCT
1 ATTCTTTTCATGATTG-GGCATCAAAAACACATTCTCCTCATTAG-GATACATGATATTGATGCT
* ** *
1048691 ATGGTTTCACAAGAAAAGCTTTTTTTCTACCATTTTCCTTAGAATCAAAAT-TTATCTCTCAAAT
64 TTGGTTTTGCAAGAAAAGCTTTTTTTCTACCATTTTCCTTAGAATC--AATGTTATCCCTCAAAT
* *** *
1048755 GAGACAAACACGGATTCTTGCTAGAATCTCC
127 GAGACAAACATGGATTCTCATTAGAATCTCT
* * * * * *
1048786 ATTGTTTTCATGACTGGGCACCATAAACACATTCT-TTCAATAGGATTACATGATATTGATG-TT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGA-TACATGATATTGATGCTT
** * * ** * *
1048849 TTCTTTTCTCAAGAAAAGCTTTTTTTTTCAATTATTTTCCTTAGAATCAAAGTTCATCCCTTAAA
65 TGGTTTT-GCAAGAAAAGC--TTTTTTTCTACCATTTTCCTTAGAATCAATGTT-ATCCCTCAAA
** * *
1048914 TGAGATGAACATGGATTATTATTAGAATCTCT
126 TGAGACAAACATGGATTCTCATTAGAATCTCT
* * ** * * *
1048946 ATTCTTTTCATGATTGGGCACCATAAACATGTACTTCTCATTAGGATACATGATATTGATGATTT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCTTT
* *** * * * * * * *
1049011 TGTTTTATGAGAAAAACTTTTCTTTCCACAACTTTCTTTAGAATCAAAGTTCATCCCTCAAATGT
66 GGTTTTGCAAGAAAAGCTTTT-TTTCTACCATTTTCCTTAGAATCAATGTT-ATCCCTCAAATGA
* *
1049076 GACAAACATGGATTTTCATTAGAATATCTTT
129 GACAAACATGGATTCTCATTAG-A-ATCTCT
* * * *** * *
1049107 TTTTTTTTCATGATTGGGC-TACAAAAGA-ACTTTCTTAACATTAGGATACATGACACT-ATTGC
1 ATTCTTTTCATGATTGGGCAT-CAAAA-ACACATTCTCCTCATTAGGATACATGATATTGA-TGC
* * * * * * * * *
1049169 TTTGGTTTCGCAAGAATAGCTTTTCTTT-TCACTATTTTTCTTAGAACCAAAGTTTGTCTCTTAA
63 TTTGGTTTTGCAAGAAAAGCTTTT-TTTCT-ACCATTTTCCTTAGAATCAATG-TTATCCCTCAA
* * * *
1049233 ATGACACAATCATGGATTCTTATTAGAATCTCC
125 ATGAGACAAACATGGATTCTCATTAGAATCTCT
* * * ** *
1049266 ATTCTTTTCATGATTAGGC-TGCAAAAACACATTATCCTCATTGGGATACACAACATTGATGCTT
1 ATTCTTTTCATGATTGGGCAT-CAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCTT
* * * * ** *
1049330 TGCTTTTGCTAGCAAAGCTTTTTTT-TATCTCATTTTCCTTAGAATGAAAATTCACCCCTCAAA-
65 TGGTTTTGCAAGAAAAGCTTTTTTTCTA-C-CATTTTCCTTAGAATCAATGTT-ATCCCTCAAAT
* * *
1049393 GAAGACACACATTGATTCTCATTAGATTCTCT
127 G-AGACAAACATGGATTCTCATTAGAATCTCT
* * * * * * * *
1049425 ATTCTTTTTATGGTTAGGAAACAAAAAGACATTCTCCTCATTAGGATCCATGATATTAATGCTTT
1 ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCTTT
* * * * * * *
1049490 GGTCTCGCAGGAAAAGGTTTTTTT-TCATCATTTTCCTTAGAATCAATGTTTGTCCCTTAAAATG
66 GGTTTTGCAAGAAAAGCTTTTTTTCT-ACCATTTTCCTTAGAATCAATG-TTATCCC-TCAAATG
* *
1049554 AGACAAACATGGATTTTCATTTGAATCTCT
128 AGACAAACATGGATTCTCATTAGAATCTCT
* * * * * * * *
1049584 TTTCCTTTT-ATG-TTAGGCACCATAAACACGTTCTCCTTATTAGGATACA-CACTATTGGTGCT
1 ATT-CTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATGA-TATTGATGCT
* * * * *
1049646 TTGGCTTTGCAAGAAAAGCTTTTTGTTCCACCATTTTCCTTAGAATCTAGGTTTATCACTCAAAT
64 TTGGTTTTGCAAGAAAAGCTTTTT-TTCTACCATTTTCCTTAGAATCAATG-TTATCCCTCAAAT
*
1049711 GATACAAACATGGATTCTCATTAGA
127 GAGACAAACATGGATTCTCATTAGA
1049736 TTCCTTAGAA
Statistics
Matches: 1349, Mismatches: 324, Indels: 138
0.74 0.18 0.08
Matches are distributed among these distances:
153 2 0.00
154 7 0.01
155 25 0.02
156 121 0.09
157 110 0.08
158 265 0.20
159 431 0.32
160 164 0.12
161 142 0.11
162 5 0.00
163 30 0.02
164 40 0.03
165 7 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (157 bp):
ATTCTTTTCATGATTGGGCATCAAAAACACATTCTCCTCATTAGGATACATGATATTGATGCTTT
GGTTTTGCAAGAAAAGCTTTTTTTCTACCATTTTCCTTAGAATCAATGTTATCCCTCAAATGAGA
CAAACATGGATTCTCATTAGAATCTCT
Found at i:1051030 original size:19 final size:19
Alignment explanation
Indices: 1051006--1051073 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1050996 AATTCAACGA
1051006 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1051025 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1051040 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1051057 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1051074 TTGGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1051044 original size:32 final size:32
Alignment explanation
Indices: 1051008--1051070 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1050998 TTCAACGATT
*
1051008 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1051040 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1051071 TAATTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1051045 original size:13 final size:13
Alignment explanation
Indices: 1051027--1051051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1051017 ACATAAGTTT
1051027 TGTATCGATACAA
1 TGTATCGATACAA
1051040 TGTATCGATACA
1 TGTATCGATACA
1051052 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1051131 original size:13 final size:13
Alignment explanation
Indices: 1051113--1051139 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1051103 CATTTTTCTG
1051113 TGTATCGATACAT
1 TGTATCGATACAT
1051126 TGTATCGATACAT
1 TGTATCGATACAT
1051139 T
1 T
1051140 TGGAAATTTT
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):
TGTATCGATACAT
Found at i:1051176 original size:16 final size:16
Alignment explanation
Indices: 1051155--1051186 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1051145 ATTTTACCCA
1051155 GATGTATCGATACATT
1 GATGTATCGATACATT
1051171 GATGTATCGATACATT
1 GATGTATCGATACATT
1051187 CAGGCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GATGTATCGATACATT
Found at i:1053682 original size:51 final size:51
Alignment explanation
Indices: 1053608--1053777 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
1053598 TTAATCATCC
* * *
1053608 GGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATCG
* * * * * *
1053659 GGGATACTCAAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATCG
** * *
1053712 GGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATCG
*
1053764 AGGATACTCCAACC
1 GGGATACTCCAACC
1053778 TCGTTATTTC
Statistics
Matches: 94, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
51 34 0.36
52 18 0.19
53 31 0.33
54 11 0.12
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATCG
Found at i:1053796 original size:28 final size:28
Alignment explanation
Indices: 1053760--1053841 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1053750 ATTTTTCACA
*
1053760 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1053788 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1053816 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1053842 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1058083 original size:15 final size:14
Alignment explanation
Indices: 1058063--1058112 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1058053 TATCATTTCA
1058063 AAAAAAAAGGTTGGC
1 AAAAAAAA-GTTGGC
**
1058078 AAAAAAGAA-TAAG-
1 AAAAAA-AAGTTGGC
1058091 AAAAAAAAGTTGGC
1 AAAAAAAAGTTGGC
1058105 AAAAAAAA
1 AAAAAAAA
1058113 ATAGAGGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 8 0.29
14 10 0.36
15 6 0.21
16 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAAAAAAGTTGGC
Found at i:1058102 original size:27 final size:28
Alignment explanation
Indices: 1058063--1058115 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
1058053 TATCATTTCA
*
1058063 AAAAAAAAGGTTGGCAAAAAAGAATAAG
1 AAAAAAAAGGTTGGCAAAAAAAAATAAG
1058091 AAAAAAAA-GTTGGCAAAAAAAAATA
1 AAAAAAAAGGTTGGCAAAAAAAAATA
1058116 GAGGTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.68, C:0.04, G:0.17, T:0.11
Consensus pattern (28 bp):
AAAAAAAAGGTTGGCAAAAAAAAATAAG
Found at i:1065690 original size:52 final size:50
Alignment explanation
Indices: 1065632--1065866 Score: 156
Period size: 49 Copynumber: 4.7 Consensus size: 50
1065622 GTTCTGAGAC
* *
1065632 AAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGCCAATATGCTGATTT
1 AAGGCCAACGACATTAGGACTTA--AA-GATAAAGATGCCAATATGCTGATTT
* * * * *
1065684 AAGGCCAACGATA-TCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTT
1 AAGGCCAACGACATTAGGACTTAAAGATAAAGATGCCAATATGCTGATTT
* * * ** * * *
1065733 AAGGCCAACGACA-TCGGTCTTAAAGATGAAGCCGCCAATGTGTTGATTC
1 AAGGCCAACGACATTAGGACTTAAAGATAAAGATGCCAATATGCTGATTT
* * * * * * *
1065782 AAGGCCAGCGATA-TCGGACTTAAAGATGAAGGTGCCGATATGCTGATTC
1 AAGGCCAACGACATTAGGACTTAAAGATAAAGATGCCAATATGCTGATTT
* * * * * *
1065831 AAGGGCAGCGATA-TCGGACTTAAAGATGAAGGTGCC
1 AAGGCCAACGACATTAGGACTTAAAGATAAAGATGCC
1065867 TATAGACACC
Statistics
Matches: 160, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
49 140 0.88
50 2 0.01
51 3 0.02
52 15 0.09
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (50 bp):
AAGGCCAACGACATTAGGACTTAAAGATAAAGATGCCAATATGCTGATTT
Found at i:1065728 original size:49 final size:49
Alignment explanation
Indices: 1065667--1065866 Score: 283
Period size: 49 Copynumber: 4.1 Consensus size: 49
1065657 ATGTTAAAGA
*
1065667 TGCCAATATGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
* * * * *
1065716 TGCCAATGTGCTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGC
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
* * * *
1065765 CGCCAATGTGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
* * *
1065814 TGCCGATATGCTGATTCAAGGGCAGCGATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
1065863 TGCC
1 TGCC
1065867 TATAGACACC
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 135 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
Found at i:1065821 original size:27 final size:27
Alignment explanation
Indices: 1065790--1065866 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
1065780 TCAAGGCCAG
1065790 CGATATCGGACTTAAAGATGAAGGTGC
1 CGATATCGGACTTAAAGATGAAGGTGC
* * **
1065817 CGATATGCTGA-TTCAAG--G--GCAG-
1 CGATAT-CGGACTTAAAGATGAAGGTGC
1065839 CGATATCGGACTTAAAGATGAAGGTGC
1 CGATATCGGACTTAAAGATGAAGGTGC
1065866 C
1 C
1065867 TATAGACACC
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
21 3 0.09
22 11 0.31
23 2 0.06
24 1 0.03
25 1 0.03
26 2 0.06
27 12 0.34
28 3 0.09
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (27 bp):
CGATATCGGACTTAAAGATGAAGGTGC
Found at i:1066564 original size:61 final size:62
Alignment explanation
Indices: 1066434--1066589 Score: 224
Period size: 61 Copynumber: 2.5 Consensus size: 62
1066424 TTTAGCCCCT
* * * *
1066434 CCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGATGGCACTTC
** *
1066496 TTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACACGTTGATGGCACTTC
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGATGGCACTTC
* *
1066557 CCAGTCCTTAAAGAGCAGGACGCCCTCTCCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1066590 CACCCTTTAG
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 53 0.64
62 30 0.36
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (62 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGATGGCACTTC
Found at i:1066656 original size:54 final size:54
Alignment explanation
Indices: 1066593--1066788 Score: 241
Period size: 54 Copynumber: 3.5 Consensus size: 54
1066583 CTCCTTTCAC
1066593 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1066647 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCTCACACTAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1066701 CTTCTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCT-TTAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA
1066762 -CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CCTT--TAGTCCTCAAAGAGCAGGACGC
1066789 TCTCTCCTTT
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
54 51 0.43
55 21 0.18
58 1 0.01
59 1 0.01
60 1 0.01
61 44 0.37
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1066771 original size:61 final size:59
Alignment explanation
Indices: 1066618--1066785 Score: 231
Period size: 61 Copynumber: 2.9 Consensus size: 59
1066608 GAGCAGGACG
1066618 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTT
* * *
1066677 -C----AAAGCTCACACTAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-TAGTCCTCAAAGAGCAGGATGCC-TTT
1066733 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGA
1066786 CGCTCTCTCC
Statistics
Matches: 94, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
53 3 0.03
54 20 0.21
55 23 0.24
56 3 0.03
57 1 0.01
58 1 0.01
61 42 0.45
62 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (59 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGATGCCTTT
Found at i:1066798 original size:61 final size:56
Alignment explanation
Indices: 1066597--1066787 Score: 230
Period size: 61 Copynumber: 3.4 Consensus size: 56
1066587 TTTCACCCTT
1066597 TAGTCCTCAAAGAGCAGGACG--CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-
1 TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
* * * * *
1066651 TAGTCCTCAAAGAGCAGGA--TGCCTTTCAAAGCTCACACTAGTTAGTGGCACTTC
1 TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1066705 TTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 -TAGTCCTCAAAGAGCAGGA---C-GTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-C
1066767 TAGTCCTCAAAGAGCAGGACG
1 TAGTCCTCAAAGAGCAGGACG
1066788 CTCTCTCCTT
Statistics
Matches: 116, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
53 3 0.03
54 44 0.38
55 19 0.16
58 1 0.01
61 48 0.41
62 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (56 bp):
TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:1066835 original size:209 final size:209
Alignment explanation
Indices: 1066465--1066953 Score: 674
Period size: 209 Copynumber: 2.3 Consensus size: 209
1066455 GCCTTTTTCT
* *
1066465 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 TTTCAAAGCCCACACAAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
* * *
1066530 AAAGCCCACACACGTTGATGGCACTTCCCAGTCCTTAAAGAGCAGGACGCCCTCTCCTTTCACCC
66 AAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCA
*
1066595 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTC
131 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTC
1066659 AAAGAGCAGGATGCC
195 AAAGAGCAGGATGCC
* * * *
1066674 TTTCAAAGCTCACACTAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 TTTCAAAGCCCACACAAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
* * *
1066739 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCA
66 AAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCA
* * * * *
1066804 TTTAGTCCTCAAATAGCAGGATGCTTTTTAAAGCCCACTCAAGTTTGTGGCACTTCCCAGTCCTC
131 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTC
*
1066869 AAAGAGCAGGACGCTTTCTCC
195 AAAGAGCAGGA-----T-GCC
* * * ** *
1066890 TTTTAAAGTCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTT
1 TTTCAAAGCCCACACAAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1066954 CACCCTTGAG
Statistics
Matches: 243, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
208 3 0.01
209 165 0.68
210 18 0.07
215 1 0.00
216 56 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (209 bp):
TTTCAAAGCCCACACAAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
AAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCA
TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCA
AAGAGCAGGATGCC
Found at i:1066868 original size:155 final size:154
Alignment explanation
Indices: 1066645--1067053 Score: 568
Period size: 155 Copynumber: 2.6 Consensus size: 154
1066635 AAGTTGGTGG
* * * * **
1066645 CACCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCTCACACTAGTTAGTGGCACTTCTTAGT
1 CACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGT
* *
1066710 CCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
66 CCTCAAAGAGCAGGACG-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
*
1066774 CAAAGAGCAGGACGCTCTCTCCTTT
130 CAAAGAGCAGGACGCCCTCTCCTTT
* * *
1066799 CACCATTTAGTCCTCAAATAGCAGGATGCTTTTTAAAGCCCACTCAAGTTTGTGGCACTTCCCAG
1 CACC-TTTAGTCCTCAAAGAGCAGGATGCTTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAG
*
1066864 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCACTTCCCAGTCCT
65 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1066929 CAAAGAGCAGGACGCCCTCTCCTTT
130 CAAAGAGCAGGACGCCCTCTCCTTT
* * *
1066954 CACCCTTGAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 CA-CCTTTAGTCCTCAAAGAGCAGGA----TGCT--TTTTAAAGCCCACACAAGTTAGTGGCACT
**
1067019 TCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTT
59 TCCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTT
1067054 CACCCTTTAG
Statistics
Matches: 226, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
154 8 0.04
155 153 0.68
156 2 0.01
159 3 0.01
161 60 0.27
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (154 bp):
CACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGT
CCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
AAAGAGCAGGACGCCCTCTCCTTT
Found at i:1066924 original size:61 final size:61
Alignment explanation
Indices: 1066829--1066953 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 61
1066819 GCAGGATGCT
* * **
1066829 TTTTAAAGCCCACTCAAGTTTGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCC
*
1066890 TTTTAAAGTCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCC
1066951 TTT
1 TTT
1066954 CACCCTTGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (61 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCC
Found at i:1067035 original size:100 final size:99
Alignment explanation
Indices: 1066862--1067137 Score: 449
Period size: 100 Copynumber: 2.8 Consensus size: 99
1066852 GGCACTTCCC
*
1066862 AGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCACTTCCCAGTC
1 AGTCCTCAAAGAGCAGGACGC-TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1066927 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTG
65 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTG
1066962 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1 AGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
*
1067027 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTT
65 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTG
*
1067062 AGTCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAGTC
1 AGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTC
1067120 CTCAAAGAGCAGGACGCC
65 CTCAAAGAGCAGGACGCC
1067138 TTTCAAAGCC
Statistics
Matches: 171, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
93 22 0.13
94 29 0.17
95 3 0.02
100 116 0.68
101 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (99 bp):
AGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
TCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTG
Found at i:1067139 original size:54 final size:54
Alignment explanation
Indices: 1067057--1067312 Score: 370
Period size: 54 Copynumber: 4.6 Consensus size: 54
1067047 CTCCTTTCAC
*
1067057 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1067111 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1067165 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1067219 -TTTCTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-T-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
1067280 CCTTCTAGTCCTCAAAGAGCAGGACGCTCTTTC
1 CCTT-TAGTCCTCAAAGAGCAGGACGC-CTTTC
1067313 CTTTCACCCT
Statistics
Matches: 183, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
53 2 0.01
54 106 0.58
55 21 0.11
56 3 0.02
57 1 0.01
60 1 0.01
61 44 0.24
62 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1067298 original size:263 final size:268
Alignment explanation
Indices: 1066962--1067528 Score: 878
Period size: 263 Copynumber: 2.1 Consensus size: 268
1066952 TTCACCCTTG
*
1066962 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
*
1067027 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
66 CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1067092 CCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
131 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
** *
1067156 TTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACG-C-C-TTTCAAAGCCCACACGAGTTAGTGG
196 TTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGCCCACACAAGTTAGTGG
1067217 CA-TTTCTC
261 CACTTT-TC
* *
1067225 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
* * *
1067289 CCTCAAAGAGCAGGACGCTCTTTCCTTTCACCCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAA
65 CCTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAA
* * *
1067354 GCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGA
130 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAA
*
1067419 GTTGGTGGCACCCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTT
195 GTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCC----TCTTTTCAAAGCCCACACAAGTT
* *
1067484 GGTGGCACTTTTT
256 AGTGGCACTTTTC
*
1067497 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1067529 CTCCTTTGTC
Statistics
Matches: 275, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
263 143 0.52
264 49 0.18
265 22 0.08
266 1 0.00
271 1 0.00
272 56 0.20
273 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (268 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
CTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
TTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGCCCACACAAGTTAGTGG
CACTTTTC
Found at i:1067372 original size:155 final size:148
Alignment explanation
Indices: 1067165--1067459 Score: 421
Period size: 155 Copynumber: 1.9 Consensus size: 148
1067155 GTTGGTGGCA
* *
1067165 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCA-TTTCTCAGTC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTT-TCAGTC
* * *
1067229 CTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
65 CTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCA
1067294 AAGAGCAGGACGCTCTTTCCTTTCAC
124 AAGAGCAGGACGC-CTTTCCTTTCAC
* * *
1067320 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCC
* *
1067385 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCTTCAAAGAGCA
66 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCA
1067450 GGACGCCTTT
131 GGACGCCTTT
1067460 TTCTTTTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
148 4 0.03
149 52 0.40
152 1 0.01
155 70 0.54
156 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (148 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCA
GGACGCCTTTCCTTTCAC
Found at i:1067390 original size:55 final size:55
Alignment explanation
Indices: 1067320--1067521 Score: 244
Period size: 55 Copynumber: 3.6 Consensus size: 55
1067310 TTCCTTTCAC
*
1067320 CCTTT-AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1067374 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1067429 CCCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1067491 CTTTTTAGTCCTCAAAGAGTAGGACGCCTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
1067522 TCCTTTTCTC
Statistics
Matches: 126, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
54 5 0.04
55 72 0.57
56 2 0.02
61 2 0.02
62 45 0.36
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1067506 original size:62 final size:61
Alignment explanation
Indices: 1067347--1067529 Score: 243
Period size: 62 Copynumber: 3.1 Consensus size: 61
1067337 GTAGGACGCC
1067347 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACG-C----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTCT
* * *
1067403 TTT-AAAGCCCACACGAGTTGGTGGCACCCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCC-TTTTCT
* * * *
1067464 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTT-CT
1067526 TTTC
1 TTTC
1067530 TCCTTTGTCC
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
55 46 0.42
56 4 0.04
61 9 0.08
62 50 0.46
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTCT
Found at i:1067542 original size:210 final size:209
Alignment explanation
Indices: 1067111--1067550 Score: 690
Period size: 210 Copynumber: 2.1 Consensus size: 209
1067101 GTTGGTGGCA
1067111 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
**
1067176 CAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCATTTCTCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCTCAGTCCTCAAAGAGCAG
*
1067241 GATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
131 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
1067306 CTCTTTCCTTTCAC
196 CTCTTTCCTTTCAC
* *
1067320 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCC
* * *
1067385 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACC-CTCCAGTCTTCAAAGAGC
65 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCT-CAGTCCTCAAAGAGC
* * * *
1067449 AGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGG
129 AGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG
*
1067514 ACGC-CTTTTCCTTTTC-T
193 ACGCTC-TTTCC-TTTCAC
1067531 CCTTT-GTCCTCAAAGAGCAG
1 CCTTTAGTCCTCAAAGAGCAG
1067551 CACACACTTC
Statistics
Matches: 212, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
209 60 0.28
210 91 0.43
211 57 0.27
212 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (209 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
CAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCTCAGTCCTCAAAGAGCAG
GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
CTCTTTCCTTTCAC
Found at i:1067750 original size:46 final size:44
Alignment explanation
Indices: 1067519--1067773 Score: 215
Period size: 42 Copynumber: 5.8 Consensus size: 44
1067509 GTAGGACGCC
* * * *
1067519 TTTTCCTTTTCT-CCTTTGTCCTCAAAGAGCAGCACACACTTC-
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* * * *
1067561 ATTCCCTTATTTCCTCTTTTGTCCTCAAAGAGCAGGACGCACTTT-A
1 TTTTCCTTTTTTCC-C-TTTGTCCTCAAAGAGCAGGACGCA-TTTCG
* * *
1067607 TTTTCC-TCTTT-CTTTTATCCTCAAAGAGCAGGACGCATTTCG
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* *
1067649 TTTTCCTTTTCT-CCTTTGTCCTCAAAGAGCAGGACGC-TCT-G
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* * *
1067690 TATTTCCTTCTTTTCCCTTCTAGTCCTCGAAGAGCAAGACACATTTCG
1 T-TTTCCTT-TTTTCCCTT-T-GTCCTCAAAGAGCAGGACGCATTTCG
*
1067738 TTTTCCTTTTTT-CCTTTTTCCTCGAAA-AGCAGGACG
1 TTTTCCTTTTTTCCCTTTGTCCTC-AAAGAGCAGGACG
1067774 TACTCTTCTT
Statistics
Matches: 171, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
41 5 0.03
42 46 0.27
43 42 0.25
44 9 0.05
45 31 0.18
46 27 0.16
47 9 0.05
48 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (44 bp):
TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
Found at i:1067753 original size:89 final size:85
Alignment explanation
Indices: 1067578--1067773 Score: 252
Period size: 89 Copynumber: 2.3 Consensus size: 85
1067568 TATTTCCTCT
* * * *
1067578 TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTATCCTCAAAGAGCAGGACGC
1 TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCCTCTTTCTTCTATCCTCAAAGAGCAAGACAC
1067643 ATTTCGTTTTCCTTTTCTCC
66 ATTTCGTTTTCCTTTTCTCC
* *
1067663 TTTGTCCTCAAAGAGCAGGACGCTCTGTA-TTTCCTTCTTTTCCCTTCTAGTCCTCGAAGAGCAA
1 TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCC-TC-TTT--CTTCTA-TCCTCAAAGAGCAA
*
1067727 GACACATTTCGTTTTCCTTTTTTCC
61 GACACATTTCGTTTTCCTTTTCTCC
*
1067752 TTTTTCCTCGAAA-AGCAGGACG
1 TTTGTCCTC-AAAGAGCAGGACG
1067774 TACTCTTCTT
Statistics
Matches: 97, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
84 5 0.05
85 29 0.30
86 3 0.03
88 5 0.05
89 52 0.54
90 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (85 bp):
TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCCTCTTTCTTCTATCCTCAAAGAGCAAGACAC
ATTTCGTTTTCCTTTTCTCC
Found at i:1068422 original size:13 final size:13
Alignment explanation
Indices: 1068404--1068429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1068394 ATTTGTAGAA
1068404 TGTATCGATACAT
1 TGTATCGATACAT
1068417 TGTATCGATACAT
1 TGTATCGATACAT
1068430 CGATCTTTGT
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:1071053 original size:158 final size:155
Alignment explanation
Indices: 1070760--1071087 Score: 439
Period size: 158 Copynumber: 2.1 Consensus size: 155
1070750 TTTTCATCTC
* * *
1070760 GGGGATACTCCAGCCTCGGTTCCATTTCCAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCTCGGTTCCATTTCCAAAACACCAATTTTACATCGGGGATACTCCAACCCC
* * * *
1070825 GTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATTGGG
66 GCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCTAAAATATGAATTTCTCATAATAGGG
*
1070890 AATACTCCAACCCCGTTA-TTTCTGA
131 AATACTCCAACCCCATTATTTTC-GA
**
1070915 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCTCGGTTCCATTTCCAAAACACCAATTT-T-AC-ATCGGGGATACTCCAAC
* * *
1070980 CCCGCTATTTTCGCGGGGATACTCCAACCACGATTTTATTT-TCAAAATATCGATTTTCT-ATAA
63 CCCGCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCT-AAAATAT-GAATTTCTCATAA
*
1071043 TCAGGG-ATACTCCAACCCTATTATTTTCGA
126 T-AGGGAATACTCCAACCCCATTATTTTCGA
1071073 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1071088 CCAATTTTTA
Statistics
Matches: 152, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
155 38 0.25
156 1 0.01
157 2 0.01
158 98 0.64
159 13 0.09
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (155 bp):
GGGGATACTCCAACCTCGGTTCCATTTCCAAAACACCAATTTTACATCGGGGATACTCCAACCCC
GCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCTAAAATATGAATTTCTCATAATAGGG
AATACTCCAACCCCATTATTTTCGA
Found at i:1071108 original size:158 final size:158
Alignment explanation
Indices: 1070760--1071133 Score: 422
Period size: 158 Copynumber: 2.4 Consensus size: 158
1070750 TTTTCATCTC
* * * ** * *
1070760 GGGGATACTCCAGCCTCGGTTCCATTTCCAAAACATCAATTT-T-TC-ATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
* * * *
1070822 CCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATT
66 CCCGCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCTAAAATATGAATTTCTCATAATA
*
1070887 GGGAATACTCCAACCCCGTTATTTCTGA
131 GGGAATACTCCAACCCCATTATTTCTGA
* *
1070915 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
* * *
1070980 CCCGCTATTTTCGCGGGGATACTCCAACCACGATTTTATTT-TCAAAATATCGATTTTCT-ATAA
66 CCCGCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCT-AAAATAT-GAATTTCTCATAA
*
1071043 TCAGGG-ATACTCCAACCCTATTATTT-TCGA
129 T-AGGGAATACTCCAACCCCATTATTTCT-GA
* * * * * *
1071073 GGGGATACTCCAACCCCAATTTT-TATTCTAGAACACCGATTTTTCATAATCGGGGGATACT
1 GGGGATACTCCAACCCCAGTTTTAT-TTCCAAAACACCAATTTCTCACAATC-GGGGATACT
1071134 TTAGCCCAGT
Statistics
Matches: 188, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
155 38 0.20
156 1 0.01
157 4 0.02
158 127 0.68
159 18 0.10
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
CCCGCTATTTTCGAGGGGATACTCCAACCACGACTTTATTTCTAAAATATGAATTTCTCATAATA
GGGAATACTCCAACCCCATTATTTCTGA
Found at i:1071113 original size:79 final size:80
Alignment explanation
Indices: 1070805--1071133 Score: 375
Period size: 79 Copynumber: 4.2 Consensus size: 80
1070795 TCAATTTTTC
* *
1070805 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
**
1070870 A-TTAATTTCTCATA
66 ACCGAATTTCTCATA
* * * * *
1070884 ATTGGGAATACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
*
1070948 CACC-AATTTCTCACA
65 CACCGAATTTCTCATA
* * *
1070963 ATCGGGGATACTCCAACCCCGCTATTTTCGCGGGGATACTCCAACCACGATTTTATTT-TCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCT-AAAA
* * *
1071027 TATCGATTTTCT-ATA
65 CACCGAATTTCTCATA
* ** * *
1071042 ATCAGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCAATTTT-TATTCTAGAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT-TTCTAAAA
*
1071106 CACCG-ATTTTTCATA
65 CACCGAATTTCTCATA
1071121 ATCGGGGGATACT
1 ATC-GGGGATACT
1071134 TTAGCCCAGT
Statistics
Matches: 208, Mismatches: 33, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
78 9 0.04
79 180 0.87
80 19 0.09
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
ACCGAATTTCTCATA
Found at i:1072239 original size:49 final size:49
Alignment explanation
Indices: 1072186--1072279 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
1072176 TAACATTGGT
*
1072186 CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAA
1 CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGAA
* *
1072235 CTTAAAGATGAAGGTGCCAATATGCTGATTTAAGGCCAACGATAT
1 CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATAT
1072280 TGGGCTTGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (49 bp):
CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGAA
Found at i:1072291 original size:88 final size:88
Alignment explanation
Indices: 1072199--1072507 Score: 458
Period size: 88 Copynumber: 3.5 Consensus size: 88
1072189 AAAGATAAAG
* * * * *
1072199 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
*
1072264 TTAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * *
1072287 GTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
* * *
1072352 TCAAGGCAAATGATATTGAGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * *
1072375 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
*
1072439 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
*
1072462 GTGCCAATGTGCTGAGTCAAGGCCAGTGACATTGGACTTAAAGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATG
1072508 GTTAAGGTGC
Statistics
Matches: 197, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 79 0.40
88 118 0.60
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGGCTT
Found at i:1072321 original size:39 final size:39
Alignment explanation
Indices: 1072248--1072496 Score: 165
Period size: 39 Copynumber: 5.9 Consensus size: 39
1072238 AAAGATGAAG
* ** *
1072248 GTGCCAATATGCTGATTTAAGGCCAACGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
1072287 GTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGC-T-----T
* * * *
1072332 AAAGGTGCCAATATGCTGATTCAAGGCAAATGATATTGAGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
1072375 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* *
1072414 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* *
1072462 GTGCCAATGTGCTGAGTCAAGGCCAGTGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGG
1072497 ACTTAAAGAT
Statistics
Matches: 161, Mismatches: 30, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
39 93 0.58
40 1 0.01
43 1 0.01
45 1 0.01
48 35 0.22
49 30 0.19
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
Found at i:1072357 original size:137 final size:137
Alignment explanation
Indices: 1072111--1072358 Score: 424
Period size: 137 Copynumber: 1.8 Consensus size: 137
1072101 CGTCCCGACA
* * * *
1072111 GTGCCAATATGTTGATTCAAGGTCAGCGATATTAGACTTGTGCCAATGTACTGATTCAAGGCTAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
1072176 TAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
66 TAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
1072241 GATGAAG
131 GATGAAG
* * *
1072248 GTGCCAATATGCTGATTTAAGGCCAACGATATTGGGCTTGTGCCAATGTACTGATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
*
1072313 TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
66 TAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
1072359 AAATGATATT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 103 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (137 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
TAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
GATGAAG
Found at i:1072641 original size:33 final size:31
Alignment explanation
Indices: 1072554--1073230 Score: 521
Period size: 33 Copynumber: 21.1 Consensus size: 31
1072544 AAGGTATGGG
*
1072554 CTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGA
1 CTTAAAA--GAAAAG-GTGCCACGGAGTTGTGGA
* *
1072588 CATAAAAAGAAAAGGTGCCACAGAGTTGTGGA
1 C-TTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* *
1072620 CTTAAAAGGAATAAGGTGCCACAGAGTTATGGA
1 CTTAAAA-GAA-AAGGTGCCACGGAGTTGTGGA
* *
1072653 CTTAAAAGGAAAAGGGTACCACAGAGTTGTGGA
1 CTTAAAA-GAAAA-GGTGCCACGGAGTTGTGGA
* *
1072686 CTTAAAAGGAAAAAGAATGCCACGGAGTTG-GGG
1 CTTAAAA-G-AAAAG-GTGCCACGGAGTTGTGGA
1072719 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1 C-TT-AAAAG-AAAAGGTGCCACGGAGTTGTGGA
*
1072753 CTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAA-G-AAAAGGTGCCACGGAGTTGTGGA
*
1072786 CTTAAAAG----GGTGCCACGGAGTTATGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* *
1072813 CTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGG
1 CTTAAAA-G-AAAAG-GTGCCACGGAGTTGTGGA
*
1072847 CTTTAAAAAAAAAGGTGCCACGGAGTTGTGGA
1 C-TTAAAAGAAAAGGTGCCACGGAGTTGTGGA
*
1072879 CTTAAAAGGAAAATGATGCCACGGAGTTGTGGA
1 CTTAAAA-GAAAA-GGTGCCACGGAGTTGTGGA
*
1072912 CTTAAAAG----GGTGCCACGGAGTTGTTGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
1072939 CTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
1 CTT-AAAAG-AAAAG-GTGCCACGGAGTTGTGGA
1072973 CTTAAAAGAAAAAGGTGCCACAGG-GTTGTGGA
1 CTTAAAAG-AAAAGGTGCCAC-GGAGTTGTGGA
* * *
1073005 CTTAAAAGGAAAAAGATGCCACTGAGTCGTGGA
1 CTTAAAA-G-AAAAGGTGCCACGGAGTTGTGGA
* * *
1073038 CTTTAAAGAAAAGGATGCCACTGAGTCGTGGA
1 CTTAAAAGAAAAGG-TGCCACGGAGTTGTGGA
** ** **
1073070 CTTTTAAGAAATAGGATGCCACTAAGTCATGGA
1 CTTAAAAGAAA-AGG-TGCCACGGAGTTGTGGA
** * * *
1073103 CTTTGAAGAAAAGATGCCACAGAGTCGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* * * * * * *
1073134 CTTTGAGAAG-AGAGATGCCACAGCGTCGTGAA
1 C-TT-AAAAGAAAAGGTGCCACGGAGTTGTGGA
** * *
1073166 CTTTGAAGAAAAGATGCCACAGAGTTGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
** * ** *
1073197 CTTTGAAGAAAAGATGCCATAGAGTCGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
1073228 CTT
1 CTT
1073231 TGAGAAAAGA
Statistics
Matches: 557, Mismatches: 51, Indels: 73
0.82 0.07 0.11
Matches are distributed among these distances:
27 44 0.08
28 6 0.01
30 4 0.01
31 83 0.15
32 124 0.22
33 217 0.39
34 64 0.11
35 15 0.03
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (31 bp):
CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
Found at i:1072683 original size:66 final size:65
Alignment explanation
Indices: 1072554--1073136 Score: 584
Period size: 66 Copynumber: 9.0 Consensus size: 65
1072544 AAGGTATGGG
* * *
1072554 CTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGACATAAAAAGAAAA-GGTGCCACAGAGTTGTG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAGGGTGCCACAGAGTTGTG
1072618 GA
64 GA
* * * *
1072620 CTTAAAAGGAATAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGGGTACCACAGAGTTGTGG
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GAAAAGGGTGCCACAGAGTTGTGG
1072685 A
65 A
* * * *
1072686 CTTAAAAGGAAAAAGAATGCCACGGAGTTG-GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAGGGTGCCACAGAGTTGT
1072750 GGA
63 GGA
* * *
1072753 CTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT-----AAAAGGGTGCCACGGAGTTATGGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGGA
* * * *
1072813 CTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA-AAAAAGGTGCCACGGAGTTGTG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAGGGTGCCACAGAGTTGTG
1072877 GA
64 GA
* * * *
1072879 CTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTT-----AAAAGGGTGCCACGGAGTTGTTGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGGA
* * *
1072939 CTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGGGTTGTGG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGG
1073004 A
65 A
* * * * * * *
1073005 CTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGGA
** * ** ** ** * *
1073070 CTTTTAA-GAAATAGGATGCCACTAAGTCATGGACTTTGAAGAAAA-GATGCCACAGAGTCGTGG
1 CTTAAAAGGAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGG
1073133 A
65 A
1073134 CTT
1 CTT
1073137 TGAGAAGAGA
Statistics
Matches: 444, Mismatches: 54, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
60 72 0.16
61 36 0.08
62 2 0.00
64 34 0.08
65 109 0.25
66 134 0.30
67 53 0.12
68 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (65 bp):
CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGGTGCCACAGAGTTGTGGA
Found at i:1072801 original size:60 final size:60
Alignment explanation
Indices: 1072729--1073045 Score: 411
Period size: 60 Copynumber: 5.1 Consensus size: 60
1072719 CTTTAAAAAG
*
1072729 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * *
1072789 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT
* *
1072851 AAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTT
1 ----AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* *
1072915 AAAAGGGTGCCACGGAGTTGTTGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* *
1072976 AAAAGAAAAAGGTGCCACAGG-GTTGTGGACTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACT
1 AAAAG-----GGTGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
1073040 T
60 T
*
1073041 TAAAG
1 AAAAG
1073046 AAAAGGATGC
Statistics
Matches: 226, Mismatches: 18, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
60 74 0.33
61 41 0.18
62 2 0.01
64 2 0.01
65 38 0.17
66 67 0.30
67 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
Found at i:1072900 original size:126 final size:126
Alignment explanation
Indices: 1072548--1073045 Score: 662
Period size: 126 Copynumber: 3.9 Consensus size: 126
1072538 GCCACAAAGG
* * * * *
1072548 TATGGGCTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGACATAAAA-AGAAAAGGTGCCACAGA
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGA-AAAAGGTGCCACGGA
* * * * * *
1072612 GTTGTGGACTTAAAAGGAATAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGGGTACCACAG
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT------AAAAGGGTGCCACGG
1072677 AGT
124 AGT
* * *
1072680 TGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTG-GGGCTTTAAAAAGAAAAAGGTGCCACGG
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACGG
1072744 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
64 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
1072807 TATGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA-AAAAAGGTGCCACGGA
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAGGTGCCACGGA
*
1072871 GTTGTGGACTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
1072933 TGTTGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGG-
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCAC-GGA
* * *
1072997 GTTGTGGACTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACTTTAAAG
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
1073046 AAAAGGATGC
Statistics
Matches: 333, Mismatches: 27, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
125 6 0.02
126 171 0.51
127 55 0.17
128 7 0.02
131 3 0.01
132 32 0.10
133 58 0.17
134 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (126 bp):
TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAG
TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:1073122 original size:31 final size:32
Alignment explanation
Indices: 1072949--1073240 Score: 291
Period size: 31 Copynumber: 9.2 Consensus size: 32
1072939 CTTAAAAAGA
* * **
1072949 AAAAGAGTGCCAC-GGAGTTGTGGACTTAAAAG
1 AAAAGA-TGCCACTAGAGTCGTGGACTTTGAAG
* * * **
1072981 AAAAAGGTGCCAC-AGGGTTGTGGACTTAAAAGG
1 -AAAAGATGCCACTAGAGTCGTGGACTTTGAA-G
*
1073014 AAAAAGATGCCACT-GAGTCGTGGACTTTAAAG
1 -AAAAGATGCCACTAGAGTCGTGGACTTTGAAG
*
1073046 AAAAGGATGCCACT-GAGTCGTGGACTTTTAAG
1 AAAA-GATGCCACTAGAGTCGTGGACTTTGAAG
*
1073078 AAATAGGATGCCACTA-AGTCATGGACTTTGAAG
1 AAA-A-GATGCCACTAGAGTCGTGGACTTTGAAG
1073111 AAAAGATGCCAC-AGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTAGAGTCGTGGACTTTGAAG
* *
1073141 AAGAGAGATGCCAC-AGCGTCGTGAACTTTGAAG
1 AA-A-AGATGCCACTAGAGTCGTGGACTTTGAAG
*
1073174 AAAAGATGCCAC-AGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACTAGAGTCGTGGACTTTGAAG
1073205 AAAAGATGCCA-TAGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTAGAGTCGTGGACTTTGAAG
1073235 AAAAGA
1 AAAAGA
1073241 GATTTGAAGA
Statistics
Matches: 232, Mismatches: 17, Indels: 23
0.85 0.06 0.08
Matches are distributed among these distances:
30 13 0.06
31 77 0.33
32 77 0.33
33 65 0.28
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (32 bp):
AAAAGATGCCACTAGAGTCGTGGACTTTGAAG
Found at i:1074524 original size:14 final size:14
Alignment explanation
Indices: 1074505--1074564 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
1074495 CTTTGCACTC
1074505 TTTTTTTGTTTGTT
1 TTTTTTTGTTTGTT
1074519 TTTTTTTGTTT-TT
1 TTTTTTTGTTTGTT
1074532 GTTTTTGTCT-TTTGTT
1 -TTTTT-T-TGTTTGTT
*
1074548 TTTTTTTGTGTGTT
1 TTTTTTTGTTTGTT
1074562 TTT
1 TTT
1074565 ACTTTTGACT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 25 0.62
15 9 0.22
16 3 0.08
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (14 bp):
TTTTTTTGTTTGTT
Found at i:1074532 original size:6 final size:6
Alignment explanation
Indices: 1074513--1074554 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
1074503 TCTTTTTTTG
1074513 TTTG-T TTT-TT TTTGTT TTTGTT TTTGTCT TTTGTT TTT-TT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTTGTT TTTGTT TT
1074555 GTGTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 11 0.32
6 17 0.50
7 6 0.18
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (6 bp):
TTTGTT
Found at i:1074571 original size:33 final size:33
Alignment explanation
Indices: 1074508--1074577 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1074498 TGCACTCTTT
* ** *
1074508 TTTTGTTTGTTTTTTTTTGTTTTTGTTTTTGTC
1 TTTTGTTTGTTTTTTTGTGTTTTTACTTTTGAC
1074541 TTTTGTTT-TTTTTTGTGTGTTTTTACTTTTGAC
1 TTTTGTTTGTTTTTT-TGTGTTTTTACTTTTGAC
1074574 TTTT
1 TTTT
1074578 TCATCATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.03, C:0.04, G:0.14, T:0.79
Consensus pattern (33 bp):
TTTTGTTTGTTTTTTTGTGTTTTTACTTTTGAC
Found at i:1077325 original size:20 final size:20
Alignment explanation
Indices: 1077300--1077340 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1077290 GAGATGATAT
1077300 AAGTGCAAGCTATGGACGAC
1 AAGTGCAAGCTATGGACGAC
1077320 AAGTGCAAGCTATGGACGAC
1 AAGTGCAAGCTATGGACGAC
1077340 A
1 A
1077341 CAAGGGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.15
Consensus pattern (20 bp):
AAGTGCAAGCTATGGACGAC
Found at i:1080063 original size:51 final size:51
Alignment explanation
Indices: 1079991--1080098 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
1079981 ACAGGGTTGG
* * *
1079991 AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTCGA
1 AGTATCCCTGATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
* * *
1080042 AGTAT-CCTCGATTGTAAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGG
1 AGTATCCCT-GATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
1080093 AGTATC
1 AGTATC
1080099 ACCTCAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
50 3 0.06
51 46 0.94
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTATCCCTGATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
Found at i:1082602 original size:20 final size:20
Alignment explanation
Indices: 1082577--1082651 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
1082567 TGTATCGATA
*
1082577 CAATGTACCGATACAATGAG
1 CAATGTATCGATACAATGAG
1082597 CAATGTATCGATACAATGAG
1 CAATGTATCGATACAATGAG
* *
1082617 CCATGTATCAATACAATGCA-
1 CAATGTATCGATACAATG-AG
*
1082637 AAATGTATCGATACA
1 CAATGTATCGATACA
1082652 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (20 bp):
CAATGTATCGATACAATGAG
Found at i:1082613 original size:13 final size:13
Alignment explanation
Indices: 1082565--1082594 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1082555 AAAATGCCTG
*
1082565 AATGTATCGATAC
1 AATGTACCGATAC
1082578 AATGTACCGATAC
1 AATGTACCGATAC
1082591 AATG
1 AATG
1082595 AGCAATGTAT
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:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGTACCGATAC
Done.