Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 295 of 373
Found at i:99958140 original size:15 final size:15
Alignment explanation
Indices: 99958120--99958151 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99958110 TATTTCAGTA
*
99958120 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
99958135 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
99958150 TT
1 TT
99958152 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:99967182 original size:41 final size:41
Alignment explanation
Indices: 99967125--99967206 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
99967115 TTGCTGGGGC
*
99967125 AGCAGAATATCCTCTTACATCCCTGGGCCTCTTGAACCTAA
1 AGCAGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAA
* *
99967166 AGCAGAAGATCCTCTTACATCTCTGGGTCTCTTGAACCTAA
1 AGCAGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAA
99967207 CTTTAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (41 bp):
AGCAGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAA
Found at i:99969210 original size:46 final size:44
Alignment explanation
Indices: 99969129--99969247 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 44
99969119 CGAGAGCTAG
* * * *
99969129 TGTAAGACGTGTTTGAGACATGCATTGGCCTCGAGATGTAAGACAC
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT--GACAC
* * *
99969175 TGTAAGACATGTCTGGGACATGCATCGG-TTACGAGATGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTGACAC
* *
99969219 TGCAAGACATGTCTGGGATATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
99969248 GCGTATATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
44 29 0.47
45 1 0.02
46 32 0.52
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTGACAC
Found at i:99976938 original size:46 final size:46
Alignment explanation
Indices: 99976822--99977036 Score: 147
Period size: 46 Copynumber: 4.7 Consensus size: 46
99976812 AGTTATAGTG
* * * * *
99976822 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCA-C-ATTATGAA
1 AGCCAGTGTAAGACTTGTCTGGGACATGCATCGG-CATCGA-GACGTA
*
99976868 ATGCCAGTGTAAGACATT-TCTGGGACATGCATCGGCATTGAGACG-A
1 A-GCCAGTGTAAGAC-TTGTCTGGGACATGCATCGGCATCGAGACGTA
* * * * *
99976914 GAGCTAGTGTAAGACTTGTTTGGGACATGTATCGGCCTCGAGATGTA
1 -AGCCAGTGTAAGACTTGTCTGGGACATGCATCGGCATCGAGACGTA
* * * * *
99976961 AGCCAGTTTCAGACATGTCTGGGACATGCATCGG-TTACGAGATGT-
1 AGCCAGTGTAAGACTTGTCTGGGACATGCATCGGCAT-CGAGACGTA
* * * *
99977006 -GCTAGTGTAAGACATGTCTAGGATATGCATC
1 AGCCAGTGTAAGACTTGTCTGGGACATGCATC
99977037 AGCACGGATA
Statistics
Matches: 138, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 26 0.19
45 3 0.02
46 74 0.54
47 33 0.24
48 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (46 bp):
AGCCAGTGTAAGACTTGTCTGGGACATGCATCGGCATCGAGACGTA
Found at i:99980995 original size:17 final size:17
Alignment explanation
Indices: 99980955--99980998 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
99980945 AATGATTTGT
*
99980955 GATTGAATTGTTATTGC
1 GATTGATTTGTTATTGC
99980972 GATTGATTTGTTATTGC
1 GATTGATTTGTTATTGC
99980989 GATTGATTTG
1 GATTGATTTG
99980999 AATTCAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (17 bp):
GATTGATTTGTTATTGC
Found at i:99981551 original size:18 final size:18
Alignment explanation
Indices: 99981528--99981563 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
99981518 AAATGAACCA
99981528 AAGGTTCATGAATAGTTG
1 AAGGTTCATGAATAGTTG
99981546 AAGGTTCATGAATAGTTG
1 AAGGTTCATGAATAGTTG
99981564 GTAATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
AAGGTTCATGAATAGTTG
Found at i:99981684 original size:22 final size:22
Alignment explanation
Indices: 99981636--99981685 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
99981626 TTGGTACGAA
*
99981636 TTATATGTATGATTTATCAATT
1 TTATATGCATGATTTATCAATT
* *
99981658 ATATATGCATG-TTTATGATATT
1 TTATATGCATGATTTATCA-ATT
99981680 TTATAT
1 TTATAT
99981686 TTGCTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (22 bp):
TTATATGCATGATTTATCAATT
Found at i:99988850 original size:18 final size:18
Alignment explanation
Indices: 99988827--99988862 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
99988817 AGATGAACCA
99988827 AAGGTTCATGAATAGTTG
1 AAGGTTCATGAATAGTTG
99988845 AAGGTTCATGAATAGTTG
1 AAGGTTCATGAATAGTTG
99988863 GTAATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
AAGGTTCATGAATAGTTG
Found at i:99994295 original size:9 final size:9
Alignment explanation
Indices: 99994281--99994310 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
99994271 ATATGGTGGC
99994281 TTTTATTTT
1 TTTTATTTT
99994290 TTTTA-TTT
1 TTTTATTTT
99994298 TTTTATTTT
1 TTTTATTTT
99994307 TTTT
1 TTTT
99994311 CTTTCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:99998705 original size:29 final size:29
Alignment explanation
Indices: 99998663--99998718 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
99998653 ACTGCAAGCC
99998663 GTCGTAACGGATTAAAATAGTTTCATGCA
1 GTCGTAACGGATTAAAATAGTTTCATGCA
99998692 GTCGTAACGGATTAAAATAGTTTCATG
1 GTCGTAACGGATTAAAATAGTTTCATG
99998719 TTCTTTTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (29 bp):
GTCGTAACGGATTAAAATAGTTTCATGCA
Found at i:100002588 original size:7 final size:7
Alignment explanation
Indices: 100002568--100002617 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
100002558 ATACTTAACA
100002568 TAGTCATT
1 TAGT-ATT
*
100002576 TTGTATT
1 TAGTATT
100002583 TAGTATT
1 TAGTATT
100002590 TAGTATT
1 TAGTATT
100002597 TAGTATT
1 TAGTATT
100002604 TAGTATT
1 TAGTATT
100002611 TAGTATT
1 TAGTATT
100002618 ATGTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (7 bp):
TAGTATT
Found at i:100002597 original size:21 final size:21
Alignment explanation
Indices: 100002568--100002623 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
100002558 ATACTTAACA
100002568 TAGTCATTTTGTATTTAGTATT
1 TAGT-ATTTTGTATTTAGTATT
*
100002590 TAGTATTTAGTATTTAGTATT
1 TAGTATTTTGTATTTAGTATT
*
100002611 TAGTATTATGTAT
1 TAGTATTTTGTAT
100002624 ATAACTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (21 bp):
TAGTATTTTGTATTTAGTATT
Found at i:100009360 original size:46 final size:45
Alignment explanation
Indices: 100009308--100009483 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
100009298 TATTTGGGCA
*
100009308 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
100009354 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
100009399 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATG
* *
100009447 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCCCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100009484 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:100009463 original size:93 final size:93
Alignment explanation
Indices: 100009304--100009475 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
100009294 AGGATATTTG
*
100009304 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAG
*
100009369 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* *
100009397 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAG
100009462 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
100009476 CCTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:100013035 original size:126 final size:125
Alignment explanation
Indices: 100012802--100013196 Score: 578
Period size: 126 Copynumber: 3.1 Consensus size: 125
100012792 GGCCAAGCAG
*
100012802 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTACATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* *
100012867 CTGCTTGAAGCTTTTTTTACACTATTTTTCCAGAA-CTGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGC-GTTTTTACACTATTTTTTCAGAACCT-TCTTCTCAAAATTATTTTTTCAA
* * * * *
100012928 GAACTACTGTAGAAAAAGAGCATCCACATGGGAGTTTTTTTCAGTAATTTTACTGACAGCGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* * *
100012993 CTGCTTGAAGCGGTTTTTACACTATTTTTTCAAAACCTTCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGC-GTTTTTACACTATTTTTTCAGAACCTTCTTCTCAAAATTATTTTTTCAA
* * *
100013054 GAACTACTGTAAAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATA
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* *
100013119 CTGCTTGAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC-A
66 CTGCTTGAAGCGTTTTT-ACACTATTTTTTCAGAACCTTCTTCTCAAAATTATTTTTTCAA
*
100013179 GAAACTACTATAGAAAAA
1 G-AACTACTGTAGAAAAA
100013197 AAAAACAAAA
Statistics
Matches: 239, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
125 7 0.03
126 230 0.96
127 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTACACTATTTTTTCAGAACCTTCTTCTCAAAATTATTTTTTCAA
Found at i:100013334 original size:34 final size:34
Alignment explanation
Indices: 100013296--100013419 Score: 121
Period size: 34 Copynumber: 3.7 Consensus size: 34
100013286 AAAATTATTT
**
100013296 TTAAAAATTTTAAACCCTAATTTAATTAATTTTC
1 TTAAAAATCCTAAACCCTAATTTAATTAATTTTC
* * *
100013330 TTAAAAATCCTAAACCCCAGTTTAATTAATTTAC
1 TTAAAAATCCTAAACCCTAATTTAATTAATTTTC
* *
100013364 TT-CAAA-CCTTAAA-ACTAATTTAATTAATTTT-
1 TTAAAAATCC-TAAACCCTAATTTAATTAATTTTC
* *
100013395 TTAAAAAATTCTAAACCCTGATTTA
1 TT-AAAAATCCTAAACCCTAATTTA
100013420 TTTTTTAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
31 2 0.03
32 16 0.23
33 14 0.20
34 39 0.55
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (34 bp):
TTAAAAATCCTAAACCCTAATTTAATTAATTTTC
Found at i:100013980 original size:13 final size:13
Alignment explanation
Indices: 100013954--100013994 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
100013944 GACATGTGAC
100013954 AAAAAAATTATTA
1 AAAAAAATTATTA
100013967 AAAATAAATT-TTA
1 AAAA-AAATTATTA
*
100013980 ATAAAAATTATTA
1 AAAAAAATTATTA
100013993 AA
1 AA
100013995 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 5 0.21
13 14 0.58
14 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAAAAATTATTA
Found at i:100014747 original size:11 final size:11
Alignment explanation
Indices: 100014719--100014848 Score: 76
Period size: 11 Copynumber: 12.4 Consensus size: 11
100014709 AAATTTCAAA
*
100014719 TTTTTTATAAA
1 TTTTTTATAAT
* *
100014730 TTCTTTACAAT
1 TTTTTTATAAT
100014741 TTTTTTAT-AT
1 TTTTTTATAAT
100014751 TTTTTTATAAT
1 TTTTTTATAAT
*
100014762 TTTTTTCT-A-
1 TTTTTTATAAT
*
100014771 TTTTTAATAAT
1 TTTTTTATAAT
*
100014782 TCTTTTAT-AT
1 TTTTTTATAAT
*
100014792 TTTTCTAT-AT
1 TTTTTTATAAT
* *
100014802 ACTTTTTATAAA
1 -TTTTTTATAAT
* *
100014814 ATTTTAAT-AT
1 TTTTTTATAAT
* *
100014824 TTTTCTATAAC
1 TTTTTTATAAT
*
100014835 TTTTAT-TAAT
1 TTTTTTATAAT
100014845 TTTT
1 TTTT
100014849 ATTTTTTTAT
Statistics
Matches: 89, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
9 6 0.07
10 35 0.39
11 47 0.53
12 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:100014752 original size:10 final size:10
Alignment explanation
Indices: 100014739--100014811 Score: 67
Period size: 10 Copynumber: 7.1 Consensus size: 10
100014729 ATTCTTTACA
100014739 ATTTTTTTAT
1 ATTTTTTTAT
100014749 ATTTTTTTAT
1 ATTTTTTTAT
*
100014759 AATTTTTTTCT
1 -ATTTTTTTAT
*
100014770 A-TTTTTAAT
1 ATTTTTTTAT
*
100014779 AATTCTTTTAT
1 -ATTTTTTTAT
*
100014790 ATTTTTCTAT
1 ATTTTTTTAT
*
100014800 ATACTTTTTAT
1 AT-TTTTTTAT
100014811 A
1 A
100014812 AAATTTTAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
9 6 0.12
10 22 0.44
11 22 0.44
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:100014757 original size:21 final size:21
Alignment explanation
Indices: 100014719--100014800 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
100014709 AAATTTCAAA
* * *
100014719 TTTTTTATAAATTCTTTACAAT
1 TTTTTTAT-ATTTTTTTATAAT
100014741 TTTTTTATATTTTTTTATAAT
1 TTTTTTATATTTTTTTATAAT
* *
100014762 TTTTTTCTA-TTTTTAATAAT
1 TTTTTTATATTTTTTTATAAT
* *
100014782 TCTTTTATATTTTTCTATA
1 TTTTTTATATTTTTTTATA
100014801 TACTTTTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
20 17 0.34
21 25 0.50
22 8 0.16
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTATATTTTTTTATAAT
Found at i:100014766 original size:20 final size:20
Alignment explanation
Indices: 100014717--100014811 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 20
100014707 AAAAATTTCA
* * *
100014717 AATTTTTTATAAATTCTTTAC
1 AATTTTTTAT-ATTTTTTTAT
100014738 AATTTTTTTATATTTTTTTAT
1 AA-TTTTTTATATTTTTTTAT
* *
100014759 AATTTTTT-TCTATTTTTAAT
1 AATTTTTTATAT-TTTTTTAT
*
100014779 AATTCTTTTATATTTTTCTAT
1 AATT-TTTTATATTTTTTTAT
*
100014800 ATACTTTTTATA
1 A-ATTTTTTATA
100014812 AAATTTTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.03
20 17 0.28
21 29 0.48
22 12 0.20
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTTTTTATATTTTTTTAT
Found at i:100018119 original size:32 final size:32
Alignment explanation
Indices: 100018083--100018177 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 32
100018073 CAATTGAATC
*
100018083 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
100018115 TCCGTACATACCTGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
* * * *
100018147 TCCGTAGATACCTGTATCATCTCGTACCAAT
1 TCCGTACATACCTGTACCATATTGTACCAAT
100018178 CACATACTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTGTACCAATT
Found at i:100018289 original size:28 final size:28
Alignment explanation
Indices: 100018256--100018354 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
100018246 TGATACCTTT
* *
100018256 CACACTAAGTGTCGTTCTGGATGTTTCG
1 CACACTAAGTGCCATTCTGGATGTTTCG
* * * **
100018284 CACACTAAGTGCCATCCTCGTTACTTCG
1 CACACTAAGTGCCATTCTGGATGTTTCG
*
100018312 CACACTAAGTGCCATTCTGGATGTATCG
1 CACACTAAGTGCCATTCTGGATGTTTCG
100018340 CACACTAAGTGCCAT
1 CACACTAAGTGCCAT
100018355 CCCCGATACT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTGGATGTTTCG
Found at i:100018317 original size:56 final size:56
Alignment explanation
Indices: 100018256--100018370 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 56
100018246 TGATACCTTT
* * * * *
100018256 CACACTAAGTGTCGTTCTGGATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCG
1 CACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTCG
100018312 CACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTCG
1 CACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTCG
100018368 CAC
1 CAC
100018371 GTTAAATGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (56 bp):
CACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTCG
Found at i:100018368 original size:28 final size:28
Alignment explanation
Indices: 100018280--100018370 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
100018270 TTCTGGATGT
*
100018280 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * *
100018308 TTCGCACACTAAGTGCCATTCTGGAT-G
1 TTCGCACACTAAGTGCCATCCTCGATAC
*
100018335 TATCGCACACTAAGTGCCATCCCCGATAC
1 T-TCGCACACTAAGTGCCATCCTCGATAC
100018364 TTCGCAC
1 TTCGCAC
100018371 GTTAAATGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.02
28 51 0.96
29 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.26
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:100024486 original size:39 final size:39
Alignment explanation
Indices: 100024441--100024533 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
100024431 GAGATTGGAA
*
100024441 ATATCCGGACATGAGATCC-TAGGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCA-GGCTATATGCTAGAAAT
100024480 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
*
100024519 ATATCCGGACTTGAG
1 ATATCCGGACATGAG
100024534 GTCTGCAGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:100026501 original size:22 final size:22
Alignment explanation
Indices: 100026473--100026594 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
100026463 TTCCACATCC
100026473 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
100026495 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
100026519 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
100026542 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
100026566 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
100026589 ATCACA
1 ATCACA
100026595 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:100026508 original size:47 final size:47
Alignment explanation
Indices: 100026445--100026693 Score: 376
Period size: 47 Copynumber: 5.3 Consensus size: 47
100026435 CCCTTCGGGA
* * *
100026445 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
100026492 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
100026539 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
100026586 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
100026633 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
100026680 CTTATCTCATATAT
1 CTTATCACATATAT
100026694 GCATNNNNNN
Statistics
Matches: 189, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.01
47 188 0.99
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:100037612 original size:3 final size:3
Alignment explanation
Indices: 100037606--100037652 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
100037596 GCTCTGTTGT
100037606 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
100037653 TCATTTTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:100055996 original size:17 final size:17
Alignment explanation
Indices: 100055974--100056007 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100055964 CAACACCATT
100055974 TATACTTGAATAAGCAA
1 TATACTTGAATAAGCAA
100055991 TATACTTGAATAAGCAA
1 TATACTTGAATAAGCAA
100056008 CAAACATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
TATACTTGAATAAGCAA
Found at i:100065660 original size:27 final size:25
Alignment explanation
Indices: 100065630--100065716 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 25
100065620 AGAGATGGAA
100065630 GCCTTTATAGCAAATCTTGTAAAGAAC
1 GCCTTTATAGCAAA-CTT-TAAAGAAC
* * *
100065657 GCCTTTGTAGCACACTTTAAAGAAT
1 GCCTTTATAGCAAACTTTAAAGAAC
*
100065682 GACTCTTATAG-AAACCTTCTAAAGAAAAC
1 GCCT-TTATAGCAAA-CTT-TAAAG--AAC
100065711 GCCTTT
1 GCCTTT
100065717 TTGGCGGACC
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
25 12 0.26
26 11 0.23
27 17 0.36
28 2 0.04
29 5 0.11
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (25 bp):
GCCTTTATAGCAAACTTTAAAGAAC
Found at i:100068715 original size:15 final size:15
Alignment explanation
Indices: 100068695--100068726 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100068685 TACTACCAGA
100068695 CTTCAATTCACGCGT
1 CTTCAATTCACGCGT
*
100068710 CTTCAATTCATGCGT
1 CTTCAATTCACGCGT
100068725 CT
1 CT
100068727 GCTGTGACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (15 bp):
CTTCAATTCACGCGT
Found at i:100069923 original size:13 final size:13
Alignment explanation
Indices: 100069892--100069944 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
100069882 CTTAATCCTA
100069892 AAATAAT-AAAAT
1 AAATAATAAAAAT
100069904 AAA-AATAAAAAT
1 AAATAATAAAAAT
*
100069916 AAATAATAAAACT
1 AAATAATAAAAAT
*
100069929 AAATAAAATAAAAT
1 AAATAATA-AAAAT
100069943 AA
1 AA
100069945 TATATTCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 3 0.09
12 11 0.31
13 15 0.43
14 6 0.17
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:100069936 original size:23 final size:23
Alignment explanation
Indices: 100069890--100069946 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 23
100069880 AGCTTAATCC
100069890 TAAAATAATAAAATAAAAATAAAA
1 TAAAATAATAAAAT-AAAATAAAA
100069914 -ATAAATAATAAAACT-AAATAAAA
1 TA-AAATAATAAAA-TAAAATAAAA
100069937 TAAAATAATA
1 TAAAATAATA
100069947 TATTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 17 0.57
24 12 0.40
25 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
TAAAATAATAAAATAAAATAAAA
Found at i:100069944 original size:10 final size:11
Alignment explanation
Indices: 100069896--100069941 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
100069886 ATCCTAAAAT
100069896 AATAAAATAAA
1 AATAAAATAAA
100069907 AATAAAAATAAA
1 AAT-AAAATAAA
100069919 TAATAAAACT--A
1 -AATAAAA-TAAA
100069930 AATAAAATAAA
1 AATAAAATAAA
100069941 A
1 A
100069942 TAATATATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
9 1 0.03
10 7 0.23
11 6 0.20
12 12 0.40
13 4 0.13
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:100069946 original size:13 final size:13
Alignment explanation
Indices: 100069890--100069944 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 13
100069880 AGCTTAATCC
100069890 TAAAATAATAAAA
1 TAAAATAATAAAA
100069903 T-AAA-AATAAAA
1 TAAAATAATAAAA
100069914 -ATAAATAATAAAA
1 TA-AAATAATAAAA
*
100069927 CTAAATAAAATAAAA
1 -TAAA-ATAATAAAA
100069942 TAA
1 TAA
100069945 TATATTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
11 7 0.20
12 6 0.17
13 8 0.23
14 5 0.14
15 9 0.26
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:100073295 original size:27 final size:26
Alignment explanation
Indices: 100073264--100073314 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
100073254 GGGTCGGCTA
*
100073264 AGGGGTGTGACGGCGGTGGTCGACGAT
1 AGGGGTGTGACAGCGGTGG-CGACGAT
100073291 AGGGGTGTGACAGCGGTGGCGACG
1 AGGGGTGTGACAGCGGTGGCGACG
100073315 TGGCTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.16, C:0.16, G:0.53, T:0.16
Consensus pattern (26 bp):
AGGGGTGTGACAGCGGTGGCGACGAT
Found at i:100080395 original size:5 final size:5
Alignment explanation
Indices: 100080385--100080432 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
100080375 ATCCTAAAAT
100080385 AATAA AATAA AATAAA AATAAA TAATAA AACT-A AATAA AATAA AATAA
1 AATAA AATAA AAT-AA AAT-AA -AATAA AA-TAA AATAA AATAA AATAA
100080433 TATCTTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 24 0.62
6 11 0.28
7 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:100080411 original size:23 final size:23
Alignment explanation
Indices: 100080379--100080434 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
100080369 AGCTTAATCC
100080379 TAAAATAATAAAA-TAAAATAAAA
1 TAAAATAATAAAACT-AAATAAAA
100080402 -ATAAATAATAAAACTAAATAAAA
1 TA-AAATAATAAAACTAAATAAAA
100080425 TAAAATAATA
1 TAAAATAATA
100080435 TCTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.03
23 27 0.90
24 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
TAAAATAATAAAACTAAATAAAA
Found at i:100090994 original size:60 final size:60
Alignment explanation
Indices: 100090873--100090995 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 60
100090863 CCTACTATGG
* * ** * *
100090873 TTTTTTTTATCACCCAATTATGATTTTTTTTAGTTTGGTCACTCAATTATGGATTTGTTT
1 TTTTTTTTACCACCCAACTATGATTTTTTTTAAATTGATCACTCAATAATGGATTTGTTT
* * * *
100090933 TTTTTTTTACCACTCAACTAT-ATTTTTTTTAAATTGATCATTCAACTAATTGAGTT-TTT
1 TTTTTTTTACCACCCAACTATGATTTTTTTTAAATTGATCACTCAA-TAATGGATTTGTTT
100090992 TTTT
1 TTTT
100090996 GTTCATTTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 27 0.52
60 25 0.48
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (60 bp):
TTTTTTTTACCACCCAACTATGATTTTTTTTAAATTGATCACTCAATAATGGATTTGTTT
Found at i:100091246 original size:18 final size:18
Alignment explanation
Indices: 100091223--100091260 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
100091213 AAATGTATGG
100091223 GAAAAATTTACAAAAAGT
1 GAAAAATTTACAAAAAGT
100091241 GAAAAATTTACAAAAAGT
1 GAAAAATTTACAAAAAGT
100091259 GA
1 GA
100091261 TTCTCAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (18 bp):
GAAAAATTTACAAAAAGT
Found at i:100091472 original size:29 final size:29
Alignment explanation
Indices: 100091439--100091496 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
100091429 ATGTAAAAAA
* *
100091439 ATTAAATATTAAAATGGTATGTTAATAGG
1 ATTAAATACTAAAATGGTATGTCAATAGG
100091468 ATTAAATACTAAAATGGTATGTCAATAGG
1 ATTAAATACTAAAATGGTATGTCAATAGG
100091497 GGTGGTGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.34
Consensus pattern (29 bp):
ATTAAATACTAAAATGGTATGTCAATAGG
Found at i:100092078 original size:101 final size:95
Alignment explanation
Indices: 100091967--100092264 Score: 294
Period size: 89 Copynumber: 3.1 Consensus size: 95
100091957 GTTTAGTGTT
* * *
100091967 TTGTGATTTTTTATGAATGTAAATTTTTTTATTCTTTTTAAAATTATTTTAAAGTCATTTTGTTA
1 TTGTAATTTTTTATGAATTTAAA----TTTATT-TTTTT--AATTATTTTAAAGTTATTTTGTTA
*
100092032 GTAATTTATGGTTAGGTTATAAATTGTTTGTGTTTA-
59 GTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAG
*
100092068 TTGTAA-TTTTTATGAATTTAAA---A-TTTTTTAATTATTTGAAAGTTATTTTGTTAGTAATTT
1 TTGTAATTTTTTATGAATTTAAATTTATTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTT
100092128 ATGATTAGGTTATAAATTGTTTGTGTTTAG
66 ATGATTAGGTTATAAATTGTTTGTGTTTAG
* * * *
100092158 TT-TAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTAATT-TTTTAAAGTTATTTTGTT
1 TTGTAAT-TTT-TTATGA--ATTTA--AAT-TTA-TTTTTTTAATTATTTTAAAGTTATTTTGTT
*
100092221 AGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAG
58 AGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAG
100092257 TT-TAATTT
1 TTGTAATTT
100092265 GTATTGTGAT
Statistics
Matches: 172, Mismatches: 11, Indels: 31
0.80 0.05 0.14
Matches are distributed among these distances:
89 59 0.34
90 2 0.01
91 8 0.05
92 6 0.03
93 1 0.01
94 4 0.02
96 2 0.01
98 2 0.01
99 12 0.07
100 18 0.10
101 48 0.28
102 10 0.06
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.58
Consensus pattern (95 bp):
TTGTAATTTTTTATGAATTTAAATTTATTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTT
ATGATTAGGTTATAAATTGTTTGTGTTTAG
Found at i:100092169 original size:89 final size:95
Alignment explanation
Indices: 100092008--100092270 Score: 305
Period size: 89 Copynumber: 2.8 Consensus size: 95
100091998 TTCTTTTTAA
* *
100092008 AATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTGTTTA-TTGT
1 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTT-T
*
100092072 AATTTTTA-TGA-ATT-T-AA-AA-TTTTTT
65 AATGTTTATTGATATTATGAATAATTTTTTT
*
100092097 AATTATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTA
1 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTA
* *
100092162 GTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTT
66 ATGTTTA-T-TGA--TATTATGAA--TAA-TTTTTTT
*
100092199 AATT-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGTTTA
1 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTA
100092261 AT-TTGTATTG
66 ATGTT-TATTG
100092271 TGATTTGTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
89 64 0.43
90 2 0.01
92 3 0.02
95 2 0.01
96 1 0.01
97 4 0.03
98 3 0.02
99 14 0.09
100 4 0.03
101 43 0.29
102 10 0.07
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (95 bp):
AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTA
ATGTTTATTGATATTATGAATAATTTTTTT
Found at i:100092651 original size:13 final size:13
Alignment explanation
Indices: 100092633--100092657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100092623 GACCCTCTAG
100092633 AAATTAATTATCA
1 AAATTAATTATCA
100092646 AAATTAATTATC
1 AAATTAATTATC
100092658 TCAGTTTAGT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTATCA
Found at i:100094543 original size:43 final size:42
Alignment explanation
Indices: 100094456--100094609 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
100094446 TGATTACATG
* *
100094456 TAAGACCATGTCTGGGAAATTGGCATTGTATTATGT--TTAT-GTA
1 TAAGACCATGTCTGGGACA-TGGCATCG--TTATGTGATT-TCGTA
100094499 TAAGACCATGTCTGGGACATCGGCATCGTTATGTGATTTCGTA
1 TAAGACCATGTCTGGGACAT-GGCATCGTTATGTGATTTCGTA
* * * ** * *
100094542 TAAGACCCTGTCTGGTACAATGGCATCGATATGTGATAACATG
1 TAAGACCATGTCTGGGAC-ATGGCATCGTTATGTGATTTCGTA
* *
100094585 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
100094610 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
41 6 0.06
42 9 0.10
43 76 0.82
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATGGCATCGTTATGTGATTTCGTA
Found at i:100097294 original size:46 final size:46
Alignment explanation
Indices: 100097174--100097299 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
100097164 TGTAACCCGC
** * * * *
100097174 CCATAAGTGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
100097220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
100097266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
100097300 GGATGCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:100102603 original size:46 final size:45
Alignment explanation
Indices: 100102460--100102603 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
100102450 CCCGCCCATA
100102460 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
100102507 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
100102553 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
100102599 AGTGA
1 AGTGA
100102604 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.41
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:100103445 original size:26 final size:26
Alignment explanation
Indices: 100103409--100103461 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
100103399 AGGATATTAC
* *
100103409 ACACGGCCGGGGCACACGGGCGTGTG
1 ACACGGCCGGGCCACACGGGCATGTG
100103435 ACACGGCCGGGCCACACGGGCATGTG
1 ACACGGCCGGGCCACACGGGCATGTG
100103461 A
1 A
100103462 TCCTTGCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.32, G:0.42, T:0.08
Consensus pattern (26 bp):
ACACGGCCGGGCCACACGGGCATGTG
Found at i:100104790 original size:25 final size:25
Alignment explanation
Indices: 100104762--100104812 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
100104752 AATAAGTGAC
* *
100104762 TGAATGAGTTGATTTTTATTGTAAT
1 TGAATGAGTTAATTTTGATTGTAAT
100104787 TGAATGAGTTAATTTTGATTGTAAT
1 TGAATGAGTTAATTTTGATTGTAAT
100104812 T
1 T
100104813 AGATCAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (25 bp):
TGAATGAGTTAATTTTGATTGTAAT
Found at i:100105151 original size:43 final size:42
Alignment explanation
Indices: 100105086--100105209 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
100105076 TACCGAGATG
* * *
100105086 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTATTA
1 TGATTACGTATAAGACCCTGTGTGGGACAGTGGCATTGT-TAA
* * *
100105129 TGATTACGTATAATACCATGTGTGGGACA-TCGGCATCGTTAA
1 TGATTACGTATAAGACCCTGTGTGGGACAGT-GGCATTGTTAA
* * *
100105171 TCGATTTCGTATAAGACCCTGTGTGGAATAGTGGCATTG
1 T-GATTACGTATAAGACCCTGTGTGGGACAGTGGCATTG
100105210 ATATGTGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.06
43 61 0.92
44 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTACGTATAAGACCCTGTGTGGGACAGTGGCATTGTTAA
Found at i:100109043 original size:17 final size:17
Alignment explanation
Indices: 100109021--100109055 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
100109011 AGTTGAGAGT
*
100109021 CAAAAACTCCGATGTGC
1 CAAAAACTCCGATATGC
100109038 CAAAAACTCCGATATGC
1 CAAAAACTCCGATATGC
100109055 C
1 C
100109056 TTTCGGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.17
Consensus pattern (17 bp):
CAAAAACTCCGATATGC
Found at i:100118930 original size:105 final size:106
Alignment explanation
Indices: 100118693--100118959 Score: 320
Period size: 115 Copynumber: 2.4 Consensus size: 106
100118683 AACTAATAAT
* * *
100118693 TAATTTATAATAGTTACTAACAAAATAACTTTCAAATAAATTAAAAAATATTAAAAGATTACATT
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
* *
100118758 AATAACTTAACAAATCACAATAAACCCTAAACTCTAAACAAA
66 AATAACCTAACAAATCACAATAAACACTAAAC-CTAAACAAA
* * * *
100118800 CAATTAACCTAATCACAAAACTTACTAACAAAATAACTTTAAAATAAATTAAAAATTAATAAAAA
1 TAATT----T-AT---AATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAA
* * * *
100118865 ATTACATTCATAACCTAACAAATCACGATAAACATTAAA-CTAAACAGA
58 ATTACATTAATAACCTAACAAATCACAATAAACACTAAACCTAAACAAA
*
100118913 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAGATTAAAAA
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
100118960 CAGCATAAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
105 36 0.27
107 4 0.03
108 2 0.01
109 1 0.01
111 1 0.01
112 2 0.01
113 12 0.09
115 77 0.57
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (106 bp):
TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
AATAACCTAACAAATCACAATAAACACTAAACCTAAACAAA
Found at i:100119465 original size:29 final size:29
Alignment explanation
Indices: 100119423--100119480 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
100119413 AGACACCATC
100119423 CCTACTGACATACCATTTTGATATTTAAT
1 CCTACTGACATACCATTTTGATATTTAAT
*
100119452 CCTACTGACATACCATTTTGGTATTTAAT
1 CCTACTGACATACCATTTTGATATTTAAT
100119481 TTTTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (29 bp):
CCTACTGACATACCATTTTGATATTTAAT
Found at i:100121271 original size:24 final size:24
Alignment explanation
Indices: 100121244--100121289 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
100121234 TCATCATTTT
* *
100121244 CAACAACAGCAACATCACCATCTG
1 CAACAACAACAACATCAACATCTG
*
100121268 CAACAGCAACAACATCAACATC
1 CAACAACAACAACATCAACATC
100121290 AACAGCAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.37, G:0.07, T:0.11
Consensus pattern (24 bp):
CAACAACAACAACATCAACATCTG
Found at i:100121546 original size:13 final size:15
Alignment explanation
Indices: 100121528--100121559 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
100121518 ATGTTTACAG
100121528 TTATTG-ATTTT-TT
1 TTATTGAATTTTCTT
100121541 TTATTGAATTTTCTT
1 TTATTGAATTTTCTT
100121556 TTAT
1 TTAT
100121560 GTATTGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 5 0.29
15 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATTGAATTTTCTT
Found at i:100126210 original size:29 final size:29
Alignment explanation
Indices: 100126178--100126233 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
100126168 TTTACATTTT
100126178 TTTTATCAT-TTTC-ATATGACTTTATAAAG
1 TTTTAT-ATATTTCTATAT-ACTTTATAAAG
*
100126207 TTTTATATATTTCTATATATTTTATAA
1 TTTTATATATTTCTATATACTTTATAA
100126234 TTTTTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 18 0.75
30 4 0.17
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTATATATTTCTATATACTTTATAAAG
Found at i:100127465 original size:14 final size:14
Alignment explanation
Indices: 100127446--100127523 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
100127436 TTGATTGCCA
100127446 GTAAAATATTTTCT
1 GTAAAATATTTTCT
100127460 GTAAAATGA-TTTCT
1 GTAAAAT-ATTTTCT
*
100127474 GGAAAATGTTTTACTTTTCT
1 GTAAAA-----TA-TTTTCT
*
100127494 GTAAAATGATTTACT
1 GTAAAAT-ATTTTCT
*
100127509 GGAAAATATTTTCT
1 GTAAAATATTTTCT
100127523 G
1 G
100127524 GTGTTTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.20
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTCT
Found at i:100127494 original size:20 final size:20
Alignment explanation
Indices: 100127469--100127508 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
100127459 TGTAAAATGA
*
100127469 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
100127489 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
100127509 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:100127497 original size:34 final size:35
Alignment explanation
Indices: 100127454--100127520 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
100127444 CAGTAAAATA
*
100127454 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
100127488 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
100127521 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:100148867 original size:48 final size:47
Alignment explanation
Indices: 100148791--100148886 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
100148781 TTAGGCTTGA
* *
100148791 ATAATTGTAATTTTGTCCAGAAGCTTCATTCTGATAATTTGCAATTT
1 ATAATTGCAATTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
*
100148838 ATAATTGCAATTTTTTTCCAGAACCTTCATTCTGATAATTTGCAATTT
1 ATAATTGCAA-TTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
100148886 A
1 A
100148887 CTTAATCATG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 9 0.20
48 36 0.80
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (47 bp):
ATAATTGCAATTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
Found at i:100152108 original size:18 final size:18
Alignment explanation
Indices: 100152085--100152122 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
100152075 TTAATTTTAT
100152085 TTAAGCTAGGATGATTGC
1 TTAAGCTAGGATGATTGC
100152103 TTAAGCTAGGATGATTGC
1 TTAAGCTAGGATGATTGC
100152121 TT
1 TT
100152123 TGATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (18 bp):
TTAAGCTAGGATGATTGC
Found at i:100155069 original size:24 final size:24
Alignment explanation
Indices: 100155053--100155098 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
100155043 AAAATAGAAT
100155053 CTAATCTAAAAAGAAAAGAAAAAC
1 CTAATCTAAAAAGAAAAGAAAAAC
*
100155077 CTAATCTAAAATGAAAAGAAAA
1 CTAATCTAAAAAGAAAAGAAAA
100155099 GAAAAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.09, T:0.15
Consensus pattern (24 bp):
CTAATCTAAAAAGAAAAGAAAAAC
Found at i:100167133 original size:108 final size:108
Alignment explanation
Indices: 100166988--100167297 Score: 471
Period size: 101 Copynumber: 3.0 Consensus size: 108
100166978 TTAACGGCCA
100166988 ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATACTTTA
1 ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATACTTTA
100167053 ATATATGTTATATATTATATTTAATAAAAGATGAAAGTAGCCG
66 ATATATGTTATATATTATATTTAATAAAAGATGAAAGTAGCCG
100167096 ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC-TTA
1 ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATACTTTA
*
100167160 ATATATG-T-TA-A-TATA-TT-ATAAAAGATAAAAGTAGCCG
66 ATATATGTTATATATTATATTTAATAAAAGATGAAAGTAGCCG
* *
100167197 ACCAATATGCATGGATTAATGACTTGAATTGTTTATTATATTTTATGGCATTA---T-TACTTTA
1 ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATACTTTA
* * * *
100167258 ATATATGTTAATATATTATGTTTAAGAAGAGAGGAAAGTA
66 ATATATGTT-ATATATTATATTTAATAAAAGATGAAAGTA
100167298 TTCATCTTTC
Statistics
Matches: 186, Mismatches: 8, Indels: 19
0.87 0.04 0.09
Matches are distributed among these distances:
97 3 0.02
98 11 0.06
99 1 0.01
101 72 0.39
102 3 0.02
103 7 0.04
104 3 0.02
105 14 0.08
106 1 0.01
107 10 0.05
108 61 0.33
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (108 bp):
ACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATACTTTA
ATATATGTTATATATTATATTTAATAAAAGATGAAAGTAGCCG
Found at i:100167699 original size:28 final size:28
Alignment explanation
Indices: 100167659--100167728 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
100167649 TATGAGATTG
*
100167659 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
100167687 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
100167715 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100167729 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:100170029 original size:14 final size:14
Alignment explanation
Indices: 100170010--100170048 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
100170000 GATTGTGCTG
100170010 TTTTTTTCTACTTT
1 TTTTTTTCTACTTT
100170024 TTTTTTTCTA-TTT
1 TTTTTTTCTACTTT
*
100170037 TTCTTCTTCTAC
1 TT-TTTTTCTAC
100170049 AACTCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTTCTACTTT
Found at i:100172046 original size:16 final size:17
Alignment explanation
Indices: 100172012--100172053 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
100172002 TATTATATCA
*
100172012 AATAAT-ATAAACATTT
1 AATAATAATAAACATAT
100172028 AATAATAATAAA-ATAT
1 AATAATAATAAACATAT
*
100172044 AATATTAATA
1 AATAATAATA
100172054 GTGAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAATAATAAACATAT
Found at i:100172121 original size:7 final size:7
Alignment explanation
Indices: 100172029--100172249 Score: 64
Period size: 7 Copynumber: 32.4 Consensus size: 7
100172019 TAAACATTTA
100172029 ATAATA-
1 ATAATAT
*
100172035 ATAAAAT
1 ATAATAT
100172042 ATAATAT
1 ATAATAT
100172049 -TAATAGT
1 ATAATA-T
* *
100172056 -GAATTT
1 ATAATAT
100172062 A-AATA-
1 ATAATAT
100172067 ATAATAT
1 ATAATAT
100172074 ATGATAGTAT
1 AT-A-A-TAT
*
100172084 ATAA-AA
1 ATAATAT
100172090 ATAATA-
1 ATAATAT
*
100172096 ATAAATGAA
1 AT-AAT-AT
*
100172105 ATAATTT
1 ATAATAT
100172112 ATAATAT
1 ATAATAT
100172119 ATAATAT
1 ATAATAT
100172126 A-AA-AT
1 ATAATAT
*
100172131 GTAAGT-T
1 ATAA-TAT
*
100172138 TTAA-A-
1 ATAATAT
*
100172143 ATAATGT
1 ATAATAT
100172150 ATAATAT
1 ATAATAT
*
100172157 A-AATAA
1 ATAATAT
100172163 ATAATAT
1 ATAATAT
*
100172170 ATAAGAT
1 ATAATAT
100172177 AT-ATA-
1 ATAATAT
100172182 AGTTAA-AT
1 A--TAATAT
100172190 ATAATAT
1 ATAATAT
100172197 ATAATA-
1 ATAATAT
*
100172203 ATAATTT
1 ATAATAT
*
100172210 ACAA-AT
1 ATAATAT
* *
100172216 TTGAAAAT
1 AT-AATAT
100172224 ATAAATAAT
1 AT-AAT-AT
*
100172233 ATAATAA
1 ATAATAT
100172240 ATAATAT
1 ATAATAT
100172247 ATA
1 ATA
100172250 TAATAAATTT
Statistics
Matches: 159, Mismatches: 28, Indels: 55
0.66 0.12 0.23
Matches are distributed among these distances:
5 7 0.04
6 45 0.28
7 78 0.49
8 16 0.10
9 8 0.05
10 5 0.03
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:100172250 original size:16 final size:15
Alignment explanation
Indices: 100172227--100172257 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
100172217 TGAAAATATA
100172227 AATAATATAATAAAT
1 AATAATATAATAAAT
100172242 AATATATATAATAAAT
1 AATA-ATATAATAAAT
100172258 TTAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:100172607 original size:17 final size:18
Alignment explanation
Indices: 100172554--100172651 Score: 137
Period size: 18 Copynumber: 5.5 Consensus size: 18
100172544 AATCATATCT
*
100172554 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
100172573 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
100172591 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
100172608 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
100172626 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
100172643 TCTAAGATT
1 TCTAAGATT
100172652 ACATATCATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
17 30 0.42
18 31 0.44
19 10 0.14
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:100172612 original size:35 final size:35
Alignment explanation
Indices: 100172554--100172660 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
100172544 AATCATATCT
100172554 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
100172591 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
100172626 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
100172661 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 52 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:100173249 original size:165 final size:165
Alignment explanation
Indices: 100173035--100173384 Score: 596
Period size: 165 Copynumber: 2.1 Consensus size: 165
100173025 TTCGATTTGT
* *
100173035 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTGAGAATCATATCTGCAAGGTCCTCGAC
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTGAGAATCATATCTGCAAGGTCCTCGAC
*
100173100 TTGTTCCTTGTAAGCACAAGGATGCCTAAACCATCTTAAGTCTGTTTGAGAACATTTGAGAGTCA
66 TTGTTCCTTGTAAGCACAAGGATGCC-AAACCATCCTAAGTCTGTTTGAGAACATTTGAGAGTCA
*
100173165 TGTCTGCAA-GTCCTCGATTTGTTCCTTGTAAGCAC
130 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
* *
100173200 AAGGATGCCAAACCATCTTGAGTCT-TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACA-TTGAGAATCATATCTGCAAGGTCCTCGA
* *
100173264 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCCTGAGTCTGTTTGAGAACATTTGAGAGTCA
65 CTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCCTAAGTCTGTTTGAGAACATTTGAGAGTCA
100173329 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
130 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
100173365 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
100173385 GATCTACTTC
Statistics
Matches: 175, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
164 54 0.31
165 121 0.69
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (165 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTGAGAATCATATCTGCAAGGTCCTCGAC
TTGTTCCTTGTAAGCACAAGGATGCCAAACCATCCTAAGTCTGTTTGAGAACATTTGAGAGTCAT
ATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
Found at i:100173269 original size:82 final size:83
Alignment explanation
Indices: 100173035--100173384 Score: 598
Period size: 83 Copynumber: 4.2 Consensus size: 83
100173025 TTCGATTTGT
* * * *
100173035 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACA-TTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
100173099 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
100173117 AAGGATGCCTAAACCATCTTAAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAA-GTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
100173181 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
100173200 AAGGATGCCAAACCATCTTGAGTCT-TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
100173264 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
100173282 AAGGATGCCAAACCATCCTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
100173347 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
100173365 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
100173385 GATCTACTTC
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
81 29 0.11
82 73 0.29
83 135 0.53
84 17 0.07
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:100173523 original size:119 final size:119
Alignment explanation
Indices: 100173308--100173879 Score: 917
Period size: 119 Copynumber: 4.8 Consensus size: 119
100173298 CCTGAGTCTG
* * * * * *
100173308 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
100173373 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
100173427 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* * *
100173492 CAAATCATCTTGGATCTGCTTCAGTAAAAACATCTAAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
100173546 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
100173611 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
100173665 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
100173730 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGC--TA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
100173782 TTT--GAACGTCTAACACGAGAGTCAAATCTGCTATGT--TCGATTTGTTCCTTGTAAACACAAG
1 TTTGAGAACGTCT-----GAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAG
100173843 AATGCCAAA--ATCTTGGATCTGCTTCAGTATAAACATC
61 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC
100173880 AGGAAGAGAT
Statistics
Matches: 430, Mismatches: 18, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
115 8 0.02
116 28 0.07
117 5 0.01
118 34 0.08
119 335 0.78
120 20 0.05
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:100173942 original size:44 final size:44
Alignment explanation
Indices: 100173888--100174067 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
100173878 TCAGGAAGAG
100173888 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
100173932 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
100173974 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
100174020 ATCTACTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
100174064 ATCT
1 ATCT
100174068 TGTTTCTTTG
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 80 0.73
45 12 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:100174955 original size:20 final size:21
Alignment explanation
Indices: 100174932--100174974 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
100174922 TCACCTTGGC
100174932 CTCTCCATTTTTTCT-TTTTT
1 CTCTCCATTTTTTCTCTTTTT
**
100174952 CTCTTTATTTTTTCTCTTTTT
1 CTCTCCATTTTTTCTCTTTTT
100174973 CT
1 CT
100174975 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (21 bp):
CTCTCCATTTTTTCTCTTTTT
Found at i:100174982 original size:20 final size:20
Alignment explanation
Indices: 100174938--100174991 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
100174928 TGGCCTCTCC
100174938 ATTTTTTCTTTTTTCTCTTT
1 ATTTTTTCTTTTTTCTCTTT
100174958 ATTTTTTCTCTTTTTCT-TTT
1 ATTTTTTCT-TTTTTCTCTTT
*
100174978 TTTTTTTCTTTTTT
1 ATTTTTTCTTTTTT
100174992 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 5 0.16
20 20 0.62
21 7 0.22
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (20 bp):
ATTTTTTCTTTTTTCTCTTT
Found at i:100174990 original size:13 final size:13
Alignment explanation
Indices: 100174939--100174994 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
100174929 GGCCTCTCCA
100174939 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
* * *
100174952 CTCTTTATTTTTT
1 TTTTTTCTTTTTT
100174965 CTCTTTTTC-TTTTT
1 -T-TTTTTCTTTTTT
100174979 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
100174992 TTT
1 TTT
100174995 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.18
13 19 0.56
14 5 0.15
15 4 0.12
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:100180885 original size:21 final size:21
Alignment explanation
Indices: 100180853--100180917 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
100180843 GTAAGTTTTA
*
100180853 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
100180873 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
100180894 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
100180916 AA
1 AA
100180918 TTTACAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:100180926 original size:23 final size:21
Alignment explanation
Indices: 100180861--100180977 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 21
100180851 TAAAATAATG
*
100180861 TATAATATA-AATAAATAAATA
1 TATAATATATAATAATTAAA-A
*
100180882 TATAAGATAT-ATAAGTTAAAA
1 TATAATATATAATAA-TTAAAA
100180903 TATAATATATAATAATTTACAAA
1 TATAATATATAATAA-TTA-AAA
* *
100180926 TTTTGAAAATATAAATAATATAATAA
1 -TAT-AATATAT-AATAAT-TAA-AA
100180952 -ATAATATATATATAAATTAAAA
1 TATAATATATA-AT-AATTAAAA
100180974 -ATAA
1 TATAA
100180978 GTTTAAAAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
21 22 0.29
22 18 0.23
23 14 0.18
24 6 0.08
25 8 0.10
26 9 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (21 bp):
TATAATATATAATAATTAAAA
Found at i:100181326 original size:17 final size:18
Alignment explanation
Indices: 100181273--100181344 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
100181263 AATCATATCT
100181273 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
100181292 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
100181310 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
100181327 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
100181345 TGGAAGATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:100181331 original size:35 final size:37
Alignment explanation
Indices: 100181266--100181344 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
100181256 ATTACAAAAT
100181266 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
100181302 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
100181337 CATATCAT
1 CATATCAT
100181345 TGGAAGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:100181342 original size:14 final size:15
Alignment explanation
Indices: 100181287--100181342 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
100181277 AGATTGTATA
100181287 TCATATCTAAGATTG
1 TCATATCTAAGATTG
100181302 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
100181320 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
100181337 -CATATC
1 TCATATC
100181343 ATTGGAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:100181352 original size:35 final size:36
Alignment explanation
Indices: 100181276--100181357 Score: 107
Period size: 35 Copynumber: 2.3 Consensus size: 36
100181266 CATATCTTCT
*
100181276 AAGATTGTATATCATATCTAAGATTGCAATCATATCT
1 AAGATTG-ATATCATATCTAAGATTGCAATCATATCG
*
100181313 AAGATTG-TATCATATCTAAGATTGCATATCAT-TGG
1 AAGATTGATATCATATCTAAGATTGCA-ATCATATCG
100181348 AAGATT-ATAT
1 AAGATTGATAT
100181358 TTCCATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
35 29 0.71
36 5 0.12
37 7 0.17
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (36 bp):
AAGATTGATATCATATCTAAGATTGCAATCATATCG
Found at i:100195514 original size:78 final size:78
Alignment explanation
Indices: 100195404--100195698 Score: 466
Period size: 78 Copynumber: 3.8 Consensus size: 78
100195394 CGAAGAAACA
** * * *
100195404 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
100195469 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
100195482 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
100195547 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
100195560 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGCCCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
100195624 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
100195638 GATTTGGCATCTCTGTATTAGACGGCGAGCAAATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
100195699 GTGTTTACAT
Statistics
Matches: 198, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 196 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:100195792 original size:45 final size:45
Alignment explanation
Indices: 100195638--100195867 Score: 214
Period size: 45 Copynumber: 5.1 Consensus size: 45
100195628 GATCCAAGAT
* *
100195638 GATTTGGCATCTCTGTATTAGACGGCGAGCAAATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACA
* * * * * * * * *
100195685 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAAATCGAAGATAACA
* * * *
100195730 GATTTGGTATCTTTGTATTAGACAGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
*
100195775 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
* * * *
100195820 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
100195865 GAT
1 GAT
100195868 ATCGCCTTCC
Statistics
Matches: 146, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 113 0.77
46 3 0.02
47 20 0.14
48 4 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
Found at i:100196246 original size:17 final size:17
Alignment explanation
Indices: 100196226--100196289 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
100196216 CAATGATATC
100196226 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
100196243 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
100196261 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
100196278 TGCAATCTTAGA
1 --CAATCTTAGA
100196290 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.38
18 16 0.38
19 10 0.24
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:100196266 original size:18 final size:18
Alignment explanation
Indices: 100196226--100196289 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
100196216 CAATGATATC
*
100196226 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTG
100196243 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
100196261 CAATCTTAGATATGATATG
1 CAATCTTAGATATGAT-TG
100196280 CAATCTTAGA
1 CAATCTTAGA
100196290 AGATATGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
17 15 0.34
18 17 0.39
19 12 0.27
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTG
Found at i:100196296 original size:17 final size:19
Alignment explanation
Indices: 100196218--100196289 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
100196208 ATAATCTTCA
*
100196218 ATGATATCCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100196237 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100196254 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100196272 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
100196290 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100196315 original size:22 final size:22
Alignment explanation
Indices: 100196250--100196312 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
100196240 ATACAATCTT
100196250 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
100196268 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
100196290 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
100196313 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:100196602 original size:18 final size:18
Alignment explanation
Indices: 100196579--100196614 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
100196569 TGTTTCCCGG
100196579 ATTTTTTT-ATATATTTTA
1 ATTTTTTTAATA-ATTTTA
100196597 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
100196615 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:100199132 original size:25 final size:27
Alignment explanation
Indices: 100199095--100199147 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
100199085 TCAAACATGC
100199095 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
100199121 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
100199147 A
1 A
100199148 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:100200669 original size:26 final size:26
Alignment explanation
Indices: 100200633--100200716 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
100200623 CATGAAATTC
100200633 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100200659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100200685 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100200711 TTATCA
1 TTATCA
100200717 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100201217 original size:24 final size:24
Alignment explanation
Indices: 100201190--100201240 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
100201180 AAACAATTTG
100201190 ATTATCATAATTTTTATTTTAAAA
1 ATTATCATAATTTTTATTTTAAAA
* * *
100201214 ATTATTATGATTTTTATTTTAAGA
1 ATTATCATAATTTTTATTTTAAAA
100201238 ATT
1 ATT
100201241 TTCGAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTATCATAATTTTTATTTTAAAA
Found at i:100204600 original size:16 final size:16
Alignment explanation
Indices: 100204581--100204612 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100204571 TTCGTATAAC
100204581 TTTATGTAAATATTTT
1 TTTATGTAAATATTTT
*
100204597 TTTATGTATATATTTT
1 TTTATGTAAATATTTT
100204613 CTTTTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATGTAAATATTTT
Found at i:100211346 original size:18 final size:18
Alignment explanation
Indices: 100211323--100211357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100211313 AAATTTTTTA
100211323 ATGATTTCTTGTATTATC
1 ATGATTTCTTGTATTATC
* *
100211341 ATGATTTTTTTTATTAT
1 ATGATTTCTTGTATTAT
100211358 ATATTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (18 bp):
ATGATTTCTTGTATTATC
Found at i:100213111 original size:17 final size:16
Alignment explanation
Indices: 100213083--100213117 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
100213073 CATTAAAGAG
100213083 ATACCTAAAAATATAT
1 ATACCTAAAAATATAT
100213099 ATACCTAAAAA-ATAT
1 ATACCTAAAAATATAT
100213114 ATAC
1 ATAC
100213118 TTAGGAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACCTAAAAATATAT
Found at i:100215735 original size:21 final size:21
Alignment explanation
Indices: 100215709--100215751 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
100215699 GCAGAGACGT
100215709 GAAGATAGAATTTTTATTAGG
1 GAAGATAGAATTTTTATTAGG
100215730 GAAGATAGAATTTTTATTAGG
1 GAAGATAGAATTTTTATTAGG
100215751 G
1 G
100215752 TTGAGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (21 bp):
GAAGATAGAATTTTTATTAGG
Found at i:100220324 original size:13 final size:14
Alignment explanation
Indices: 100220306--100220334 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
100220296 TAATAATATA
100220306 ATAAATTATT-AAT
1 ATAAATTATTCAAT
100220319 ATAAATTATTCAAT
1 ATAAATTATTCAAT
100220333 AT
1 AT
100220335 TACAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATTATTCAAT
Found at i:100220854 original size:23 final size:26
Alignment explanation
Indices: 100220795--100220855 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 26
100220785 TATAAGGACT
100220795 TATGACATATTTTAACTTAGTATAAAA
1 TATGA-ATATTTTAACTTAGTATAAAA
*
100220822 TATTAATATTTTAA-TTA-TAT-AAA
1 TATGAATATTTTAACTTAGTATAAAA
*
100220845 TATGAGTATTT
1 TATGAATATTT
100220856 ATTTAAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 12 0.39
24 3 0.10
25 3 0.10
26 9 0.29
27 4 0.13
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (26 bp):
TATGAATATTTTAACTTAGTATAAAA
Found at i:100222134 original size:22 final size:23
Alignment explanation
Indices: 100222099--100222141 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
100222089 TTTAATACTA
100222099 ATTCAATCTAATTTTTTTTTAAG
1 ATTCAATCTAATTTTTTTTTAAG
*
100222122 ATTCAAT-TGATTTTTTTTTA
1 ATTCAATCTAATTTTTTTTTA
100222142 CTAAATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (23 bp):
ATTCAATCTAATTTTTTTTTAAG
Found at i:100224179 original size:29 final size:29
Alignment explanation
Indices: 100224104--100224180 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
100224094 TAAAATTCAA
*
100224104 AAAGTATAAGGACTAAAATTGATCAATTT
1 AAAGTATAAGGACTAAATTTGATCAATTT
* *
100224133 AAAGTATACAGAACTAAATTTGAT-TATATT
1 AAAGTATA-AGGACTAAATTTGATCAAT-TT
*
100224163 AAAGTATAAGGATTAAAT
1 AAAGTATAAGGACTAAAT
100224181 CCATAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.44
30 23 0.56
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.32
Consensus pattern (29 bp):
AAAGTATAAGGACTAAATTTGATCAATTT
Found at i:100225895 original size:54 final size:54
Alignment explanation
Indices: 100225813--100225924 Score: 215
Period size: 54 Copynumber: 2.1 Consensus size: 54
100225803 GTCAAAAAGG
*
100225813 TAAACACATTTAAAATATAAAAATTAAAATATAATACAAAAATTCACCCGATTA
1 TAAACACATTTAAAATATAAAAATTAAAAAATAATACAAAAATTCACCCGATTA
100225867 TAAACACATTTAAAATATAAAAATTAAAAAATAATACAAAAATTCACCCGATTA
1 TAAACACATTTAAAATATAAAAATTAAAAAATAATACAAAAATTCACCCGATTA
100225921 TAAA
1 TAAA
100225925 AAAAAAAATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (54 bp):
TAAACACATTTAAAATATAAAAATTAAAAAATAATACAAAAATTCACCCGATTA
Found at i:100235744 original size:20 final size:20
Alignment explanation
Indices: 100235728--100235764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100235718 ACGGATGGTT
*
100235728 TACTGTTTATATAGATGAAA
1 TACTGTTTATACAGATGAAA
100235748 TACTGTTTATAC-GATGA
1 TACTGTTTATACAGATGA
100235765 GTCACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (20 bp):
TACTGTTTATACAGATGAAA
Found at i:100241412 original size:74 final size:74
Alignment explanation
Indices: 100241291--100241438 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
100241281 TGAAACAAAA
100241291 GCTTTTAGCTAAAAAGATGGATGGAGCAAACAACTACTTTTTTAGCAATTTAGCCTCAAAATTTA
1 GCTTTTAGCTAAAAAGATGGATGGAGCAAACAACTACTTTTTTAGCAATTTAGCCTCAAAATTTA
100241356 GTGGAGTGT
66 GTGGAGTGT
100241365 GCTTTTAGCTAAAAAGATGGATGGAGCAAACAACTACTTTTTTAGCAATTTAGCCTCAAAATTTA
1 GCTTTTAGCTAAAAAGATGGATGGAGCAAACAACTACTTTTTTAGCAATTTAGCCTCAAAATTTA
100241430 GTGGAGTGT
66 GTGGAGTGT
100241439 CCCTAAAATA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (74 bp):
GCTTTTAGCTAAAAAGATGGATGGAGCAAACAACTACTTTTTTAGCAATTTAGCCTCAAAATTTA
GTGGAGTGT
Found at i:100256071 original size:17 final size:19
Alignment explanation
Indices: 100256031--100256071 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
100256021 TCTAATAGAA
*
100256031 AAATTAATTCATTTTTATG
1 AAATTAAGTCATTTTTATG
*
100256050 CAATTAAGT-ATTTTT-TG
1 AAATTAAGTCATTTTTATG
100256067 AAATT
1 AAATT
100256072 TTACAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (19 bp):
AAATTAAGTCATTTTTATG
Found at i:100257465 original size:286 final size:286
Alignment explanation
Indices: 100256953--100257526 Score: 1031
Period size: 286 Copynumber: 2.0 Consensus size: 286
100256943 ACTTGAACCT
*
100256953 AATTATTAATTTAAATAACATAATTTCCCAATTCAAAATTTATTTTAATGCTATAATTGACTCGT
1 AATTATTAATTCAAATAACATAATTTCCCAATTCAAAATTTATTTTAATGCTATAATTGACTCGT
** *
100257018 AAATATTTAATAATAATATTTACGAACTCACTTGTTGGATTTGTGGCCCCGAAACCACTGTTTCT
66 AAATATTTAATAATAATATTTACGAACTCACTTGTCAGATTTGTGGCCCCGAAACCACTATTTCT
*
100257083 AGCACCACTAAAAAACAGTTGTTACACCACCATACTTGATGGTAATGCATTCAACCATGATCTAG
131 AGCACCACAAAAAAACAGTTGTTACACCACCATACTTGATGGTAATGCATTCAACCATGATCTAG
* *
100257148 CACGATCAATCAATGAATAAGGGAATGATTTTAATCTAAGGGCATATTCAGGAACGCCCTACTGC
196 CACAATCAAGCAATGAATAAGGGAATGATTTTAATCTAAGGGCATATTCAGGAACGCCCTACTGC
100257213 TTGAATGAGTCACAGACTTCAAGAAA
261 TTGAATGAGTCACAGACTTCAAGAAA
*
100257239 AATTATTAATTCAAATAACATAATTTGCCAATTCAAAATTTATTTTAATGCTATAATTGACTCGT
1 AATTATTAATTCAAATAACATAATTTCCCAATTCAAAATTTATTTTAATGCTATAATTGACTCGT
*
100257304 AAATATTTAATAATAATATTTACGGACTCACTTGTCAGATTTGTGGCCCCGAAACCACTATTTCT
66 AAATATTTAATAATAATATTTACGAACTCACTTGTCAGATTTGTGGCCCCGAAACCACTATTTCT
* * *
100257369 AGCACCACAAAAAAATAGTTGTTACATCACCATACTTGATGGTAATGCATTCAACCATGATCTGG
131 AGCACCACAAAAAAACAGTTGTTACACCACCATACTTGATGGTAATGCATTCAACCATGATCTAG
*
100257434 CACAATCAAGCAATGAATAAGGGAATGATTTTAATCTAAGGGCATCTTCAGGAACGCCCTACTGC
196 CACAATCAAGCAATGAATAAGGGAATGATTTTAATCTAAGGGCATATTCAGGAACGCCCTACTGC
100257499 TTGAATGAGTCACAGACTTCAAGAAA
261 TTGAATGAGTCACAGACTTCAAGAAA
100257525 AA
1 AA
100257527 GTCTCAAGTG
Statistics
Matches: 275, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
286 275 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (286 bp):
AATTATTAATTCAAATAACATAATTTCCCAATTCAAAATTTATTTTAATGCTATAATTGACTCGT
AAATATTTAATAATAATATTTACGAACTCACTTGTCAGATTTGTGGCCCCGAAACCACTATTTCT
AGCACCACAAAAAAACAGTTGTTACACCACCATACTTGATGGTAATGCATTCAACCATGATCTAG
CACAATCAAGCAATGAATAAGGGAATGATTTTAATCTAAGGGCATATTCAGGAACGCCCTACTGC
TTGAATGAGTCACAGACTTCAAGAAA
Found at i:100258695 original size:19 final size:21
Alignment explanation
Indices: 100258667--100258710 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
100258657 AGAGCGAAAT
100258667 GAAC-GAG-AAACGGGCCAAA
1 GAACGGAGAAAACGGGCCAAA
*
100258686 -AACGGAGAAAATGGGCCAAA
1 GAACGGAGAAAACGGGCCAAA
100258706 GAACG
1 GAACG
100258711 AAATCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 11 0.52
21 4 0.19
ACGTcount: A:0.48, C:0.18, G:0.32, T:0.02
Consensus pattern (21 bp):
GAACGGAGAAAACGGGCCAAA
Found at i:100269534 original size:14 final size:14
Alignment explanation
Indices: 100269515--100269544 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100269505 TTATATCGAG
100269515 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
100269529 ACCAATCCAATTCA
1 ACCAATCCAAATCA
100269543 AC
1 AC
100269545 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:100283002 original size:32 final size:32
Alignment explanation
Indices: 100282957--100283019 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
100282947 GTCATAAGAG
*
100282957 GATGAAACGCATTGATTGAAAACATCACTTGT
1 GATGAAACACATTGATTGAAAACATCACTTGT
*
100282989 GATGAAACACATTGATTGAAAGCATCACTTG
1 GATGAAACACATTGATTGAAAACATCACTTG
100283020 ATACGAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (32 bp):
GATGAAACACATTGATTGAAAACATCACTTGT
Found at i:100284973 original size:18 final size:17
Alignment explanation
Indices: 100284935--100284978 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
100284925 TAAATATTCT
100284935 ATTAAT-TTAATATATA
1 ATTAATATTAATATATA
100284951 A-TAATATTAATATATA
1 ATTAATATTAATATATA
100284967 ATTTAATATTAA
1 A-TTAATATTAA
100284979 AGAGTTAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 12 0.48
18 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTAATATTAATATATA
Found at i:100288417 original size:31 final size:31
Alignment explanation
Indices: 100288384--100288448 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
100288374 TTGAAGAAAT
100288384 AAAAATAAATAATTTACTAAAATAAATAAATAAAG
1 AAAAATAAATAA--T-C-AAAATAAATAAATAAAG
*
100288419 AAAAATAAATAATCAAAATAAATCAATAAA
1 AAAAATAAATAATCAAAATAAATAAATAAA
100288449 CCAATCAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 15 0.52
32 1 0.03
33 1 0.03
35 12 0.41
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (31 bp):
AAAAATAAATAATCAAAATAAATAAATAAAG
Found at i:100322662 original size:42 final size:42
Alignment explanation
Indices: 100322615--100322699 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
100322605 GGTTACTGAG
*
100322615 ATGAGATTCGTGTAAGACGAT-GTCTGGGAC-ATTGGCATCGAT
1 ATGAGATTCGTGTAAGACGATAG-CTAGG-CTATTGGCATCGAT
*
100322657 ATGAGATTCGTGTAAGACTATAGCTAGGCTATTGGCATCGAT
1 ATGAGATTCGTGTAAGACGATAGCTAGGCTATTGGCATCGAT
100322699 A
1 A
100322700 GACTATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 1 0.03
42 37 0.95
43 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
ATGAGATTCGTGTAAGACGATAGCTAGGCTATTGGCATCGAT
Found at i:100328812 original size:28 final size:27
Alignment explanation
Indices: 100328756--100328813 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
100328746 AGATTTTTTA
*
100328756 TGAAAATTGAAATTAGGGATTAAATTG
1 TGAAAATTGAAATTAGGGATTAAAGTG
100328783 TGAAATATTGAAATT-GTGG-TTAAAAGTG
1 TGAAA-ATTGAAATTAG-GGATT-AAAGTG
100328811 TGA
1 TGA
100328814 TTATTTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (27 bp):
TGAAAATTGAAATTAGGGATTAAAGTG
Found at i:100329364 original size:42 final size:41
Alignment explanation
Indices: 100329302--100329455 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 41
100329292 GGTTACCGAG
*
100329302 ATGAGATTCGTGTAACACCATATCTGGTACATTGGCATCGAT
1 ATGAGATTCGTGTAAGACCATATCTGG-ACATTGGCATCGAT
* * * * *
100329344 ATGATATTTGTGTACGACCATGTCTGAGACATTGGCATCAAT
1 ATGAGATTCGTGTAAGACCATATCTG-GACATTGGCATCGAT
* *
100329386 ATGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGAT
1 ATGAGATTCGTGTAAGACCATATCTGGAC-ATTGGCATCGAT
* ** * *
100329428 AGGCTATAACATGTAAGACCATATCTGG
1 ATGAGAT-TCGTGTAAGACCATATCTGG
100329456 GATATGGCAT
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.02
42 70 0.78
43 18 0.20
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (41 bp):
ATGAGATTCGTGTAAGACCATATCTGGACATTGGCATCGAT
Found at i:100341144 original size:19 final size:19
Alignment explanation
Indices: 100341120--100341204 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
100341110 CTATGCGCTT
100341120 ATGTGCCAAGATGCACTTC
1 ATGTGCCAAGATGCACTTC
** *
100341139 ATGTGCCATTATGCGCTT-
1 ATGTGCCAAGATGCACTTC
* *
100341157 -TGAATGCCAGGATGCACCTC
1 ATG--TGCCAAGATGCACTTC
* * *
100341177 ATGTGTCAAGATACACTTT
1 ATGTGCCAAGATGCACTTC
*
100341196 GTGTGCCAA
1 ATGTGCCAA
100341205 TAATGCGTTT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
17 2 0.04
19 44 0.92
21 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGTGCCAAGATGCACTTC
Found at i:100343580 original size:12 final size:12
Alignment explanation
Indices: 100343563--100343587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100343553 TTTTCTGCAA
100343563 TTTAATTTTTAT
1 TTTAATTTTTAT
100343575 TTTAATTTTTAT
1 TTTAATTTTTAT
100343587 T
1 T
100343588 ACTAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTAATTTTTAT
Found at i:100348697 original size:13 final size:13
Alignment explanation
Indices: 100348679--100348705 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100348669 GAAGTAATCG
100348679 CACACGGGCGTGT
1 CACACGGGCGTGT
100348692 CACACGGGCGTGT
1 CACACGGGCGTGT
100348705 C
1 C
100348706 CCTGCCGAGC
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:100354934 original size:20 final size:19
Alignment explanation
Indices: 100354900--100354938 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
100354890 ATGACATACA
*
100354900 CATCTTGTTAACTTAATCAT
1 CATCTTGATAACTT-ATCAT
*
100354920 CATCTTGATATCTTATCAT
1 CATCTTGATAACTTATCAT
100354939 AAATTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (19 bp):
CATCTTGATAACTTATCAT
Found at i:100360967 original size:13 final size:14
Alignment explanation
Indices: 100360949--100360978 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
100360939 ATGGGCATGT
100360949 GTGACCACAC-GAC
1 GTGACCACACGGAC
100360962 GTGACCACACGGAC
1 GTGACCACACGGAC
100360976 GTG
1 GTG
100360979 TGACCCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.10
Consensus pattern (14 bp):
GTGACCACACGGAC
Done.