Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 314 of 332
Found at i:102943766 original size:19 final size:19
Alignment explanation
Indices: 102943742--102943784 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
102943732 CCTTTTTTTA
* *
102943742 TTTTTTTCGTTTTCATC-T
1 TTTTTTTCGATTTCAACAT
102943760 TTTTTTTCGATTTCAACAT
1 TTTTTTTCGATTTCAACAT
102943779 TTTTTT
1 TTTTTT
102943785 ACTGTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTTTTCGATTTCAACAT
Found at i:102943897 original size:26 final size:25
Alignment explanation
Indices: 102943851--102943908 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 25
102943841 TGAACATACC
102943851 ATTTTGGTAATTACTTTTTATGTTGTATT
1 ATTTTGGTAATTA-TTTTTAT-TT-T-TT
102943880 ATTTTGG-AATT-TTTTTATTTTTT
1 ATTTTGGTAATTATTTTTATTTTTT
102943903 ATTTTG
1 ATTTTG
102943909 TACTTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.28
24 1 0.03
25 2 0.07
26 7 0.24
28 4 0.14
29 7 0.24
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (25 bp):
ATTTTGGTAATTATTTTTATTTTTT
Found at i:102947381 original size:14 final size:14
Alignment explanation
Indices: 102947362--102947393 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
102947352 GGACATTTAT
102947362 AAATGATTCCAAGA
1 AAATGATTCCAAGA
102947376 AAATGATTCCAAGA
1 AAATGATTCCAAGA
102947390 AAAT
1 AAAT
102947394 TACGAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (14 bp):
AAATGATTCCAAGA
Found at i:102949914 original size:17 final size:17
Alignment explanation
Indices: 102949892--102949926 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
102949882 CTGAAACTTG
102949892 AACCAAGCAGAGCCACA
1 AACCAAGCAGAGCCACA
102949909 AACCAAGCAGAGCCACA
1 AACCAAGCAGAGCCACA
102949926 A
1 A
102949927 TTTTACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.34, G:0.17, T:0.00
Consensus pattern (17 bp):
AACCAAGCAGAGCCACA
Found at i:102950429 original size:27 final size:28
Alignment explanation
Indices: 102950380--102950434 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
102950370 ATCTTCATCG
* *
102950380 TCTTTTTCCTCTTCATTCCCCATTTTTC
1 TCTTCTTCCTCTTCATTCCCCATGTTTC
102950408 TCTTCTTCCT-TTCA-TCCTCCATGTTTC
1 TCTTCTTCCTCTTCATTCC-CCATGTTTC
102950435 AGTTACTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.07, C:0.36, G:0.02, T:0.55
Consensus pattern (28 bp):
TCTTCTTCCTCTTCATTCCCCATGTTTC
Found at i:102950481 original size:6 final size:6
Alignment explanation
Indices: 102950472--102950501 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
102950462 CATGAACAAC
102950472 CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
102950502 TCAAGGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:102953107 original size:19 final size:19
Alignment explanation
Indices: 102953080--102953139 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
102953070 AAATTATAAG
102953080 ATCATTAAAAATATTTAAAA
1 ATCA-TAAAAATATTTAAAA
102953100 ATCATAAAAA-ATTATAAAA
1 ATCATAAAAATATT-TAAAA
* *
102953119 AGCATAAGAAT-TTTATAAA
1 ATCATAAAAATATTTA-AAA
102953138 AT
1 AT
102953140 GTCGAGACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.15
19 25 0.74
20 4 0.12
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCATAAAAATATTTAAAA
Found at i:102953118 original size:28 final size:29
Alignment explanation
Indices: 102953058--102953118 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
102953048 TTATAAAATC
* * **
102953058 TAAAATTTTTAAAAATTATAAGATCATTA
1 TAAAATATTTAAAAATCATAAGAAAATTA
102953087 -AAAATATTTAAAAATCATAA-AAAATTA
1 TAAAATATTTAAAAATCATAAGAAAATTA
102953114 TAAAA
1 TAAAA
102953119 AGCATAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAAATATTTAAAAATCATAAGAAAATTA
Found at i:102957024 original size:20 final size:20
Alignment explanation
Indices: 102956939--102957039 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 20
102956929 ATATAAATAT
* *
102956939 ATATAAATAATAGTATTAGAA
1 ATATATATAATAATATTA-AA
* *
102956960 ATATACCAT-ATAATATT-AG
1 ATATA-TATAATAATATTAAA
**
102956979 ATATATATAATAGTATAAAAGAA
1 ATATATATAATA--ATATTA-AA
*
102957002 AAATATAACTAATAATATTAAA
1 ATATAT-A-TAATAATATTAAA
102957024 ATATATATAATAATAT
1 ATATATATAATAATAT
102957040 ATATAAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
18 2 0.03
19 9 0.15
20 9 0.15
21 16 0.26
22 9 0.15
23 10 0.16
24 1 0.02
25 5 0.08
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATATATAATAATATTAAA
Found at i:102957055 original size:12 final size:12
Alignment explanation
Indices: 102957012--102957060 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
102957002 AAATATAACT
102957012 AATA-ATATTAA
1 AATATATATTAA
102957023 AATATATA-TAA
1 AATATATATTAA
102957034 TAATATATA-TAA
1 -AATATATATTAA
102957046 AATATAATATTAA
1 AATAT-ATATTAA
102957059 AA
1 AA
102957061 ACTTATATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.35
12 17 0.50
13 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATTAA
Found at i:102957358 original size:21 final size:23
Alignment explanation
Indices: 102957334--102957381 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
102957324 AATAATACTT
102957334 TAAAAATAAT-TAAT-ATATTAA
1 TAAAAATAATATAATAATATTAA
102957355 TAAAAATAATAGTAATAATATTAA
1 TAAAAATAATA-TAATAATATTAA
102957379 TAA
1 TAA
102957382 TATGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
23 4 0.17
24 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAATATAATAATATTAA
Found at i:102957383 original size:21 final size:21
Alignment explanation
Indices: 102957320--102957383 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
102957310 TAATCATTAG
*
102957320 TAGTAATAATACTTTAAAAATAA
1 TAGTAATAATA--TTAATAATAA
102957343 T--TAAT-ATATTAATAAAAATAA
1 TAGTAATAATATTAAT---AATAA
102957364 TAGTAATAATATTAATAATA
1 TAGTAATAATATTAATAATA
102957384 TGTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
18 4 0.12
20 3 0.09
21 14 0.41
23 5 0.15
24 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (21 bp):
TAGTAATAATATTAATAATAA
Found at i:102972557 original size:15 final size:16
Alignment explanation
Indices: 102972537--102972567 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
102972527 CTGATATTTT
102972537 CGAGATC-GAGTCAGA
1 CGAGATCAGAGTCAGA
102972552 CGAGATCAGAGTCAGA
1 CGAGATCAGAGTCAGA
102972568 TCGATTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (16 bp):
CGAGATCAGAGTCAGA
Found at i:102972670 original size:20 final size:20
Alignment explanation
Indices: 102972645--102972683 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
102972635 TTTTAGTGAA
102972645 GGGATATTAAACTCTTTGCG
1 GGGATATTAAACTCTTTGCG
102972665 GGGATATTAAACTCTTTGC
1 GGGATATTAAACTCTTTGC
102972684 CGCTTAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GGGATATTAAACTCTTTGCG
Found at i:103009310 original size:22 final size:22
Alignment explanation
Indices: 103009278--103009319 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
103009268 TATACATGTA
* *
103009278 ATATTACTTGAATAGTTATGAG
1 ATATTAATTGAATAATTATGAG
*
103009300 ATATTAATTGAGTAATTATG
1 ATATTAATTGAATAATTATG
103009320 TCTCCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTAATTGAATAATTATGAG
Found at i:103014027 original size:127 final size:127
Alignment explanation
Indices: 103013878--103014160 Score: 458
Period size: 127 Copynumber: 2.2 Consensus size: 127
103013868 GATGTTTGGA
* *
103013878 AGGAATCATGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTT
1 AGGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTT
**
103013943 TAGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTTGATGTTTAGAAATTCG
66 TAGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCG
*
103014005 AGGAATCATGCCCTATCATGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTT
1 AGGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTT
* * *
103014070 TAGAATTTCACTCGTGTTTTTTAAATTCTAAAACAAGGCAATGTTCAATGTTTGGAAATTTG
66 TAGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCG
* * * *
103014132 GGGAATCGTGCCCTACCGCGCTGGGTTTC
1 AGGAATCATGCCCTATCGTGCTGGGTTTC
103014161 AGTTTTTCGT
Statistics
Matches: 143, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 143 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (127 bp):
AGGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTT
TAGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCG
Found at i:103018677 original size:67 final size:68
Alignment explanation
Indices: 103018565--103018741 Score: 216
Period size: 67 Copynumber: 2.6 Consensus size: 68
103018555 GGGTATAATA
* * * * *
103018565 TGTAAGACCATAACTCGACTATGGCAATATAAAGAG-TCTGTCAGGATATTAAACATAGAATATG
1 TGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTTCTGCCAGGACATTAAACATAGAATATG
103018629 ATG
66 ATG
* * * **
103018632 TGTAAGACTATAGCTCAACTATGGCAACATAGAGAGTTC-GCCAGGACATTAGACATAGGGTATG
1 TGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTTCTGCCAGGACATTAAACATAGAATATG
103018696 ATG
66 ATG
* * *
103018699 TGTAAGACCAAAGCTCAGCTATGGCATTATAGAGAG-TCTGCCA
1 TGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTTCTGCCA
103018742 TGGAACATCC
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
66 2 0.02
67 89 0.96
68 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (68 bp):
TGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTTCTGCCAGGACATTAAACATAGAATATG
ATG
Found at i:103020439 original size:106 final size:107
Alignment explanation
Indices: 103020206--103020477 Score: 325
Period size: 106 Copynumber: 2.6 Consensus size: 107
103020196 TAATAAGAGT
*
103020206 CTTTGTCTCGTTGAGTATATAA-TACCCAACCGAACTCACAGATGAGCACGCACTTTGAGACATA
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACA-A
* * *
103020270 TCACATTAGCTCATATACAGAACTAGTTTCACTGAAGAGCAAA
65 CCACATTAGCTCATATACAGAACGAGTCTCACTGAAGAGCAAA
* * * * * *
103020313 CTTTGTCTTGTTAAGTATATAATTACCCAATCGAACTTATAGAGGAGCATGCACTTTGAGAC-AC
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACAAC
* * * *
103020377 CACTTTAGCTCATATATAGAGTCGAG-CTCACTGAGGAGCAAA
66 CACATTAGCTCATATACAGA-ACGAGTCTCACTGAAGAGCAAA
* * * * * *
103020419 CTTTGTCTCATTGAGCATATAATTACCCAACCAAACTCACAAAGGAGCACACGCTTTGA
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGA
103020478 TACATATCAT
Statistics
Matches: 137, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
106 80 0.58
107 23 0.17
108 34 0.25
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (107 bp):
CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACAAC
CACATTAGCTCATATACAGAACGAGTCTCACTGAAGAGCAAA
Found at i:103021839 original size:67 final size:67
Alignment explanation
Indices: 103021516--103021846 Score: 321
Period size: 67 Copynumber: 5.0 Consensus size: 67
103021506 TGTGACACGT
* * * * * * *
103021516 CAGGACATTAAACATGGGGTATGATGTATAAGACTATAGCTCGACTATAATAACATAAAGAGCCC
1 CAGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATGACAACATAGAGAGTCC
103021581 GC
66 GC
* * * * * * *
103021583 TAGGGCATTAAATATGGGGTATGATGCGTAAGACAATAGCTCGACTATAACAACATAGAGAG-CT
1 CAGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATGACAACATAGAGAGTC-
103021647 CGC
65 CGC
* * * ** * * *
103021650 TAGGACATTAAACATGTGGTATGA--TGTAAGGCCATAGCTTAGCTATGACAACATAAACAGTCA
1 CAGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATGACAACATAGAGAGTCC
**
103021713 AT
66 GC
* * * *
103021715 C-GAGACATTAAACATGGGGTATGATGTGTAAAATCATAACTCAGCTATGGA-AACATAGAGAGT
1 CAG-GACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTAT-GACAACATAGAGAGT
103021778 CCGC
64 CCGC
* * *
103021782 CAGGACATTAAACATGGGGTATGATGTGTAAGACCAAAACTCGGCTATGACAACATAGAAAGTCC
1 CAGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATGACAACATAGAGAGTCC
103021847 ACTAGAAGGT
Statistics
Matches: 216, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
64 1 0.00
65 47 0.22
66 4 0.02
67 161 0.75
68 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (67 bp):
CAGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATGACAACATAGAGAGTCC
GC
Found at i:103025240 original size:30 final size:29
Alignment explanation
Indices: 103025178--103025240 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
103025168 CCAATTTGAC
*
103025178 AAAATACAAAGGCAATAAAGTTTCCTTCA
1 AAAATACAAAGGCAATAAAGTTTCCTTAA
* *
103025207 AAAATACGAAGGCAAT-TAGTTATTCCTTAA
1 AAAATACAAAGGCAATAAAG-T-TTCCTTAA
103025237 AAAA
1 AAAA
103025241 GCCAACAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.55
30 11 0.38
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
AAAATACAAAGGCAATAAAGTTTCCTTAA
Found at i:103026296 original size:14 final size:14
Alignment explanation
Indices: 103026279--103026306 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103026269 ATTATAAAGA
103026279 GTGTAAAATTTTCT
1 GTGTAAAATTTTCT
103026293 GTGTAAAATTTTCT
1 GTGTAAAATTTTCT
103026307 ATGTGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
GTGTAAAATTTTCT
Found at i:103026315 original size:14 final size:14
Alignment explanation
Indices: 103026280--103026315 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
103026270 TTATAAAGAG
*
103026280 TGTAAAATTTTCTG
1 TGTAAAATTTTCTA
103026294 TGTAAAATTTTCTA
1 TGTAAAATTTTCTA
*
103026308 TGTGAAAT
1 TGTAAAAT
103026316 AAATATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (14 bp):
TGTAAAATTTTCTA
Found at i:103026478 original size:18 final size:18
Alignment explanation
Indices: 103026455--103026490 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103026445 TAGTTAAATA
*
103026455 AATATGTTTTATGAAAGT
1 AATATGTTATATGAAAGT
103026473 AATATGTTATATGAAAGT
1 AATATGTTATATGAAAGT
103026491 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
AATATGTTATATGAAAGT
Found at i:103030421 original size:44 final size:42
Alignment explanation
Indices: 103030363--103030465 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
103030353 TTCTAATATG
*
103030363 TGATTTCATGTAAGACCACGTCTGGGACATTGCCATC-GATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGCCATCAGATT
* * * *
103030404 TGATATTTACGTGTAAGACTATGTCTGGGACATTGGCATCATATT
1 TG--ATTT-CGTGTAAGACCACGTCTGGGACATTGCCATCAGATT
103030449 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
103030466 CTGTTTGGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.04
42 10 0.19
43 8 0.15
44 27 0.52
45 5 0.10
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGCCATCAGATT
Found at i:103030505 original size:43 final size:42
Alignment explanation
Indices: 103030437--103030518 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
103030427 TCTGGGACAT
* * * * *
103030437 TGGCATCATATTTGATTTCGTGTAAGACCCTGTTTGGGATAG
1 TGGCATCATATTTGACTACATGTAAGACCATATTTGGGATAG
103030479 TGGCATCGATATTTGACTACATGTAAGACCATATTTGGGA
1 TGGCATC-ATATTTGACTACATGTAAGACCATATTTGGGA
103030519 CGTTGGTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 7 0.21
43 27 0.79
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGGCATCATATTTGACTACATGTAAGACCATATTTGGGATAG
Found at i:103045276 original size:4 final size:4
Alignment explanation
Indices: 103045269--103045300 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
103045259 TTTCTTTCAT
103045269 TTTA TTTA TTTA TTTA TTTA TTTA TTTGA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTT
103045301 TTTCTTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:103048618 original size:30 final size:30
Alignment explanation
Indices: 103048582--103048638 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
103048572 TATGCACTTT
*
103048582 CACACGGGTA-ACCCACATGCCCGTGTGAGG
1 CACACGGGTAGA-CCACACGCCCGTGTGAGG
*
103048612 CACACGGGTAGACCACACGCTCGTGTG
1 CACACGGGTAGACCACACGCCCGTGTG
103048639 TCATGGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGAGG
Found at i:103051395 original size:30 final size:30
Alignment explanation
Indices: 103051330--103051395 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
103051320 TTCAAATTCG
* * *
103051330 CCTTATTTTTCGTTTGAGAAAATTTAGCTT
1 CCTTATTTTTCATTTAAGAAAATTCAGCTT
* *
103051360 CCTTATTTTTCATTTAAGAATATTCAGTTT
1 CCTTATTTTTCATTTAAGAAAATTCAGCTT
*
103051390 TCTTAT
1 CCTTAT
103051396 AAAAAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (30 bp):
CCTTATTTTTCATTTAAGAAAATTCAGCTT
Found at i:103051688 original size:18 final size:18
Alignment explanation
Indices: 103051649--103051688 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
103051639 GTCCACCTTT
* *
103051649 TTTCCCATTTCCTTGTTG
1 TTTCCCATTTCCTTGCTA
103051667 TTTCCCATTTCCTTGCTA
1 TTTCCCATTTCCTTGCTA
103051685 TTTC
1 TTTC
103051689 AAACAGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.55
Consensus pattern (18 bp):
TTTCCCATTTCCTTGCTA
Found at i:103053855 original size:71 final size:72
Alignment explanation
Indices: 103053771--103053904 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 72
103053761 TATATTCTTT
* *
103053771 ATATAGAAATTAAAATTTATAATAAACCTTTATG-TTGGCTGGTTTTGGAGATATATTAAATGTT
1 ATATAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTAGTTTTGGAGATATATTAAATGTT
103053835 CTTTATC
66 CTTTATC
* * *
103053842 ATATAGACATTAAAATTTATAATAAACCCTTATGTTTGGTTAGTTTTTGAGATATATTAAATG
1 ATATAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTAGTTTTGGAGATATATTAAATG
103053905 ATTTCTATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
71 32 0.56
72 25 0.44
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (72 bp):
ATATAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTAGTTTTGGAGATATATTAAATGTT
CTTTATC
Found at i:103055868 original size:19 final size:16
Alignment explanation
Indices: 103055837--103055896 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 16
103055827 CTTATTTTAA
*
103055837 TAATATTTTATTAATT
1 TAATATTTGATTAATT
*
103055853 TAATATTAATGGATTATTT
1 TAATATT--T-GATTAATT
103055872 TAATATTTGATTTAATT
1 TAATATTTGA-TTAATT
103055889 TAATATTT
1 TAATATTT
103055897 ATCTTGTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.24
17 14 0.38
18 1 0.03
19 13 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
TAATATTTGATTAATT
Found at i:103055891 original size:67 final size:71
Alignment explanation
Indices: 103055796--103055927 Score: 184
Period size: 69 Copynumber: 1.9 Consensus size: 71
103055786 AAAAATAATG
103055796 TTATTTTAATAGATTTAAATTTAATTTAATACTTAT-TT-TA-ATAATATTTTATTAATTTAATA
1 TTATTTTAATA-ATTTAAATTTAATTTAATACTTATCTTGTAGATAA-ATTTTATTAATTTAATA
103055858 TTAATGGA
64 TTAATGGA
* * *
103055866 TTATTTTAAT-ATTT-GATTTAATTTAATATTTATCTTGTAGATAAATTTTTTTAATTTAATAT
1 TTATTTTAATAATTTAAATTTAATTTAATACTTATCTTGTAGATAAATTTTATTAATTTAATAT
103055928 AATAAGTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
67 17 0.30
68 6 0.11
69 19 0.34
70 14 0.25
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (71 bp):
TTATTTTAATAATTTAAATTTAATTTAATACTTATCTTGTAGATAAATTTTATTAATTTAATATT
AATGGA
Found at i:103055946 original size:67 final size:67
Alignment explanation
Indices: 103055814--103055946 Score: 164
Period size: 67 Copynumber: 2.0 Consensus size: 67
103055804 ATAGATTTAA
* * *
103055814 ATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATATTAATGGATTATTTTAATATT
1 ATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATATTAATGAAGTATTATAATATT
103055879 TG
66 TG
* * *
103055881 ATTTAATTTAATATTTATCTTGTAGATAA-ATTTTTTTAATTTAATA-TAAT-AAGTATTATATT
1 ATTTAATTTAATACTTAT-TT-TA-ATAATATTTTATTAATTTAATATTAATGAAGTATTATAAT
103055943 ATTT
63 ATTT
103055947 TAATATTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
67 29 0.51
68 6 0.11
69 18 0.32
70 4 0.07
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (67 bp):
ATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATATTAATGAAGTATTATAATATT
TG
Found at i:103057721 original size:20 final size:20
Alignment explanation
Indices: 103057698--103057736 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
103057688 AAGTGCAGTA
103057698 AGAGGCACTGAAGTGCAAAT
1 AGAGGCACTGAAGTGCAAAT
103057718 AGAGGCACTGAAGTGCAAA
1 AGAGGCACTGAAGTGCAAA
103057737 CTCGCACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.31, T:0.13
Consensus pattern (20 bp):
AGAGGCACTGAAGTGCAAAT
Found at i:103064995 original size:25 final size:25
Alignment explanation
Indices: 103064966--103065013 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
103064956 CTCTCCTCCC
103064966 TCTTCTATTTTCTT-TTCTCCCTTCA
1 TCTTCTA-TTTCTTCTTCTCCCTTCA
*
103064991 TCTTCTATTTCTTCTTCTTCCTT
1 TCTTCTATTTCTTCTTCTCCCTT
103065014 TACCCCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (25 bp):
TCTTCTATTTCTTCTTCTCCCTTCA
Found at i:103066821 original size:5 final size:5
Alignment explanation
Indices: 103066806--103066854 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
103066796 TCTGAGTCCA
* *
103066806 TTTATT TTTAT TTTAT TTTAT TTTGTT TTTGT TTTAT TTTA- TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TTTAT TTT
103066855 TCTTAAGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
4 4 0.11
5 26 0.68
6 8 0.21
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:103066827 original size:16 final size:16
Alignment explanation
Indices: 103066806--103066854 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
103066796 TCTGAGTCCA
103066806 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
*
103066822 TTTATTTTGT-TTTTGT
1 TTTATTTT-TATTTTAT
103066838 TTTA-TTTTA-TTTAT
1 TTTATTTTTATTTTAT
103066852 TTT
1 TTT
103066855 TCTTAAGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 3 0.10
16 17 0.59
17 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTATTTTTATTTTAT
Found at i:103066840 original size:21 final size:21
Alignment explanation
Indices: 103066810--103066849 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
103066800 AGTCCATTTA
103066810 TTTTTATTTTATTTTATTTTG
1 TTTTTATTTTATTTTATTTTG
*
103066831 TTTTTGTTTTATTTTATTT
1 TTTTTATTTTATTTTATTT
103066850 ATTTTTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.82
Consensus pattern (21 bp):
TTTTTATTTTATTTTATTTTG
Found at i:103066855 original size:21 final size:21
Alignment explanation
Indices: 103066805--103066855 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
103066795 CTCTGAGTCC
103066805 ATTTA-TTTTTATTTTATTTT
1 ATTTATTTTTTATTTTATTTT
*
103066825 ATTT-TGTTTTTGTTTTATTTT
1 ATTTAT-TTTTTATTTTATTTT
103066846 ATTTATTTTT
1 ATTTATTTTT
103066856 CTTAAGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (21 bp):
ATTTATTTTTTATTTTATTTT
Found at i:103092162 original size:23 final size:23
Alignment explanation
Indices: 103092126--103092175 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
103092116 AAAAATTATA
103092126 TATTTTAAAATTTTCTAA-AAAAC
1 TATTTTAAAATTTT-TAATAAAAC
* * *
103092149 TATTTTATATTTTTTAATAATAC
1 TATTTTAAAATTTTTAATAAAAC
103092172 TATT
1 TATT
103092176 AATTTCAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTTAAAATTTTTAATAAAAC
Found at i:103092584 original size:19 final size:19
Alignment explanation
Indices: 103092549--103092602 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 19
103092539 ACTCAACTAT
*
103092549 TCAATTTTATTTGTTTCAG
1 TCAATTTTATCTGTTTCAG
103092568 TCAATTTTTATC--TTT---
1 TCAA-TTTTATCTGTTTCAG
103092583 TCAATTTTATCTGTTTCAG
1 TCAATTTTATCTGTTTCAG
103092602 T
1 T
103092603 AATCAATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 3 0.11
18 3 0.11
19 5 0.18
20 6 0.21
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.59
Consensus pattern (19 bp):
TCAATTTTATCTGTTTCAG
Found at i:103092590 original size:14 final size:16
Alignment explanation
Indices: 103092568--103092600 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
103092558 TTTGTTTCAG
103092568 TCAATTTTTATCT-TT
1 TCAATTTTTATCTGTT
103092583 TCAA-TTTTATCTGTT
1 TCAATTTTTATCTGTT
103092598 TCA
1 TCA
103092601 GTAATCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (16 bp):
TCAATTTTTATCTGTT
Found at i:103096994 original size:10 final size:10
Alignment explanation
Indices: 103096965--103096994 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
103096955 TATAAATATT
*
103096965 TTTTAATTTA
1 TTTTAATTTG
103096975 TTTTAATTTG
1 TTTTAATTTG
103096985 TTTTAATTTG
1 TTTTAATTTG
103096995 CTGGGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTAATTTG
Found at i:103101173 original size:4 final size:4
Alignment explanation
Indices: 103101164--103101208 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
103101154 CATGCATAGA
* * * *
103101164 ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
103101209 TGCTTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:103104640 original size:19 final size:18
Alignment explanation
Indices: 103104616--103104663 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
103104606 CGTGACACTT
*
103104616 TTAAATTAAAAAATTTAAA
1 TTAAATTAAAAAA-ATAAA
103104635 TTAAATTACAAAAAATAAA
1 TTAAATTA-AAAAAATAAA
*
103104654 TTTAATTAAA
1 TTAAATTAAA
103104664 TTAAACCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATTAAAAAAATAAA
Found at i:103104738 original size:21 final size:22
Alignment explanation
Indices: 103104712--103104752 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
103104702 TATTCCTTCT
103104712 CTTTT-AATACACTT-TTTTTAA
1 CTTTTAAATA-ACTTCTTTTTAA
103104733 CTTTTAAATAACTTCTTTTT
1 CTTTTAAATAACTTCTTTTT
103104753 GCAATCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (22 bp):
CTTTTAAATAACTTCTTTTTAA
Found at i:103109257 original size:19 final size:19
Alignment explanation
Indices: 103109235--103109304 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
103109225 TATTTTCTAA
103109235 TATTTTTTATATTTAATTT
1 TATTTTTTATATTTAATTT
* * *
103109254 TATTATTAATTATTAAATTT
1 TATTTTTTA-TATTTAATTT
* * *
103109274 AATTTTTTAAAATATAA-TT
1 TATTTTTT-ATATTTAATTT
103109293 TATTTTTTATAT
1 TATTTTTTATAT
103109305 GACATTTATT
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
18 3 0.08
19 16 0.42
20 18 0.47
21 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTTATATTTAATTT
Found at i:103109543 original size:34 final size:34
Alignment explanation
Indices: 103109495--103109567 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
103109485 GAGAGAGTCT
* *
103109495 ATTTGTATCCACTCCAGCTCCGAAACAAATAGTA
1 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
103109529 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
1 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
103109563 ATTTA
1 ATTTA
103109568 AACATCCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (34 bp):
ATTTATATCCACTCCAGCTCCGAAACAAATAATA
Found at i:103111282 original size:24 final size:25
Alignment explanation
Indices: 103111235--103111285 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
103111225 ACACATGTTC
*
103111235 ATAATATATAAAACATACATATAAT
1 ATAATATATAAAACATACACATAAT
**
103111260 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
103111284 AT
1 AT
103111286 GTACACACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:103111382 original size:21 final size:21
Alignment explanation
Indices: 103111358--103111397 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103111348 AAGATATACT
*
103111358 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
103111379 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
103111398 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:103111480 original size:20 final size:20
Alignment explanation
Indices: 103111452--103111489 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103111442 TAAAAATAAT
* *
103111452 AATATACATAATATATACAA
1 AATACACATAATACATACAA
103111472 AATACACATAATACATAC
1 AATACACATAATACATAC
103111490 GTATATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (20 bp):
AATACACATAATACATACAA
Found at i:103113707 original size:87 final size:87
Alignment explanation
Indices: 103113507--103113898 Score: 429
Period size: 87 Copynumber: 4.4 Consensus size: 87
103113497 ACGTGAGCTA
* * * *
103113507 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAACT--TAATTTGAAAAATAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAATAATAAATTG-AAAA-ACATT
* *
103113570 --TTGAAAATACCTC-GACATGTGACCCG
62 AATTGAAAATAACTCAG-C--GTGCCCCG
* *
103113596 AGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTGAAAATAATAAATTGAAAAACATTAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAATAAATTGAAAAACATTAATT
* *
103113661 GAGAATAACTCAGCGCGCCCCG
66 GAAAATAACTCAGCGTGCCCCG
**
103113683 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAATAAATTGAAAAACATTAATT
*
103113748 GAGAATAACTCAGCGTGCCCCG
66 GAAAATAACTCAGCGTGCCCCG
***
103113770 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACATAAATTGAAAAACGGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATA-ATAAATTGAAAAACATTAAT
* * * *
103113834 CGAAAATACCTCAACGTGCCCTGAGCCA
65 TGAAAATAACTCAGCGTG-CC----CCG
103113862 AGGCTCAACTCA-CTCCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTT
103113899 TTGATGATAA
Statistics
Matches: 267, Mismatches: 24, Indels: 21
0.86 0.08 0.07
Matches are distributed among these distances:
87 175 0.66
88 7 0.03
89 46 0.17
90 1 0.00
91 2 0.01
92 36 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAATAAATTGAAAAACATTAATT
GAAAATAACTCAGCGTGCCCCG
Found at i:103113800 original size:174 final size:164
Alignment explanation
Indices: 103113507--103114279 Score: 599
Period size: 174 Copynumber: 4.7 Consensus size: 164
103113497 ACGTGAGCTA
* * *
103113507 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAACTTAATTTGAAAAA-TAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAACATAAATTGAAAAATTA-A---
* *
103113571 TGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTGA
60 T--AAATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-
** * * *
103113635 AAATAATAAATTGAAAAACATTAATTGAGAATAACTCAGCGCGCCCCG
119 AAA-AATAAATT-AAAAACAGAAATTGAAAATACCTCAGCGTGCCCCG
103113683 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CATAAATTG-AAAA-ATTAA-T
* *
103113748 GAGAATAACTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
61 -A-AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA
* * * *
103113813 CATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGCCCTGAGCCA
123 -ATAAATT-AAAAACAGAAATTGAAAATACCTCAGCGTG-CC----CCG
** *
103113862 AGGCTCAACTCA-CTCCTCGCAATATGAGTTGATTTTT------TTGA-TGATAAATTAA-AAAT
1 AGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAATTAATAAAT
** ** * *
103113918 ACCTCAATGTGACTTGAGGCTCAATTCACCTCTCGCGATATGAGTTGATTTTTGAAAAATAAATT
65 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATT
* * *
103113983 AAAACACAAAAATTGACAATACCTCAGCGTGCCCTG
130 AAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCG
* * * *
103114019 AGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAA-A-ACA--G--AAATTGA-AAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAATTAATAAATA
* * *
103114077 TCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT------T---TTA
66 CCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTA
*
103114132 ACAAACAGTAATTGAAAATACCTCAGCGTGCCCCG
131 A-AAACAGAAATTGAAAATACCTCAGCGTGCCCCG
* ** * *
103114167 AGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTTAACA-AACA--G--TAATTGA-AAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAA-ATTGAAAAATTAATAAAT
* *
103114226 ACCTCAGCG-CACCCTAAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTT
65 ACCTCAGCGTGACCC-GAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTT
103114280 TTGAAAACAG
Statistics
Matches: 507, Mismatches: 63, Indels: 78
0.78 0.10 0.12
Matches are distributed among these distances:
148 67 0.13
149 6 0.01
150 42 0.08
151 11 0.02
152 4 0.01
157 37 0.07
158 53 0.10
160 1 0.00
161 7 0.01
162 28 0.06
163 4 0.01
164 49 0.10
165 1 0.00
168 5 0.01
169 3 0.01
170 2 0.00
171 2 0.00
173 1 0.00
174 83 0.16
175 7 0.01
176 47 0.09
177 5 0.01
178 4 0.01
179 38 0.07
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (164 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAATTAATAAATA
CCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTA
AAAACAGAAATTGAAAATACCTCAGCGTGCCCCG
Found at i:103114174 original size:75 final size:74
Alignment explanation
Indices: 103113993--103114297 Score: 443
Period size: 75 Copynumber: 4.1 Consensus size: 74
103113983 AAAACACAAA
* * * *
103113993 AATTGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-ATTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
103114057 AAAAACAGA
66 AAAAACAGT
* *
103114066 AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
103114131 AACAAACAGT
66 AA-AAACAGT
* *
103114141 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
103114206 AACAAACAGT
66 AA-AAACAGT
** *
103114216 AATTGAAAATACCTCAGCGCACCCTAAGGCTCAACTCACCTCTCGCAATTATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTT
*
103114281 TGAAAACAG-
65 TAAAAACAGT
*
103114290 AAATGAAA
1 AATTGAAA
103114298 CATCCACATA
Statistics
Matches: 211, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
73 54 0.26
74 13 0.06
75 126 0.60
76 18 0.09
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (74 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
AAAAACAGT
Found at i:103133316 original size:26 final size:26
Alignment explanation
Indices: 103133285--103133391 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
103133275 ATGAAATTCC
103133285 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103133311 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103133337 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103133362 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103133388 ATCA
1 ATCA
103133392 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
25 25 0.31
26 55 0.69
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:103133362 original size:51 final size:52
Alignment explanation
Indices: 103133285--103133391 Score: 207
Period size: 51 Copynumber: 2.1 Consensus size: 52
103133275 ATGAAATTCC
103133285 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
103133337 ATCAT-GAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
103133388 ATCA
1 ATCA
103133392 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 50 0.91
52 5 0.09
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:103139640 original size:26 final size:26
Alignment explanation
Indices: 103139610--103139691 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
103139600 TGAAATTCCC
103139610 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
103139636 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103139662 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103139688 ATCA
1 ATCA
103139692 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:103142492 original size:12 final size:13
Alignment explanation
Indices: 103142476--103142513 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
103142466 AAGTAATGCA
103142476 AGGTATAATATAT
1 AGGTATAATATAT
*
103142489 -GGTAAAATATAT
1 AGGTATAATATAT
103142501 AGTGTATAATATA
1 AG-GTATAATATA
103142514 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:103142572 original size:18 final size:18
Alignment explanation
Indices: 103142508--103142572 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
103142498 TATAGTGTAT
**
103142508 AATATAATTTGTAAACAAA
1 AATATAATAAGTAAA-AAA
* *
103142527 ATATATAATAA-TATAAAC
1 A-ATATAATAAGTAAAAAA
* *
103142545 CATATGATAAGTAAAAAA
1 AATATAATAAGTAAAAAA
103142563 AATATAATAA
1 AATATAATAA
103142573 CATGTATATA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
17 8 0.24
18 15 0.44
19 4 0.12
20 7 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (18 bp):
AATATAATAAGTAAAAAA
Found at i:103142820 original size:28 final size:29
Alignment explanation
Indices: 103142764--103142836 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
103142754 CATAATTTAA
103142764 AATAAAAATAATATATATATGAAATATAT
1 AATAAAAATAATATATATATGAAATATAT
* *
103142793 AATAAAATATAATTTATA-AGTAAAATATAGAAT
1 AATAAAA-ATAATATATATA-TGAAATAT---AT
103142826 AATAAAAATAA
1 AATAAAAATAA
103142837 CATGATGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 8 0.22
30 16 0.43
32 4 0.11
33 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (29 bp):
AATAAAAATAATATATATATGAAATATAT
Found at i:103144414 original size:44 final size:44
Alignment explanation
Indices: 103144333--103144811 Score: 395
Period size: 44 Copynumber: 10.8 Consensus size: 44
103144323 ATGCTGATAT
* * * * *
103144333 TTCGATCTGCTCTCCGTCGAACACAAAGACGCTAAATCTGCTATC
1 TTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTGCTATC
* * *
103144378 TTCAATCTGCTTTCTGACAATACAGAGACGCCAAATCTGCTGTC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
103144422 TTTGATCTGCTCCCTGACAATACAGGGATGCCAAATCTGCT-TC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * * *
103144465 TTGGA-CTTGCTC-CTCGTCGAATACAAAGATGTCAAATCTACTATC
1 TTCGATC-TGCTCTCT-GAC-AATACAGAGACGCCAAATCTGCTATC
* * *
103144510 TAT-GATTTGCTCTCTGACCATACAGAGATGCCAAATCTGCTATC
1 T-TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
103144554 CTCGATCTGCTCCCTAACAAATACAGAGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTGCTATC
* * * *
103144599 TTTGATCTACTCTCTGATAATACAGAGATGCCAAA--T-C-ATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * * * *
103144639 TTAGATTTGCT-TCAGTG-TAA-ACACGTGAAAGCCAAATCTACCATGTC
1 TTCGATCTGCTCTC--TGACAATACA-GAG-ACGCCAAATCT-GC-TATC
* *
103144686 TTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
103144730 TTCGATCTGCTCTCTGAAAAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTG-ACAATACAGAGACGCCAAATCTGCTATC
* *
103144775 TTTGATCTGCTCTCTGACAATACAGAGATGCCAAATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
103144812 ATCTTAGATT
Statistics
Matches: 351, Mismatches: 60, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
39 5 0.01
40 16 0.05
41 10 0.03
42 4 0.01
43 15 0.04
44 163 0.46
45 104 0.30
46 15 0.04
47 15 0.04
48 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:103144776 original size:176 final size:175
Alignment explanation
Indices: 103144359--103144874 Score: 607
Period size: 176 Copynumber: 2.9 Consensus size: 175
103144349 TCGAACACAA
* * * * *
103144359 AGACGCTAAATCTGCTATCTTCAATCTGCTTTCTG-ACAATACAGAGACGCCAAATCTGCTGTCT
1 AGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAAAAATACAGAGACGCCAAATCTGCTATCT
* * * * *
103144423 TTGATCTGCTCCCTGACAATACAGGGATGCCAAATCTGCTTCTTGGACTTGCTCCTC-GTCG-AA
66 TTGATCTGCTCTCTGACAATACAGAGATGCCAAA--T-CATCTTAGATTTGCT--TCAGT-GTAA
** * * * * * *
103144486 TACA-AAG-ATGTCAAATCTA-C-TATCTATGATTTGCTCTCTGACCATACAG
125 -ACACGTGAAAGCCAAATCTACCATGTCT-TGATCTGCTCCCTGACAATACAG
* * * *
103144535 AGATGCCAAATCTGCTATCCTCGATCTGCTCCCT-AACAAATACAGAGACGCCAAATCTACTATC
1 AGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAA-AAATACAGAGACGCCAAATCTGCTATC
* *
103144599 TTTGATCTACTCTCTGATAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACG
65 TTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACG
103144664 TGAAAGCCAAATCTACCATGTCTTCGATCTGCTCCCTGACAATACAG
130 TGAAAGCCAAATCTACCATGTCTT-GATCTGCTCCCTGACAATACAG
*
103144711 GGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAAAAATACAGAGACGCCAAATCTGCTATCT
1 AGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAAAAATACAGAGACGCCAAATCTGCTATCT
*
103144776 TTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGT
66 TTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACGT
* * * *
103144841 GAAAGCTAAATCTGCTATGTCTTAAATCTGCTCC
131 GAAAGCCAAATCTACCATGTCTT-GATCTGCTCC
103144875 TTGTAAACAT
Statistics
Matches: 293, Mismatches: 37, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
172 6 0.02
173 5 0.02
174 22 0.08
175 3 0.01
176 200 0.68
177 57 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (175 bp):
AGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAAAAATACAGAGACGCCAAATCTGCTATCT
TTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACGT
GAAAGCCAAATCTACCATGTCTTGATCTGCTCCCTGACAATACAG
Found at i:103144895 original size:87 final size:85
Alignment explanation
Indices: 103144584--103144903 Score: 260
Period size: 87 Copynumber: 3.7 Consensus size: 85
103144574 ATACAGAGAC
* * * *
103144584 GCCAAATCTACTA--TCTTTGATCTACT-CTCTGATAATACAGAGATGCCAAATCATCTTAGATT
1 GCCAAATCTGCTATGTCTTAGATCTGCTCCT-TGACAATACAG-GATGCCAAATCATCTTAGATT
103144646 TGCTTCAGTGTAAACACGTGAAA
64 TGCTTCAG-GTAAACACGTGAAA
* * * * * *
103144669 GCCAAATCTACCATGTCTTCGATCTGCTCCCTGACAATACAGGGACGCCAAATCTGCTATCTTCG
1 GCCAAATCTGCTATGTCTTAGATCTGCTCCTTGACAATACA-GGATGCCAAA--T-C-ATCTTAG
* * ** * * *
103144734 ATCTGCTCTCTGAAAAATAC-AGAGAC
61 ATTTGCT-TCAGGTAAACACGTGA-AA
*
103144760 GCCAAATCTGCTA--TCTTTGATCTGCT-CTCTGACAATACAGAGATGCCAAATCATCTTAGATT
1 GCCAAATCTGCTATGTCTTAGATCTGCTCCT-TGACAATACAG-GATGCCAAATCATCTTAGATT
103144822 TGCTTCAGCGTAAACACGTGAAA
64 TGCTTCAG-GTAAACACGTGAAA
* * *
103144845 GCTAAATCTGCTATGTCTTAAATCTGCTCCTTGTAAACATA-AGGATGCCAAATCATCTT
1 GCCAAATCTGCTATGTCTTAGATCTGCTCCTTG-ACA-ATACAGGATGCCAAATCATCTT
103144904 GGATCTACTT
Statistics
Matches: 185, Mismatches: 31, Indels: 36
0.73 0.12 0.14
Matches are distributed among these distances:
84 3 0.02
85 42 0.23
86 3 0.02
87 58 0.31
88 10 0.05
89 34 0.18
90 3 0.02
91 29 0.16
92 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
GCCAAATCTGCTATGTCTTAGATCTGCTCCTTGACAATACAGGATGCCAAATCATCTTAGATTTG
CTTCAGGTAAACACGTGAAA
Found at i:103147058 original size:46 final size:47
Alignment explanation
Indices: 103146998--103147225 Score: 313
Period size: 46 Copynumber: 5.0 Consensus size: 47
103146988 TTTGACATGA
* * * * * *
103146998 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * *
103147044 TGCCATGGTATCTTTCAACCATGATCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
103147090 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
103147136 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
103147182 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
103147226 AGAGTACACT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 163 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:103158495 original size:39 final size:39
Alignment explanation
Indices: 103158449--103158537 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
103158439 AACCCGAAAT
**
103158449 CTAACTGAAGCACATAAGTGCTAAATGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGG
*
103158488 CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGGAGG
1 CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGG
103158527 CTAACTGAAGC
1 CTAACTGAAGC
103158538 TCATCAGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGG
Found at i:103158519 original size:21 final size:21
Alignment explanation
Indices: 103158455--103158519 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
103158445 AAATCTAACT
**
103158455 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAACA
** *
103158476 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACA
103158494 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACA
103158515 GAAGC
1 GAAGC
103158520 CCGGAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 13 0.38
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACA
Found at i:103161130 original size:20 final size:21
Alignment explanation
Indices: 103161077--103161152 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
103161067 CTAAATAATT
* *
103161077 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
103161096 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
103161117 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
103161138 TAATCATAAAATATC
1 -AATAATAAAATATC
103161153 ATCAAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:103164267 original size:20 final size:20
Alignment explanation
Indices: 103164227--103164267 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
103164217 AATAGATATT
*
103164227 TTATTATAACTATTATTAAG
1 TTATTATAACTATTATAAAG
103164247 TTATTATAA-TATATATAAAG
1 TTATTATAACTAT-TATAAAG
103164267 T
1 T
103164268 AAAAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (20 bp):
TTATTATAACTATTATAAAG
Found at i:103164356 original size:18 final size:18
Alignment explanation
Indices: 103164333--103164367 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
103164323 AGAGCAGGGG
103164333 AAAGAAAGAAGGAAAAAA
1 AAAGAAAGAAGGAAAAAA
103164351 AAAGAAAGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
103164368 GGGAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGGAAAAAA
Found at i:103165795 original size:259 final size:258
Alignment explanation
Indices: 103165333--103165845 Score: 972
Period size: 259 Copynumber: 2.0 Consensus size: 258
103165323 GTGAGTATGA
103165333 CACAGATGGACAACTTGAATATTCATAAAAGTAAATAATAAAAATTATAGATAATGTTACTGACA
1 CACAGATGGACAACTTGAATATTCATAAAAGTAAATAATAAAAATTATAGATAATGTTACTGACA
103165398 AGTGTGTTATATACACTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATGTATGAATATT
66 AGTGTGTTATATACACTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATGTATGAATATT
103165463 CATCTAGCATGGCTAATTTGCATGTTTTAGGCTCAGGGACTAAATTGAATAAAAGTAAAACTTTA
131 CATCTAGCATGGCTAATTTGCATGTTTTAGGCTCAGGGACTAAATTGAATAAAAGTAAAACTTTA
*
103165528 TTGGTAATTTTGTAAAAATGTCAGAAATGACCAAATTGCATGAAATGGATTATTTTATTATTCT
196 TGGGTAATTTTGTAAAAAT-TCAGAAATGACCAAATTGCATGAAATGGATTATTTTATTATTCT
* * * *
103165592 CACAGATGGGCAGCTTGAATATTCATAAAAGTAAATAATAAAAATTATAGATAATGTTATTTACA
1 CACAGATGGACAACTTGAATATTCATAAAAGTAAATAATAAAAATTATAGATAATGTTACTGACA
103165657 AGTGTGTTATATACACTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATGTATGAATATT
66 AGTGTGTTATATACACTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATGTATGAATATT
103165722 CATCTAGCATGGCTAATTTGCATGTTTTAGGCTCAGGGACTAAATTGAATAAAAGTAAAACTTTA
131 CATCTAGCATGGCTAATTTGCATGTTTTAGGCTCAGGGACTAAATTGAATAAAAGTAAAACTTTA
103165787 TGGGTAATTTTGTAAAAATTCAGAAATGACCAAATTGCATGAAATGGATTATTTTATTA
196 TGGGTAATTTTGTAAAAATTCAGAAATGACCAAATTGCATGAAATGGATTATTTTATTA
103165846 CTTAAATTAC
Statistics
Matches: 249, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
258 40 0.16
259 209 0.84
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (258 bp):
CACAGATGGACAACTTGAATATTCATAAAAGTAAATAATAAAAATTATAGATAATGTTACTGACA
AGTGTGTTATATACACTAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATGTATGAATATT
CATCTAGCATGGCTAATTTGCATGTTTTAGGCTCAGGGACTAAATTGAATAAAAGTAAAACTTTA
TGGGTAATTTTGTAAAAATTCAGAAATGACCAAATTGCATGAAATGGATTATTTTATTATTCT
Found at i:103166764 original size:46 final size:46
Alignment explanation
Indices: 103166712--103167033 Score: 452
Period size: 46 Copynumber: 7.0 Consensus size: 46
103166702 GCTTTCTGAA
103166712 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
103166758 ATAAAATGTGTAAGACTATGGTTGAAAGATACCATGGTAACATG--
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
103166802 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
103166848 ATAAAATGTGTAACACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
103166894 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAA
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
103166940 ATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 AT-AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
103166986 AGAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATAAAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCAACATG
103167034 TCAAAGATAA
Statistics
Matches: 247, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.17
45 4 0.02
46 168 0.68
47 4 0.02
50 30 0.12
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:103166829 original size:90 final size:90
Alignment explanation
Indices: 103166712--103166984 Score: 440
Period size: 90 Copynumber: 3.0 Consensus size: 90
103166702 GCTTTCTGAA
*
103166712 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACTAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCAT
*
103166777 GGTTGAAAGATACCATGGTAACATG
66 GGTTGAAAGATACCATGGCAACATG
* *
103166802 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAACACCAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCAT
103166867 GGTTGAAAGATACCATGGCAACATG
66 GGTTGAAAGATACCATGGCAACATG
* * **
103166892 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAAATGAAAA-GAATAAGAC
1 --ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-AAAATGTGTAAGAC
103166956 CATGGTTGAAAGATACCATGGCAACATG
63 CATGGTTGAAAGATACCATGGCAACATG
103166984 A
1 A
103166985 CAGAAAATGA
Statistics
Matches: 170, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
90 87 0.51
92 79 0.46
93 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (90 bp):
ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATG
Found at i:103167040 original size:92 final size:90
Alignment explanation
Indices: 103166714--103167033 Score: 347
Period size: 90 Copynumber: 3.5 Consensus size: 90
103166704 TTTCTGAAAT
* * * ** *
103166714 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACTATGG
1 AAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACATGAT-GAAAA-GAATAAGACCATGG
* *
103166779 TTGAAAGATACCATGGTAACATGA-TG
64 TTGAAAGATACCATGGCAACATGACAG
* * * ** *
103166805 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATGTGTAACACCATGG
1 AAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACATGAT-GAAAA-GAATAAGACCATGG
* *
103166869 TTGAAAGATACCATGGCAACATGATAT
64 TTGAAAGATACCATGGCAACATGACAG
* * *
103166896 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAAATGAAAAGAATAAGACCATGG
1 AAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACATG--ATGAAAAGAATAAGACCATGG
103166961 TTGAAAGATACCATGGCAACATGACAG
64 TTGAAAGATACCATGGCAACATGACAG
* *
103166988 AAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAAATG--T--GTAAGACCATAGTTGAAAGACACCATGGCAACATG
103167034 TCAAAGATAA
Statistics
Matches: 204, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
90 85 0.42
92 82 0.40
93 4 0.02
94 3 0.01
96 30 0.15
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (90 bp):
AAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACATGATGAAAAGAATAAGACCATGGTT
GAAAGATACCATGGCAACATGACAG
Found at i:103170761 original size:35 final size:35
Alignment explanation
Indices: 103170722--103170791 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
103170712 AATCCTTGGC
103170722 CAGCTAGTTCCTTTCTGTTTATCCTCCAGCACACA
1 CAGCTAGTTCCTTTCTGTTTATCCTCCAGCACACA
*
103170757 CAGCTAGTTCCTTTTTGTTTATCCTCCAGCACACA
1 CAGCTAGTTCCTTTCTGTTTATCCTCCAGCACACA
103170792 TACTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.33, G:0.11, T:0.36
Consensus pattern (35 bp):
CAGCTAGTTCCTTTCTGTTTATCCTCCAGCACACA
Found at i:103175727 original size:26 final size:26
Alignment explanation
Indices: 103175697--103175748 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
103175687 CACCGCTGAA
*
103175697 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
103175723 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
103175749 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:103175896 original size:105 final size:103
Alignment explanation
Indices: 103175665--103175931 Score: 437
Period size: 105 Copynumber: 2.6 Consensus size: 103
103175655 TAACCGTTAT
* **
103175665 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
103175730 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
103175768 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
103175832 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
103175873 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
103175932 TTATATACAA
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
103 55 0.36
104 25 0.16
105 71 0.47
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:103182855 original size:104 final size:105
Alignment explanation
Indices: 103182676--103182942 Score: 441
Period size: 105 Copynumber: 2.6 Consensus size: 105
103182666 TAACCGTTAT
* **
103182676 TGGTGGATCTCGCACTTAGCACCACCGCTGAATC-GGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
103182740 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
103182779 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
103182844 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
103182884 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
103182943 TTATATACAA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 30 0.20
104 51 0.33
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:103185675 original size:16 final size:16
Alignment explanation
Indices: 103185654--103185687 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
103185644 AGGGTATAAT
103185654 AACTTAATATATTAAC
1 AACTTAATATATTAAC
103185670 AACTTAATATATTAAC
1 AACTTAATATATTAAC
103185686 AA
1 AA
103185688 AATAATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
AACTTAATATATTAAC
Found at i:103185693 original size:16 final size:16
Alignment explanation
Indices: 103185658--103185693 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
103185648 TATAATAACT
**
103185658 TAATATATTAACAACT
1 TAATATATTAACAAAA
103185674 TAATATATTAACAAAA
1 TAATATATTAACAAAA
103185690 TAAT
1 TAAT
103185694 GTACTGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATATATTAACAAAA
Found at i:103186149 original size:28 final size:29
Alignment explanation
Indices: 103186093--103186165 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
103186083 CATAATTTAA
103186093 AATAAAAATAATATATATATGAAATATAT
1 AATAAAAATAATATATATATGAAATATAT
* *
103186122 AATAAAATATAATTTATA-AGTAAAATATAGAAT
1 AATAAAA-ATAATATATATA-TGAAATAT---AT
103186155 AATAAAAATAA
1 AATAAAAATAA
103186166 CATGATGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 8 0.22
30 16 0.43
32 4 0.11
33 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (29 bp):
AATAAAAATAATATATATATGAAATATAT
Found at i:103188719 original size:11 final size:11
Alignment explanation
Indices: 103188705--103188749 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
103188695 ATATAAATAT
103188705 TATTTTATTAA
1 TATTTTATTAA
*
103188716 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
103188729 TATTTTATTAT
1 TATTTTATTAA
103188740 TATTTTATTA
1 TATTTTATTA
103188750 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:103189115 original size:24 final size:24
Alignment explanation
Indices: 103189083--103189131 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
103189073 GAAAAAAGCA
103189083 TGGGATTAATGTTAATGTAGAGTT
1 TGGGATTAATGTTAATGTAGAGTT
103189107 TGGGATTAATGTTAATGTAGAGTT
1 TGGGATTAATGTTAATGTAGAGTT
103189131 T
1 T
103189132 CCTTACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (24 bp):
TGGGATTAATGTTAATGTAGAGTT
Found at i:103190733 original size:45 final size:46
Alignment explanation
Indices: 103190643--103190755 Score: 210
Period size: 45 Copynumber: 2.5 Consensus size: 46
103190633 TTTAGGTTTT
103190643 AAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTG
1 AAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTG
*
103190689 AAAGATACCATGGAAACATGACGGG-AATGAATAAGACCATGGTTG
1 AAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTG
103190734 AAAGATACCATGGCAACATGAC
1 AAAGATACCATGGCAACATGAC
103190756 ATGAGGTACC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 41 0.63
46 24 0.37
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (46 bp):
AAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTG
Found at i:103193001 original size:30 final size:30
Alignment explanation
Indices: 103192945--103193001 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
103192935 AGACCATTTT
* * *
103192945 CACACGGGTTGAGCACATGCCTATGTGAGC
1 CACACGGGCTGAGCACACGCCCATGTGAGC
103192975 CACACGGGCT-AGCCACACGCCCATGTG
1 CACACGGGCTGAG-CACACGCCCATGTG
103193002 GCAGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGCTGAGCACACGCCCATGTGAGC
Found at i:103194333 original size:19 final size:21
Alignment explanation
Indices: 103194278--103194334 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
103194268 AAAAAATAAT
103194278 AAAAATAAAAATAAAAGCTAAG
1 AAAAATAAAAATAAAAGC-AAG
* * * *
103194300 CATAATAATACTAAAA-C-AG
1 AAAAATAAAAATAAAAGCAAG
103194319 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
103194335 ATAAGAAGAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 14 0.52
21 1 0.04
22 12 0.44
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAATAAAAGCAAG
Found at i:103194399 original size:4 final size:4
Alignment explanation
Indices: 103194390--103194415 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
103194380 AAGAAATAAG
103194390 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
103194416 AATAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:103196788 original size:13 final size:14
Alignment explanation
Indices: 103196752--103196782 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
103196742 TTCATTCACA
103196752 TCTCATTTCTCCTC
1 TCTCATTTCTCCTC
103196766 TCTCACTTTCTCCTC
1 TCTCA-TTTCTCCTC
103196781 TC
1 TC
103196783 ATTTTCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.48
Consensus pattern (14 bp):
TCTCATTTCTCCTC
Found at i:103207986 original size:14 final size:14
Alignment explanation
Indices: 103207954--103207985 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
103207944 TCAATTTCTG
103207954 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
103207968 TTTTTCTTTTTTT-
1 TTTTTCTTTTTTTC
103207981 TTTTT
1 TTTTT
103207986 TGCTGCAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:103208822 original size:15 final size:15
Alignment explanation
Indices: 103208804--103208848 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
103208794 TTTTTTTTAA
103208804 TAATTTTTTTATATT
1 TAATTTTTTTATATT
**
103208819 TAA-TTTTAAATATT
1 TAATTTTTTTATATT
*
103208833 TAATTTTATTATATT
1 TAATTTTTTTATATT
103208848 T
1 T
103208849 TATAAGACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTATATT
Found at i:103214743 original size:13 final size:13
Alignment explanation
Indices: 103214721--103214753 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
103214711 AAGGGTTTGT
103214721 TTAT-TAAACTAA
1 TTATCTAAACTAA
103214733 TTATCTAAACTAA
1 TTATCTAAACTAA
*
103214746 TTAACTAA
1 TTATCTAA
103214754 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:103224919 original size:50 final size:50
Alignment explanation
Indices: 103224844--103225020 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
103224834 CCATGGCAAC
103224844 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
103224894 AAGTGATAAGTAATAGCTTTGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
103224944 AAGTGATAAGTGATAGCTTCGGCTACACTTATCCGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
103224994 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
103225021 CTGATCAGTG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 93 0.79
51 24 0.21
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:103225034 original size:31 final size:31
Alignment explanation
Indices: 103224996--103225113 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
103224986 ACAAATGACA
103224996 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
103225027 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
103225058 AGTGAAAAGTGGTAGCTCCGACTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
103225089 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
103225114 AAGTAACAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:103225287 original size:49 final size:49
Alignment explanation
Indices: 103225135--103225360 Score: 295
Period size: 49 Copynumber: 4.7 Consensus size: 49
103225125 GATTTCCGTA
* * * * *
103225135 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTAC-GTG
* * *
103225182 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
103225228 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
*
103225277 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
*
103225326 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGATATGGCATCGA-TATGTGA
103225361 AGATGTGTAA
Statistics
Matches: 165, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
46 27 0.16
47 38 0.23
48 15 0.09
49 85 0.52
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
Found at i:103227215 original size:21 final size:20
Alignment explanation
Indices: 103227191--103227234 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
103227181 TCCCCTGCTC
*
103227191 TCTATTTCGTTTCATTCTGTT
1 TCTATTTCCTTTC-TTCTGTT
*
103227212 TCTATTTCCTTTCTTTTGTT
1 TCTATTTCCTTTCTTCTGTT
103227232 TCT
1 TCT
103227235 TTAGTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.66
Consensus pattern (20 bp):
TCTATTTCCTTTCTTCTGTT
Found at i:103227250 original size:5 final size:5
Alignment explanation
Indices: 103227242--103227318 Score: 154
Period size: 5 Copynumber: 15.4 Consensus size: 5
103227232 TCTTTAGTTT
103227242 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
103227292 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
103227319 TAAAACATAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 72 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:103231960 original size:23 final size:23
Alignment explanation
Indices: 103231892--103231978 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
103231882 CTTGATCAGT
* *
103231892 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAGGTGCCTGAA
* * *
103231914 A-ATGACACACTAGGTGTCTG--
1 ATACGACACACAAGGTGCCTGAA
*
103231934 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
103231957 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
103231979 TCGATAAAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 29 0.58
22 1 0.02
23 19 0.38
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:103232374 original size:15 final size:15
Alignment explanation
Indices: 103232349--103232406 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
103232339 TCATGTATAT
103232349 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
103232365 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
103232380 AATAATTTCAATCAA
1 TATAAATTCAATCAA
103232395 TATAAATTCAAT
1 TATAAATTCAAT
103232407 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:103233685 original size:5 final size:5
Alignment explanation
Indices: 103233677--103233703 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
103233667 TCTTTAGTTT
103233677 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
103233704 TGTAAGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:103235208 original size:3 final size:3
Alignment explanation
Indices: 103235200--103235231 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
103235190 CATTTTATTT
103235200 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
103235232 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:103235236 original size:3 final size:3
Alignment explanation
Indices: 103235230--103235309 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
103235220 CATCATCATC
103235230 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
103235278 GTT ACTT -TT GTC ATT ATT A-T ATT ATT ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
103235310 GGTATTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.91
4 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:103238659 original size:30 final size:30
Alignment explanation
Indices: 103238625--103238683 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
103238615 TATTTTATTA
103238625 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
103238655 TTAATTTTGTTATTATTTTAGAGGTATTT
1 TTAATTTTGTTATTATTTTAAAGGCATTT
103238684 TCTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:103239361 original size:31 final size:30
Alignment explanation
Indices: 103239310--103239367 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
103239300 AGGGCAAACC
* *
103239310 TTTCAAAATGATTAAATAATGGCCAAATCT
1 TTTCAAAATGATCAAATAATGACCAAATCT
*
103239340 TTTCAAAATTGCTCAAATAATGACCAAA
1 TTTCAAAA-TGATCAAATAATGACCAAA
103239368 CAAGGATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (30 bp):
TTTCAAAATGATCAAATAATGACCAAATCT
Found at i:103245095 original size:10 final size:10
Alignment explanation
Indices: 103245080--103245138 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
103245070 AATTTTAGCT
103245080 TTTATCTTTA
1 TTTATCTTTA
*
103245090 TTTATCCTTA
1 TTTATCTTTA
103245100 TTTATCTTTA
1 TTTATCTTTA
*
103245110 ATTATCTTTA
1 TTTATCTTTA
103245120 TTTAT-TTGTA
1 TTTATCTT-TA
103245130 TTTATCTTT
1 TTTATCTTT
103245139 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:103248155 original size:20 final size:18
Alignment explanation
Indices: 103248130--103248168 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
103248120 TTATTTACGT
103248130 TTCAAAAAATAATTTTTTTG
1 TTCAAAAAAT--TTTTTTTG
*
103248150 TTCAAATAATTTTTTTTG
1 TTCAAAAAATTTTTTTTG
103248168 T
1 T
103248169 AAAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCAAAAAATTTTTTTTG
Found at i:103248173 original size:17 final size:18
Alignment explanation
Indices: 103248135--103248180 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
103248125 TACGTTTCAA
103248135 AAAATAA-TTTTTTTGTT
1 AAAATAATTTTTTTTGTT
*
103248152 CAAATAATTTTTTTTG-T
1 AAAATAATTTTTTTTGTT
*
103248169 AAAATTATTTTT
1 AAAATAATTTTT
103248181 CAAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
AAAATAATTTTTTTTGTT
Found at i:103252329 original size:39 final size:39
Alignment explanation
Indices: 103252284--103252360 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
103252274 TCTATATTCA
103252284 ATAATTACTATAAATTTCAAGAGCAAATTAGGAATTAAT
1 ATAATTACTATAAATTTCAAGAGCAAATTAGGAATTAAT
103252323 ATAATTACTATAAATTTCAAGAGCAAATTAGGAATTAA
1 ATAATTACTATAAATTTCAAGAGCAAATTAGGAATTAA
103252361 ATCGAATCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (39 bp):
ATAATTACTATAAATTTCAAGAGCAAATTAGGAATTAAT
Found at i:103252461 original size:16 final size:16
Alignment explanation
Indices: 103252440--103252491 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
103252430 TTTGGTTCGC
103252440 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
103252456 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
103252472 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
103252488 TGTA
1 TGTA
103252492 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:103252577 original size:39 final size:43
Alignment explanation
Indices: 103252472--103252581 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
103252462 GGATTAGAGG
103252472 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
103252517 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
103252557 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
103252582 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:103252637 original size:16 final size:16
Alignment explanation
Indices: 103252616--103252648 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
103252606 AATACCTTTA
103252616 GCATAAATTTATTTTG
1 GCATAAATTTATTTTG
103252632 GCATAAATTTATTTTG
1 GCATAAATTTATTTTG
103252648 G
1 G
103252649 TAAATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (16 bp):
GCATAAATTTATTTTG
Found at i:103252759 original size:16 final size:16
Alignment explanation
Indices: 103252722--103252763 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
103252712 TTAATCATAT
*
103252722 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
103252738 TT-AAATATATTATAA
1 TTAAAATATATTATAA
103252753 TTAAAATATAT
1 TTAAAATATAT
103252764 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:103252770 original size:14 final size:15
Alignment explanation
Indices: 103252731--103252772 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
103252721 TTTAAACATA
*
103252731 ATTATTATTAAATAT
1 ATTATAATTAAATAT
103252746 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
103252760 A-TATAATTTAATA
1 ATTATAATTAAATA
103252773 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:103252967 original size:26 final size:28
Alignment explanation
Indices: 103252938--103252998 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
103252928 TATGAATTTG
*
103252938 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
103252964 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
103252992 TAAAATT
1 TATAATT
103252999 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:103252996 original size:47 final size:45
Alignment explanation
Indices: 103252945--103253085 Score: 112
Period size: 47 Copynumber: 3.1 Consensus size: 45
103252935 TTGTATAATT
103252945 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTA-TATTA-ATATAATTTAATAATAATATATAATTTCA
* * ** * *
103252992 TAAAATTATTGATAATAAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATAATT-ATATTAATATAATTTAATA-AT-AATATATA-ATTTCA
*
103253036 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATT-ATATT-AATATAATTTAATAATAATATATAATTTCA
103253083 TAA
1 TAA
103253086 CATTCTTAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
43 5 0.07
44 15 0.21
45 14 0.20
46 12 0.17
47 18 0.26
48 6 0.09
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (45 bp):
TAAAATAATTATATTAATATAATTTAATAATAATATATAATTTCA
Found at i:103253000 original size:91 final size:89
Alignment explanation
Indices: 103252904--103253120 Score: 290
Period size: 91 Copynumber: 2.4 Consensus size: 89
103252894 AATTTAAAAT
* * * *
103252904 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
103252969 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
103252995 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
103253060 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
103253086 CATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
103253121 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 88 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:103253001 original size:44 final size:42
Alignment explanation
Indices: 103252938--103253080 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
103252928 TATGAATTTG
103252938 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
103252982 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
103253029 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
103253073 TATAATTT
1 TATAATTT
103253081 CATAACATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:103256251 original size:37 final size:36
Alignment explanation
Indices: 103256210--103256307 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 36
103256200 TCTGAAAACC
* *
103256210 GAAAAGAAACGGGGGAGCAAATCGGTAGAAAAGAAAA
1 GAAAAGAAAC-AGGGAGCAAATCGGCAGAAAAGAAAA
* **
103256247 GAAAATAAACTA-GGAGCAAATCAACAGAAAAGAAAA
1 GAAAAGAAAC-AGGGAGCAAATCGGCAGAAAAGAAAA
*
103256283 -ACAAAGAAACAAGGAAGCAAATCGG
1 GA-AAAGAAAC-AGGGAGCAAATCGG
103256308 ATGAAGGTAG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
35 1 0.02
36 29 0.60
37 18 0.38
ACGTcount: A:0.58, C:0.11, G:0.24, T:0.06
Consensus pattern (36 bp):
GAAAAGAAACAGGGAGCAAATCGGCAGAAAAGAAAA
Found at i:103256267 original size:36 final size:36
Alignment explanation
Indices: 103256223--103256307 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
103256213 AAGAAACGGG
* * *
103256223 GGAGCAAATCGGTAGAAAAGAAAAGA-AAATAAACTA
1 GGAGCAAATCGGCAGAAAAGAAAA-ACAAAGAAACAA
**
103256259 GGAGCAAATCAACAGAAAAGAAAAACAAAGAAACAA
1 GGAGCAAATCGGCAGAAAAGAAAAACAAAGAAACAA
103256295 GGAAGCAAATCGG
1 GG-AGCAAATCGG
103256308 ATGAAGGTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.03
36 31 0.77
37 8 0.20
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.07
Consensus pattern (36 bp):
GGAGCAAATCGGCAGAAAAGAAAAACAAAGAAACAA
Found at i:103259948 original size:17 final size:18
Alignment explanation
Indices: 103259926--103259959 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103259916 TTGAATTAGT
*
103259926 GAAA-TTATGAATTAAAG
1 GAAATTTATAAATTAAAG
103259943 GAAATTTATAAATTAAA
1 GAAATTTATAAATTAAA
103259960 TAAGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
GAAATTTATAAATTAAAG
Found at i:103260519 original size:34 final size:34
Alignment explanation
Indices: 103260476--103260544 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
103260466 CATTAGTTTT
103260476 TGATTTCATGGGTAATTTCGAAAGTTTCCATGAC
1 TGATTTCATGGGTAATTTCGAAAGTTTCCATGAC
103260510 TGATTTCATGGGTAATTTCGAAAGTTTCCATGAC
1 TGATTTCATGGGTAATTTCGAAAGTTTCCATGAC
103260544 T
1 T
103260545 AAGTGCTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (34 bp):
TGATTTCATGGGTAATTTCGAAAGTTTCCATGAC
Found at i:103261307 original size:53 final size:54
Alignment explanation
Indices: 103261173--103261346 Score: 223
Period size: 52 Copynumber: 3.3 Consensus size: 54
103261163 TGACGGAAAA
* * *
103261173 GATGTGAT-ATGTG-TGCCCGTATAAGACCATATCTGAGCTATGGCATCGGTGT
1 GATGTGATAATGTGATTCCCGTATAAGACCATACCTGGGCTATGGCATCGGTGT
* * * *
103261225 AATGTGAT-ATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCACCGGTAT
1 GATGTGATAATGTGATTCCCGTATAAGACCATACCTGGGCTATGGCATCGGTGT
* * *
103261277 GATGTGATAATGTGATT-CTGTATAAGACCATACCTGGGCTATAGCGTCGGTGT
1 GATGTGATAATGTGATTCCCGTATAAGACCATACCTGGGCTATGGCATCGGTGT
103261330 GATGTGATAATGTGATT
1 GATGTGATAATGTGATT
103261347 GTAATAGCCT
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
52 53 0.50
53 52 0.49
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (54 bp):
GATGTGATAATGTGATTCCCGTATAAGACCATACCTGGGCTATGGCATCGGTGT
Done.