Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 115 of 135
Found at i:38756289 original size:60 final size:60
Alignment explanation
Indices: 38756196--38756316 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
38756186 AATGTTGGCT
*
38756196 AGAATGTTTTTGGATAATTTGGCCACTCCGCCACTGGACAGTCATTAGAATTAATTTTCA
1 AGAATGTTTTTGGATAATTTGGCCACTCCGCCACTGGACAGTCATTAGAACTAATTTTCA
*
38756256 AGAATGTTTTTGGCTAATTTGGCCACTCCGCCACTGGACAGTCATTAGAACTAATTTTCA
1 AGAATGTTTTTGGATAATTTGGCCACTCCGCCACTGGACAGTCATTAGAACTAATTTTCA
38756316 A
1 A
38756317 TGCTTTTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (60 bp):
AGAATGTTTTTGGATAATTTGGCCACTCCGCCACTGGACAGTCATTAGAACTAATTTTCA
Found at i:38757400 original size:18 final size:17
Alignment explanation
Indices: 38757379--38757440 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
38757369 TAGTTTGTTA
38757379 TATTTTATAGGTTTTATT
1 TATTTTATAGGTTTTA-T
**
38757397 TATTTTCTATAAATTTTA-
1 TA-TTT-TATAGGTTTTAT
38757415 TATTTTATAGGTTTTACT
1 TATTTTATAGGTTTTA-T
38757433 TATTTTAT
1 TATTTTAT
38757441 TAAATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.25
17 3 0.08
18 12 0.33
19 3 0.08
20 9 0.25
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATAGGTTTTAT
Found at i:38757422 original size:36 final size:35
Alignment explanation
Indices: 38757376--38757455 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 35
38757366 CTATAGTTTG
* *
38757376 TTATATTTTATAGGTTTTATTTATTTTCTATAAATT
1 TTATATTTTATAGGTTTTACTTATTTTAT-TAAATT
38757412 TTATATTTTATAGGTTTTACTTATTTTATTAAATT
1 TTATATTTTATAGGTTTTACTTATTTTATTAAATT
38757447 TTATATTTT
1 TTATATTTT
38757456 TTATAAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 15 0.36
36 27 0.64
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (35 bp):
TTATATTTTATAGGTTTTACTTATTTTATTAAATT
Found at i:38757456 original size:18 final size:17
Alignment explanation
Indices: 38757397--38757499 Score: 68
Period size: 18 Copynumber: 5.9 Consensus size: 17
38757387 AGGTTTTATT
38757397 TATTTTCTATAAATTTTA
1 TATTTT-TATAAATTTTA
**
38757415 TA-TTTTATAGGTTTTA
1 TATTTTTATAAATTTTA
38757431 CT-TATTTTATTAAATTTTA
1 -TAT-TTTTA-TAAATTTTA
*
38757450 TATTTTTTATAAATCTTA
1 TA-TTTTTATAAATTTTA
* * *
38757468 TATATTT-GAATTTTTA
1 TATTTTTATAAATTTTA
*
38757484 TCTATTTTATAAATTT
1 TAT-TTTTATAAATTT
38757500 CCCATAATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
16 17 0.27
17 11 0.17
18 23 0.36
19 12 0.19
20 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTTTATAAATTTTA
Found at i:38763517 original size:51 final size:52
Alignment explanation
Indices: 38763409--38763522 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 52
38763399 CATTTAATAT
* * * * *
38763409 TCACGATGACATATTGTCATCAGACCATTTAATTTGTCATGGATTCATTCAC
1 TCACGATGACATATAGTCATCAGACCATTCAATTCGTAAAGGATTCATTCAC
* *
38763461 TCACGATGACACT-TAGTCATCGGACC-TTCAATTCGTAAAGGATTCATTTAC
1 TCACGATGACA-TATAGTCATCAGACCATTCAATTCGTAAAGGATTCATTCAC
38763512 TCACGATGACA
1 TCACGATGACA
38763523 AATGAATCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 31 0.57
52 22 0.41
53 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (52 bp):
TCACGATGACATATAGTCATCAGACCATTCAATTCGTAAAGGATTCATTCAC
Found at i:38768169 original size:51 final size:50
Alignment explanation
Indices: 38768083--38768308 Score: 251
Period size: 51 Copynumber: 4.4 Consensus size: 50
38768073 CAAAAGGATT
* * * *
38768083 CGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTGCAGATTGAAGGTC
1 CGATGACTAGGTGTCATCGTGAGTAAATGAATCC-ATGCAGATTAAAGGTC
* * * * *
38768134 TGATGACTAGGTGTCATCGTAAGTAAATGAATCCTTTACGGATTAAAGGTC
1 CGATGACTAGGTGTCATCGTGAGTAAATGAATCC-ATGCAGATTAAAGGTC
*
38768185 CGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGATAGATTAAAGGTC
1 CGATGACTAGGTGTCATCGTGAGTAAATGAATCCATG-CAGATTAAAGGTC
*
38768236 CGATGACTCA-GTGTTATCGTGAGTAAATGAATCCATG-ATGGATTAAAGGTC
1 CGATGACT-AGGTGTCATCGTGAGTAAATGAATCCATGCA--GATTAAAGGTC
* *
38768287 TGATGACTCA-GTGTTATCGTGA
1 CGATGACT-AGGTGTCATCGTGA
38768309 TTATTAAATG
Statistics
Matches: 156, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 153 0.98
52 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (50 bp):
CGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGCAGATTAAAGGTC
Found at i:38768202 original size:102 final size:101
Alignment explanation
Indices: 38768083--38768308 Score: 285
Period size: 102 Copynumber: 2.2 Consensus size: 101
38768073 CAAAAGGATT
* * * *
38768083 CGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTG-CAGATTGAAGGTCTGATGACT-AGGT
1 CGATGACT-AGTGTCATCGTGAGTAAATGAATCC-ATGACAGATTAAAGGTCCGATGACTCA-GT
* *
38768146 GTCATCGTAAGTAAATGAATCCTTTACGGATTAAAGGTC
63 GTCATCGTAAGTAAATGAATCCATGACGGATTAAAGGTC
*
38768185 CGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGATAGATTAAAGGTCCGATGACTCAGTGT
1 CGATGACTA-GTGTCATCGTGAGTAAATGAATCCATGACAGATTAAAGGTCCGATGACTCAGTGT
* * *
38768250 TATCGTGAGTAAATGAATCCATGATGGATTAAAGGTC
65 CATCGTAAGTAAATGAATCCATGACGGATTAAAGGTC
* *
38768287 TGATGACTCAGTGTTATCGTGA
1 CGATGACT-AGTGTCATCGTGA
38768309 TTATTAAATG
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
101 3 0.03
102 103 0.95
103 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (101 bp):
CGATGACTAGTGTCATCGTGAGTAAATGAATCCATGACAGATTAAAGGTCCGATGACTCAGTGTC
ATCGTAAGTAAATGAATCCATGACGGATTAAAGGTC
Found at i:38771620 original size:42 final size:42
Alignment explanation
Indices: 38771561--38771644 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
38771551 TGGTGCGCTG
38771561 GAACCCATTAATCAAATCAAAAGGATAATAGGTTTTTTGAAA
1 GAACCCATTAATCAAATCAAAAGGATAATAGGTTTTTTGAAA
*
38771603 GAACCTATTAATCAAATCAAAAGGATAATAGGTTTTTTGAAA
1 GAACCCATTAATCAAATCAAAAGGATAATAGGTTTTTTGAAA
38771645 AAGTCAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (42 bp):
GAACCCATTAATCAAATCAAAAGGATAATAGGTTTTTTGAAA
Found at i:38772621 original size:32 final size:33
Alignment explanation
Indices: 38772585--38772649 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
38772575 AAAAGCTTTA
*
38772585 TTATTATT-TATTTTAGAGTTCAAAAAATTACT
1 TTATTATTCTATTTTAGAGTCCAAAAAATTACT
* * *
38772617 TTATTATTCTTTTTTAGTGTCCAAAAATTTACT
1 TTATTATTCTATTTTAGAGTCCAAAAAATTACT
38772650 GTAATTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.52
Consensus pattern (33 bp):
TTATTATTCTATTTTAGAGTCCAAAAAATTACT
Found at i:38773398 original size:15 final size:14
Alignment explanation
Indices: 38773368--38773394 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38773358 CATGTGCTTT
38773368 TTTTTTAATATTTA
1 TTTTTTAATATTTA
38773382 TTTTTTAATATTT
1 TTTTTTAATATTT
38773395 TATTATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:38775862 original size:40 final size:39
Alignment explanation
Indices: 38775818--38775914 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
38775808 GTATTCTTGT
* * *
38775818 AGTGTTTAAAGTGTCATTGCCATTTCAATTATAATATTGC
1 AGTGTTTAAAGTGTCACTACCA-ATCAATTATAATATTGC
* * * *
38775858 AGTGTTTACAGTGTCACTACTAATCAGTTATAATCTTGC
1 AGTGTTTAAAGTGTCACTACCAATCAATTATAATATTGC
*
38775897 AGTGTTTATAGTGTCACT
1 AGTGTTTAAAGTGTCACT
38775915 GCTAATCGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 31 0.63
40 18 0.37
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (39 bp):
AGTGTTTAAAGTGTCACTACCAATCAATTATAATATTGC
Found at i:38775900 original size:39 final size:39
Alignment explanation
Indices: 38775846--38775921 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
38775836 GCCATTTCAA
38775846 TTATAATATTGCAGTGTTTACAGTGTCACTACTAATCAG
1 TTATAATATTGCAGTGTTTACAGTGTCACTACTAATCAG
* * *
38775885 TTATAATCTTGCAGTGTTTATAGTGTCACTGCTAATC
1 TTATAATATTGCAGTGTTTACAGTGTCACTACTAATC
38775922 GATAAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (39 bp):
TTATAATATTGCAGTGTTTACAGTGTCACTACTAATCAG
Found at i:38790861 original size:16 final size:16
Alignment explanation
Indices: 38790840--38790873 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38790830 TTTTTCTATT
38790840 ATTCTCTCTAA-TTATA
1 ATTCTCT-TAATTTATA
38790856 ATTCTCTTAATTTATA
1 ATTCTCTTAATTTATA
38790872 AT
1 AT
38790874 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTCTCTTAATTTATA
Found at i:38792071 original size:17 final size:18
Alignment explanation
Indices: 38792049--38792100 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
38792039 AAAAAATTAA
* *
38792049 ATAAAATTTTAAAATAT-
1 ATAAAATATTAAAAAATC
38792066 ATAAAA-ATTAAAAAATC
1 ATAAAATATTAAAAAATC
*
38792083 ATAAAATAGTTATAAAAT
1 ATAAAATA-TTAAAAAAT
38792101 ATTAGATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.28
17 12 0.41
18 1 0.03
19 8 0.28
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAAAATATTAAAAAATC
Found at i:38792096 original size:28 final size:27
Alignment explanation
Indices: 38792040--38792104 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
38792030 ATGTCACACA
**
38792040 AAAAATTAAATAAAATTTTAAAATATAT
1 AAAAATT-AATAAAATCATAAAATATAT
38792068 AAAAATTAA-AAAATCATAAAATAGTTAT
1 AAAAATTAATAAAATCATAAAATA--TAT
38792096 AAAATATTA
1 AAAA-ATTA
38792105 GATTTAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.38
27 2 0.06
28 14 0.44
29 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAATTAATAAAATCATAAAATATAT
Found at i:38794306 original size:2 final size:2
Alignment explanation
Indices: 38794301--38794339 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
38794291 ATATATATAC
38794301 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
38794340 TTAGGAACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38800194 original size:30 final size:30
Alignment explanation
Indices: 38800159--38800220 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
38800149 TATTTTATTG
* **
38800159 TTAATTTTGTTATTATTTTAGAGGCATTTA
1 TTAATTTTGTTACTATTTTAGAAACATTTA
38800189 TTAATTTTGTTACTATTTTAGAAACATTTA
1 TTAATTTTGTTACTATTTTAGAAACATTTA
38800219 TT
1 TT
38800221 TGTTAAGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTACTATTTTAGAAACATTTA
Found at i:38806576 original size:9 final size:9
Alignment explanation
Indices: 38806562--38806621 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
38806552 ATAAATGATT
38806562 TTAAAATTA
1 TTAAAATTA
38806571 TTAAAATTA
1 TTAAAATTA
38806580 TT----TT-
1 TTAAAATTA
38806584 TTAAAA-TA
1 TTAAAATTA
38806592 -TAAAATTA
1 TTAAAATTA
38806600 TTAAAATTA
1 TTAAAATTA
38806609 TTTTAAAATTA
1 --TTAAAATTA
38806620 TT
1 TT
38806622 TTTTTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 6 0.14
8 2 0.05
9 21 0.50
11 9 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAAAATTA
Found at i:38806582 original size:20 final size:20
Alignment explanation
Indices: 38806554--38806623 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
38806544 TCACGTCAAT
*
38806554 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
38806574 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
38806594 AAATTA--TTAAAATTATTTTA
1 AAATTATTTTAAAATTA--TTA
38806614 AAATTATTTT
1 AAATTATTTT
38806624 TTTAAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
20 21 0.51
21 2 0.05
22 10 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:38806664 original size:41 final size:40
Alignment explanation
Indices: 38806562--38806645 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
38806552 ATAAATGATT
38806562 TTAAAATTA--TTAAAATTATTTTTTAAAATATAAAATTA
1 TTAAAATTATTTTAAAATTATTTTTTAAAATATAAAATTA
*
38806600 TTAAAATTATTTTAAAATTATTTTTTTAAATAATAAAATTA
1 TTAAAATTATTTTAAAATTATTTTTTAAAAT-ATAAAATTA
38806641 TTAAA
1 TTAAA
38806646 TATTTTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 9 0.21
40 19 0.45
41 14 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (40 bp):
TTAAAATTATTTTAAAATTATTTTTTAAAATATAAAATTA
Found at i:38807798 original size:9 final size:9
Alignment explanation
Indices: 38807784--38807819 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
38807774 TATTTAAAAA
38807784 AATAATTTT
1 AATAATTTT
38807793 AATAATTTT
1 AATAATTTT
38807802 AATAATTTT
1 AATAATTTT
38807811 -AT-ATTTT
1 AATAATTTT
38807818 AA
1 AA
38807820 AAAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 3 0.12
9 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATAATTTT
Found at i:38807825 original size:38 final size:39
Alignment explanation
Indices: 38807764--38807841 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
38807754 AAATTATTTG
*
38807764 ATAATTTTATTATTTAAAAAAATAATTTTAATAATTTTA
1 ATAATTTTATTATTTAAAAAAATAATTTAAATAATTTTA
*
38807803 ATAATTTTA-TATTTTAAAAAATAATTTAAATAATTTTA
1 ATAATTTTATTATTTAAAAAAATAATTTAAATAATTTTA
38807841 A
1 A
38807842 AATCATTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 28 0.76
39 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (39 bp):
ATAATTTTATTATTTAAAAAAATAATTTAAATAATTTTA
Found at i:38809452 original size:13 final size:13
Alignment explanation
Indices: 38809434--38809459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38809424 AATTATCAGT
38809434 CAAAAAAAGAAAA
1 CAAAAAAAGAAAA
38809447 CAAAAAAAGAAAA
1 CAAAAAAAGAAAA
38809460 AGCAAAGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
CAAAAAAAGAAAA
Found at i:38810225 original size:477 final size:476
Alignment explanation
Indices: 38809332--38810284 Score: 1843
Period size: 477 Copynumber: 2.0 Consensus size: 476
38809322 ATTGCGACTG
* *
38809332 CAATTTAACGGGTAACGATTAATTGTGATAATAACGGGCCGCTATTCTTGTTTTTTTCGCTATCG
1 CAATTTAACGGGTAACGATCAATTGCGATAATAACGGGCCGCTATTCTTGTTTTTTTCGCTATCG
38809397 TAAAACTTTAAAAAAATCAATAAAAATAATTATCAGTCAAAAAAAGAAAACAAAAAAAGAAAAAG
66 TAAAACTTTAAAAAAATCAATAAAAATAATTATCAGTCAAAAAAAGAAAACAAAAAAAGAAAAAG
38809462 CAAAGTCAATCTTCACCAAGAGAATATATTCTTCAATACCAATAGTTCTCAATAAAAAAAAACAG
131 CAAAGTCAATCTTCACCAAGAGAATATATTCTTCAATACCAATAGTTCTCAATAAAAAAAAACAG
38809527 TTCTAAACTTCTAATTTCAGAATAAACTGAAAAAACACTTCGAAGCTTTGCACTTTGAAGAAAAA
196 TTCTAAACTTCTAATTTCAGAATAAACTGAAAAAACACTTCGAAGCTTTGCACTTTGAAGAAAAA
38809592 ACTTGCCTTTGGAGAAGAAGCTTACCACTGTTTTTGAAAGATTTGGATCACTTTCAAAGGTAAAA
261 ACTTGCCTTTGGAGAAGAAGCTTACCACTGTTTTTGAAAGATTTGGATCACTTTCAAAGGTAAAA
*
38809657 AATATCGGTTTAAAAAAAGAGAGGAGAGTGTTAGGGTTTCAACTTTGAACTTCGAATTTTTATTT
326 AATATCGGTTTAAAAAAAAAGAGGAGAGTGTTAGGGTTTCAACTTTGAACTTCGAATTTTTATTT
38809722 CTAATTTTCTTGTTTTATGTTTCCTCCTAGACGTTTCATTTCTTTTTCTCTTTTTTCTAGGATTT
391 CTAATTTTCTTGTTTTATGTTTCCTCCTAGACGTTTCATTTCTTTTTCTCTTTTTTCTAGGATTT
38809787 TCTTCAAATAAATAATTCGTT
456 TCTTCAAATAAATAATTCGTT
38809808 CAATTTAACGGGTAACGATCAATTGCGATAATAACGGGCCGCTATTCTTGTTTTTTTCGCTATCG
1 CAATTTAACGGGTAACGATCAATTGCGATAATAACGGGCCGCTATTCTTGTTTTTTTCGCTATCG
*
38809873 TAAAACTTTAAAAAAATCAATAAAAATAATTATCAGTCAAAAAAAGAAAACAGAAAAAGAAAAAG
66 TAAAACTTTAAAAAAATCAATAAAAATAATTATCAGTCAAAAAAAGAAAACAAAAAAAGAAAAAG
38809938 CAAAGTCAATCTTCACCAAGAGAATATATTCTTCAATACCAATAGTTCTCAATAAAAAAAAAACA
131 CAAAGTCAATCTTCACCAAGAGAATATATTCTTCAATACCAATAGTTCTCAAT-AAAAAAAAACA
*
38810003 GTTCTAAACTTCTAATTTCAGAATAAACTGAAAAAACACTTCGAAGCTTTGGACTTTGAAGAAAA
195 GTTCTAAACTTCTAATTTCAGAATAAACTGAAAAAACACTTCGAAGCTTTGCACTTTGAAGAAAA
*
38810068 AACTTGCCTTTGGAGAAGAAGCTTATCACTGTTTTTGAAAGATTTGGATCACTTTCAAAGGTAAA
260 AACTTGCCTTTGGAGAAGAAGCTTACCACTGTTTTTGAAAGATTTGGATCACTTTCAAAGGTAAA
38810133 AAATATCGGTTTAAAAAAAAAGAGGAGAGTGTTAGGGTTTCAACTTTGAACTTCGAATTTTTATT
325 AAATATCGGTTTAAAAAAAAAGAGGAGAGTGTTAGGGTTTCAACTTTGAACTTCGAATTTTTATT
38810198 TCTAATTTTCTTGTTTTATGTTTCCTCCTAGACGTTTCATTTCTTTTTCTCTTTTTTCTAGGATT
390 TCTAATTTTCTTGTTTTATGTTTCCTCCTAGACGTTTCATTTCTTTTTCTCTTTTTTCTAGGATT
38810263 TTCTTCAAATAAATAATTCGTT
455 TTCTTCAAATAAATAATTCGTT
38810285 TATTTTTTTA
Statistics
Matches: 470, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
476 180 0.38
477 290 0.62
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (476 bp):
CAATTTAACGGGTAACGATCAATTGCGATAATAACGGGCCGCTATTCTTGTTTTTTTCGCTATCG
TAAAACTTTAAAAAAATCAATAAAAATAATTATCAGTCAAAAAAAGAAAACAAAAAAAGAAAAAG
CAAAGTCAATCTTCACCAAGAGAATATATTCTTCAATACCAATAGTTCTCAATAAAAAAAAACAG
TTCTAAACTTCTAATTTCAGAATAAACTGAAAAAACACTTCGAAGCTTTGCACTTTGAAGAAAAA
ACTTGCCTTTGGAGAAGAAGCTTACCACTGTTTTTGAAAGATTTGGATCACTTTCAAAGGTAAAA
AATATCGGTTTAAAAAAAAAGAGGAGAGTGTTAGGGTTTCAACTTTGAACTTCGAATTTTTATTT
CTAATTTTCTTGTTTTATGTTTCCTCCTAGACGTTTCATTTCTTTTTCTCTTTTTTCTAGGATTT
TCTTCAAATAAATAATTCGTT
Found at i:38814218 original size:200 final size:200
Alignment explanation
Indices: 38813875--38814277 Score: 797
Period size: 200 Copynumber: 2.0 Consensus size: 200
38813865 TTTAATCCTA
38813875 TCAGCCTTGATCATGTCTTTGAAGATGTTGATCCACTATCAGAATGGCTTCAAGAGAAAGAGAAT
1 TCAGCCTTGATCATGTCTTTGAAGATGTTGATCCACTATCAGAATGGCTTCAAGAGAAAGAGAAT
*
38813940 CCATTGCTAGATGGTGAAAATGCCGGTGTGTTGCCTGTGGATACCTTTGATGATGAAATGAATGT
66 CCATTGCTAGATGGTGAAAATGCCGGTGTGTTGCCTGTGGATACCTCTGATGATGAAATGAATGT
38814005 TGATTAATCTCAACAACACAATTGTCTCATTCAAGTTCTAGTGCAACACCAAGTCAGAGTGGTGA
131 TGATTAATCTCAACAACACAATTGTCTCATTCAAGTTCTAGTGCAACACCAAGTCAGAGTGGTGA
38814070 TGGAC
196 TGGAC
38814075 TCAGCCTTGATCATGTCTTTGAAGATGTTGATCCACTATCAGAATGGCTTCAAGAGAAAGAGAAT
1 TCAGCCTTGATCATGTCTTTGAAGATGTTGATCCACTATCAGAATGGCTTCAAGAGAAAGAGAAT
38814140 CCATTGCTAGATGGTGAAAATGCCGGTGTGTTGCCTGTGGATACCTCTGATGATGAAATGAATGT
66 CCATTGCTAGATGGTGAAAATGCCGGTGTGTTGCCTGTGGATACCTCTGATGATGAAATGAATGT
38814205 TGATTAATCTCAACAACACAATTGTCTCATTCAAGTTCTAGTGCAACACCAAGTCAGAGTGGTGA
131 TGATTAATCTCAACAACACAATTGTCTCATTCAAGTTCTAGTGCAACACCAAGTCAGAGTGGTGA
38814270 TGGAC
196 TGGAC
38814275 TCA
1 TCA
38814278 ATGGTGGTGG
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 202 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (200 bp):
TCAGCCTTGATCATGTCTTTGAAGATGTTGATCCACTATCAGAATGGCTTCAAGAGAAAGAGAAT
CCATTGCTAGATGGTGAAAATGCCGGTGTGTTGCCTGTGGATACCTCTGATGATGAAATGAATGT
TGATTAATCTCAACAACACAATTGTCTCATTCAAGTTCTAGTGCAACACCAAGTCAGAGTGGTGA
TGGAC
Found at i:38822561 original size:21 final size:21
Alignment explanation
Indices: 38822537--38822590 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
38822527 GTTGTGATAG
*
38822537 TTCTACCGATACAAGT-GTGAC
1 TTCTACCGATACAAGTCATG-C
* *
38822558 TTCTATCGAAACAAGTCATGC
1 TTCTACCGATACAAGTCATGC
38822579 TTCTACCGATAC
1 TTCTACCGATAC
38822591 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATGC
Found at i:38824846 original size:31 final size:29
Alignment explanation
Indices: 38824773--38824833 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
38824763 TGTCCACTTC
* *
38824773 TCCCAGATTGGTACCTAAAGTTTTTTTTG
1 TCCCAGATTGGTACCTAAACTTTTTTTCG
* *
38824802 TCCCAGACTGGTACCTGAACTTTTTTTCG
1 TCCCAGATTGGTACCTAAACTTTTTTTCG
38824831 TCC
1 TCC
38824834 ACTGATTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (29 bp):
TCCCAGATTGGTACCTAAACTTTTTTTCG
Found at i:38825069 original size:19 final size:19
Alignment explanation
Indices: 38825034--38825081 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
38825024 TCCCTAAATT
38825034 CTTCTTCCTTTTGTTTTCTC
1 CTTCTT-CTTTTGTTTTCTC
*
38825054 CTTCTTCTTTCT-TTTTCTT
1 CTTCTTCTTT-TGTTTTCTC
38825073 CTTCTTCTT
1 CTTCTTCTT
38825082 CCCCCAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (19 bp):
CTTCTTCTTTTGTTTTCTC
Found at i:38825250 original size:38 final size:37
Alignment explanation
Indices: 38825208--38825324 Score: 144
Period size: 38 Copynumber: 3.1 Consensus size: 37
38825198 TGTCAAGAAA
*
38825208 AAAAATAACCCAGTTCACATTACCTCTTTTGTTTGCTT
1 AAAAAGAACCCAGTTCACATT-CCTCTTTTGTTTGCTT
* * * *
38825246 AAAAAGAACCCAGTTGAAATTGCCTATTTTATTTGCTT
1 AAAAAGAACCCAGTTCACATT-CCTCTTTTGTTTGCTT
** *
38825284 AAAAAGAACTTAGTTCACATTGCTCTTTTGTTTGCTT
1 AAAAAGAACCCAGTTCACATTCCTCTTTTGTTTGCTT
38825321 AAAA
1 AAAA
38825325 TGAGCCTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
37 17 0.26
38 49 0.74
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (37 bp):
AAAAAGAACCCAGTTCACATTCCTCTTTTGTTTGCTT
Found at i:38832945 original size:115 final size:114
Alignment explanation
Indices: 38832738--38833071 Score: 436
Period size: 115 Copynumber: 2.9 Consensus size: 114
38832728 TAAAACGAAC
* * *
38832738 AATTAAATTAATATAAAACACATCAAATGAAGAAACGAAAAACCCGAACAAATTTCACACATGAT
1 AATTAAATTAGTATAAAACACATCAAATGAA-AAACGAAAAACCCGAATAAATTTCACACATGAC
* * * *
38832803 ATGCTCAAATGGTTGATTAATGGCCAGCACATCATAATTCATCATAGTAA
65 AAGCTCAAATGATTGACTAATGACCAGCACATCATAATTCATCATAGTAA
* *
38832853 AATTAAATTAGTGTAAAACACATTAAATGAAAAACGAAAAACCCCGAATAAATTTCACACATGAC
1 AATTAAATTAGTATAAAACACATCAAATGAAAAACGAAAAA-CCCGAATAAATTTCACACATGAC
*
38832918 AAGCTCAAATGATTGACTAATGACCAGCACATCATAATTTATCATAGTAA
65 AAGCTCAAATGATTGACTAATGACCAGCACATCATAATTCATCATAGTAA
* * * ** * *
38832968 AATCAAATTAGTATAAAACACATCAAGTAAAAAAATAAAAAACTCGAATAAATTTCAGACATGAC
1 AATTAAATTAGTATAAAACACATCAAAT-GAAAAACGAAAAACCCGAATAAATTTCACACATGAC
* * * *
38833033 ACGCTCAAATGATTAACTAAT-ATCCAACATATCATAATT
65 AAGCTCAAATGATTGACTAATGA-CCAGCACATCATAATT
38833072 AATTGTAGTG
Statistics
Matches: 193, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
114 11 0.06
115 172 0.89
116 10 0.05
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.25
Consensus pattern (114 bp):
AATTAAATTAGTATAAAACACATCAAATGAAAAACGAAAAACCCGAATAAATTTCACACATGACA
AGCTCAAATGATTGACTAATGACCAGCACATCATAATTCATCATAGTAA
Found at i:38836490 original size:29 final size:28
Alignment explanation
Indices: 38836420--38836490 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
38836410 TTCAGTAGGA
*
38836420 ACTATGTATCGGTGTTACAGTAGCAGGC
1 ACTATGTACCGGTGTTACAGTAGCAGGC
* * * * * *
38836448 ACTTTGTGCTGGTGTTATACTTAGCAGGT
1 ACTATGTACCGGTGTTACA-GTAGCAGGC
38836477 ACTATGTACCGGTG
1 ACTATGTACCGGTG
38836491 ATGGATACTA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (28 bp):
ACTATGTACCGGTGTTACAGTAGCAGGC
Found at i:38838366 original size:23 final size:24
Alignment explanation
Indices: 38838339--38838387 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
38838329 CACAACAATT
* *
38838339 CATTTTCTATTA-ATTTGCTTTGA
1 CATTTTATATTATATTTGCATTGA
*
38838362 CATTTTATGTTATATTTGCATTGA
1 CATTTTATATTATATTTGCATTGA
38838386 CA
1 CA
38838388 GATTTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (24 bp):
CATTTTATATTATATTTGCATTGA
Found at i:38844365 original size:25 final size:25
Alignment explanation
Indices: 38844323--38844382 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
38844313 AACGAGACCA
*
38844323 TTAGCTTTCTATTTACTT-TTTGTCTT
1 TTAGTTTTCTATTTACTTGTTT-TC-T
38844349 TTA-TTTTCT-TTTAACTTGTTTTCT
1 TTAGTTTTCTATTT-ACTTGTTTTCT
38844373 TTAGTTTTCT
1 TTAGTTTTCT
38844383 GCAAGAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 7 0.23
25 17 0.57
26 6 0.20
ACGTcount: A:0.12, C:0.13, G:0.07, T:0.68
Consensus pattern (25 bp):
TTAGTTTTCTATTTACTTGTTTTCT
Found at i:38845494 original size:20 final size:20
Alignment explanation
Indices: 38845469--38845509 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38845459 GTATCCTGCC
38845469 TTTCCCTTCTCTGATCATGA
1 TTTCCCTTCTCTGATCATGA
38845489 TTTCCCTTCTCTGATCATGA
1 TTTCCCTTCTCTGATCATGA
38845509 T
1 T
38845510 GTTGTGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTCCCTTCTCTGATCATGA
Found at i:38846861 original size:32 final size:33
Alignment explanation
Indices: 38846791--38846863 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
38846781 CCTATTTATT
* *
38846791 TAAAATAAATAATTTCAGTCAAAATAAATTTAA
1 TAAAATAAATAATTTCAGTCAAAACAAAATTAA
*
38846824 GAAAATAACA-AATTT-AGTCAAAACAAAATTAA
1 TAAAATAA-ATAATTTCAGTCAAAACAAAATTAA
38846856 TAAAATAA
1 TAAAATAA
38846864 TAACTTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 22 0.63
33 12 0.34
34 1 0.03
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (33 bp):
TAAAATAAATAATTTCAGTCAAAACAAAATTAA
Found at i:38851702 original size:17 final size:17
Alignment explanation
Indices: 38851680--38851730 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
38851670 CAGTAAAAAT
38851680 AAATTTAAGAAAATAAC
1 AAATTTAAGAAAATAAC
**
38851697 AAATTT-AGCCAA-AAC
1 AAATTTAAGAAAATAAC
* *
38851712 AAAATTAATAAAATAAC
1 AAATTTAAGAAAATAAC
38851729 AA
1 AA
38851731 CTTTGAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.22
Consensus pattern (17 bp):
AAATTTAAGAAAATAAC
Found at i:38852525 original size:6 final size:6
Alignment explanation
Indices: 38852497--38852550 Score: 56
Period size: 6 Copynumber: 8.5 Consensus size: 6
38852487 GTATTGAAGC
*
38852497 AGAAAA AGAGAAA A-AAGA AGAAAA AGAAAA AGAAAA AGAAGAGAA AGAAAA
1 AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA AGAAAA AG-A-A-AA AGAAAA
38852548 AGA
1 AGA
38852551 TGAAGAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 3 0.07
6 26 0.63
7 6 0.15
8 2 0.05
9 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:38852526 original size:15 final size:15
Alignment explanation
Indices: 38852497--38852550 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
38852487 GTATTGAAGC
38852497 AGAAAAAG-AGAAAAA
1 AGAAAAAGAAG-AAAA
38852512 AGAAGAAA-AAGAAAA
1 AGAA-AAAGAAGAAAA
*
38852527 AGAAAAAGAAGAGAA
1 AGAAAAAGAAGAAAA
38852542 AGAAAAAGA
1 AGAAAAAGA
38852551 TGAAGAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 3 0.09
15 27 0.77
16 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAAA
Found at i:38852557 original size:21 final size:21
Alignment explanation
Indices: 38852508--38852550 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
38852498 GAAAAAGAGA
38852508 AAAAAGAAGAAAAAGAAAAAG
1 AAAAAGAAGAAAAAGAAAAAG
*
38852529 AAAAAGAAGAGAAAGAAAAAG
1 AAAAAGAAGAAAAAGAAAAAG
38852550 A
1 A
38852551 TGAAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAAGAAGAAAAAGAAAAAG
Found at i:38858264 original size:48 final size:48
Alignment explanation
Indices: 38858209--38858300 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
38858199 TCTTATTTTT
38858209 TATTGAAACAAACCAATATTATTGCAATATTTAGTAGTAAAAAATTGG
1 TATTGAAACAAACCAATATTATTGCAATATTTAGTAGTAAAAAATTGG
* * * * *
38858257 TATTGAAAGAAACCCATATTATTGTAATATTTGGTTGTAAAAAA
1 TATTGAAACAAACCAATATTATTGCAATATTTAGTAGTAAAAAA
38858301 ATTAGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (48 bp):
TATTGAAACAAACCAATATTATTGCAATATTTAGTAGTAAAAAATTGG
Found at i:38861131 original size:37 final size:37
Alignment explanation
Indices: 38861078--38861183 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 37
38861068 GAGTATATTG
*
38861078 GCTCATTTAAGCATACTGGCTCATAAGAGCAATACT-
1 GCTCATTTGAGCATACTGGCTCATAAGAGCAATACTA
* * *
38861114 GACTCATTTGAGTATACTAGCTCATAAGAGCAATAGTA
1 G-CTCATTTGAGCATACTGGCTCATAAGAGCAATACTA
* *
38861152 GCTCGTTTGAGCACTACTGGCTCGTAAGAGCA
1 GCTCATTTGAGCA-TACTGGCTCATAAGAGCA
38861184 TTTATAGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.69
38 17 0.29
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (37 bp):
GCTCATTTGAGCATACTGGCTCATAAGAGCAATACTA
Found at i:38861176 original size:19 final size:18
Alignment explanation
Indices: 38861037--38861174 Score: 107
Period size: 18 Copynumber: 7.6 Consensus size: 18
38861027 AAGGAATAGA
*
38861037 ATACTGGCTCA-TTAAGC
1 ATACTGGCTCATTTGAGC
* *
38861054 ATACTGGCTCCTTTGAGT
1 ATACTGGCTCATTTGAGC
* *
38861072 ATATTGGCTCATTTAAGC
1 ATACTGGCTCATTTGAGC
**
38861090 ATACTGGCTCATAAGAGC
1 ATACTGGCTCATTTGAGC
* *
38861108 AATACTGACTCATTTGAGT
1 -ATACTGGCTCATTTGAGC
* **
38861127 ATACTAGCTCATAAGAGC
1 ATACTGGCTCATTTGAGC
* * *
38861145 AATAGTAGCTCGTTTGAGC
1 -ATACTGGCTCATTTGAGC
38861164 ACTACTGGCTC
1 A-TACTGGCTC
38861175 GTAAGAGCAT
Statistics
Matches: 91, Mismatches: 26, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
17 10 0.11
18 46 0.51
19 35 0.38
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (18 bp):
ATACTGGCTCATTTGAGC
Found at i:38861182 original size:19 final size:18
Alignment explanation
Indices: 38861037--38861184 Score: 84
Period size: 19 Copynumber: 8.1 Consensus size: 18
38861027 AAGGAATAGA
*
38861037 ATACTGGCTCATTA-AGC
1 ATACTGGCTCATAAGAGC
* ** *
38861054 ATACTGGCTCCTTTGAGT
1 ATACTGGCTCATAAGAGC
* *
38861072 ATATTGGCTCATTTA-AGC
1 ATACTGGCTCA-TAAGAGC
38861090 ATACTGGCTCATAAGAGC
1 ATACTGGCTCATAAGAGC
* ** *
38861108 AATACTGACTCATTTGAGT
1 -ATACTGGCTCATAAGAGC
*
38861127 ATACTAGCTCATAAGAGC
1 ATACTGGCTCATAAGAGC
* * * **
38861145 AATAGTAGCTCGTTTGAGC
1 -ATACTGGCTCATAAGAGC
*
38861164 ACTACTGGCTCGTAAGAGC
1 A-TACTGGCTCATAAGAGC
38861183 AT
1 AT
38861185 TTATAGATTA
Statistics
Matches: 99, Mismatches: 26, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
17 14 0.14
18 41 0.41
19 44 0.44
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (18 bp):
ATACTGGCTCATAAGAGC
Found at i:38861919 original size:21 final size:21
Alignment explanation
Indices: 38861895--38861941 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
38861885 AGCATGTCGA
38861895 GTATCAGCAGAAGATACACTT
1 GTATCAGCAGAAGATACACTT
* * *
38861916 GTATCGGTAGAAGATACAGTT
1 GTATCAGCAGAAGATACACTT
38861937 GTATC
1 GTATC
38861942 GGTAGAACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
GTATCAGCAGAAGATACACTT
Found at i:38861942 original size:21 final size:21
Alignment explanation
Indices: 38861903--38861948 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
38861893 GAGTATCAGC
38861903 AGAAGATACACTTGTATCGGT
1 AGAAGATACACTTGTATCGGT
*
38861924 AGAAGATACAGTTGTATCGGT
1 AGAAGATACACTTGTATCGGT
38861945 AGAA
1 AGAA
38861949 CCGATACAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
AGAAGATACACTTGTATCGGT
Found at i:38861961 original size:21 final size:20
Alignment explanation
Indices: 38861893--38861966 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
38861883 AAAGCATGTC
* *
38861893 GAGTATCAGCAGAAGATACA
1 GAGTATCGGTAGAAGATACA
**
38861913 CTTGTATCGGTAGAAGATACA
1 -GAGTATCGGTAGAAGATACA
*
38861934 GTTGTATCGGTAGAACCGATACA
1 G-AGTATCGGTAGAA--GATACA
38861957 -AGTATCGGTA
1 GAGTATCGGTA
38861967 AAAGTATGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 38 0.86
23 6 0.14
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (20 bp):
GAGTATCGGTAGAAGATACA
Found at i:38864092 original size:16 final size:16
Alignment explanation
Indices: 38864071--38864101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38864061 TCGTAGATCC
38864071 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
38864087 CATTTTATCTTTATT
1 CATTTTACCTTTATT
38864102 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:38865466 original size:26 final size:26
Alignment explanation
Indices: 38865437--38865490 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
38865427 CACCCAGGAA
38865437 TGTCACTGCATGAACATGTCCAGAAT
1 TGTCACTGCATGAACATGTCCAGAAT
** *
38865463 TGTCGTTGCATGAACGTGTCCAGAAT
1 TGTCACTGCATGAACATGTCCAGAAT
38865489 TG
1 TG
38865491 CGCCCAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
TGTCACTGCATGAACATGTCCAGAAT
Found at i:38869423 original size:2 final size:2
Alignment explanation
Indices: 38869416--38869473 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
38869406 ATACTGTTAC
38869416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38869458 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
38869474 TCTATTCTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38870666 original size:2 final size:2
Alignment explanation
Indices: 38870661--38870695 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
38870651 TATATATATA
*
38870661 TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
38870696 CTTTTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:38874080 original size:18 final size:18
Alignment explanation
Indices: 38874059--38874096 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38874049 GTACTGACTT
38874059 GTTTGAGCATACTGGCTC
1 GTTTGAGCATACTGGCTC
*
38874077 GTTTGAGCATATTGGCTC
1 GTTTGAGCATACTGGCTC
38874095 GT
1 GT
38874097 AAGAGCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (18 bp):
GTTTGAGCATACTGGCTC
Found at i:38874102 original size:18 final size:18
Alignment explanation
Indices: 38874063--38874123 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
38874053 TGACTTGTTT
**
38874063 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTAA
*
38874081 GAGCATATTGGCTCGTAA
1 GAGCATACTGGCTCGTAA
* *
38874099 GAGCAATACTAGCTTGTAA
1 GAGC-ATACTGGCTCGTAA
38874118 GAGCAT
1 GAGCAT
38874124 TTTTGGATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (18 bp):
GAGCATACTGGCTCGTAA
Found at i:38878456 original size:20 final size:21
Alignment explanation
Indices: 38878417--38878462 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
38878407 ATTATATTGT
*
38878417 TGTTTTGGTGCTTTTTTTTAC
1 TGTTTTGGTGCTTCTTTTTAC
38878438 TGTTTTGGTG-TTCTTTTTAC
1 TGTTTTGGTGCTTCTTTTTAC
38878458 TGTTT
1 TGTTT
38878463 GATTGTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.04, C:0.09, G:0.20, T:0.67
Consensus pattern (21 bp):
TGTTTTGGTGCTTCTTTTTAC
Found at i:38878486 original size:12 final size:12
Alignment explanation
Indices: 38878471--38878579 Score: 63
Period size: 12 Copynumber: 9.7 Consensus size: 12
38878461 TTGATTGTTG
*
38878471 TTTTGGTGCTA-
1 TTTTGTTGCTAT
*
38878482 TTTT-TTACTA-
1 TTTTGTTGCTAT
* *
38878492 TTTTGATGTTAT
1 TTTTGTTGCTAT
*
38878504 TTTTGTTGCTGT
1 TTTTGTTGCTAT
* *
38878516 TTCTGTTGCTGT
1 TTTTGTTGCTAT
*
38878528 TTTTTTTGCTAT
1 TTTTGTTGCTAT
38878540 TTTTG-T--TAT
1 TTTTGTTGCTAT
38878549 TTTTGTTG-T-T
1 TTTTGTTGCTAT
*
38878559 GTTTTGTTGTTAT
1 -TTTTGTTGCTAT
*
38878572 TTTGGTTG
1 TTTTGTTG
38878580 TTTGGATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
9 8 0.10
10 10 0.13
11 17 0.22
12 41 0.53
13 1 0.01
ACGTcount: A:0.07, C:0.06, G:0.19, T:0.68
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:38878579 original size:20 final size:21
Alignment explanation
Indices: 38878542--38878594 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
38878532 TTTGCTATTT
*
38878542 TTGTTATTTTTGTTGTTGTTTTG
1 TTGTTA-TTTTG-TGTTGTTTGG
38878565 TTGTTATTTTG-GTTGTTTGG
1 TTGTTATTTTGTGTTGTTTGG
*
38878585 ATGTTATTTT
1 TTGTTATTTT
38878595 TATGAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
22 5 0.18
23 6 0.21
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.70
Consensus pattern (21 bp):
TTGTTATTTTGTGTTGTTTGG
Found at i:38879673 original size:2 final size:2
Alignment explanation
Indices: 38879666--38879694 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38879656 ACATAAATGT
38879666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38879695 TAATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38881280 original size:13 final size:13
Alignment explanation
Indices: 38881264--38881296 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
38881254 TCGTAAGTCA
38881264 AATAAATTATGCT
1 AATAAATTATGCT
*
38881277 AATATATTATGCT
1 AATAAATTATGCT
38881290 AATAAAT
1 AATAAAT
38881297 ACTAAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (13 bp):
AATAAATTATGCT
Found at i:38897977 original size:18 final size:17
Alignment explanation
Indices: 38897956--38897991 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38897946 TTTTTTACCA
*
38897956 TTTATTTTGTTTTTATTT
1 TTTATTTT-TGTTTATTT
38897974 TTTATTTTTGTTTATTT
1 TTTATTTTTGTTTATTT
38897991 T
1 T
38897992 GTAGGTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTATTTTTGTTTATTT
Found at i:38911444 original size:41 final size:41
Alignment explanation
Indices: 38911385--38911525 Score: 228
Period size: 41 Copynumber: 3.4 Consensus size: 41
38911375 CCGAGTTATA
*
38911385 AGTCTTCCTTTAAGTATAATCTCATGCTCATCTCGAGTCATG
1 AGTCTTCCTTTAA-TATAATCTCATGCTCATCTCGAATCATG
* *
38911427 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAATTATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCTCGAATCATG
* *
38911468 AGTCTTCCTTTAATATAATCTCATGCTCATTTCCAATCATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCTCGAATCATG
38911509 AGTCTTCCTTTAATATA
1 AGTCTTCCTTTAATATA
38911526 TCAAGTGATT
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 79 0.86
42 13 0.14
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.40
Consensus pattern (41 bp):
AGTCTTCCTTTAATATAATCTCATGCTCATCTCGAATCATG
Found at i:38911485 original size:82 final size:82
Alignment explanation
Indices: 38911347--38911525 Score: 254
Period size: 82 Copynumber: 2.2 Consensus size: 82
38911337 GAGTTGTAGA
* * *
38911347 TCTTCCTTTTAA-ACAATCTTATGCTCTACCGAGTTATAAGTCTTCCTTTAAGTATAATCTCATG
1 TCTTCC-TTTAATATAATCTCATGCTCTACCGAATTATAAGTCTTCCTTTAAGTATAATCTCATG
* *
38911411 CTCATCTCGAGTCATGAG
65 CTCATCTCCAATCATGAG
* *
38911429 TCTTCCTTTAATATAATCTCATGCTCATCCCGAATTATGAGTCTTCCTTTAA-TATAATCTCATG
1 TCTTCCTTTAATATAATCTCATGCTC-TACCGAATTATAAGTCTTCCTTTAAGTATAATCTCATG
*
38911493 CTCATTTCCAATCATGAG
65 CTCATCTCCAATCATGAG
38911511 TCTTCCTTTAATATA
1 TCTTCCTTTAATATA
38911526 TCAAGTGATT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 5 0.06
82 60 0.69
83 22 0.25
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (82 bp):
TCTTCCTTTAATATAATCTCATGCTCTACCGAATTATAAGTCTTCCTTTAAGTATAATCTCATGC
TCATCTCCAATCATGAG
Found at i:38918512 original size:22 final size:22
Alignment explanation
Indices: 38918444--38918518 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
38918434 CAAGTCAAAT
* * *
38918444 CGTTGACCGATCGTTGACTAGT
1 CGTTGATCGACCGTTGACTAGC
*
38918466 CGTTGA-CTGACTGTTGACTAGC
1 CGTTGATC-GACCGTTGACTAGC
38918488 CGTTGATCGACCGTTGACT-GAC
1 CGTTGATCGACCGTTGACTAG-C
38918510 CGTTGATCG
1 CGTTGATCG
38918519 TTGACCATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.04
22 43 0.93
23 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (22 bp):
CGTTGATCGACCGTTGACTAGC
Found at i:38918522 original size:7 final size:7
Alignment explanation
Indices: 38918506--38918592 Score: 93
Period size: 7 Copynumber: 12.4 Consensus size: 7
38918496 GACCGTTGAC
38918506 TGACCGT
1 TGACCGT
*
38918513 TGATCGT
1 TGACCGT
*
38918520 TGACCAT
1 TGACCGT
38918527 TGACCGT
1 TGACCGT
**
38918534 TGATAGT
1 TGACCGT
*
38918541 TGACCAT
1 TGACCGT
*
38918548 TGACCAT
1 TGACCGT
38918555 TGACCGT
1 TGACCGT
38918562 TGACCGT
1 TGACCGT
**
38918569 TGATAGT
1 TGACCGT
*
38918576 TGACCTT
1 TGACCGT
38918583 TGACCGT
1 TGACCGT
38918590 TGA
1 TGA
38918593 TTTTTTTTGA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 64 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (7 bp):
TGACCGT
Found at i:38918680 original size:34 final size:34
Alignment explanation
Indices: 38918633--38918702 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
38918623 TTTCGACGTC
38918633 CTGAGTCCAATTCCTCTATCCGTTTTGCCAAATT
1 CTGAGTCCAATTCCTCTATCCGTTTTGCCAAATT
** *
38918667 CTGAGTCTGATTCCTCTGTCCGTTTTGCCAAATT
1 CTGAGTCCAATTCCTCTATCCGTTTTGCCAAATT
38918701 CT
1 CT
38918703 AACCCGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (34 bp):
CTGAGTCCAATTCCTCTATCCGTTTTGCCAAATT
Found at i:38920965 original size:30 final size:30
Alignment explanation
Indices: 38920894--38921356 Score: 402
Period size: 30 Copynumber: 15.4 Consensus size: 30
38920884 TTTGAGGAAT
* *
38920894 AAAATGGTAAATTTT-G-AAAGTTTCGGGGTT
1 AAAAT-GT-AATTTTGGAAAAGTTTTGGGGTC
* * * *
38920924 AAAGTATAATTTTGGAAAACTTTTGGAGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
38920954 AAAATGTAATTTTGGAAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
**
38920984 AAAATGT-ATTTTTTAGAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* * *
38921014 AAAATATAATTTTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
38921044 AAAATGTAATTTT-TAGAAAGTTTCGGGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* ** *
38921074 AAAATATAA-TTTCCAGAAAGTTTTGGGGTTG
1 AAAATGTAATTTTGGA-AAAGTTTTGGGG-TC
*
38921105 AAAA-GTAATTTTGGAAAAGTTTTGGTGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *** *
38921134 AAAATATAATTTCAAAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* ** *
38921164 AAAATGTAATTTT-TAGAAAGTTTTAAGGTT
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* * *
38921194 AAAATATAATTTT-TACAAAGTTTTGGTGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* *
38921224 GAAATGTAATTTTGGAAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
38921254 AAAATATAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
**
38921284 AAAATGTAATTTTTAAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* ** * *
38921314 AAAATATAATTTTTAAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
38921344 GAAATGTAATTTT
1 AAAATGTAATTTT
38921357 TGGACAATTT
Statistics
Matches: 350, Mismatches: 72, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
28 6 0.02
29 18 0.05
30 310 0.89
31 16 0.05
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:38921008 original size:60 final size:60
Alignment explanation
Indices: 38920944--38921357 Score: 457
Period size: 60 Copynumber: 6.9 Consensus size: 60
38920934 TTTGGAAAAC
* * *
38920944 TTTTGGAGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTATTTTTTAGAAAG
1 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAG
*
38921004 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTAGAAAG
1 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAG
* ** * * *
38921064 TTTCGGGGTCAAAATATAA-TTTCCAGAAAGTTTTGGGGTTGAAAA-GTAA-TTTTGGAAAAG
1 TTTTGGGGTCAAAATATAATTTTGGA-AAAGTTTTAGGG-TCAAAATGTAATTTTTAG-AAAG
* ***
38921124 TTTTGGTGTCAAAATATAATTTCAAAAAAG-TTTAGGGGTCAAAATGTAATTTTTAGAAAG
1 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTA-GGGTCAAAATGTAATTTTTAGAAAG
** * * * *
38921184 TTTTAAGGTTAAAATATAATTTT-TACAAAGTTTT-GGTGTCGAAATGTAA-TTTTGGAAAAG
1 TTTTGGGGTCAAAATATAATTTTGGA-AAAGTTTTAGG-GTCAAAATGTAATTTTTAG-AAAG
* * *
38921244 TTTTAGGGTCAAAATATAATTTTGGAAAAG-TTTAGGGGTTAAAATGTAATTTTTAAAAAG
1 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTA-GGGTCAAAATGTAATTTTTAGAAAG
** **
38921304 TTTTGGGGTCAAAATATAATTTTTAAAAAGTTTTAGGGTTGAAATGTAATTTTT
1 TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTT
38921358 GGACAATTTA
Statistics
Matches: 301, Mismatches: 37, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
59 28 0.09
60 246 0.82
61 27 0.09
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (60 bp):
TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAG
Found at i:38921368 original size:90 final size:90
Alignment explanation
Indices: 38920894--38921370 Score: 491
Period size: 90 Copynumber: 5.3 Consensus size: 90
38920884 TTTGAGGAAT
* * * * *
38920894 AAAATGGTAAATTTT-GAAAGTTTCGGGGTTAAAGTATAATTTTGGAAAACTTTTGGAGTCAAAA
1 AAAAT-GTAATTTTTAGAAAGTTTAGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAA
*
38920958 TGTAATTTTGGAAAAGTTTTAGGGTC
65 TGTAATTTTGAAAAAGTTTTAGGGTC
* * * * *
38920984 AAAATGTATTTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAAT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAAT
* * **
38921049 GTAATTTTTAGAAAGTTTCGGGGTC
66 GTAATTTTGAAAAAGTTTTAGGGTC
* ** * * *
38921074 AAAATATAATTTCCAGAAAGTTTTGGGGTTGAAAA-GTAATTTTGGAAAAGTTTTGGTGTCAAAA
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT-AAAATATAATTTTGGAAAAGTTTTGGGGTCAAAA
* **
38921138 TATAATTTCAAAAAAG-TTTAGGGGTC
65 TGTAATTTTGAAAAAGTTTTA-GGGTC
* * * *
38921164 AAAATGTAATTTTTAGAAAGTTTTA-AGGTTAAAATATAATTTT-TACAAAGTTTTGGTGTCGAA
1 AAAATGTAATTTTTAGAAAG-TTTAGGGGTTAAAATATAATTTTGGA-AAAGTTTTGGGGTCAAA
*
38921227 ATGTAATTTTGGAAAAGTTTTAGGGTC
64 ATGTAATTTTGAAAAAGTTTTAGGGTC
* * * **
38921254 AAAATATAA-TTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTTAAAAAGTTTTGGGGTCAAAA
1 AAAATGTAATTTTTAG-AAAGTTTAGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAA
* * *
38921318 TATAATTTTTAAAAAGTTTTAGGGTT
65 TGTAATTTTGAAAAAGTTTTAGGGTC
* *
38921344 GAAATGTAATTTTTGGACAA-TTTAGGG
1 AAAATGTAATTTTTAGA-AAGTTTAGGG
38921371 ACTTACAAAG
Statistics
Matches: 321, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
89 23 0.07
90 278 0.87
91 20 0.06
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (90 bp):
AAAATGTAATTTTTAGAAAGTTTAGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAAT
GTAATTTTGAAAAAGTTTTAGGGTC
Found at i:38922386 original size:13 final size:13
Alignment explanation
Indices: 38922365--38922402 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
38922355 TTGTTATTAG
*
38922365 ATTATTAATATTT
1 ATTAATAATATTT
38922378 ATTAATAATATTT
1 ATTAATAATATTT
*
38922391 ATTAGTAATATT
1 ATTAATAATATT
38922403 AATGTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTAATAATATTT
Found at i:38922818 original size:25 final size:25
Alignment explanation
Indices: 38922772--38922819 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
38922762 GGGCTGCCTC
* *
38922772 TATTGATTTTCAGGAACGGGTTTTT
1 TATTGATTTTCAAGAACAGGTTTTT
38922797 TATTGATTTT-AAGAACAAGGTTT
1 TATTGATTTTCAAGAAC-AGGTTT
38922820 CTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (25 bp):
TATTGATTTTCAAGAACAGGTTTTT
Found at i:38923004 original size:20 final size:20
Alignment explanation
Indices: 38922966--38923004 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38922956 CAGGGCATGG
*
38922966 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
38922986 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
38923005 CAGCATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:38923232 original size:11 final size:11
Alignment explanation
Indices: 38923173--38923243 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 11
38923163 TATTCAAATT
38923173 TAAATTTAAAA
1 TAAATTTAAAA
*
38923184 TAAACTTAAATAA
1 TAAA-TTTAA-AA
* *
38923197 GTAATTTTAAATTT
1 -TAAATTTAAA--A
38923211 TAAATTTTAAAA
1 TAAA-TTTAAAA
38923223 TAAATTTAAAA
1 TAAATTTAAAA
*
38923234 TTAATTTAAA
1 TAAATTTAAA
38923244 CTCAAAGCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
11 20 0.43
12 9 0.19
13 9 0.19
14 9 0.19
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:38923743 original size:68 final size:66
Alignment explanation
Indices: 38923634--38924310 Score: 931
Period size: 68 Copynumber: 9.9 Consensus size: 66
38923624 GGAAATGATC
* * * **
38923634 TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTTCTTCAATTTCAAAAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
*
38923699 ACA
64 ACG
* * *
38923702 TTGCTCTTACTTCAATTTCAGAGATAAAGACAGATTATCCACTCTACTTTAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-G-TTATCCACTCTACTTCAATTTCAAGGGGATG
38923767 ACG
64 ACG
* *
38923770 TTGCTCTTACTTTAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38923835 ACG
64 ACG
38923838 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACG--TTATCCACTCTACTTCAATTTCAAGGGGATG
38923903 ACG
64 ACG
* * *
38923906 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38923971 ACG
64 ACG
* *
38923974 TTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38924039 ACG
64 ACG
* * *
38924042 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38924107 ACG
64 ACG
* *
38924110 TTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38924175 ACG
64 ACG
*
38924178 TTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCACTCTACTTCAATTTCAAGGGGATG
38924243 ACG
64 ACG
* * * *
38924246 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTTCTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCA-CTCTACTTCAATTTCAAGGGGAT
38924311 TGGAAATGAT
Statistics
Matches: 557, Mismatches: 45, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
66 1 0.00
67 1 0.00
68 533 0.96
69 21 0.04
70 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (66 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTTATCCACTCTACTTCAATTTCAAGGGGATGAC
G
Found at i:38923784 original size:31 final size:31
Alignment explanation
Indices: 38923675--38924265 Score: 140
Period size: 31 Copynumber: 17.5 Consensus size: 31
38923665 GTGTTATCCA
* * *
38923675 CTCTT-CTTCAATTTCAAAAGGATGACATTG
1 CTCTTACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38923705 CTCTTACTTCAATTTCAGAGATAAAGACAGATTATC
1 CTCTTACTTTAATTTCA-AGAGGATGAC-G--T-TG
* *
38923741 CACTCTACTTTAACTTCAAGAGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* * *
38923773 CTCTTACTTTAATTTCAGAGATGAAGACTTGTTATC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--G-T-TG
* * *
38923809 CACTCTACTTCAATTTCAAGGGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38923841 CTCTTACTTCAATTTCAGAGATAAAGACGTATTATC
1 CTCTTACTTTAATTTCA-AGAGGATGACG---T-TG
* * *
38923877 CACTCTACTTCAATTTCAAGGGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38923909 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--G-T-TG
* * * *
38923945 CACTCTACTTCAACTTCGAGAGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38923977 CTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--GTT--G
* * *
38924013 CACTCTACTTCAATTTCAAGGGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38924045 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--G-T-TG
* * * *
38924081 CACTCTACTTCAACTTCGAGAGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38924113 CTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--GTT--G
* * *
38924149 CACTCTACTTCAATTTCAAGGGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
* ** * *
38924181 CTCTTACTTCAATTTCAGAGAAAAAGACATGTTATC
1 CTCTTACTTTAATTTCA-AGAGGATGAC--G-T-TG
* * *
38924217 CACTCTACTTCAATTTCAAGGGGATGACGTTG
1 CTCT-TACTTTAATTTCAAGAGGATGACGTTG
*
38924249 CTCTTACTTCAATTTCA
1 CTCTTACTTTAATTTCA
38924266 GAGATAAAGA
Statistics
Matches: 411, Mismatches: 101, Indels: 97
0.67 0.17 0.16
Matches are distributed among these distances:
30 5 0.01
31 110 0.27
32 83 0.20
33 6 0.01
34 20 0.05
35 7 0.02
36 83 0.20
37 97 0.24
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (31 bp):
CTCTTACTTTAATTTCAAGAGGATGACGTTG
Found at i:38923851 original size:136 final size:136
Alignment explanation
Indices: 38923634--38924276 Score: 1045
Period size: 136 Copynumber: 4.7 Consensus size: 136
38923624 GGAAATGATC
* * * * *
38923634 TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTTCTTCAATTTCAAAAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
* * * * *
38923699 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACAG-ATTATCCACTCTACTTTAACTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC-GTATTACCCACTCTACTTCAATTTCAAGGG
38923763 GATGACG
130 GATGACG
* * * *
38923770 TTGCTCTTACTTTAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
38923835 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTACCCACTCTACTTCAATTTCAAGGGG
38923900 ATGACG
131 ATGACG
* *
38923906 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
38923971 ACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTACCCACTCTACTTCAATTTCAAGGGG
38924036 ATGACG
131 ATGACG
* *
38924042 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
38924107 ACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTACCCACTCTACTTCAATTTCAAGGGG
38924172 ATGACG
131 ATGACG
* *
38924178 TTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
38924243 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
38924277 TTGATATCCA
Statistics
Matches: 480, Mismatches: 26, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
135 1 0.00
136 479 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (136 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTACCCACTCTACTTCAATTTCAAGGGG
ATGACG
Found at i:38923860 original size:204 final size:203
Alignment explanation
Indices: 38923634--38924310 Score: 1066
Period size: 204 Copynumber: 3.3 Consensus size: 203
38923624 GGAAATGATC
* * * *
38923634 TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTTCTTCAATTTCAAAAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
38923699 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACAGATTATCCACTCTACTTTAACTTCAAGAGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACAG-TTATCCACTCTACTTCAACTTCAAGAGG
* ** *
38923764 ATGACGTTGCTCTTACTTTAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAG
130 ATGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAG
38923829 GGGATGACG
195 GGGATGACG
* *
38923838 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
38923903 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACA-GTTATCCACTCTACTTCAACTTCAAGAGG
* *
38923968 ATGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAG
130 ATGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAG
38924033 GGGATGACG
195 GGGATGACG
* * *
38924042 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAACTTCGAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* * * * *
38924107 ACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC-AGTTATCCACTCTACTTCAACTTCAAGAGG
38924172 ATGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAG
130 ATGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAG
38924237 GGGATGACG
195 GGGATGACG
* * * * *
38924246 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTTCTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
38924311 TGGAAATGAT
Statistics
Matches: 436, Mismatches: 34, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
204 417 0.96
205 19 0.04
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (203 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACAGTTATCCACTCTACTTCAACTTCAAGAGGA
TGACGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCAATTTCAAGG
GGATGACG
Found at i:38936160 original size:30 final size:30
Alignment explanation
Indices: 38936061--38936432 Score: 280
Period size: 30 Copynumber: 12.4 Consensus size: 30
38936051 ATCGAGGCTA
*
38936061 AAAATGGAA-TTTGG-AAAG-TTTGGGGAAT-
1 AAAATGTAATTTTGGAAAAGTTTTGGGG--TC
* *
38936089 AAAATGGTAAATTTT-G-AAAGTTTCGGGGTT
1 AAAAT-GT-AATTTTGGAAAAGTTTTGGGGTC
* * * *
38936119 AAAGTATAATTTTGGAAAACTTTTGGAGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
38936149 AAAATGTAATTTTGGAAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
38936179 AAAATGTAATTTT-TAGAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* * * *
38936209 AAAATATAATTTCGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
38936239 AAAATGTAATTTT-TAGAAAGTTTCGGGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* *
38936269 AAAATATAATTTCTAG-AAAGTTTTGGGGTC
1 AAAATGTAATTT-TGGAAAAGTTTTGGGGTC
* *
38936299 GAAATGTAATTTTGGAAAAGTTTTGAGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* ** * *
38936329 AAAATATAATTTTCAAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
38936359 AAAATATATTTTTTTTG-AAAGTTTTGGGGTC
1 AAAATGTA--ATTTTGGAAAAGTTTTGGGGTC
* * *
38936390 AAAATATAATTTT-TAGAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* *
38936420 GAAATATAATTTT
1 AAAATGTAATTTT
38936433 TGGATAATTT
Statistics
Matches: 278, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
28 11 0.04
29 12 0.04
30 220 0.79
31 31 0.11
32 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:38936182 original size:90 final size:89
Alignment explanation
Indices: 38936061--38936415 Score: 332
Period size: 90 Copynumber: 4.0 Consensus size: 89
38936051 ATCGAGGCTA
* * * *
38936061 AAAATGGAA-TTTGG-AAAG-TTTGGGGAATAAAATGGTAAATTTT-GAAAGTTTCGGGGTTAAA
1 AAAATGTAATTTTGGAAAAGTTTTGGGG-TTAAAAT-GTAAATTTTAGAAAGTTTTGGGGTCAAA
*
38936122 GTATAATTTTGGAAAACTTTTGGAGTC
64 -TATAATTTTGGAAAAGTTTTGGAGTC
* *
38936149 AAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAAT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAAATTTTAGAAAGTTTTGGGGTC-AAAT
* *
38936214 ATAATTTCGGAAAAGTTTTAGG-GTT
65 ATAATTTTGGAAAAGTTTT-GGAGTC
* * * *
38936239 AAAATGTAATTTT-TAGAAAGTTTCGGGGTCAAAATAT-AATTTCTAGAAAGTTTTGGGGTCGAA
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTTAAAATGTAAATTT-TAGAAAGTTTTGGGGTC-AA
*
38936302 ATGTAATTTTGGAAAAGTTTT-GAGGTC
63 ATATAATTTTGGAAAAGTTTTGGA-GTC
* ** * * ** *
38936329 AAAATATAATTTTCAAAAAGTTTTAGGGTTAAAATATATTTTTTTTGAAAGTTTTGGGGTCAAAA
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTA-AATTTTAGAAAGTTTTGGGGTC-AAA
*
38936394 TATAATTTT-TAGAAAGTTTTGG
64 TATAATTTTGGA-AAAGTTTTGG
38936416 GGTTGAAATA
Statistics
Matches: 222, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
88 9 0.04
89 18 0.08
90 143 0.64
91 48 0.22
92 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (89 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAAATTTTAGAAAGTTTTGGGGTCAAATA
TAATTTTGGAAAAGTTTTGGAGTC
Found at i:38936433 original size:30 final size:30
Alignment explanation
Indices: 38936100--38936433 Score: 318
Period size: 30 Copynumber: 11.1 Consensus size: 30
38936090 AAATGGTAAA
* * *
38936100 TTTT-GAAAGTTTCGGGGTTAAAGTATAA-
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
* * * *
38936128 TTTTGGAAAACTTTTGGAGTCAAAATGTAA-
1 TTTTAG-AAAGTTTTGGGGTCAAAATATAAT
* * *
38936158 TTTTGGAAAAGTTTTGGGGTTAAAATGTAAT
1 TTTTAG-AAAGTTTTGGGGTCAAAATATAAT
*
38936189 TTTTAGAAAGTTTTAGGGTCAAAATATAA-
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
** * * *
38936218 TTTCGGAAAAGTTTTAGGGTTAAAATGTAAT
1 TTTTAG-AAAGTTTTGGGGTCAAAATATAAT
*
38936249 TTTTAGAAAGTTTCGGGGTCAAAATATAAT
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
* * *
38936279 TTCTAGAAAGTTTTGGGGTCGAAATGTAA-
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
* *
38936308 TTTTGGAAAAGTTTTGAGGTCAAAATATAAT
1 TTTTAG-AAAGTTTTGGGGTCAAAATATAAT
* * * * *
38936339 TTTCAAAAAGTTTTAGGGTTAAAATATATTT
1 TTTTAGAAAGTTTTGGGGTCAAAATATA-AT
*
38936370 TTTTTGAAAGTTTTGGGGTCAAAATATAAT
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
**
38936400 TTTTAGAAAGTTTTGGGGTTGAAATATAAT
1 TTTTAGAAAGTTTTGGGGTCAAAATATAAT
38936430 TTTT
1 TTTT
38936434 GGATAATTTA
Statistics
Matches: 250, Mismatches: 48, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
28 4 0.02
29 9 0.04
30 201 0.80
31 36 0.14
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (30 bp):
TTTTAGAAAGTTTTGGGGTCAAAATATAAT
Found at i:38937459 original size:13 final size:13
Alignment explanation
Indices: 38937438--38937475 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
38937428 TTGTTATTAG
*
38937438 ATTATTAATATTT
1 ATTAATAATATTT
38937451 ATTAATAATATTT
1 ATTAATAATATTT
*
38937464 ATTAGTAATATT
1 ATTAATAATATT
38937476 AATGTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTAATAATATTT
Found at i:38950468 original size:7 final size:7
Alignment explanation
Indices: 38950456--38950480 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38950446 AAAAATAATA
38950456 AAAATTT
1 AAAATTT
38950463 AAAATTT
1 AAAATTT
38950470 AAAATTT
1 AAAATTT
38950477 AAAA
1 AAAA
38950481 ATATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:38951292 original size:30 final size:29
Alignment explanation
Indices: 38951220--38951292 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
38951210 TAAGAAGTTT
38951220 AAGGGTCAAATTAATAGAATTTTTAAATAA
1 AAGGGTCAAATTAATAGAATTTTTAAAT-A
* *
38951250 GAAGGGTTAAATTTATAGAATTATTTAGAAT-
1 -AAGGGTCAAATTAATAGAATT-TTTA-AATA
*
38951281 TAGGGTCAAATT
1 AAGGGTCAAATT
38951293 GATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 10 0.28
31 19 0.53
32 4 0.11
33 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (29 bp):
AAGGGTCAAATTAATAGAATTTTTAAATA
Found at i:38951573 original size:25 final size:26
Alignment explanation
Indices: 38951519--38951573 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
38951509 TTTAGTGATT
* *
38951519 TATTTTTTAAAATTCAAGTATATTAT
1 TATTTTTCAAAATTCAAGTATATTAA
38951545 TATTTTTCAATAATT-AAGTAT-TTAA
1 TATTTTTCAA-AATTCAAGTATATTAA
38951570 TATT
1 TATT
38951574 AATCAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 15 0.58
27 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
TATTTTTCAAAATTCAAGTATATTAA
Found at i:38953134 original size:21 final size:21
Alignment explanation
Indices: 38953096--38953135 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38953086 TTTACTTTTT
* * *
38953096 TTAAGTTAAAAGTTAAAATCG
1 TTAACTTAAAAATCAAAATCG
38953117 TTAACTTAAAAATCAAAAT
1 TTAACTTAAAAATCAAAAT
38953136 TACATCGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAACTTAAAAATCAAAATCG
Found at i:38953372 original size:24 final size:24
Alignment explanation
Indices: 38953345--38953390 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
38953335 AATTCAATTG
38953345 CTAAAACAAAATTCATTAACTCCA
1 CTAAAACAAAATTCATTAACTCCA
** **
38953369 CTAATTCAAAATTTTTTAACTC
1 CTAAAACAAAATTCATTAACTC
38953391 AATTAAATAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (24 bp):
CTAAAACAAAATTCATTAACTCCA
Found at i:38954157 original size:9 final size:9
Alignment explanation
Indices: 38954143--38954242 Score: 101
Period size: 9 Copynumber: 10.4 Consensus size: 9
38954133 TCAAACTCAT
*
38954143 CCATGCCAC
1 CCATGCCGC
38954152 CCATGCCGC
1 CCATGCCGC
*
38954161 CCATGCCACC
1 CCATGCC-GC
*
38954171 CATCATGTCGC
1 C--CATGCCGC
38954182 CCATGCCGC
1 CCATGCCGC
*
38954191 CCATGCCTC
1 CCATGCCGC
38954200 CCATGCCGC
1 CCATGCCGC
38954209 CCATGCCGCC
1 CCATGCCG-C
*
38954219 CATCATGTCGC
1 C--CATGCCGC
38954230 CCATGCCGC
1 CCATGCCGC
38954239 CCAT
1 CCAT
38954243 TCCCCCGAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
9 57 0.75
10 4 0.05
11 4 0.05
12 11 0.14
ACGTcount: A:0.15, C:0.52, G:0.17, T:0.16
Consensus pattern (9 bp):
CCATGCCGC
Found at i:38954182 original size:21 final size:21
Alignment explanation
Indices: 38954153--38954194 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
38954143 CCATGCCACC
38954153 CATGCCGCCCATGCCACCCAT
1 CATGCCGCCCATGCCACCCAT
* *
38954174 CATGTCGCCCATGCCGCCCAT
1 CATGCCGCCCATGCCACCCAT
38954195 GCCTCCCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (21 bp):
CATGCCGCCCATGCCACCCAT
Found at i:38954196 original size:48 final size:48
Alignment explanation
Indices: 38954143--38954242 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
38954133 TCAAACTCAT
38954143 CCATGCCACCCATGCCGCCCATGCCACCCATCATGTCGCCCATGCCGC
1 CCATGCCACCCATGCCGCCCATGCCACCCATCATGTCGCCCATGCCGC
* *
38954191 CCATGCCTCCCATGCCGCCCATGCCGCCCATCATGTCGCCCATGCCGC
1 CCATGCCACCCATGCCGCCCATGCCACCCATCATGTCGCCCATGCCGC
38954239 CCAT
1 CCAT
38954243 TCCCCCGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.15, C:0.52, G:0.17, T:0.16
Consensus pattern (48 bp):
CCATGCCACCCATGCCGCCCATGCCACCCATCATGTCGCCCATGCCGC
Found at i:38954230 original size:21 final size:21
Alignment explanation
Indices: 38954183--38954242 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
38954173 TCATGTCGCC
*
38954183 CATGCCGCCCATGCC-TCC--
1 CATGCCGCCCATGCCGCCCAT
38954201 CATGCCGCCCATGCCGCCCAT
1 CATGCCGCCCATGCCGCCCAT
*
38954222 CATGTCGCCCATGCCGCCCAT
1 CATGCCGCCCATGCCGCCCAT
38954243 TCCCCCGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 15 0.41
19 2 0.05
21 20 0.54
ACGTcount: A:0.13, C:0.52, G:0.18, T:0.17
Consensus pattern (21 bp):
CATGCCGCCCATGCCGCCCAT
Found at i:38961323 original size:27 final size:27
Alignment explanation
Indices: 38961293--38961372 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
38961283 TTGTTAGGCG
*
38961293 AGTTAGGGTTAGCTAGTTGGTCTGACA
1 AGTTAGGGTTCGCTAGTTGGTCTGACA
**
38961320 AGTT-GAGGTTCGCTAGTTGAGT-TGTGA
1 AGTTAG-GGTTCGCTAGTTG-GTCTGACA
*
38961347 A-TTGAGGGTTCGCCAGTTGGTCTGAC
1 AGTT-AGGGTTCGCTAGTTGGTCTGAC
38961373 GAGCTGAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.34
Consensus pattern (27 bp):
AGTTAGGGTTCGCTAGTTGGTCTGACA
Found at i:38961383 original size:27 final size:27
Alignment explanation
Indices: 38961307--38961385 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
38961297 AGGGTTAGCT
* *
38961307 AGTTGGTCTGACAAGTTGAGGTTCGCT
1 AGTTGGTCTGACGAGTTGAGGTTCGCC
* *
38961334 AGTTGAGT-TG-TGAATTGAGGGTTCGCC
1 AGTTG-GTCTGACGAGTTGA-GGTTCGCC
*
38961361 AGTTGGTCTGACGAGCTGAGGTTCG
1 AGTTGGTCTGACGAGTTGAGGTTCG
38961386 TAATTTGAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
26 7 0.17
27 27 0.66
28 7 0.17
ACGTcount: A:0.18, C:0.14, G:0.37, T:0.32
Consensus pattern (27 bp):
AGTTGGTCTGACGAGTTGAGGTTCGCC
Found at i:38964407 original size:33 final size:33
Alignment explanation
Indices: 38964365--38964431 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
38964355 ATTAACCATT
38964365 CATAATCAACAATCACATGGGTTCTCAATCTAA
1 CATAATCAACAATCACATGGGTTCTCAATCTAA
38964398 CATAATCAACAATCACATGGGTTCTCAATCTAA
1 CATAATCAACAATCACATGGGTTCTCAATCTAA
38964431 C
1 C
38964432 TCATGAATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (33 bp):
CATAATCAACAATCACATGGGTTCTCAATCTAA
Found at i:38964719 original size:22 final size:22
Alignment explanation
Indices: 38964673--38964719 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
38964663 AAGAGATGAA
* *
38964673 ATTTTCTTTTCTTTTGTTTTAT
1 ATTTTCTTTCCTTTTGTTGTAT
38964695 ATTTTCTTTCCTTTTGTCTGT-T
1 ATTTTCTTTCCTTTTGT-TGTAT
38964717 ATT
1 ATT
38964720 CATTACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.09, C:0.13, G:0.06, T:0.72
Consensus pattern (22 bp):
ATTTTCTTTCCTTTTGTTGTAT
Found at i:38966780 original size:27 final size:27
Alignment explanation
Indices: 38966721--38966797 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
38966711 GGAACACGCT
* * *
38966721 ACAAAAGCATTCCATTCAAAATATGCT
1 ACAAAGGCATTCCATTCAGAATATGCC
* *
38966748 GCAAAGGCATTCCCTTCAGAATATGCC
1 ACAAAGGCATTCCATTCAGAATATGCC
* * *
38966775 ATAAAGGTATTTCATTCAGAATA
1 ACAAAGGCATTCCATTCAGAATA
38966798 CATCATGAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (27 bp):
ACAAAGGCATTCCATTCAGAATATGCC
Found at i:38970274 original size:41 final size:41
Alignment explanation
Indices: 38970188--38970301 Score: 156
Period size: 41 Copynumber: 2.7 Consensus size: 41
38970178 ATAACAGCAC
38970188 CATAAGTTGGTTTTCCATTTCAACAACCCCAATACCAACAATCA
1 CATAAGTTGGTTTTCCATTTCAACAA---CAATACCAACAATCA
* * *
38970232 CATAAGTTGGTTTTCCATTTCAACAACAATACTAGCTATCA
1 CATAAGTTGGTTTTCCATTTCAACAACAATACCAACAATCA
* *
38970273 CATAAGTTGGTTTTTCATTTAAACAACAA
1 CATAAGTTGGTTTTCCATTTCAACAACAA
38970302 CAATAATATT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 39 0.60
44 26 0.40
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (41 bp):
CATAAGTTGGTTTTCCATTTCAACAACAATACCAACAATCA
Found at i:38970588 original size:3 final size:3
Alignment explanation
Indices: 38970580--38970636 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
38970570 ATTTCTCCTA
38970580 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTCC TT- TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
38970624 TTC TTC TTC TTC T
1 TTC TTC TTC TTC T
38970637 ACTACCCAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:38970726 original size:32 final size:32
Alignment explanation
Indices: 38970669--38970742 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
38970659 ATGGGACTGT
*
38970669 TTAAATGACAGCAAACCCTCCAACG-TGACCGA
1 TTAAATGACAGCAAACACTCCAACGTTG-CCGA
* *
38970701 TTAAATGACAGCAAGA-ACTCTAACGTTGTCGA
1 TTAAATGACAGCAA-ACACTCCAACGTTGCCGA
38970733 TTAAATGACA
1 TTAAATGACA
38970743 TGTCACTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 34 0.92
33 3 0.08
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (32 bp):
TTAAATGACAGCAAACACTCCAACGTTGCCGA
Found at i:38971496 original size:34 final size:35
Alignment explanation
Indices: 38971458--38971524 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
38971448 TATATTTATT
* *
38971458 AAAAAATAATACA-TTTAAACTTTTATT-TAAATGA
1 AAAAAATAA-AAATTTTAAAATTTTATTATAAATGA
*
38971492 AAAAATTAAAAATTTTAAAATTTTATTATAAAT
1 AAAAAATAAAAATTTTAAAATTTTATTATAAAT
38971525 TTATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.07
34 21 0.75
35 5 0.18
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
AAAAAATAAAAATTTTAAAATTTTATTATAAATGA
Found at i:38973362 original size:17 final size:17
Alignment explanation
Indices: 38973342--38973384 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
38973332 TAAAATTTTT
* *
38973342 AAAATTATTAAATTATA
1 AAAATTATAAAAATATA
*
38973359 AAAAGTATAAAAATATA
1 AAAATTATAAAAATATA
*
38973376 AAATTTATA
1 AAAATTATA
38973385 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATTATAAAAATATA
Found at i:38982093 original size:3 final size:3
Alignment explanation
Indices: 38982087--38982111 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38982077 TTAACAATAA
38982087 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
38982112 AAAAATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:38984179 original size:8 final size:8
Alignment explanation
Indices: 38984166--38984192 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
38984156 GTTGTTATAT
38984166 TTTTAAAA
1 TTTTAAAA
38984174 TTTTAAAA
1 TTTTAAAA
38984182 TTTTAAAA
1 TTTTAAAA
38984190 TTT
1 TTT
38984193 CAGTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTAAAA
Found at i:38987795 original size:41 final size:41
Alignment explanation
Indices: 38987750--38987827 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
38987740 GAAAAGCGCT
38987750 TCCACGTGAA-AGTACTTTTT-CTTGAATGAGACAAAAACACC
1 TCCACGT-AAGAG-ACTTTTTCCTTGAATGAGACAAAAACACC
* * *
38987791 TCCACGTAAGAGCCTTTTTCCTTGATTGAGATAAAAA
1 TCCACGTAAGAGACTTTTTCCTTGAATGAGACAAAAA
38987828 GCACTGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (41 bp):
TCCACGTAAGAGACTTTTTCCTTGAATGAGACAAAAACACC
Found at i:38992760 original size:17 final size:17
Alignment explanation
Indices: 38992738--38992772 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38992728 CGTATTTTAT
38992738 TGATCAATAGAAGTATA
1 TGATCAATAGAAGTATA
38992755 TGATCAATAGAAGTATA
1 TGATCAATAGAAGTATA
38992772 T
1 T
38992773 TACAATGCTT
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:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (17 bp):
TGATCAATAGAAGTATA
Found at i:38992787 original size:58 final size:58
Alignment explanation
Indices: 38992697--38992813 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
38992687 CGTATTTTAT
*
38992697 TGATCAATAGAAGTATATTACAATCCTTAAGCGTATTTTATTGATCAATAGAAGTATA
1 TGATCAATAGAAGTATATTACAATCCTTAAGCGTATTTTATTGATCAATAGAAATATA
*
38992755 TGATCAATAGAAGTATATTACAATGCTTAAGCGTATTTTATTGATCAATAGAAATATA
1 TGATCAATAGAAGTATATTACAATCCTTAAGCGTATTTTATTGATCAATAGAAATATA
38992813 T
1 T
38992814 TACAATGCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (58 bp):
TGATCAATAGAAGTATATTACAATCCTTAAGCGTATTTTATTGATCAATAGAAATATA
Found at i:38993239 original size:12 final size:12
Alignment explanation
Indices: 38993218--38993252 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
38993208 AAAAAAATTT
38993218 AATAATTAAAAA
1 AATAATTAAAAA
*
38993230 AATTATT-AAAA
1 AATAATTAAAAA
38993241 AATAATTAAAAA
1 AATAATTAAAAA
38993253 TTACATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATTAAAAA
Found at i:38996098 original size:125 final size:125
Alignment explanation
Indices: 38995871--38996115 Score: 454
Period size: 125 Copynumber: 2.0 Consensus size: 125
38995861 CTAATAGCAA
38995871 AATTTAACCATGATAACCGGGAAAGATTGCATGCATGGTACAAAGATTGCATGAAAACAGAAAAC
1 AATTTAACCATGATAACCGGGAAAGATTGCATGCATGGTACAAAGATTGCATGAAAACAGAAAAC
**
38995936 TGAACTATGACCAAGGCAAATGGTTGAGTGACCCTCAGTTGTAGTCAGCTGGATTGACAG
66 TGAACTATGACCAAGGCAAATGGTTGAGTGACCCTCAGTAATAGTCAGCTGGATTGACAG
*
38995996 AATTTAACCATGGTAACCGGGAAAGATTGCATGCATGGTACAAAGATTGCATGAAAACAGAAAAC
1 AATTTAACCATGATAACCGGGAAAGATTGCATGCATGGTACAAAGATTGCATGAAAACAGAAAAC
*
38996061 TGAACTATGACCAAGGCAAATGGTTGAGTGACTCTCAGTAATAGTCAGCTGGATT
66 TGAACTATGACCAAGGCAAATGGTTGAGTGACCCTCAGTAATAGTCAGCTGGATT
38996116 AACAAGAAAC
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 116 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (125 bp):
AATTTAACCATGATAACCGGGAAAGATTGCATGCATGGTACAAAGATTGCATGAAAACAGAAAAC
TGAACTATGACCAAGGCAAATGGTTGAGTGACCCTCAGTAATAGTCAGCTGGATTGACAG
Found at i:38999234 original size:29 final size:31
Alignment explanation
Indices: 38999168--38999236 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
38999158 GTGTATTATT
* *
38999168 TGGTACATGTACTTTCATAACATGTCTAATG
1 TGGTACTTGTACTTTCATAACATATCTAATG
*
38999199 TGGTACTTGTACTTTGA-AA-ATATCTAATG
1 TGGTACTTGTACTTTCATAACATATCTAATG
38999228 TGGTACTTG
1 TGGTACTTG
38999237 AACTATTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 18 0.51
30 2 0.06
31 15 0.43
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (31 bp):
TGGTACTTGTACTTTCATAACATATCTAATG
Found at i:38999253 original size:91 final size:90
Alignment explanation
Indices: 38999086--38999349 Score: 298
Period size: 91 Copynumber: 2.9 Consensus size: 90
38999076 TTGATACCTA
** * * ** * *
38999086 TACTTTCATAAAATATCCAATGTGGTACACGTACCTTGAAAATGTCTAATGCAGTACCTAAACCA
1 TACTTTCATAAAATATCCAATGTGGTACTTGTACTTTGAAAATATCTAATGTGGTACCTGAACTA
*
38999151 TCAATTTGTGTATTATTT-GGTACATG
66 TCAATTGGTGTATTATTTAGGT--ATG
* * * *
38999177 TACTTTCATAACATGTCTAATGTGGTACTTGTACTTTGAAAATATCTAATGTGGTACTTGAACTA
1 TACTTTCATAAAATATCCAATGTGGTACTTGTACTTTGAAAATATCTAATGTGGTACCTGAACTA
* *
38999242 TTAGTTGGTGTATTATTTAGGGTATG
66 TCAATTGGTGTATTATTTA-GGTATG
* * *
38999268 TACTTTCATAAAATATCCAATATGGTACTTATACTTTGAAAATAT-TCAATATGGTACCTGAACT
1 TACTTTCATAAAATATCCAATGTGGTACTTGTACTTTGAAAATATCT-AATGTGGTACCTGAACT
**
38999332 ATCAATTTTTGTATTATT
65 ATCAATTGGTGTATTATT
38999350 ATTGTACTTG
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
90 1 0.01
91 140 0.97
93 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (90 bp):
TACTTTCATAAAATATCCAATGTGGTACTTGTACTTTGAAAATATCTAATGTGGTACCTGAACTA
TCAATTGGTGTATTATTTAGGTATG
Found at i:38999615 original size:62 final size:62
Alignment explanation
Indices: 38999539--38999677 Score: 158
Period size: 62 Copynumber: 2.2 Consensus size: 62
38999529 CTCAATAGGG
* * *
38999539 CATTTTATGTAAGTA-AATGTA-CTAAATAATACATAAATTGATAGATCAAGTATCACATTTG-A
1 CATTTTATGAAAGTACAA-GTATC-AAATAATACACAAATTGATAGATCAAGTACCACA-TTGAA
* * * *
38999601 TATTTTATGAAAGTACAAGTATCAAATGATACACAAATTGATAGTTCAGGTACCACATTGAA
1 CATTTTATGAAAGTACAAGTATCAAATAATACACAAATTGATAGATCAAGTACCACATTGAA
*
38999663 CATTTTATAAAAGTA
1 CATTTTATGAAAGTA
38999678 TAGGCACCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 3 0.05
62 59 0.91
63 3 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (62 bp):
CATTTTATGAAAGTACAAGTATCAAATAATACACAAATTGATAGATCAAGTACCACATTGAA
Found at i:38999689 original size:62 final size:62
Alignment explanation
Indices: 38999562--38999690 Score: 143
Period size: 62 Copynumber: 2.1 Consensus size: 62
38999552 TAAATGTACT
* * * * * * *
38999562 AAATAATACATAAATTGATAGATCAAGTATCACATTTGATATTTTATGAAAGTACAAGTATC
1 AAATGATACACAAATTGATAGATCAAGTACCACATTTGACATTTTATAAAAGTACAAGCACC
* * * *
38999624 AAATGATACACAAATTGATAGTTCAGGTACCACA-TTGAACATTTTATAAAAGTATAGGCACC
1 AAATGATACACAAATTGATAGATCAAGTACCACATTTG-ACATTTTATAAAAGTACAAGCACC
38999686 AAATG
1 AAATG
38999691 TGACATTATC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 3 0.05
62 52 0.95
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (62 bp):
AAATGATACACAAATTGATAGATCAAGTACCACATTTGACATTTTATAAAAGTACAAGCACC
Found at i:39000300 original size:34 final size:34
Alignment explanation
Indices: 39000261--39000349 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
39000251 AATCCTGAAT
* *
39000261 CCAAATCTCAAATCTTAAACTCAAATCATGAACC
1 CCAAATCCCAAACCTTAAACTCAAATCATGAACC
*
39000295 CCAAATCCCAAACCTTGAACTCAAATCATGAACC
1 CCAAATCCCAAACCTTAAACTCAAATCATGAACC
*
39000329 CCAAATCCCAAACCTCAAACT
1 CCAAATCCCAAACCTTAAACT
39000350 TAAACCCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (34 bp):
CCAAATCCCAAACCTTAAACTCAAATCATGAACC
Found at i:39003645 original size:16 final size:17
Alignment explanation
Indices: 39003620--39003652 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39003610 AATTTAGACC
*
39003620 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
39003637 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
39003653 GTAGAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:39006516 original size:59 final size:58
Alignment explanation
Indices: 39006306--39006513 Score: 213
Period size: 58 Copynumber: 3.5 Consensus size: 58
39006296 CAAAATTCAA
* * * * * *
39006306 ATTTATCCCTTAAACTTCCCAAAAATTCAAATTAAACCTCTAAACTTTCCAAAAA-TTTG
1 ATTTAACCC-TAAACTTTCTAAAAATTCAAATTTAACCT-TAAATTTTCTAAAAATTTTG
* * ***
39006365 AATTAGACCCTAAAACTTTCCAAAAATTCAAATTTAACCCTTAAACTTTT-TAAAAATTCAA
1 ATTTA-ACCCT-AAACTTTCTAAAAATTCAAATTTAA-CCTTAAA-TTTTCTAAAAATTTTG
* *
39006426 ATTTAACCCTAAACTATCTAGAAATTCAAATTTAACCTTAAATTTTCTAAAAATTTTG
1 ATTTAACCCTAAACTTTCTAAAAATTCAAATTTAACCTTAAATTTTCTAAAAATTTTG
* *
39006484 ATTTAACCCTGAAGTTTCTAAAAATTCAAA
1 ATTTAACCCTAAACTTTCTAAAAATTCAAA
39006514 ATTGACCCGA
Statistics
Matches: 123, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
57 4 0.03
58 41 0.33
59 27 0.22
60 40 0.33
61 11 0.09
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (58 bp):
ATTTAACCCTAAACTTTCTAAAAATTCAAATTTAACCTTAAATTTTCTAAAAATTTTG
Found at i:39006521 original size:29 final size:29
Alignment explanation
Indices: 39006297--39006513 Score: 220
Period size: 30 Copynumber: 7.3 Consensus size: 29
39006287 TAAATTCCCC
* * *
39006297 AAAATTCAAATTTATCCCTTAAACTTCCCA
1 AAAATTCAAATTTAACCC-TAAACTTTCTA
* *
39006327 AAAATTCAAATTAAACCTCTAAACTTTCCA
1 AAAATTCAAATTTAACC-CTAAACTTTCTA
** *
39006357 AAAATTTGAA-TTAGACCCTAAAACTTTCCA
1 AAAATTCAAATTTA-ACCCT-AAACTTTCTA
*
39006387 AAAATTCAAATTTAACCCTTAAACTTTTTA
1 AAAATTCAAATTTAACCC-TAAACTTTCTA
*
39006417 AAAATTCAAATTTAACCCTAAACTATCTA
1 AAAATTCAAATTTAACCCTAAACTTTCTA
* * *
39006446 GAAATTCAAATTTAACCTTAAATTTTCTA
1 AAAATTCAAATTTAACCCTAAACTTTCTA
*** * *
39006475 AAAATTTTGATTTAACCCTGAAGTTTCTA
1 AAAATTCAAATTTAACCCTAAACTTTCTA
39006504 AAAATTCAAA
1 AAAATTCAAA
39006514 ATTGACCCGA
Statistics
Matches: 156, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
29 67 0.43
30 84 0.54
31 5 0.03
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTCAAATTTAACCCTAAACTTTCTA
Found at i:39006669 original size:21 final size:22
Alignment explanation
Indices: 39006618--39006669 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
39006608 TGCATATGTA
39006618 TATTATTT-TATTTGCTTGTTT
1 TATTATTTATATTTGCTTGTTT
*
39006639 T-TTATGTATATATTG-TT-TTT
1 TATTATTTATAT-TTGCTTGTTT
39006659 TATTATTTATA
1 TATTATTTATA
39006670 CTTGTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (22 bp):
TATTATTTATATTTGCTTGTTT
Found at i:39009199 original size:18 final size:18
Alignment explanation
Indices: 39009168--39009212 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
39009158 TATGTTTTCA
*
39009168 AATAATA-TATTAATTAAT
1 AATAATATTA-TAATAAAT
*
39009186 AATATTATTATAATAAAT
1 AATAATATTATAATAAAT
39009204 AATAATATT
1 AATAATATT
39009213 TTATTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATATTATAATAAAT
Found at i:39020040 original size:25 final size:25
Alignment explanation
Indices: 39019998--39020045 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
39019988 TTGAAGAAAT
*
39019998 AAATTATATATCGGTATGGAATGAG
1 AAATTATATATCGATATGGAATGAG
*
39020023 AAATTATATGTCGATATGGAATG
1 AAATTATATATCGATATGGAATG
39020046 CCAGAGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (25 bp):
AAATTATATATCGATATGGAATGAG
Found at i:39021832 original size:50 final size:50
Alignment explanation
Indices: 39021696--39021841 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 50
39021686 CTATACCCAA
** * * * *
39021696 AAAGCTGTAGAGGAACGGATTGAAG-CTGCAATAGCAAATCTTATACACCT
1 AAAGCTGTAGAGGGGCAGATTGAAGTC-GCAATGGCGAATCTCATACACCT
* * * * *
39021746 AAACCTGTAAAAGGGCAGATTGAAATCGCAATGGCGAATCTCATTCACCT
1 AAAGCTGTAGAGGGGCAGATTGAAGTCGCAATGGCGAATCTCATACACCT
* *
39021796 AAAGCTGTAGAGGGGCAGATTGAAGTCGCAAGGGCGAATCTTATAC
1 AAAGCTGTAGAGGGGCAGATTGAAGTCGCAATGGCGAATCTCATAC
39021842 TCTTGAAGCT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 76 0.99
51 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (50 bp):
AAAGCTGTAGAGGGGCAGATTGAAGTCGCAATGGCGAATCTCATACACCT
Found at i:39021937 original size:40 final size:40
Alignment explanation
Indices: 39021877--39022562 Score: 513
Period size: 40 Copynumber: 17.3 Consensus size: 40
39021867 TACAACTTCG
* * *
39021877 AATCTTTTACCCCGATCATGGTGCAGATTGAAGACCATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
*
39021917 AATCTTTTACCCCGACCATGGGGCAAATTGAAG-CAATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
* * *
39021956 AATCTTTTACCTCGACCATGGGGCAAATTGAAGACTATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
* ** ** * *
39021996 AATGTTTTACCCTAATTA-GAGGCAGGTTGAAG-CAATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
** *
39022034 AATCTTTTACCCTAACCA-GAAGGCAGATTGAAGATC-ATCC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGA-CAATCC
* * *
39022074 AATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATTC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
** * * *
39022114 AATCTTTTACCCTAATCA-GAGGGGAGGTTGAAGA-AATCC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
** * *
39022153 AAATCTTTTACCCTAACTA-GAGGGCAGATTGAAGACCATCC
1 -AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
* * *
39022194 GATCTCTTACCCCGACCATAGGGCAGATTGAA-ACAATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
* * *
39022233 AATCTTTTACCCCGACCATGGGGCATATTGAAGACTATCT
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
* ** * *
39022273 AATTTTTTACCCTAATCA-GAGGGCAGGTTGAAG-CAATCC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
*** * * * *
39022312 AATCTTTTACCATAACTA-GAAGGCATATTGAAGAC-CTCC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
* * *
39022351 AATCTTTTACCCCGACCATGGGACAGATTGAAGACTATCT
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
* ** ** ** * * * *
39022391 AATCTTTAACCCTAATTAAAGGGCGGGTTAAAG-CAATCT
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
*** * * * *
39022430 AATCTTTTACCTTAACTA-GAAGGCAGATTGAAGACCATTC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
* * * *
39022470 AATCTTTTACCCCGGCCATGAGAGTAGATTGAAGACCATCC
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACAATCC
* *
39022511 GATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
39022550 AATCTTTTACCCC
1 AATCTTTTACCCC
39022563 TAAAGTTATA
Statistics
Matches: 512, Mismatches: 116, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
38 21 0.04
39 204 0.40
40 246 0.48
41 41 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (40 bp):
AATCTTTTACCCCGACCATGGGGCAGATTGAAGACAATCC
Found at i:39022208 original size:120 final size:118
Alignment explanation
Indices: 39021877--39022322 Score: 479
Period size: 119 Copynumber: 3.8 Consensus size: 118
39021867 TACAACTTCG
** * * **
39021877 AATCTTTTACCCCGATCATG-GTGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATG-GGG
1 AATCTTTTACCCTAATCA-GAG-GCAGGTTGAAGA-AATCCAATCTTTTACCCTAACCA-GAGGG
* * *
39021940 CAAATTGAAG-CAATCCAATCTTTTACCTCGACCATGGGGCAAATTGAAGACTATCC
62 CAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATCC
* * * *
39021996 AATGTTTTACCCTAATTAGAGGCAGGTTGAAGCAATCCAATCTTTTACCCTAACCAGAAGGCAGA
1 AATCTTTTACCCTAATCAGAGGCAGGTTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAGA
* *
39022061 TTGAAGATCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATTC
66 TTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATCC
* *
39022114 AATCTTTTACCCTAATCAGAGGGGAGGTTGAAGAAATCCAAATCTTTTACCCTAACTAGAGGGCA
1 AATCTTTTACCCTAATCAGA-GGCAGGTTGAAGAAATCC-AATCTTTTACCCTAACCAGAGGGCA
* * * * *
39022179 GATTGAAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAA-ACAATCC
64 GATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATCC
** * * ** * * * *
39022233 AATCTTTTACCCCGACCATGGGGCATATTGAAGACTATCTAATTTTTTACCCTAATCAGAGGGCA
1 AATCTTTTACCCTAATCA-GAGGCAGGTTGAAGA-AATCCAATCTTTTACCCTAACCAGAGGGCA
* *
39022298 GGTTGAAG-CAATCCAATCTTTTACC
64 GATTGAAGACCATCCAATCTTTTACC
39022323 ATAACTAGAA
Statistics
Matches: 276, Mismatches: 44, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
116 1 0.00
117 31 0.11
118 85 0.31
119 90 0.33
120 69 0.25
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (118 bp):
AATCTTTTACCCTAATCAGAGGCAGGTTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAGA
TTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGACTATCC
Found at i:39022369 original size:118 final size:119
Alignment explanation
Indices: 39021877--39022560 Score: 494
Period size: 118 Copynumber: 5.8 Consensus size: 119
39021867 TACAACTTCG
* * * * ** *
39021877 AATCTTTTACCCCGATCATGGTGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATG-GGGC
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCA-GAGGGC
** * * * * *
39021941 AAATTGAAGCAATCCAATCTTTTACC-TCGACCATG-GGGCAAATTGAAGACTATCC
65 AGGTTGAAGCAATCCAATCTTTTACCAT-AACTA-GAAGGCAGATTGAAGACCATCC
* ** ** * * * * * *
39021996 AATGTTTTACCCTAATTA-GAGGCAGGTTGAAG-CAATCCAATCTTTTACCCTAACCAGAAGGCA
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCAGAGGGCA
* *** * * * * *
39022059 GATTGAAG-ATCATCCAATCTTTTACCCCGACCATG-GGGCAAATTGAAGACTATTC
66 GGTTGAAGCA--ATCCAATCTTTTACCATAACTA-GAAGGCAGATTGAAGACCATCC
** * * * * *
39022114 AATCTTTTACCCTAATCA-GAGGGGAGGTTGAAGA-AATCCAAATCTTTTACCCTAA-CTAGAGG
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACTAT-CTAATCTTTTACCCTAATC-AGAGG
* * * * *** * * * *
39022176 GCAGATTGAAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAA-ACAATCC
63 GCAGGTTGAAG-CAATCCAATCTTTTACCATAACTAGAAGGCAGATTGAAGACCATCC
* *
39022233 AATCTTTTACCCCGACCATGGGGCATATTGAAGACTATCTAATTTTTTACCCTAATCAGAGGGCA
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCAGAGGGCA
*
39022298 GGTTGAAGCAATCCAATCTTTTACCATAACTAGAAGGCATATTGAAGACC-TCC
66 GGTTGAAGCAATCCAATCTTTTACCATAACTAGAAGGCAGATTGAAGACCATCC
* * * * *
39022351 AATCTTTTACCCCGACCATGGGACAGATTGAAGACTATCTAATCTTTAACCCTAATTAAAGGGCG
1 AATCTTTTACCCCGACCATGGGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCAGAGGGCA
* * * *
39022416 GGTTAAAGCAATCTAATCTTTTACCTTAACTAGAAGGCAGATTGAAGACCATTC
66 GGTTGAAGCAATCCAATCTTTTACCATAACTAGAAGGCAGATTGAAGACCATCC
* * * * ** * ** *
39022470 AATCTTTTACCCCGGCCATGAGAGTAGATTGAAGACCATCCGATCTCTTACCCCGACCATG-GGG
1 AATCTTTTACCCCGACCATG-GGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCA-GAGGG
*
39022534 CAGATTGAAGCAATCCAATCTTTTACC
64 CAGGTTGAAGCAATCCAATCTTTTACC
39022561 CCTAAAGTTA
Statistics
Matches: 469, Mismatches: 78, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
116 2 0.00
117 32 0.07
118 204 0.43
119 113 0.24
120 118 0.25
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (119 bp):
AATCTTTTACCCCGACCATGGGGCAGATTGAAGACTATCTAATCTTTTACCCTAATCAGAGGGCA
GGTTGAAGCAATCCAATCTTTTACCATAACTAGAAGGCAGATTGAAGACCATCC
Found at i:39022371 original size:277 final size:276
Alignment explanation
Indices: 39021899--39022561 Score: 938
Period size: 277 Copynumber: 2.4 Consensus size: 276
39021889 CGATCATGGT
* * *
39021899 GCAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAAATTGAAGCAATCCAATCTTTT
1 GCAGATTGAAGACCATCCAATCTTTTACCCCGACCATAGGGCAGATTGAAACAATCCAATCTTTT
* * *
39021964 ACCTCGACCATGGGGCAAATTGAAGACTATCCAATGTTTTACCCTAATTAGAGGCAGGTTGAAGC
66 ACCCCGACCATGGGGCAAATTGAAGACTATCCAATCTTTTACCCTAATCAGAGGCAGGTTGAAGC
*
39022029 AATCCAATCTTTTACCCTAACCAGAAGGCAGATTGAAGATCATCCAATCTTTTACCCCGACCATG
131 AATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGATCATCCAATCTTTTACCCCGACCATG
* * * *
39022094 GGGCAAATTGAAGACTAT-TCAATCTTTTACCCTAATCAGAGGG-GAGGTTGAAGAAATCCAAAT
196 GGACAAATTGAAGACTATCT-AATCTTTAACCCTAATCAAAGGGCG-GGTTAAAGAAAT-CAAAT
*
39022157 CTTTTACCCTAACTAGAGG
258 CTTTTACCCTAACTAGAAG
* *
39022176 GCAGATTGAAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAAACAATCCAATCTTTT
1 GCAGATTGAAGACCATCCAATCTTTTACCCCGACCATAGGGCAGATTGAAACAATCCAATCTTTT
* * *
39022241 ACCCCGACCATGGGGCATATTGAAGACTATCTAATTTTTTACCCTAATCAGAGGGCAGGTTGAAG
66 ACCCCGACCATGGGGCAAATTGAAGACTATCCAATCTTTTACCCTAATCAGA-GGCAGGTTGAAG
* * *
39022306 CAATCCAATCTTTTACCATAACTAGAAGGCATATTGAAGA-CCTCCAATCTTTTACCCCGACCAT
130 CAATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGATCATCCAATCTTTTACCCCGACCAT
* * * *
39022370 GGGACAGATTGAAGACTATCTAATCTTTAACCCTAATTAAAGGGCGGGTTAAAGCAATCTAATCT
195 GGGACAAATTGAAGACTATCTAATCTTTAACCCTAATCAAAGGGCGGGTTAAAGAAATCAAATCT
*
39022435 TTTACCTTAACTAGAAG
260 TTTACCCTAACTAGAAG
* * * * * * *
39022452 GCAGATTGAAGACCATTCAATCTTTTACCCCGGCCATGAGAGTAGATTGAAGACCATCCGATCTC
1 GCAGATTGAAGACCATCCAATCTTTTACCCCGACCAT-AGGGCAGATTGAA-ACAATCCAATCTT
* *
39022517 TTACCCCGACCATGGGGCAGATTGAAG-CAATCCAATCTTTTACCC
64 TTACCCCGACCATGGGGCAAATTGAAGACTATCCAATCTTTTACCC
39022562 CTAAAGTTAT
Statistics
Matches: 344, Mismatches: 37, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
276 54 0.16
277 203 0.59
278 87 0.25
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (276 bp):
GCAGATTGAAGACCATCCAATCTTTTACCCCGACCATAGGGCAGATTGAAACAATCCAATCTTTT
ACCCCGACCATGGGGCAAATTGAAGACTATCCAATCTTTTACCCTAATCAGAGGCAGGTTGAAGC
AATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGATCATCCAATCTTTTACCCCGACCATG
GGACAAATTGAAGACTATCTAATCTTTAACCCTAATCAAAGGGCGGGTTAAAGAAATCAAATCTT
TTACCCTAACTAGAAG
Done.