Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 88 of 163
Found at i:25077872 original size:14 final size:14
Alignment explanation
Indices: 25077773--25077871 Score: 108
Period size: 14 Copynumber: 7.1 Consensus size: 14
25077763 CGACCCGAAC
*
25077773 CCGTTGACCGTTAA
1 CCGTTGACCGTTGA
*
25077787 CCGTTGACAGTTGA
1 CCGTTGACCGTTGA
*
25077801 CCATTGACCGTTGA
1 CCGTTGACCGTTGA
* *
25077815 CAGTTGACCATTGA
1 CCGTTGACCGTTGA
* *
25077829 CCATTGACAGTTGA
1 CCGTTGACCGTTGA
* *
25077843 CCGTTAATCGTTGA
1 CCGTTGACCGTTGA
*
25077857 CTGTTGACCGTTGA
1 CCGTTGACCGTTGA
25077871 C
1 C
25077872 TTTTTTTAGA
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 67 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (14 bp):
CCGTTGACCGTTGA
Found at i:25079026 original size:6 final size:6
Alignment explanation
Indices: 25079015--25079049 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
25079005 TACTATAGAC
* *
25079015 TATATA TATATA TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATATT TATAT
25079050 GAATGTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
TATATT
Found at i:25100107 original size:12 final size:12
Alignment explanation
Indices: 25100090--25100114 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25100080 AATATTAATA
25100090 TTAAAATAAGAT
1 TTAAAATAAGAT
25100102 TTAAAATAAGAT
1 TTAAAATAAGAT
25100114 T
1 T
25100115 ATCTTGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TTAAAATAAGAT
Found at i:25109955 original size:45 final size:44
Alignment explanation
Indices: 25109889--25110008 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 44
25109879 GATGTCGTAG
* * * **
25109889 CATCTTTTAACTATGGTCTTACTCATTTCTCTCATGGTGCCATAA
1 CATCTTTCAGCTATGGTCTTACTCATTT-TATCATGACGCCATAA
* *
25109934 CGTCTTTCAGCTATGGTCTTACTCATCTTTATCATGACGTCATAA
1 CATCTTTCAGCTATGGTCTTACTCAT-TTTATCATGACGCCATAA
* * *
25109979 CATCTTTTAGCTATGATCTTAATCATTTTA
1 CATCTTTCAGCTATGGTCTTACTCATTTTA
25110009 GGCATATAGC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 4 0.06
45 57 0.90
46 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (44 bp):
CATCTTTCAGCTATGGTCTTACTCATTTTATCATGACGCCATAA
Found at i:25114211 original size:53 final size:53
Alignment explanation
Indices: 25114143--25114254 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 53
25114133 TCATTTCGCC
*
25114143 CTTAGTTCATTTTATTCAATTTCAATCATAACAATTTACATTCACAATCAAAT
1 CTTATTTCATTTTATTCAATTTCAATCATAACAATTTACATTCACAATCAAAT
* *
25114196 GTTATTTCATTTTATTCAATTTCAATCATAGCAATTTACATTCACAATCAAAT
1 CTTATTTCATTTTATTCAATTTCAATCATAACAATTTACATTCACAATCAAAT
25114249 CTTATT
1 CTTATT
25114255 GGCAATGTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (53 bp):
CTTATTTCATTTTATTCAATTTCAATCATAACAATTTACATTCACAATCAAAT
Found at i:25121198 original size:14 final size:14
Alignment explanation
Indices: 25121179--25121216 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
25121169 TCTTAATAGA
*
25121179 ATTTAAAATTATTT
1 ATTTAAAATAATTT
25121193 ATTT-AAATAATTT
1 ATTTAAAATAATTT
*
25121206 AATTAAAATAA
1 ATTTAAAATAA
25121217 AATATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAAAATAATTT
Found at i:25122132 original size:18 final size:17
Alignment explanation
Indices: 25122089--25122133 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
25122079 TATTTACCAA
*
25122089 AATAAAATTAAATATGG
1 AATAAAATTAAATACGG
25122106 ATCATAAAATTAAATACGAG
1 A--ATAAAATTAAATACG-G
25122126 AATAAAAT
1 AATAAAAT
25122134 ACAATGACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 14 0.58
20 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAAAATTAAATACGG
Found at i:25122484 original size:18 final size:19
Alignment explanation
Indices: 25122447--25122484 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
25122437 TTTTTATACA
25122447 GTTTAGTTTAGGAAATTAAT
1 GTTTAGTTTA-GAAATTAAT
*
25122467 GTTTAGTTT-GATATTAAT
1 GTTTAGTTTAGAAATTAAT
25122485 TTGTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (19 bp):
GTTTAGTTTAGAAATTAAT
Found at i:25125365 original size:16 final size:15
Alignment explanation
Indices: 25125344--25125378 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
25125334 TTATTTTAGA
25125344 TTTAAGGTTTTAAAGG
1 TTTAAGGTTTT-AAGG
25125360 TTTAAGGTTTTAAGG
1 TTTAAGGTTTTAAGG
25125375 TTTA
1 TTTA
25125379 TGATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (15 bp):
TTTAAGGTTTTAAGG
Found at i:25125378 original size:7 final size:8
Alignment explanation
Indices: 25125344--25125377 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
25125334 TTATTTTAGA
25125344 TTTAAGGT
1 TTTAAGGT
25125352 TTTAAAGG-
1 TTT-AAGGT
25125360 TTTAAGGT
1 TTTAAGGT
25125368 TTTAAGGT
1 TTTAAGGT
25125376 TT
1 TT
25125378 ATGATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 4 0.17
8 16 0.67
9 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (8 bp):
TTTAAGGT
Found at i:25126517 original size:43 final size:43
Alignment explanation
Indices: 25126452--25126548 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
25126442 AATTGTACAA
* * *
25126452 TTAATAACATGTCACGATATTAATAAGAGTCAAGTAATATAAT
1 TTAATAACATGCCACCATATTAACAAGAGTCAAGTAATATAAT
* *
25126495 TTAGTAACATGCCACCATATTAACACGAGTCAAGTAATATAAT
1 TTAATAACATGCCACCATATTAACAAGAGTCAAGTAATATAAT
25126538 TTAATAACATG
1 TTAATAACATG
25126549 TCAATGAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (43 bp):
TTAATAACATGCCACCATATTAACAAGAGTCAAGTAATATAAT
Found at i:25127330 original size:21 final size:21
Alignment explanation
Indices: 25127305--25127362 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
25127295 TAGTGAAGAC
* *
25127305 TTCTACCGATACAAGTGACAA
1 TTCTATCGATACAAGTAACAA
**
25127326 TTCTATCGATACAAGTAACTC
1 TTCTATCGATACAAGTAACAA
25127347 TTCTATCGATACAAGT
1 TTCTATCGATACAAGT
25127363 CTTGCTTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (21 bp):
TTCTATCGATACAAGTAACAA
Found at i:25128179 original size:52 final size:52
Alignment explanation
Indices: 25128114--25128350 Score: 379
Period size: 52 Copynumber: 4.6 Consensus size: 52
25128104 TTTTCATTTA
* * * *
25128114 ATACTCACGATGACACATTGTCATTGGACATCGTAATCCATAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGAATCAT
* * *
25128166 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGAAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGAATCAT
*
25128218 ATACTCACGATGACAC--AGTCATCGGACCTCATAATCCGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGAATCAT
*
25128268 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGAATCAT
25128320 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
25128351 TTTTCATTTA
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
50 49 0.28
52 123 0.72
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGAATCAT
Found at i:25128292 original size:102 final size:102
Alignment explanation
Indices: 25128114--25128350 Score: 366
Period size: 102 Copynumber: 2.3 Consensus size: 102
25128104 TTTTCATTTA
* * *
25128114 ATACTCACGATGACACATTGTCATTGGACATCGTAATCCATAAAGGAATCATATACTCACAATGA
1 ATACTCACGATGACACA--GTCATCGGACCTCATAATCCATAAAGGAATCATATACTCACAATGA
*
25128179 CACATAGTCATCGGACCTCATAATCCGTAAAGAAATCAT
64 CACATAGTCATCGGACCTCATAATCCATAAAGAAATCAT
* *
25128218 ATACTCACGATGACACAGTCATCGGACCTCATAATCCGTAAAGGAATCATATACTCACGATGACA
1 ATACTCACGATGACACAGTCATCGGACCTCATAATCCATAAAGGAATCATATACTCACAATGACA
* *
25128283 CATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
66 CATAGTCATCGGACCTCATAATCCATAAAGAAATCAT
25128320 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACAC--AGTCATCGGACCT
25128351 TTTTCATTTA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 93 0.76
104 30 0.24
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (102 bp):
ATACTCACGATGACACAGTCATCGGACCTCATAATCCATAAAGGAATCATATACTCACAATGACA
CATAGTCATCGGACCTCATAATCCATAAAGAAATCAT
Found at i:25130776 original size:40 final size:41
Alignment explanation
Indices: 25130714--25130823 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 41
25130704 TGAAAGAGGC
* * * * *
25130714 TATCGATATTATACAAACATTATCAATACTCATAT-CAT-GG
1 TATCGATATTTTTCAAATATTATCGATACTC-TATGAATGGG
* *
25130754 TATTGATATTTTTCAAATATTATCGATAC-CTTTGAATGGG
1 TATCGATATTTTTCAAATATTATCGATACTCTATGAATGGG
*
25130794 TATCGATATTTTTCAAATTTTATCGATACT
1 TATCGATATTTTTCAAATATTATCGATACT
25130824 TGGTCAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.05
40 53 0.91
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (41 bp):
TATCGATATTTTTCAAATATTATCGATACTCTATGAATGGG
Found at i:25130817 original size:20 final size:20
Alignment explanation
Indices: 25130758--25130821 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
25130748 TCATGGTATT
25130758 GATATTTTTCAAATATTATC
1 GATATTTTTCAAATATTATC
** * **
25130778 GATACCTTT-GAATGGGTATC
1 GATATTTTTCAAAT-ATTATC
*
25130798 GATATTTTTCAAATTTTATC
1 GATATTTTTCAAATATTATC
25130818 GATA
1 GATA
25130822 CTTGGTCAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (20 bp):
GATATTTTTCAAATATTATC
Found at i:25139367 original size:40 final size:39
Alignment explanation
Indices: 25139303--25139402 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
25139293 TTTGAAAGAG
* * * *
25139303 GGTATCGATATTATACAAACATTATTGATACTCATAT-CAT
1 GGTATCGATATTTTTCAAACATTATCGATAC-C-TATGAAT
* *
25139343 GGTATCGATATTTTTCAAATATTATCGATACCTTTGAAT
1 GGTATCGATATTTTTCAAACATTATCGATACCTATGAAT
25139382 GTGTATCGATATTTTTCAAAC
1 G-GTATCGATATTTTTCAAAC
25139403 GTTTCAAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 2 0.04
39 4 0.08
40 45 0.88
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (39 bp):
GGTATCGATATTTTTCAAACATTATCGATACCTATGAAT
Found at i:25139368 original size:20 final size:21
Alignment explanation
Indices: 25139344--25139401 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
25139334 TCATATCATG
25139344 GTATCGATATTTTTCAAATAT
1 GTATCGATATTTTTCAAATAT
** * *
25139365 -TATCGATACCTTT-GAATGT
1 GTATCGATATTTTTCAAATAT
25139384 GTATCGATATTTTTCAAA
1 GTATCGATATTTTTCAAA
25139402 CGTTTCAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 4 0.14
20 22 0.79
21 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (21 bp):
GTATCGATATTTTTCAAATAT
Found at i:25139943 original size:3 final size:3
Alignment explanation
Indices: 25139935--25139968 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
25139925 ATTAGATCTT
* *
25139935 TGA TGA TGA TGA GGA TGA GGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
25139969 TATTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:25140443 original size:16 final size:16
Alignment explanation
Indices: 25140419--25140458 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25140409 ACTAACAAAA
25140419 TAAAATAAAATAAATT
1 TAAAATAAAATAAATT
* *
25140435 TAAATTAAATTAAATT
1 TAAAATAAAATAAATT
*
25140451 AAAAATAA
1 TAAAATAA
25140459 CAAAACTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATAAAATAAATT
Found at i:25140528 original size:25 final size:27
Alignment explanation
Indices: 25140500--25140555 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
25140490 TTTCTCAACT
*
25140500 AAATAAAAAAATTAAA-T-AACAAATC
1 AAATAAAAAAATTAAATTAAACAAAAC
25140525 AAAT--AAAAATTAAATTAAACAAAAC
1 AAATAAAAAAATTAAATTAAACAAAAC
25140550 AAATAA
1 AAATAA
25140556 CTTAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 15 0.58
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (27 bp):
AAATAAAAAAATTAAATTAAACAAAAC
Found at i:25148026 original size:19 final size:19
Alignment explanation
Indices: 25147965--25148028 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
25147955 ATTAAACATA
*
25147965 AAAAATTTATAAAA-TTATT
1 AAAAATTAATAAAATTTA-T
* **
25147984 AGAAATTAATAAAATAAAAT
1 AAAAATTAATAAAAT-TTAT
*
25148004 AAAAATTCATAAAATTTAT
1 AAAAATTAATAAAATTTAT
25148023 AAAAAT
1 AAAAAT
25148029 AATTTGGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 20 0.57
20 14 0.40
21 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTAATAAAATTTAT
Found at i:25151355 original size:15 final size:16
Alignment explanation
Indices: 25151333--25151385 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
25151323 TATACTACAA
25151333 AATATTTATTATTAAT
1 AATATTTATTATTAAT
* *
25151349 -GTATTTATAATTAAT
1 AATATTTATTATTAAT
25151364 AAATATTTATTATTAA-
1 -AATATTTATTATTAAT
25151380 AATATT
1 AATATT
25151386 AATATTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 19 0.61
17 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:25151443 original size:15 final size:16
Alignment explanation
Indices: 25151418--25151453 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
25151408 ATGTGAAGAA
*
25151418 TATTATTTAAAATTAT
1 TATTATTTAAAATAAT
25151434 TATT-TTTAAAATAAT
1 TATTATTTAAAATAAT
25151449 TATTA
1 TATTA
25151454 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTTAAAATAAT
Found at i:25151513 original size:16 final size:16
Alignment explanation
Indices: 25151467--25151516 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25151457 TAAAATTGAA
25151467 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
25151484 -TA--AATAATAAATT
1 ATATTAATAATTTATT
25151497 ATATTAATAATTTATT
1 ATATTAATAATTTATT
25151513 ATAT
1 ATAT
25151517 GACTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
16 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:25152305 original size:17 final size:16
Alignment explanation
Indices: 25152268--25152331 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
25152258 TCTATATTAC
25152268 AATAAATCATAAAATA
1 AATAAATCATAAAATA
*
25152284 GATAATATCA-AAAACTA
1 AATAA-ATCATAAAA-TA
25152301 AAT-AA-C-TAAAATA
1 AATAAATCATAAAATA
25152314 AATAAA-CAATAAAATA
1 AATAAATC-ATAAAATA
25152330 AA
1 AA
25152332 CAAACAACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 5 0.12
14 8 0.20
15 1 0.03
16 18 0.45
17 8 0.20
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (16 bp):
AATAAATCATAAAATA
Found at i:25152328 original size:16 final size:16
Alignment explanation
Indices: 25152307--25152338 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25152297 ACTAAATAAC
*
25152307 TAAAATAAATAAACAA
1 TAAAATAAACAAACAA
25152323 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
25152339 CTAAGCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:25157565 original size:20 final size:19
Alignment explanation
Indices: 25157540--25157591 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
25157530 AATGCCCAAC
25157540 TTGACCCGTTGACCCATTGA
1 TTGACCCGTTGACCCATT-A
*
25157560 TTGACCCATTGACCCATTA
1 TTGACCCGTTGACCCATTA
* *
25157579 ATGACCTGTTGAC
1 TTGACCCGTTGAC
25157592 TTTGACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (19 bp):
TTGACCCGTTGACCCATTA
Found at i:25157602 original size:13 final size:13
Alignment explanation
Indices: 25157584--25157633 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
25157574 CATTAATGAC
25157584 CTGTTGACTTTGA
1 CTGTTGACTTTGA
*
25157597 CTGTTGACCTTGA
1 CTGTTGACTTTGA
25157610 CTGTTGACTTTGA
1 CTGTTGACTTTGA
25157623 -TCGTTGACTTT
1 CT-GTTGACTTT
25157634 TTTTGACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 1 0.03
13 33 0.97
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (13 bp):
CTGTTGACTTTGA
Found at i:25157616 original size:7 final size:7
Alignment explanation
Indices: 25157584--25157631 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
25157574 CATTAATGAC
25157584 CTGTTGA
1 CTGTTGA
25157591 CT-TTGA
1 CTGTTGA
25157597 CTGTTGA
1 CTGTTGA
*
25157604 C-CTTGA
1 CTGTTGA
25157610 CTGTTGA
1 CTGTTGA
25157617 CT-TTGA
1 CTGTTGA
25157623 -TCGTTGA
1 CT-GTTGA
25157630 CT
1 CT
25157632 TTTTTTGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
5 1 0.03
6 15 0.44
7 17 0.50
8 1 0.03
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.44
Consensus pattern (7 bp):
CTGTTGA
Found at i:25164206 original size:21 final size:21
Alignment explanation
Indices: 25164155--25164206 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
25164145 GGAGTTTTTA
25164155 GTATCAGTAGAAGCATGACAT
1 GTATCAGTAGAAGCATGACAT
* * *
25164176 GTTTCGGTAGAAGTCAT-ACTT
1 GTATCAGTAGAAG-CATGACAT
25164197 GTATCAGTAG
1 GTATCAGTAG
25164207 TATTGTCTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (21 bp):
GTATCAGTAGAAGCATGACAT
Found at i:25167781 original size:17 final size:17
Alignment explanation
Indices: 25167742--25167802 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
25167732 TACTAAATTC
* *
25167742 TAATGACAAATGGAATTG
1 TAATGAC-AATGTAAATG
*
25167760 CAATGACAATGTAAATG
1 TAATGACAATGTAAATG
25167777 TAATGACAAT-TAAAATG
1 TAATGACAATGT-AAATG
25167794 TAATGACAA
1 TAATGACAA
25167803 AGGGAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.82
18 6 0.16
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.26
Consensus pattern (17 bp):
TAATGACAATGTAAATG
Found at i:25167810 original size:17 final size:17
Alignment explanation
Indices: 25167742--25167816 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
25167732 TACTAAATTC
*
25167742 TAATGACAAATGGAATTG
1 TAATGACAAA-GGAAATG
* * *
25167760 CAATGACAATGTAAATG
1 TAATGACAAAGGAAATG
***
25167777 TAATGACAATTAAAATG
1 TAATGACAAAGGAAATG
*
25167794 TAATGACAAAGGGAATG
1 TAATGACAAAGGAAATG
*
25167811 TGATGA
1 TAATGA
25167817 TAATGCTTAC
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
17 37 0.82
18 8 0.18
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (17 bp):
TAATGACAAAGGAAATG
Found at i:25171786 original size:25 final size:25
Alignment explanation
Indices: 25171736--25171947 Score: 239
Period size: 25 Copynumber: 8.4 Consensus size: 25
25171726 ACAAAGTTTA
25171736 GCTCTTACGAGCCTAGACAGAATATC
1 GCTCTTACGAGCC-AGACAGAATATC
* *
25171762 GCTCTTATGAGCCAAACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
*
25171787 GCTCTTACAAGCCAGACA-AGATATC
1 GCTCTTACGAGCCAGACAGA-ATATC
** *
25171812 GCTCTTACGAGCCAGTTAGGATATC
1 GCTCTTACGAGCCAGACAGAATATC
* * * *
25171837 GCTCTTATGAGCCAAACAGGATATT
1 GCTCTTACGAGCCAGACAGAATATC
* *
25171862 GCTCTTACGAGCTAGACAGGATAAT-
1 GCTCTTACGAGCCAGACAGAAT-ATC
* * *
25171887 GCTCTTATGAGCCAGATAGGATATC
1 GCTCTTACGAGCCAGACAGAATATC
*
25171912 GCTTTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
25171937 GCTCTTACGAG
1 GCTCTTACGAG
25171948 TCAAAGTTAA
Statistics
Matches: 157, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.02
25 140 0.89
26 14 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCTTACGAGCCAGACAGAATATC
Found at i:25171945 original size:75 final size:75
Alignment explanation
Indices: 25171736--25171947 Score: 291
Period size: 75 Copynumber: 2.8 Consensus size: 75
25171726 ACAAAGTTTA
* * *
25171736 GCTCTTACGAGCCTAGACAGAATATCGCTCTTATGAGCCAAACAGAATATCGCTCTTACAAGCCA
1 GCTCTTACGAGCC-AGATAGGATATCGCTCTTATGAGCCAAACAGAATATCGCTCTTACGAGCCA
25171801 GACAAGATATC
65 GACAAGATATC
* * * *
25171812 GCTCTTACGAGCCAGTTAGGATATCGCTCTTATGAGCCAAACAGGATATTGCTCTTACGAGCTAG
1 GCTCTTACGAGCCAGATAGGATATCGCTCTTATGAGCCAAACAGAATATCGCTCTTACGAGCCAG
*
25171877 ACAGGATAAT-
66 ACAAGAT-ATC
* * * *
25171887 GCTCTTATGAGCCAGATAGGATATCGCTTTTACGAGCCAGACAGAATATCGCTCTTACGAG
1 GCTCTTACGAGCCAGATAGGATATCGCTCTTATGAGCCAAACAGAATATCGCTCTTACGAG
25171948 TCAAAGTTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 105 0.88
76 15 0.12
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (75 bp):
GCTCTTACGAGCCAGATAGGATATCGCTCTTATGAGCCAAACAGAATATCGCTCTTACGAGCCAG
ACAAGATATC
Found at i:25174998 original size:18 final size:18
Alignment explanation
Indices: 25174977--25175014 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25174967 CGACCCAAAA
25174977 ATCGAACCCAACCCGTTG
1 ATCGAACCCAACCCGTTG
* *
25174995 ATCGTACCCGACCCGTTG
1 ATCGAACCCAACCCGTTG
25175013 AT
1 AT
25175015 TGTTGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (18 bp):
ATCGAACCCAACCCGTTG
Found at i:25175917 original size:12 final size:12
Alignment explanation
Indices: 25175880--25175909 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
25175870 TAGAGTATTG
25175880 GTGCATTGCATT
1 GTGCATTGCATT
25175892 GTGCATTGCATT
1 GTGCATTGCATT
25175904 GTGCAT
1 GTGCAT
25175910 GTGATTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (12 bp):
GTGCATTGCATT
Found at i:25182724 original size:7 final size:7
Alignment explanation
Indices: 25182712--25182745 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
25182702 TGAATCCGAC
25182712 TCGTTGA
1 TCGTTGA
25182719 TCGTTGA
1 TCGTTGA
25182726 TCGTTGA
1 TCGTTGA
25182733 TCGTTGA
1 TCGTTGA
25182740 TCGTTG
1 TCGTTG
25182746 GCCGTTGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.15, G:0.29, T:0.44
Consensus pattern (7 bp):
TCGTTGA
Found at i:25182751 original size:14 final size:14
Alignment explanation
Indices: 25182712--25182753 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
25182702 TGAATCCGAC
*
25182712 TCGTTGATCGTTGA
1 TCGTTGACCGTTGA
*
25182726 TCGTTGATCGTTGA
1 TCGTTGACCGTTGA
*
25182740 TCGTTGGCCGTTGA
1 TCGTTGACCGTTGA
25182754 CAGTTGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (14 bp):
TCGTTGACCGTTGA
Found at i:25182760 original size:21 final size:21
Alignment explanation
Indices: 25182712--25182753 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25182702 TGAATCCGAC
*
25182712 TCGTTGATCGTTGATCGTTGA
1 TCGTTGATCGTTGACCGTTGA
*
25182733 TCGTTGATCGTTGGCCGTTGA
1 TCGTTGATCGTTGACCGTTGA
25182754 CAGTTGACAT
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:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (21 bp):
TCGTTGATCGTTGACCGTTGA
Found at i:25186702 original size:28 final size:28
Alignment explanation
Indices: 25186671--25186737 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
25186661 TTCCAAGTTG
25186671 GAAACAGATTAACGCTT-TACCCGAGCCA
1 GAAACAGATTAACG-TTCTACCCGAGCCA
* *
25186699 GAAACAGATTATCGTTCTACCTGAGCCA
1 GAAACAGATTAACGTTCTACCCGAGCCA
*
25186727 GAAATAGATTA
1 GAAACAGATTA
25186738 CTCCTCAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (28 bp):
GAAACAGATTAACGTTCTACCCGAGCCA
Found at i:25187815 original size:17 final size:18
Alignment explanation
Indices: 25187790--25187823 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25187780 TTAGTTTGCT
25187790 GTAAATGTA-TGAAATTC
1 GTAAATGTATTGAAATTC
*
25187807 GTAACTGTATTGAAATT
1 GTAAATGTATTGAAATT
25187824 TGTATTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (18 bp):
GTAAATGTATTGAAATTC
Found at i:25188738 original size:116 final size:115
Alignment explanation
Indices: 25188617--25188828 Score: 309
Period size: 116 Copynumber: 1.8 Consensus size: 115
25188607 CTACCGGTAT
* ** * * * * *
25188617 TTCTAAATACATGACTACTGATACTTGGTATTCATCTACCGATACAACCTAAGTCAGTATG-CAA
1 TTCTAAATACATAACTACCAACACTTGCTATTCAACTACCGATACAACCCAAATCAG-A-GACAA
25188681 CCTCTCTCCTACCCTGTACTTCTACCGATACAATCATGCAAAATACTGATAC
64 CCTCTCTCCTACCCTGTACTTCTACCGATACAATCATGCAAAATACTGATAC
25188733 TTCTAAATACATAACTACCAACACTTGCTATTCAACTACCGATACAACCCAAATCAGAGAACAAC
1 TTCTAAATACATAACTACCAACACTTGCTATTCAACTACCGATACAACCCAAATCAGAG-ACAAC
*
25188798 CTCTCTCTTACCCTGTACTTCTACCGATACA
65 CTCTCTCCTACCCTGTACTTCTACCGATACA
25188829 TCTCTGGATA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
114 1 0.01
115 1 0.01
116 83 0.98
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.28
Consensus pattern (115 bp):
TTCTAAATACATAACTACCAACACTTGCTATTCAACTACCGATACAACCCAAATCAGAGACAACC
TCTCTCCTACCCTGTACTTCTACCGATACAATCATGCAAAATACTGATAC
Found at i:25189486 original size:52 final size:52
Alignment explanation
Indices: 25189326--25189512 Score: 236
Period size: 52 Copynumber: 3.6 Consensus size: 52
25189316 ATGCATTTTT
* *
25189326 TATACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTATTGGGAATCA
1 TATACTCATGATGACACAGAGTCATCAGACCTTTAATCCGTATTGGGAATCA
25189378 TATACTCATGATGACACAGAG-CATCAGACCTTTAATCCGTATTGGGAATCA
1 TATACTCATGATGACACAGAGTCATCAGACCTTTAATCCGTATTGGGAATCA
* * ** *
25189429 TATACTCATGATGACACATAGTC-TACAGACCTCTTAATTCGTA-AAGGATTCA
1 TATACTCATGATGACACAGAGTCAT-CAGACCT-TTAATCCGTATTGGGAATCA
* * * *
25189481 TATACTCAAGATGACACATAGCCATCGGACCT
1 TATACTCATGATGACACAGAGTCATCAGACCT
25189513 ATTTCATTCA
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
51 50 0.41
52 61 0.50
53 10 0.08
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (52 bp):
TATACTCATGATGACACAGAGTCATCAGACCTTTAATCCGTATTGGGAATCA
Found at i:25191111 original size:8 final size:9
Alignment explanation
Indices: 25191098--25191152 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 9
25191088 TTTAGGGTTT
25191098 AAAAAG-AG
1 AAAAAGAAG
25191106 AAAAAGAAG
1 AAAAAGAAG
25191115 -AAAAGAAG
1 AAAAAGAAG
25191123 AAAAGAAGAAG
1 -AAA-AAGAAG
*
25191134 AAAATGAGAG
1 AAAAAGA-AG
*
25191144 AAGAAGAAG
1 AAAAAGAAG
25191153 GAGAAGGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 14 0.36
9 7 0.18
10 12 0.31
11 6 0.15
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:25191123 original size:3 final size:3
Alignment explanation
Indices: 25191104--25191177 Score: 57
Period size: 3 Copynumber: 25.0 Consensus size: 3
25191094 GTTTAAAAAG
*
25191104 AGA AAA AGA AGA A-A AGA AGA A-A AGA AGA AGA A-A ATGA GAGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA -AGA AGA
* * *
25191148 AGA AGG AGA AGG AGA AGGA A-A AGG AGA AGA
1 AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA
25191178 GAAAAACTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
2 8 0.14
3 41 0.73
4 6 0.11
5 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:25193203 original size:22 final size:22
Alignment explanation
Indices: 25193159--25193203 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25193149 TGATAGCCGT
* *
25193159 AAAAAATAATAAAATATTCTTA
1 AAAAAATAATAAAATAATATTA
25193181 AAAAAATAATAATAA-AATATTA
1 AAAAAATAATAA-AATAATATTA
25193203 A
1 A
25193204 TGTAACAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAATAATAAAATAATATTA
Found at i:25198232 original size:24 final size:24
Alignment explanation
Indices: 25198181--25198243 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
25198171 TCTTTTAGTT
* *
25198181 AAACTCTATTTATTTGTTTCAATT
1 AAACTCTATTTAGTTGTTTCAATC
25198205 AAACTCTATTTAGTTGTTT-AAGTC
1 AAACTCTATTTAGTTGTTTCAA-TC
25198229 AAACTCT-TATTAGTT
1 AAACTCTAT-TTAGTT
25198244 TAGATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 3 0.09
24 32 0.91
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTAGTTGTTTCAATC
Found at i:25198443 original size:45 final size:45
Alignment explanation
Indices: 25198379--25198465 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
25198369 GAGGGTTCTT
*
25198379 TGTTTTTGGGTTTTTAGGGTTTAGTTTTTATCTCCATTTTTTATG
1 TGTTTTCGGGTTTTTAGGGTTTAGTTTTTATCTCCATTTTTTATG
25198424 TGTTTTCGGGTTTTTAGGGTTTAGTTTTTATCTCCATTTTTT
1 TGTTTTCGGGTTTTTAGGGTTTAGTTTTTATCTCCATTTTTT
25198466 TACTCTTCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.10, C:0.08, G:0.20, T:0.62
Consensus pattern (45 bp):
TGTTTTCGGGTTTTTAGGGTTTAGTTTTTATCTCCATTTTTTATG
Found at i:25203333 original size:17 final size:17
Alignment explanation
Indices: 25203311--25203349 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
25203301 AGGTGGAGAA
* *
25203311 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
25203328 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
25203345 CTTGT
1 CTTGT
25203350 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:25203432 original size:41 final size:41
Alignment explanation
Indices: 25203339--25203434 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 41
25203329 TTGTTCGTAG
* *
25203339 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTTGTTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTTGGTGACT
25203380 AGAATTCTTGTTAAGGTGGAGATTGTTAGAA-TTGAGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTTG-GTGACT
25203421 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
25203435 AATAAATTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 3 0.06
41 49 0.94
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTTGGTGACT
Found at i:25203522 original size:28 final size:28
Alignment explanation
Indices: 25203490--25203570 Score: 162
Period size: 28 Copynumber: 2.9 Consensus size: 28
25203480 CTAGACTTCT
25203490 TTTATTTTATTTTAATTAGAATAAGCCA
1 TTTATTTTATTTTAATTAGAATAAGCCA
25203518 TTTATTTTATTTTAATTAGAATAAGCCA
1 TTTATTTTATTTTAATTAGAATAAGCCA
25203546 TTTATTTTATTTTAATTAGAATAAG
1 TTTATTTTATTTTAATTAGAATAAG
25203571 GTGTTTCAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (28 bp):
TTTATTTTATTTTAATTAGAATAAGCCA
Found at i:25204137 original size:18 final size:17
Alignment explanation
Indices: 25204116--25204174 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
25204106 GAAATTCTTT
25204116 TAAAAATTTAGAAAATTA
1 TAAAAA-TTAGAAAATTA
25204134 TAAAAACTT--AAAATTA
1 TAAAAA-TTAGAAAATTA
* *
25204150 TATAAAAGTAGATAAATTT
1 TA-AAAATTAGA-AAATTA
25204169 TAAAAA
1 TAAAAA
25204175 ATTAAATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (17 bp):
TAAAAATTAGAAAATTA
Found at i:25204559 original size:29 final size:30
Alignment explanation
Indices: 25204505--25204562 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
25204495 AATTGGATCA
25204505 AATCAAAATTTCATGTATAAAATTGCACAC
1 AATCAAAATTTCATGTATAAAATTGCACAC
* *
25204535 AATCAAGATTT-ATGTATACAATTGCACA
1 AATCAAAATTTCATGTATAAAATTGCACA
25204563 TTAAACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (30 bp):
AATCAAAATTTCATGTATAAAATTGCACAC
Found at i:25204795 original size:17 final size:19
Alignment explanation
Indices: 25204773--25204808 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
25204763 TGACAAATAT
25204773 TTTAAAT-GAA-TTGAAAA
1 TTTAAATAGAATTTGAAAA
25204790 TTTAAATAGAATTTGAAAA
1 TTTAAATAGAATTTGAAAA
25204809 AAATCCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTTAAATAGAATTTGAAAA
Found at i:25205001 original size:16 final size:16
Alignment explanation
Indices: 25204977--25205010 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25204967 CTGATCTAAC
* *
25204977 TTTTTTTTTTATTTTG
1 TTTTGTTTTTAATTTG
25204993 TTTTGTTTTTAATTTG
1 TTTTGTTTTTAATTTG
25205009 TT
1 TT
25205011 ATTAGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTGTTTTTAATTTG
Found at i:25207143 original size:19 final size:19
Alignment explanation
Indices: 25207119--25207173 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
25207109 TATACTGAAT
25207119 TGGCTCGTAAGAGCGATAC
1 TGGCTCGTAAGAGCGATAC
* *
25207138 TGGCTCGTGAGAGCGATAT
1 TGGCTCGTAAGAGCGATAC
*
25207157 TGGCTAGTAAGAGCGAT
1 TGGCTCGTAAGAGCGAT
25207174 TTACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGCTCGTAAGAGCGATAC
Found at i:25207156 original size:45 final size:43
Alignment explanation
Indices: 25207057--25207139 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 43
25207047 CTAGCTCGAA
25207057 AGAGCGATATACTGAACTGACTCGTAAGAGCGATATACTGTACT
1 AGAGCGATATACTGAACTGACTCGTAAGAGCGA-ATACTGTACT
* *
25207101 ATGAGCGATATACTGAATTGGCTCGTAAGAGCG-ATACTG
1 A-GAGCGATATACTGAACTGACTCGTAAGAGCGAATACTG
25207140 GCTCGTGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 6 0.17
44 1 0.03
45 29 0.81
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
AGAGCGATATACTGAACTGACTCGTAAGAGCGAATACTGTACT
Found at i:25212790 original size:50 final size:50
Alignment explanation
Indices: 25212731--25212832 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
25212721 TCGAAACTTG
25212731 AAAAGATTCACAATGTATTTCATGTTTTGAAGCTGAGACGGTATAGATAA
1 AAAAGATTCACAATGTATTTCATGTTTTGAAGCTGAGACGGTATAGATAA
25212781 AAAAGATTCACAATGTATTTCATGTTTTGAAGCTGAGACGGTATAGATAA
1 AAAAGATTCACAATGTATTTCATGTTTTGAAGCTGAGACGGTATAGATAA
25212831 AA
1 AA
25212833 TCCATCTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (50 bp):
AAAAGATTCACAATGTATTTCATGTTTTGAAGCTGAGACGGTATAGATAA
Found at i:25214263 original size:19 final size:19
Alignment explanation
Indices: 25214237--25214350 Score: 131
Period size: 19 Copynumber: 6.0 Consensus size: 19
25214227 GATATACTGA
*
25214237 ACTGGCTCGTAATAGCGAT
1 ACTGGCTCGTAAGAGCGAT
*
25214256 ATTGGCTCGTAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
*
25214275 ACTAGCTCGTAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
*
25214294 ACTAGCTCGTGAA-AGCGAT
1 ACTGGCTCGT-AAGAGCGAT
* *
25214313 ACTGGTTCGTGAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
* **
25214332 ACTAGCTTATAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
25214351 TTACTGAATG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
18 1 0.01
19 78 0.96
20 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (19 bp):
ACTGGCTCGTAAGAGCGAT
Found at i:25214329 original size:57 final size:57
Alignment explanation
Indices: 25214241--25214350 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
25214231 TACTGAACTG
* *
25214241 GCTCGTAATAGCGATATTGGCTCGTAAGAGCGATACTAGCTCGTAAGAGCGATACTA
1 GCTCGTAATAGCGATACTGGCTCGTAAGAGCGATACTAGCTCATAAGAGCGATACTA
* * *
25214298 GCTCGTGAA-AGCGATACTGGTTCGTGAGAGCGATACTAGCTTATAAGAGCGAT
1 GCTCGT-AATAGCGATACTGGCTCGTAAGAGCGATACTAGCTCATAAGAGCGAT
25214351 TTACTGAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 45 0.96
58 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (57 bp):
GCTCGTAATAGCGATACTGGCTCGTAAGAGCGATACTAGCTCATAAGAGCGATACTA
Found at i:25214429 original size:35 final size:36
Alignment explanation
Indices: 25214363--25214443 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
25214353 ACTGAATGGA
25214363 CTCGTATGAGCAAAATTTAATGGGAGACTTGAAGAG
1 CTCGTATGAGCAAAATTTAATGGGAGACTTGAAGAG
* *
25214399 CTCGTATGAGCTAAA-TTACTGGGA-AGCTTGAAGAG
1 CTCGTATGAGCAAAATTTAATGGGAGA-CTTGAAGAG
* *
25214434 ATCGTTTGAG
1 CTCGTATGAG
25214444 ATACGAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 25 0.62
36 14 0.35
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (36 bp):
CTCGTATGAGCAAAATTTAATGGGAGACTTGAAGAG
Found at i:25221122 original size:21 final size:21
Alignment explanation
Indices: 25221098--25221141 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25221088 CATTTAAATA
*
25221098 TAATGATATTTATCA-ATTAAT
1 TAATGAAATTTAT-ATATTAAT
*
25221119 TAATTAAATTTATATATTAAT
1 TAATGAAATTTATATATTAAT
25221140 TA
1 TA
25221142 CTATAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATGAAATTTATATATTAAT
Found at i:25223628 original size:24 final size:24
Alignment explanation
Indices: 25223588--25223681 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 24
25223578 TATTATGGTA
* *
25223588 ATGGTAATGAAGATGGTGAGGGTG
1 ATGGTAATAAAGGTGGTGAGGGTG
*
25223612 ATGGTAATAAAGGTGGTGAAGGTG
1 ATGGTAATAAAGGTGGTGAGGGTG
* * * *
25223636 A-GG--GTGAGGGTGGTGAGGTTG
1 ATGGTAATAAAGGTGGTGAGGGTG
* * *
25223657 TTGGCACTAAAGGTGGTGAGGGTG
1 ATGGTAATAAAGGTGGTGAGGGTG
25223681 A
1 A
25223682 GGATGCTGGC
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
21 13 0.25
22 2 0.04
23 2 0.04
24 36 0.68
ACGTcount: A:0.26, C:0.02, G:0.48, T:0.24
Consensus pattern (24 bp):
ATGGTAATAAAGGTGGTGAGGGTG
Found at i:25223683 original size:30 final size:30
Alignment explanation
Indices: 25223647--25223739 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
25223637 GGGTGAGGGT
* * * *
25223647 GGTGAGGTTGTTGGCACTAAAGGTGGTGAG
1 GGTGAGGATGCTGGCAATAAGGGTGGTGAG
25223677 GGTGAGGATGCTGGCAATAAGGGTGGTGAG
1 GGTGAGGATGCTGGCAATAAGGGTGGTGAG
* *
25223707 GGTGAGGATGCTGGTAGTAAGGGTGGTGAG
1 GGTGAGGATGCTGGCAATAAGGGTGGTGAG
25223737 GGT
1 GGT
25223740 TCGGGTAAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGAGGATGCTGGCAATAAGGGTGGTGAG
Found at i:25224992 original size:21 final size:21
Alignment explanation
Indices: 25224968--25225035 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 21
25224958 TATATTGTTG
25224968 TTTTGGTGCTTTTTTTACTAT
1 TTTTGGTGCTTTTTTTACTAT
* *
25224989 TTTT-ATG-TTTTTTT-TTATT
1 TTTTGGTGCTTTTTTTACTA-T
* *
25225008 GTTTTAGTGCTTTTTTTTACTGT
1 -TTTTGGTGC-TTTTTTTACTAT
25225031 TTTTG
1 TTTTG
25225036 TGTTGTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.06
19 8 0.23
20 6 0.17
21 6 0.17
22 4 0.11
23 8 0.23
24 1 0.03
ACGTcount: A:0.09, C:0.06, G:0.13, T:0.72
Consensus pattern (21 bp):
TTTTGGTGCTTTTTTTACTAT
Found at i:25225000 original size:20 final size:20
Alignment explanation
Indices: 25224977--25225046 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
25224967 GTTTTGGTGC
25224977 TTTTTTTACTATTTTTATGT
1 TTTTTTTACTATTTTTATGT
25224997 TTTTTTT--TATTGTTTTAGTGCT
1 TTTTTTTACTA-T-TTTTA-TG-T
* *
25225019 TTTTTTTACTGTTTTTGTGT
1 TTTTTTTACTATTTTTATGT
*
25225039 TGTTTTTA
1 TTTTTTTA
25225047 TTGTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 20 0.49
21 4 0.10
22 12 0.29
23 1 0.02
24 1 0.02
ACGTcount: A:0.10, C:0.04, G:0.11, T:0.74
Consensus pattern (20 bp):
TTTTTTTACTATTTTTATGT
Found at i:25225012 original size:41 final size:41
Alignment explanation
Indices: 25224965--25225051 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
25224955 AATTATATTG
* *
25224965 TTGTTTTGGTGC-TTTTTTTACTATTTTTATGTTTTTTTTTA
1 TTGTTTTAGTGCTTTTTTTTACTATTTTTATG-TTGTTTTTA
* *
25225006 TTGTTTTAGTGCTTTTTTTTACTGTTTTTGTGTTGTTTTTA
1 TTGTTTTAGTGCTTTTTTTTACTATTTTTATGTTGTTTTTA
25225047 TTGTT
1 TTGTT
25225052 ATTTTTGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 24 0.59
42 17 0.41
ACGTcount: A:0.08, C:0.05, G:0.15, T:0.72
Consensus pattern (41 bp):
TTGTTTTAGTGCTTTTTTTTACTATTTTTATGTTGTTTTTA
Found at i:25225044 original size:21 final size:21
Alignment explanation
Indices: 25224978--25225066 Score: 83
Period size: 21 Copynumber: 4.2 Consensus size: 21
25224968 TTTTGGTGCT
* * *
25224978 TTTTTTACTATTTTTATGTTT
1 TTTTTTACTGTTTTTGTGTTG
* *
25224999 TTTTTTATTGTTTTAGTGCTT-
1 TTTTTTACTGTTTTTGTG-TTG
25225020 TTTTTTACTGTTTTTGTGTTG
1 TTTTTTACTGTTTTTGTGTTG
* *
25225041 -TTTTTATTGTTATTTTTGTTG
1 TTTTTTACTGTT-TTTGTGTTG
25225062 TTTTT
1 TTTTT
25225067 AATGTTGTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 12 0.21
21 38 0.68
22 6 0.11
ACGTcount: A:0.09, C:0.03, G:0.12, T:0.75
Consensus pattern (21 bp):
TTTTTTACTGTTTTTGTGTTG
Found at i:25225046 original size:33 final size:33
Alignment explanation
Indices: 25225009--25225113 Score: 79
Period size: 32 Copynumber: 3.1 Consensus size: 33
25224999 TTTTTTATTG
* *
25225009 TTTTAGTGCTTTTTTTTACTGTTTTT-GTGTTGT
1 TTTTAGTG-TTATTTTTACTGTTTTTAATGTTGT
* **
25225042 TTTTATTGTTATTTTTGTTGTTTTTAATGTTGT
1 TTTTAGTGTTATTTTTACTGTTTTTAATGTTGT
** * *
25225075 TTTT-CCGTTATTTTTGCTGCTGTTTTAGATGTTAT
1 TTTTAGTGTTATTTTTACTG-T-TTTTA-ATGTTGT
25225110 TTTT
1 TTTT
25225114 GTTGTTTGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 26 0.44
33 18 0.31
34 5 0.08
35 10 0.17
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.69
Consensus pattern (33 bp):
TTTTAGTGTTATTTTTACTGTTTTTAATGTTGT
Found at i:25225067 original size:21 final size:20
Alignment explanation
Indices: 25225021--25225078 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
25225011 TTAGTGCTTT
* *
25225021 TTTTTACTGTTTTTGTGTTG
1 TTTTTAATGTTTTTTTGTTG
*
25225041 TTTTTATTGTTATTTTTGTTG
1 TTTTTAATGTT-TTTTTGTTG
25225062 TTTTTAATGTTGTTTTT
1 TTTTTAATGTT-TTTTT
25225079 CCGTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.09, C:0.02, G:0.16, T:0.74
Consensus pattern (20 bp):
TTTTTAATGTTTTTTTGTTG
Found at i:25225141 original size:21 final size:20
Alignment explanation
Indices: 25225102--25225141 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25225092 TGCTGTTTTA
* *
25225102 GATGTTATTTTTGTTGTTTG
1 GATGTTATTTTTATCGTTTG
25225122 GATGTTATTTTTATGCGTTT
1 GATGTTATTTTTAT-CGTTT
25225142 TTATTGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.12, C:0.03, G:0.23, T:0.62
Consensus pattern (20 bp):
GATGTTATTTTTATCGTTTG
Found at i:25229475 original size:26 final size:27
Alignment explanation
Indices: 25229446--25229506 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
25229436 TTGTAAGTTT
25229446 ATTTATAAT-TTTAAT-TAAAAATATAA
1 ATTTATAATATTTAATATAAAAATA-AA
*
25229472 ATTTA-ATATATTTAATATATAAATAAA
1 ATTTATA-ATATTTAATATAAAAATAAA
*
25229499 TTTTATAA
1 ATTTATAA
25229507 AATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 1 0.03
26 7 0.24
27 13 0.45
28 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTATAATATTTAATATAAAAATAAA
Found at i:25231106 original size:19 final size:20
Alignment explanation
Indices: 25231069--25231119 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
25231059 TTGATAAAAA
*
25231069 AATATATTTTTATACTTTTT
1 AATATATTTTAATACTTTTT
*
25231089 AATA-ATTTTAATAGTTTTT
1 AATATATTTTAATACTTTTT
*
25231108 AAT-TCTTTTAAT
1 AATATATTTTAAT
25231120 TTTGAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
AATATATTTTAATACTTTTT
Found at i:25239409 original size:21 final size:21
Alignment explanation
Indices: 25239385--25239436 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
25239375 TGAGACAATA
25239385 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
25239406 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
25239427 CTACCGATAC
1 CTACCGATAC
25239437 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:25240361 original size:52 final size:52
Alignment explanation
Indices: 25240220--25240407 Score: 290
Period size: 52 Copynumber: 3.7 Consensus size: 52
25240210 ATTCCATTTA
* * *
25240220 ATACTCACGATGACACATAGTCATCGAACCTTTTAATCCGTGAAGGAGTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTTTAATCCATAAAGGATTCAT
**
25240272 ATACTCACGATGACAC--AGTCATCGAACCTTTTAATCCATAAAATATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTTTAATCCATAAAGGATTCAT
*
25240322 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTTTAATCCATAAAGGATTCAT
* *
25240374 ATACTCATGATGACACATAGTCATCGGACCTTTT
1 ATACTCACGATGACACATAGTCATCGAACCTTTT
25240408 CTTTATTTAC
Statistics
Matches: 125, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
50 45 0.36
52 80 0.64
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTTTTAATCCATAAAGGATTCAT
Found at i:25251225 original size:12 final size:12
Alignment explanation
Indices: 25251189--25251230 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
25251179 TTTGCCTCGA
25251189 CTTCTTTTCCTT
1 CTTCTTTTCCTT
*
25251201 CCTCTCTTT-CTT
1 CTTCT-TTTCCTT
25251213 CTTCTTTTCCTT
1 CTTCTTTTCCTT
25251225 CTTCTT
1 CTTCTT
25251231 CCACTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:25251237 original size:24 final size:24
Alignment explanation
Indices: 25251189--25251242 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
25251179 TTTGCCTCGA
*
25251189 CTTCTTTTCCTTCCTCTCTTTCTT
1 CTTCTTTTCCTTCCTCTCTTACTT
25251213 CTTCTTTTCCTT-CT-TCTTCCACTT
1 CTTCTTTTCCTTCCTCTCTT--ACTT
25251237 CTTCTT
1 CTTCTT
25251243 ACAAAACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 21 0.78
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (24 bp):
CTTCTTTTCCTTCCTCTCTTACTT
Found at i:25252449 original size:38 final size:39
Alignment explanation
Indices: 25252354--25252452 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 39
25252344 CCTGTATAGA
*
25252354 CAATTCT-GAGCAT-GCTCATGCAGTGACAATTTTTGGCG
1 CAATTCTGGA-CATAGCTCATGCAGTGACAATTTTGGGCG
* *
25252392 TAATTCTGGACATCG-TCATGCAGTGACAATTTTGGGCG
1 CAATTCTGGACATAGCTCATGCAGTGACAATTTTGGGCG
*
25252430 CAATT-TTGA-ATAGACTCATGCAG
1 CAATTCTGGACATAG-CTCATGCAG
25252453 CGGCATTAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
36 3 0.06
37 3 0.06
38 43 0.83
39 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
CAATTCTGGACATAGCTCATGCAGTGACAATTTTGGGCG
Found at i:25253131 original size:2 final size:2
Alignment explanation
Indices: 25253124--25253163 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25253114 TATTTATAAC
25253124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25253164 CAAGCAGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25253509 original size:17 final size:17
Alignment explanation
Indices: 25253487--25253520 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25253477 CACTAACACT
25253487 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
25253504 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
25253521 TTTACTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATG
Found at i:25258462 original size:18 final size:18
Alignment explanation
Indices: 25258441--25258476 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25258431 TAGCAGTTAT
25258441 AGAACAA-AAATACAAAGA
1 AGAACAAGAAATA-AAAGA
25258459 AGAACAAGAAATAAAAGA
1 AGAACAAGAAATAAAAGA
25258477 TAAAGAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.72, C:0.08, G:0.14, T:0.06
Consensus pattern (18 bp):
AGAACAAGAAATAAAAGA
Found at i:25274046 original size:41 final size:41
Alignment explanation
Indices: 25274001--25274078 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
25273991 AAATTAATAG
* *
25274001 AATTAAAAATTTAAATAAAAAATTAAAATAATTTTTTATAA
1 AATTAAAAAGTCAAATAAAAAATTAAAATAATTTTTTATAA
* ** *
25274042 AATTAAAAGGTCAAATAAATCATTATAATAATTTTTT
1 AATTAAAAAGTCAAATAAAAAATTAAAATAATTTTTT
25274079 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (41 bp):
AATTAAAAAGTCAAATAAAAAATTAAAATAATTTTTTATAA
Found at i:25277552 original size:18 final size:18
Alignment explanation
Indices: 25277528--25277583 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
25277518 ATGGGGTAAT
25277528 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
25277546 CGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
25277564 AGGCCTAGTGATTTCTCC
1 AGGCCTAGTGATTACTCC
25277582 AG
1 AG
25277584 ATGGGGTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (18 bp):
AGGCCTAGTGATTACTCC
Found at i:25283311 original size:24 final size:24
Alignment explanation
Indices: 25283284--25283329 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25283274 GAAGATTTAA
*
25283284 TATTTATTAGTATAATATATTTTG
1 TATTTATTAGCATAATATATTTTG
*
25283308 TATTTATTAGCATAATTTATTT
1 TATTTATTAGCATAATATATTT
25283330 GACTTGCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (24 bp):
TATTTATTAGCATAATATATTTTG
Found at i:25284144 original size:23 final size:25
Alignment explanation
Indices: 25284103--25284157 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
25284093 AACTCCCTCT
25284103 AAAAAT-AGCAACAATAGCAACAAA
1 AAAAATCAGCAACAATAGCAACAAA
*
25284127 AAAAATCAGCAA-AA-AGCAACAAC
1 AAAAATCAGCAACAATAGCAACAAA
*
25284150 AAACATCA
1 AAAAATCA
25284158 ATTCATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 15 0.54
24 8 0.29
25 5 0.18
ACGTcount: A:0.65, C:0.20, G:0.07, T:0.07
Consensus pattern (25 bp):
AAAAATCAGCAACAATAGCAACAAA
Found at i:25285028 original size:88 final size:88
Alignment explanation
Indices: 25284920--25285096 Score: 311
Period size: 88 Copynumber: 2.0 Consensus size: 88
25284910 ATTTTGAGTT
* *
25284920 AGAAATGAAAAGAGATTAAATTTGTGAATTAAATTGTTGATTTCAAGTAGTAAGAA-CTAAATTT
1 AGAAATGAAAAGAGACTAAATTTGTGAATTAAATTGTCGATTTCAAGTAGTAAGAATC-AAATTT
25284984 TGTAAATTTGGTAAATTAAAGTAA
65 TGTAAATTTGGTAAATTAAAGTAA
25285008 AGAAATGAAAAGAGACTAAATTTGTGAATTAAATTGTCGATTTCAAGTAGTAAGAATCAAATTTT
1 AGAAATGAAAAGAGACTAAATTTGTGAATTAAATTGTCGATTTCAAGTAGTAAGAATCAAATTTT
*
25285073 GTAAATTTGGTAAATTGAAGTAA
66 GTAAATTTGGTAAATTAAAGTAA
25285096 A
1 A
25285097 AATGAGGAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 84 0.99
89 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (88 bp):
AGAAATGAAAAGAGACTAAATTTGTGAATTAAATTGTCGATTTCAAGTAGTAAGAATCAAATTTT
GTAAATTTGGTAAATTAAAGTAA
Found at i:25286678 original size:158 final size:157
Alignment explanation
Indices: 25286388--25286846 Score: 569
Period size: 158 Copynumber: 2.9 Consensus size: 157
25286378 CAGTTCCGAA
* * ** * *
25286388 TGTTGGTCTTGGATGTCTTACCGATGGTTGAGGTCCTAAATTTGTTGCGGATTCTCCACAGCTTG
1 TGTTGGTCTTGGATGTCCTACCGATGGTTGAAG-CCCGAATTTGTTGCGGATTCTCCACAACTCG
* *
25286453 TGTGAGCAGCATCGTGTAGCCTAACATCCCGACCCACAGCTCGTGTGAGCAGACCCATTTCACAG
65 TGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGGCCCATTTCACAG
*
25286518 CTCGTGTGAGCATTACAATTTATATGGG
130 CTCGTGTGAGCATTACAAGTTATATGGG
* * * * *
25286546 TGTTGGTCTTGGATGTCCTACCGATGGTTGAAGACCCGCATTGGTTACGAATTCTCCAAAACTCG
1 TGTTGGTCTTGGATGTCCTACCGATGGTTGAAG-CCCGAATTTGTTGCGGATTCTCCACAACTCG
* * * ** * *
25286611 AGTGAGCAGCATCGCGTAGCCTAACATCTCGACACACAGCTCGTGTGAATAGGCCTATTTCATAG
65 TGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGGCCCATTTCACAG
*
25286676 CTCGTGTGAGCATTACAGGTTATATGGG
130 CTCGTGTGAGCATTACAAGTTATATGGG
* * * * * * *
25286704 TGCTGGTCTTAGATGTCCTATCGATGGCT-AATGTCCGAAATTTGTTGTGGATTCTTCACAACTC
1 TGTTGGTCTTGGATGTCCTACCGATGGTTGAA-GCCCG-AATTTGTTGCGGATTCTCCACAACTC
* * * * *
25286768 GTGTAAGCAACATCGTGTAGCCTCACATCTCAACCCATAGCTCGTGTGAGCAGGCCCATTTCACA
64 GTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGGCCCATTTCACA
25286833 GCTCGTGTGAGCAT
129 GCTCGTGTGAGCAT
25286847 ATATGATTAC
Statistics
Matches: 252, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
157 5 0.02
158 247 0.98
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (157 bp):
TGTTGGTCTTGGATGTCCTACCGATGGTTGAAGCCCGAATTTGTTGCGGATTCTCCACAACTCGT
GTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGGCCCATTTCACAGC
TCGTGTGAGCATTACAAGTTATATGGG
Found at i:25296774 original size:15 final size:16
Alignment explanation
Indices: 25296753--25296805 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
25296743 GGTAAGGAAA
25296753 AATTTTAAATTTTGTT
1 AATTTTAAATTTTGTT
**
25296769 -ATTTTAAATTAAGTT
1 AATTTTAAATTTTGTT
25296784 AATTTTAAAGTTTT-TT
1 AATTTTAAA-TTTTGTT
25296800 AATTTT
1 AATTTT
25296806 TAAAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 13 0.42
16 16 0.52
17 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
AATTTTAAATTTTGTT
Found at i:25296790 original size:16 final size:16
Alignment explanation
Indices: 25296753--25296792 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
25296743 GGTAAGGAAA
**
25296753 AATTTTAAATTTTGTT
1 AATTTTAAATTAAGTT
25296769 -ATTTTAAATTAAGTT
1 AATTTTAAATTAAGTT
25296784 AATTTTAAA
1 AATTTTAAA
25296793 GTTTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
AATTTTAAATTAAGTT
Found at i:25298255 original size:21 final size:21
Alignment explanation
Indices: 25298231--25298282 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
25298221 TGAGACAATA
25298231 CTACCGATACAAGT-ATGACCT
1 CTACCGATACAAGTCATG-CCT
* * *
25298252 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCCT
25298273 CTACCGATAC
1 CTACCGATAC
25298283 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCCT
Found at i:25299469 original size:195 final size:192
Alignment explanation
Indices: 25299035--25299479 Score: 457
Period size: 195 Copynumber: 2.3 Consensus size: 192
25299025 TACCAGTACT
* * * * * * * * *
25299035 CAATGCTGCTCACACGAACTATCGAGGACTCGCAACGTATACGGTACCCCAGCCATTGGTACGGT
1 CAATGCTACTCACACGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCAGCCATCGATACAGT
* * * * * *
25299100 -GCTTGTCTGTACTATAAACTGTTCCTTAACGATGTCGCTCACACGAGCTGTCGAGAGTATGCAT
66 ATC-TG--TGCA-TAT-AATTATTCCCTAACGATGTCGCTCACACGAGCTGTCGAGAATATGCAT
* * * *
25299164 AAAGCATAGTCCTAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATTTTTTCTTTTCCGAGT
126 AAAGCATAATCCTAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATTTTCTCATTTCCGACT
*
25299229 GA
191 CA
** * * *
25299231 TGATGCTGCTCACACGAGCTGTCGAGGACTTGCAACTTATGCGGTACCTCAGCCATCGATACAGT
1 CAATGCTACTCACACGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCAGCCATCGATACAGT
* ***
25299296 ATCTGTGCATATAATTATTCCCTAACGATG-CTGCTCACACGAGCTGTTGAGAATATGCACTTGT
66 ATCTGTGCATATAATTATTCCCTAACGATGTC-GCTCACACGAGCTGTCGAGAATATGCA-TAAA
* * *
25299360 GCATAAAT-CTCAGCCATCGTAGGGCTTGTAATCCATTCTTGGATTC-TTTTCTCATTTCCTGAC
129 GCAT-AATCCT-AGCCATCGTAGGGCCTGTAATCCATT-TAGGATCCATTTTCTCATTTCC-GAC
25299423 TCA
190 TCA
* *
25299426 CAATGCTACTCGCACGAGCTGTCGAGGGCTTGCAACATATGCGGTACCCCAGCC
1 CAATGCTACTCACACGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCAGCC
25299480 GTCGCGTCGG
Statistics
Matches: 206, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
191 1 0.00
192 40 0.19
193 10 0.05
194 41 0.20
195 57 0.28
196 56 0.27
197 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (192 bp):
CAATGCTACTCACACGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCAGCCATCGATACAGT
ATCTGTGCATATAATTATTCCCTAACGATGTCGCTCACACGAGCTGTCGAGAATATGCATAAAGC
ATAATCCTAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATTTTCTCATTTCCGACTCA
Found at i:25311145 original size:23 final size:22
Alignment explanation
Indices: 25311117--25311164 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25311107 TTCGGAAGCA
*
25311117 TTTTTTTAGAAAATATTATATTTC
1 TTTTTTCA-AAAATATT-TATTTC
*
25311141 TTTTTTCATAAATATTTATTTC
1 TTTTTTCAAAAATATTTATTTC
25311163 TT
1 TT
25311165 AATATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTTCAAAAATATTTATTTC
Found at i:25316257 original size:20 final size:20
Alignment explanation
Indices: 25316228--25316282 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
25316218 TATAGGTTTG
* * *
25316228 CACTTCGGTGCCTTTGTTCA
1 CACTTTGGTGCCTCTATTCA
* *
25316248 CACTTTGGTGTCTCTATTTA
1 CACTTTGGTGCCTCTATTCA
25316268 CACTTTGGTGCCTCT
1 CACTTTGGTGCCTCT
25316283 GATTGCACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.27, G:0.18, T:0.44
Consensus pattern (20 bp):
CACTTTGGTGCCTCTATTCA
Found at i:25319910 original size:19 final size:19
Alignment explanation
Indices: 25319886--25319928 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
25319876 GGTGCTTTCG
25319886 AATATTTCAACTATATTTT
1 AATATTTCAACTATATTTT
25319905 AATATTTCAACTATATTTT
1 AATATTTCAACTATATTTT
25319924 AATAT
1 AATAT
25319929 ACCCTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTTCAACTATATTTT
Found at i:25322205 original size:22 final size:23
Alignment explanation
Indices: 25322159--25322213 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
25322149 AAAATACATG
25322159 AATAAAATAAATTAAATGAATAC
1 AATAAAATAAATTAAATGAATAC
*
25322182 AATTAAATACAATT-AAT-AATAC
1 AATAAAATA-AATTAAATGAATAC
25322204 AATAAAATAA
1 AATAAAATAA
25322214 TAAATAAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 13 0.45
23 11 0.38
24 4 0.14
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAAAATAAATTAAATGAATAC
Found at i:25322480 original size:21 final size:20
Alignment explanation
Indices: 25322437--25322488 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
25322427 ATGAAGGCAA
25322437 AAATATAAATAGCATAAAAAAT
1 AAATA-AAATA-CATAAAAAAT
25322459 AAATAAAATACATAAAACAAT
1 AAATAAAATACATAAAA-AAT
25322480 AAATAAAAT
1 AAATAAAAT
25322489 TAAATAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAAATACATAAAAAAT
Found at i:25322539 original size:65 final size:64
Alignment explanation
Indices: 25322391--25322556 Score: 158
Period size: 65 Copynumber: 2.6 Consensus size: 64
25322381 AATGACATAT
* * * * * *
25322391 AAATAAATAAAA-ATATCAATGAATAAATAAAATTAAATGAAGGCAAAAATATAAATAGCATAAA
1 AAATAAATAAAATAAATAAATAAATAAATAAAATTAAATAAAAGCAAAAATATAAATA-CACAAA
* * * *
25322455 AAATAAATAAAATACATAAA-ACAATAAATAAAATTAAATAAAAGCGAGAATGTAAATA-ACAAA
1 AAATAAATAAAATAAATAAATA-AATAAATAAAATTAAATAAAAGCAAAAATATAAATACACAAA
* *
25322518 AAATGAATAACCAATAAATAAATAAATAAACAATAATTA
1 AAATAAATAA--AATAAATAAATAAATAAATAA-AATTA
25322557 TATGAAATGC
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
63 13 0.15
64 12 0.14
65 53 0.63
66 6 0.07
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (64 bp):
AAATAAATAAAATAAATAAATAAATAAATAAAATTAAATAAAAGCAAAAATATAAATACACAAA
Found at i:25322793 original size:17 final size:16
Alignment explanation
Indices: 25322761--25322798 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
25322751 AACAACTAGA
*
25322761 TAAATAAACAAAAAAT
1 TAAATAAAAAAAAAAT
25322777 TAAATAAAAATAAAAAT
1 TAAATAAAAA-AAAAAT
25322794 TAAAT
1 TAAAT
25322799 GCTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAAAAAAAAAAT
Found at i:25324009 original size:50 final size:50
Alignment explanation
Indices: 25323948--25324345 Score: 487
Period size: 50 Copynumber: 8.0 Consensus size: 50
25323938 TGCTTCTGTA
* * * * *
25323948 GCTTCTGTAGCTTTAATTTGCCCCTCTATAGCTTTAAGGGTATAAGATTT
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
* * ** * *
25323998 GCTTCTATAGCTTTAATCTTTCCCTTTACAACTTTAGGGGTATAAGATTC
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
** * * * * *
25324048 ATTTTTGTAGCTTCAATCT-CTCCTTTACAACTTTAGGTGTATAAGATTC
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
* *
25324097 -ATTTCTGTAGTTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
1 GCTTT-TGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
*
25324147 GCTTTTGTAGCTTTAATCTACCCCTCTACAGCTTTAGGGGTATAAGATT-
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
* *
25324196 GTTTTTTGTAGATTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
1 G-CTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
* * *
25324247 GCTTTTGTAGCTTTAATATGCCTCTCTACTGCTTTAGGGGTATAAGATTC
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
* * * *
25324297 ACTTTTGTAGCTTCAATCTGCCTCTTTACAGCTTTAGGGGTATAAGATT
1 GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATT
25324346 TGATGTGGCT
Statistics
Matches: 303, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
48 3 0.01
49 40 0.13
50 256 0.84
51 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (50 bp):
GCTTTTGTAGCTTTAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
Found at i:25325097 original size:21 final size:21
Alignment explanation
Indices: 25325055--25325099 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25325045 AACATTGGTT
* **
25325055 AAAAATAGCAAATGTCGGTCA
1 AAAAATAGCAAATATCAATCA
*
25325076 AAAAATGGCAAATATCAATCA
1 AAAAATAGCAAATATCAATCA
25325097 AAA
1 AAA
25325100 GTTGCTAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (21 bp):
AAAAATAGCAAATATCAATCA
Found at i:25329435 original size:16 final size:15
Alignment explanation
Indices: 25329412--25329441 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25329402 AAAATATAGC
25329412 ATATAATGAATAAAA
1 ATATAATGAATAAAA
25329427 ATATCAATGAATAAA
1 ATAT-AATGAATAAA
25329442 TAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (15 bp):
ATATAATGAATAAAA
Found at i:25329493 original size:22 final size:23
Alignment explanation
Indices: 25329451--25329493 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25329441 ATAAAATTAA
*
25329451 ATAAAAGTAAAAATATAAATAGC
1 ATAAAAATAAAAATATAAATAGC
*
25329474 ATAAAAATAACAA-ATAAATA
1 ATAAAAATAAAAATATAAATA
25329494 AAATACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (23 bp):
ATAAAAATAAAAATATAAATAGC
Found at i:25329494 original size:17 final size:16
Alignment explanation
Indices: 25329436--25329527 Score: 57
Period size: 16 Copynumber: 5.7 Consensus size: 16
25329426 AATATCAATG
*
25329436 AATAAATAAAATTAAA
1 AATAAATAAAAATAAA
* *
25329452 TAA-AAGTAAAAATATA
1 -AATAAATAAAAATAAA
*
25329468 AATAGCATAAAAATAACA
1 AATA-AATAAAAATAA-A
25329486 AATAAAT-AAAAT--A
1 AATAAATAAAAATAAA
*
25329499 CATAAAGTAATAAATAAA
1 AATAAA-TAA-AAATAAA
*
25329517 ATTAAATAAAA
1 AATAAATAAAA
25329528 GTGAGAATGT
Statistics
Matches: 57, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
13 6 0.11
14 1 0.02
15 3 0.05
16 22 0.39
17 15 0.26
18 10 0.18
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAATAAAAATAAA
Found at i:25329581 original size:71 final size:71
Alignment explanation
Indices: 25329436--25329585 Score: 182
Period size: 71 Copynumber: 2.1 Consensus size: 71
25329426 AATATCAATG
* *
25329436 AATAAATAAAATTAAATAAAAGTAAAAATATAAATAGCATAAAAATAACAAATAAATAAAATACA
1 AATAAATAAAATTAAATAAAAGTAAAAATATAAATAGAAAAAAAATAACAAATAAATAAAATACA
25329501 TAAAGT
66 TAAAGT
* * * *
25329507 AATAAATAAAATTAAATAAAAGTGAGAATGTAAATTA-AAAAAAATGGATAACCAATAAAT-AAA
1 AATAAATAAAATTAAATAAAAGTAAAAATATAAA-TAGAAAAAAA---ATAACAAATAAATAAAA
25329570 TA-ATAAA-T
62 TACATAAAGT
25329578 AATAAATA
1 AATAAATA
25329586 TATGAAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
71 45 0.65
72 7 0.10
73 5 0.07
74 12 0.17
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (71 bp):
AATAAATAAAATTAAATAAAAGTAAAAATATAAATAGAAAAAAAATAACAAATAAATAAAATACA
TAAAGT
Found at i:25329692 original size:4 final size:4
Alignment explanation
Indices: 25329683--25329751 Score: 56
Period size: 4 Copynumber: 17.2 Consensus size: 4
25329673 AAATTTAATG
* *
25329683 ATAA ATAA ATAA ATAA ATAA ACAA ACAA GAT-A ATAA AT-A ATAA ATGTAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA A--TAA
25329732 ATTAA ATAA A-AA AT-A ATAA A
1 A-TAA ATAA ATAA ATAA ATAA A
25329752 AGAGATAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
3 11 0.20
4 35 0.64
5 5 0.09
6 4 0.07
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:25329811 original size:15 final size:15
Alignment explanation
Indices: 25329775--25329829 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
25329765 AAATGTCATG
25329775 AAAATAAAT-AACAA
1 AAAATAAATAAACAA
* *
25329789 CTAGATAAATAAACAA
1 -AAAATAAATAAACAA
*
25329805 AAAATAAATAAAAAA
1 AAAATAAATAAACAA
25329820 AAAATTAAAT
1 AAAA-TAAAT
25329830 GCTAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 23 0.70
16 10 0.30
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:25329866 original size:13 final size:14
Alignment explanation
Indices: 25329833--25329866 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
25329823 ATTAAATGCT
25329833 AAAATAAACAAATA
1 AAAATAAACAAATA
*
25329847 AATATAAAC-AATA
1 AAAATAAACAAATA
25329860 AAAATAA
1 AAAATAA
25329867 TTGTGATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAACAAATA
Found at i:25329901 original size:4 final size:4
Alignment explanation
Indices: 25329894--25329930 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
25329884 AATAAATGAC
*
25329894 AAAT AAAT AAAT AAAT AAAT AAAT CAAT AAATT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT
25329931 GCCAATGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:25335224 original size:459 final size:458
Alignment explanation
Indices: 25334365--25335279 Score: 1534
Period size: 459 Copynumber: 2.0 Consensus size: 458
25334355 ATTTCGAAAC
*
25334365 AAAGAATAAAGGAAGAAGGCGAAACGACTAGGGCTTCAAACTTTCAAGCTTCAATTTGGTTAGTT
1 AAAGAATAAAGGAAGAAGGCAAAACGACTAGGGCTTCAAACTTTCAAGCTTCAATTTGGTTAGTT
*
25334430 CAATTTTTTTTTGAAATTTTTATGTTTTCGAAATTATGGGAGTTTAAGCTAGCCAACCTATGTCA
66 CAATTTTTTTTTGAAATTTTTATGTTTTCGAAATTATGGGAGTTCAAGCTAGCCAACCTATGTCA
*
25334495 TATTTTTCGTTCTAGTAAAGTTTAAGGATGTTACTATTTTTGAATAATTGGAGCTTGAGGTGTTA
131 TATTTTTCGTTCTAGTAAAGTTTAAGGATGTTACCATTTTTGAATAATTGGAGCTTGAGGTGTTA
* *
25334560 TTTTGATAGATTTTAAAGTTAGAAGTGAAAAAGGACTAAATTGTAAAGTCAATTGATGATTTTTG
196 TTTTGATAGATTGTAAAGTTAGAAGTGAAAAAAGACTAAATTGTAAAGTCAATTGATGATTTTTG
*
25334625 TGCAATAGAGAATAAAAAGCCCAAGTTGTGAAATGTGTGGTGTATTGAGAAATAGGAAGTCCTAT
261 TGCAACAGAGAATAAAAAGCCCAAGTTGTGAAATGTGTGGTGTATTGAGAAATAGGAAGTCCTAT
* *
25334690 AGAGACTCTAGTCAATTCGACATAATAAATTGGGGTTAAATGTGAAAGTTATGTTAGTCTCGGTT
326 AGAGACTCTAGTCAATTCGACATAATAAATTGGGGTTAAATATGAAAGTTATGTTAGTCTCGATT
* *
25334755 TTAAGGACTAAATTGAAGAAAATGAAAAATTTGTATAATTTAGTAATTGAATGTGAAAATGGTTG
391 TTAAGGACTAAATTGAAGAAAATAAAAAAATTGTATAATTTAGTAATTGAATGTGAAAATGGTTG
25334820 AAT
456 AAT
* *
25334823 AAAGAATAAAGGGAGAGGGCAAAAC-AGCTAGGGCTTCAAACTTTCAAGCTTCAATTTGGTTAGT
1 AAAGAATAAAGGAAGAAGGCAAAACGA-CTAGGGCTTCAAACTTTCAAGCTTCAATTTGGTTAGT
25334887 TCAATTTTTTTTTGAAATTTTTATGTTTTC-AGAATCT-TGGGAGTTCAAGCTAGCCAACCTATG
65 TCAATTTTTTTTTGAAATTTTTATGTTTTCGA-AAT-TATGGGAGTTCAAGCTAGCCAACCTATG
* * *
25334950 TCATTTTTTTCGTTACTATTAAAGTTTGAGGATGTTACCATTTTTGAATAATT-GATGCTTGAGG
128 TCATATTTTTCGTT-CTAGTAAAGTTTAAGGATGTTACCATTTTTGAATAATTGGA-GCTTGAGG
*
25335014 TGTTATTTTGATAGATTGTAAAGTTAGAAGTGAAAAAAGATTAAATTGTAAAGTCAATTGATGAT
191 TGTTATTTTGATAGATTGTAAAGTTAGAAGTGAAAAAAGACTAAATTGTAAAGTCAATTGATGAT
* * *
25335079 TTTTGTGCAACAGAGAATAAAATGCCTAAGTTGTGAAATTTGTGGTGTATTGAGAAATAGGAAGT
256 TTTTGTGCAACAGAGAATAAAAAGCCCAAGTTGTGAAATGTGTGGTGTATTGAGAAATAGGAAGT
* *
25335144 CCTATAGGGACTCTAGTCAATTTTG-CATAATAAATTGGGGTTAAATATGAAAGTTATGTTAGTC
321 CCTATAGAGACTCTAGTCAA-TTCGACATAATAAATTGGGGTTAAATATGAAAGTTATGTTAGTC
* *
25335208 TCGATTTTAGGGACTAAATTGAATAAAATAAAAAAATTGTATAATTTAGTAATTGAATGTGAAAA
385 TCGATTTTAAGGACTAAATTGAAGAAAATAAAAAAATTGTATAATTTAGTAATTGAATGTGAAAA
25335273 TGGTTGA
450 TGGTTGA
25335280 CTATTGATGA
Statistics
Matches: 428, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
457 2 0.00
458 132 0.31
459 291 0.68
460 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (458 bp):
AAAGAATAAAGGAAGAAGGCAAAACGACTAGGGCTTCAAACTTTCAAGCTTCAATTTGGTTAGTT
CAATTTTTTTTTGAAATTTTTATGTTTTCGAAATTATGGGAGTTCAAGCTAGCCAACCTATGTCA
TATTTTTCGTTCTAGTAAAGTTTAAGGATGTTACCATTTTTGAATAATTGGAGCTTGAGGTGTTA
TTTTGATAGATTGTAAAGTTAGAAGTGAAAAAAGACTAAATTGTAAAGTCAATTGATGATTTTTG
TGCAACAGAGAATAAAAAGCCCAAGTTGTGAAATGTGTGGTGTATTGAGAAATAGGAAGTCCTAT
AGAGACTCTAGTCAATTCGACATAATAAATTGGGGTTAAATATGAAAGTTATGTTAGTCTCGATT
TTAAGGACTAAATTGAAGAAAATAAAAAAATTGTATAATTTAGTAATTGAATGTGAAAATGGTTG
AAT
Found at i:25336801 original size:26 final size:26
Alignment explanation
Indices: 25336772--25336825 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
25336762 AATTAACAGA
*
25336772 TACAGTTCAATTGTACAAACAATAGT
1 TACAGTTCAATGGTACAAACAATAGT
* **
25336798 TACAGTTCGATGGTACAGTCAATAGT
1 TACAGTTCAATGGTACAAACAATAGT
25336824 TA
1 TA
25336826 TAGATATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (26 bp):
TACAGTTCAATGGTACAAACAATAGT
Found at i:25347855 original size:43 final size:41
Alignment explanation
Indices: 25347787--25347870 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 41
25347777 TTGCGTTTTA
*
25347787 GGACTTTTAAATTTAAACAAATTTAAACTCAAAATGTATTT
1 GGACTTTTAAATTAAAACAAATTTAAACTCAAAATGTATTT
* * * *
25347828 GGACATTTTAAATCTAAAATAAATTTAAATTTAAAATTTATTT
1 GGAC-TTTTAAAT-TAAAACAAATTTAAACTCAAAATGTATTT
25347871 TAAGTTGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 4 0.11
42 8 0.22
43 24 0.67
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (41 bp):
GGACTTTTAAATTAAAACAAATTTAAACTCAAAATGTATTT
Found at i:25348396 original size:39 final size:39
Alignment explanation
Indices: 25348353--25348847 Score: 443
Period size: 39 Copynumber: 12.7 Consensus size: 39
25348343 GATGGTTGCA
** * *
25348353 ATCTGCCCCTGGCTTGGGGTAAGAGATTGGCTGATAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
25348392 ATCTGCCCTAGGCTCAGGGTAAGAGA-T--C-GAATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
*
25348429 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* ** **
25348470 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACT-GCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* *
25348509 ATCTGCCCCAAGCTTGGGGTAAGAGATTGGCTGCTGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * *
25348548 ATTTGCCCCAGGCTCAGGGTAAGAGATTAGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
25348587 ATCTGCCTCAAGCTTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * *
25348626 ATCTGCCTCAAGCTCGAGGTAAAAGA-T--CAGATGGCTTTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG---TG
* * *
25348665 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGGG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
** *
25348704 ATCTGCCCCAAGCTCGGGGTAAGAGGCTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * *
25348743 ATCTACCCCAGGCTCGGGGTAAAAGATCGGATGACT--TCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGT-G
** *
25348782 ATCTATCCCAAGCTCGGGGTAAGAGATTGGCTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
*
25348821 ATCTGCCCCAAGCTCGGGGTAAAAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
25348848 CGAATGACTG
Statistics
Matches: 366, Mismatches: 70, Indels: 40
0.77 0.15 0.08
Matches are distributed among these distances:
35 1 0.00
36 10 0.03
37 2 0.01
38 5 0.01
39 329 0.90
40 5 0.01
41 2 0.01
42 11 0.03
43 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:25348555 original size:117 final size:115
Alignment explanation
Indices: 25348353--25348881 Score: 506
Period size: 117 Copynumber: 4.5 Consensus size: 115
25348343 GATGGTTGCA
** * * ** * * * * *
25348353 ATCTGCCCCTGGCTTGGGGTAAGAGATTGGCTGATAGTGATCTGCCCTAGGCTCAGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* * *
25348418 TCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
66 TCGGAT-GCT-TAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
** * *
25348470 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGACT-GCAATCTGCCCCAAGCTTGGGGTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGA-TGGTGATCTGCCCCAAGCTCGGGGTAAAAG
* * * * * * * *
25348534 ATTGGCTGCTGGTGATTTGCCCCAGGCTCAGGGTAAGAGATTAGTTGATGGTG
65 ATCGGATGCT--TAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * ** * *
25348587 ATCTGCCTCAAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* *
25348652 TCAGATGGCTTTAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGGG
66 TCGGAT-GC-TTAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* ** * *
25348704 ATCTGCCCCAAGCTCGGGGTAAGAG-GCTGGTTGATGGTGATCTACCCCAGGCTCGGGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATC-GAATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
* * *
25348768 ATCGGATGACTTCAATCTATCCCAAGCTCGGGGTAAGAGATTGGCTGATGATG
65 ATCGGATG-CTT-AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * *
25348821 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGACT-GTGATCTACCCTATGATCGGGGTAA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGA-TGGTGATCTGCCCCAAGCTCGGGGTAA
25348882 GAAATCAGAA
Statistics
Matches: 339, Mismatches: 63, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
116 7 0.02
117 326 0.96
118 5 0.01
119 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (115 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
TCGGATGCTTAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:25348877 original size:78 final size:78
Alignment explanation
Indices: 25348710--25348883 Score: 217
Period size: 78 Copynumber: 2.2 Consensus size: 78
25348700 GGGGATCTGC
* * * * * *
25348710 CCCAAGCTCGGGGTAAGAGGCTGGTTGATGGTGATCTACCCCAGGCTCGGGGTAAAAGATCGGAT
1 CCCAAGATCGGGGTAAGAGACTGGCTGATGATGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT
25348775 GACTTCAATCTAT
66 GACTTCAATCTAT
* * *
25348788 CCCAAGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCGAAT
1 CCCAAGATCGGGGTAAGAGACTGGCTGATGATGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT
*
25348853 GACTGT-GATCTA-
66 GACT-TCAATCTAT
*
25348865 CCCTATGATCGGGGTAAGA
1 CCC-AAGATCGGGGTAAGA
25348884 AATCAGAATC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
77 3 0.04
78 80 0.95
79 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (78 bp):
CCCAAGATCGGGGTAAGAGACTGGCTGATGATGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT
GACTTCAATCTAT
Found at i:25350155 original size:6 final size:6
Alignment explanation
Indices: 25350146--25350265 Score: 63
Period size: 6 Copynumber: 20.2 Consensus size: 6
25350136 CGACCTCTCC
* * * * *
25350146 TTTTCTT TTTTCC TTTT-T TTCTCT TTTTGT TTTTCT TCTT-T TTTTAT
1 TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * *
25350193 TTTGCTCT TTCTTCT TCTTCT TCTTCTT TTTTCT TTTT-T CTTTC- TTTTC-
1 TTT--TCT TT-TTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT
* *
25350242 TTTTCT TTTT-T ATTTAT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
25350266 CATTGAATCC
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
5 24 0.27
6 45 0.51
7 14 0.16
8 4 0.05
9 1 0.01
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:25350163 original size:8 final size:7
Alignment explanation
Indices: 25350146--25350252 Score: 60
Period size: 7 Copynumber: 14.6 Consensus size: 7
25350136 CGACCTCTCC
25350146 TTTTCTT
1 TTTTCTT
25350153 TTTTCCTTT
1 TTTT-C-TT
25350162 TTTTCTCT
1 TTTTCT-T
*
25350170 TTTTGTTT
1 TTTT-CTT
25350178 TTCTTCTT
1 TT-TTCTT
25350186 TTTT-TAT
1 TTTTCT-T
25350193 TTTGCTCTT
1 TTT--TCTT
*
25350202 TCTTC-T
1 TTTTCTT
*
25350208 TCTTC-T
1 TTTTCTT
*
25350214 TCTTCTT
1 TTTTCTT
25350221 TTTTCTT
1 TTTTCTT
25350228 TTTTCTT
1 TTTTCTT
*
25350235 TCTTT-TC
1 T-TTTCTT
25350242 TTTTCTT
1 TTTTCTT
25350249 TTTT
1 TTTT
25350253 ATTTATTTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
6 16 0.20
7 35 0.43
8 17 0.21
9 13 0.16
10 1 0.01
ACGTcount: A:0.01, C:0.19, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:25350178 original size:15 final size:14
Alignment explanation
Indices: 25350159--25350252 Score: 66
Period size: 15 Copynumber: 6.1 Consensus size: 14
25350149 TCTTTTTTCC
25350159 TTTTTTTCTCTTTT
1 TTTTTTTCTCTTTT
*
25350173 TGTTTTTCTTCTTTT
1 TTTTTTTC-TCTTTT
25350188 TTTATTTTGCTCTTTCT
1 TTT-TTTT-CTCTTT-T
25350205 TCTTCTTCTTCTTCTTTT
1 T-TT-TT-TTC-TCTTTT
25350223 TTCTTTTT-TCTTTCT
1 TT-TTTTTCTCTTT-T
25350238 TTTCTTTTCT-TTTT
1 TTT-TTTTCTCTTTT
25350252 T
1 T
25350253 ATTTATTTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
14 15 0.23
15 18 0.27
16 12 0.18
17 6 0.09
18 8 0.12
19 7 0.11
ACGTcount: A:0.01, C:0.18, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTCTTTT
Found at i:25350179 original size:17 final size:16
Alignment explanation
Indices: 25350146--25350265 Score: 59
Period size: 16 Copynumber: 7.4 Consensus size: 16
25350136 CGACCTCTCC
**
25350146 TTTTCTTTTTTCCTTT
1 TTTTCTTTTTTATTTT
*
25350162 TTTTCTCTTTTTGTTTT
1 TTTTCT-TTTTTATTTT
*
25350179 TCTTCTTTTTT-TATTT
1 TTTTCTTTTTTAT-TTT
** * * *
25350195 TGCTCTTTCTTCTTCT
1 TTTTCTTTTTTATTTT
*
25350211 TCTTCTTCTTTT-TTCTT
1 TTTTCTT-TTTTATT-TT
* *
25350228 TTTTC-TTTCT-TTTC
1 TTTTCTTTTTTATTTT
25350242 TTTTCTTTTTTATTTAT
1 TTTTCTTTTTTATTT-T
25350259 TTTTCTT
1 TTTTCTT
25350266 CATTGAATCC
Statistics
Matches: 80, Mismatches: 16, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
14 6 0.08
15 10 0.12
16 35 0.44
17 29 0.36
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTTTATTTT
Found at i:25350187 original size:9 final size:8
Alignment explanation
Indices: 25350146--25350245 Score: 78
Period size: 8 Copynumber: 12.1 Consensus size: 8
25350136 CGACCTCTCC
25350146 TTTTCTTT
1 TTTTCTTT
*
25350154 TTTCCTTT
1 TTTTCTTT
*
25350162 TTTTCTCT
1 TTTTCTTT
*
25350170 TTTTGTTT
1 TTTTCTTT
25350178 TTCTTCTTT
1 TT-TTCTTT
*
25350187 TTTTATTT
1 TTTTCTTT
**
25350195 TGCTCTTT
1 TTTTCTTT
25350203 CTTCTTCTTCT
1 -TT-TTCTT-T
*
25350214 TCTTC-TT
1 TTTTCTTT
25350221 TTTTC-TT
1 TTTTCTTT
25350228 TTTTCTTT
1 TTTTCTTT
25350236 CTTTTCTTT
1 -TTTTCTTT
25350245 T
1 T
25350246 CTTTTTTATT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
7 12 0.17
8 35 0.49
9 19 0.26
10 5 0.07
11 1 0.01
ACGTcount: A:0.01, C:0.19, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTCTTT
Done.