Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 162 of 210
Found at i:48885307 original size:18 final size:18
Alignment explanation
Indices: 48885284--48885323 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
48885274 ACTAGTATAG
48885284 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
48885302 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
48885320 TATT
1 TATT
48885324 TACTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTCTTTGCAACATTTT
Found at i:48886550 original size:75 final size:75
Alignment explanation
Indices: 48886388--48886550 Score: 204
Period size: 75 Copynumber: 2.2 Consensus size: 75
48886378 GCTTTGTAAG
* * *
48886388 AAACGCCG-TAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGG
1 AAACGCCGCT-AAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGG
**
48886452 CGCTTGTGCAA
65 CGCTTACGCAA
* * * *
48886463 AAACGTCACTAAATATCTTAACCAAAACACATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGC
1 AAACGCCGCTAAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGC
*
48886528 AG-TTACGGAA
66 -GCTTACGCAA
48886538 AAACGCCGCTAAA
1 AAACGCCGCTAAA
48886551 GGAGAGTATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
75 72 0.97
76 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (75 bp):
AAACGCCGCTAAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGC
GCTTACGCAA
Found at i:48886737 original size:84 final size:84
Alignment explanation
Indices: 48886581--48886746 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 84
48886571 TGTAAGAAAC
* *
48886581 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCACTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
***
48886646 GTGGAAAAACGCCGCTATA
66 ACAGAAAAACGCCGCTATA
* * **
48886665 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
48886730 ACAGAAAAACGCCGCTA
66 ACAGAAAAACGCCGCTA
48886747 AAGGAGAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (84 bp):
GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
ACAGAAAAACGCCGCTATA
Found at i:48886759 original size:198 final size:197
Alignment explanation
Indices: 48886280--48886864 Score: 848
Period size: 198 Copynumber: 3.0 Consensus size: 197
48886270 TTTTTAAGCA
* * * * ** * * *
48886280 CCGCAAAAAATGTTAGCCAAAACGCATCGTTTGTTCCCGAGGTATATTAA-ACTTGGTGGCGTTT
1 CCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATA-TAAGAATTAGTGGCGGTT
* * * * * *
48886344 A-TGGAAAACGCCGCTAAATGTGAGTATTAGAGGTGCTTTGTAAGAAACGCCGTAAAATATCTTA
65 ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
*
48886408 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGCAAAAA--CG---
130 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAAGCCGCTA
48886468 T--
195 TAG
* * * *
48886469 -CACTAAATATCTTAACCAAAACACATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCAGTTA
1 CCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTA
*
48886533 CGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAA
66 CAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAA
*
48886598 CCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCACTTGTGGAAAAACGCCGCTA
131 CCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAA-GCCGCTA
48886663 TAG
195 TAG
48886666 CCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTA
1 CCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTA
* *
48886731 CAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAACGCCGCAAAATATCCTAA
66 CAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAA
*
48886796 CCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTTGTGGAAAAATGCCGCTA
131 CCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAA-GCCGCTA
48886861 TAG
195 TAG
48886864 C
1 C
48886865 ACAGTATTAG
Statistics
Matches: 354, Mismatches: 31, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
187 3 0.01
188 47 0.13
189 113 0.32
192 2 0.01
195 1 0.00
198 188 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (197 bp):
CCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTA
CAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAA
CCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAAGCCGCTAT
AG
Found at i:48886871 original size:114 final size:113
Alignment explanation
Indices: 48886669--48887311 Score: 770
Period size: 114 Copynumber: 5.6 Consensus size: 113
48886659 GCTATAGCCG
* * * **
48886669 CAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACAG
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
* *
48886734 AAAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAACGCCG
66 AAAAACGCCGCTAAAGCAGAGTATTAGAGGC-CTTTGTAAGAAACGCCA
* * * * *
48886783 CAAAATATCCTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTTGTGG
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
* * * * *
48886848 AAAAATGCCGCTATAGCACAGTATTAGCGGCGTTT-TATAGAAAACGCCA
66 AAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTTGTA-AG-AAACGCCA
* * ** * *
48886897 TAAAATATCTTAACCAAAACACATTGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTATGG
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
48886962 AAAAACGCCGCTAAATG-AGAGTATTAGAGGCGCTTTGTAAGAAACGCCA
66 AAAAACGCCGCTAAA-GCAGAGTATTAGAGGC-CTTTGTAAGAAACGCCA
* * * *
48887011 CGAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGG
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
* * * * * *
48887076 AAAAACGCCGCTATAGCATAGTATTGGCGGCGTTTGGTATGAAACGCCA
66 AAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTT-GTAAGAAACGCCA
* * * * * *
48887125 TAAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCAG-TTACG
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGC-GCTTATG
* * * *
48887189 GAAAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTTTAAGAATCGCCG
65 GAAAAACGCCGCTAAAGCAGAGTATTAGAGGC-CTTTGTAAGAAACGCCA
* * * *
48887239 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAACTAGTGGCGCTCATGT
1 CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
48887304 AAAAACGC
66 AAAAACGC
48887312 ATGTAGGTTT
Statistics
Matches: 439, Mismatches: 80, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
112 2 0.00
113 10 0.02
114 415 0.95
115 10 0.02
116 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (113 bp):
CAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTTATGG
AAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTTGTAAGAAACGCCA
Found at i:48886953 original size:228 final size:227
Alignment explanation
Indices: 48886670--48887298 Score: 1008
Period size: 228 Copynumber: 2.8 Consensus size: 227
48886660 CTATAGCCGC
*
48886670 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACAGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* *
48886735 AAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAACGCCGCAAAATATCCTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
* *
48886800 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTTGTGGAAAAATGCCGCTATAGC
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
48886865 ACAGTATTAGCGGCGTTT-TATAGAAAACGCCAT
196 ACAGTATTAGCGGCGTTTGTAT-G-AAACGCCAT
* * *
48886898 AAAATATCTTAACCAAAACACATTGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTATGGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* * *
48886963 AAAACGCCGCTAAATGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCACGAAATATCTTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
48887028 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
* *
48887093 ATAGTATTGGCGGCGTTTGGTATGAAACGCCAT
196 ACAGTATTAGCGGCGTTT-GTATGAAACGCCAT
* * * * *
48887126 AAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCAGTTACGGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* * * *
48887191 AAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTTTAAGAATCGCCGCAAAATATCTTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
* *
48887256 AACGCAGCGTTTGGTCTTGATGTATATTAGAACTAGTGGCGCT
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
48887299 CATGTAAAAA
Statistics
Matches: 369, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
228 365 0.99
229 1 0.00
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (227 bp):
AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
ACAGTATTAGCGGCGTTTGTATGAAACGCCAT
Found at i:48887623 original size:13 final size:13
Alignment explanation
Indices: 48887605--48887672 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
48887595 AGTTTAGTGC
48887605 TTTGGGTTTAGGG
1 TTTGGGTTTAGGG
*
48887618 TTTGGG---A-GT
1 TTTGGGTTTAGGG
*
48887627 TTTGGGTTTAAGG
1 TTTGGGTTTAGGG
48887640 TTTGGGGTTT-GGG
1 TTT-GGGTTTAGGG
*
48887653 TTTGGGTTTGGGG
1 TTTGGGTTTAGGG
48887666 TTTGGGT
1 TTTGGGT
48887673 CGCTTTAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 7 0.15
10 1 0.02
12 7 0.15
13 25 0.54
14 6 0.13
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (13 bp):
TTTGGGTTTAGGG
Found at i:48887672 original size:6 final size:7
Alignment explanation
Indices: 48887608--48887671 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
48887598 TTAGTGCTTT
*
48887608 GGGTTTA
1 GGGTTTG
48887615 GGGTTTG
1 GGGTTTG
*
48887622 GGAGTTTT
1 GG-GTTTG
*
48887630 GGGTTTA
1 GGGTTTG
*
48887637 AGGTTTG
1 GGGTTTG
48887644 GGGTTT-
1 GGGTTTG
48887650 GGGTTT-
1 GGGTTTG
48887656 GGGTTTG
1 GGGTTTG
48887663 GGGTTTG
1 GGGTTTG
48887670 GG
1 GG
48887672 TCGCTTTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 12 0.24
7 31 0.63
8 6 0.12
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (7 bp):
GGGTTTG
Found at i:48888221 original size:12 final size:12
Alignment explanation
Indices: 48888204--48888230 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48888194 AAAAATTTTA
48888204 AATAATATTAAT
1 AATAATATTAAT
48888216 AATAATATTAAT
1 AATAATATTAAT
48888228 AAT
1 AAT
48888231 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:48889624 original size:39 final size:39
Alignment explanation
Indices: 48889554--48889632 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
48889544 GACTTTGTGG
48889554 ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
1 ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
* **
48889593 ATTACTTGGTATTCTTTTTTTGGTA-TTTTGTTTTGGCAC
1 ATTACTTGGTATTC-TATTTTGGTAGGATTGTTTTGGCAC
48889632 A
1 A
48889633 GTTTCTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.16, C:0.10, G:0.20, T:0.53
Consensus pattern (39 bp):
ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
Found at i:48889833 original size:45 final size:44
Alignment explanation
Indices: 48889741--48889839 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
48889731 TTTGAAAACT
* * *
48889741 ATGTTAAGCTATGTTAAACATTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTACGTTAAACATTTTGAATGTTAA-CACAGTTTCGA
*
48889786 ATGTTTAGCTACGTTAAACTATGTTTTGAATGTTAA-ACA-TTTCGA
1 ATGTTAAGCTACGTTAAAC-A--TTTTGAATGTTAACACAGTTTCGA
48889831 ATGTTAAGC
1 ATGTTAAGC
48889840 ATATGAGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
45 30 0.65
46 3 0.07
48 13 0.28
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (44 bp):
ATGTTAAGCTACGTTAAACATTTTGAATGTTAACACAGTTTCGA
Found at i:48890194 original size:21 final size:20
Alignment explanation
Indices: 48890168--48890206 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
48890158 ATTTGGTTTG
48890168 TTTGTATACAATTCTATTTTT
1 TTTGTATACAATT-TATTTTT
*
48890189 TTTGTATACTATTTATTT
1 TTTGTATACAATTTATTT
48890207 ATATTTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTGTATACAATTTATTTTT
Found at i:48890950 original size:41 final size:40
Alignment explanation
Indices: 48890904--48891498 Score: 448
Period size: 41 Copynumber: 14.5 Consensus size: 40
48890894 ACTTTTTTAG
* *
48890904 ATTTTCATAGTACATAACTTACATAATATTGAACTTACTTA
1 ATTTTCATAATACATAACTTACATAATATT-AACTTACATA
* *
48890945 ATTTTCATAATA-AT--TTTCACAGT-ACA-TAACTTACATA
1 ATTTTCATAATACATAACTT-ACA-TAATATTAACTTACATA
* **
48890982 ATTTTCATAACCTACATAACTTA-TTCAATACACAACTTACATA
1 ATTTTCATAA--TACATAACTTACAT-AATA-TTAACTTACATA
* *
48891025 ATTGTTTATAATACATAGCTTACATAATATTGAACTTACATA
1 ATT-TTCATAATACATAACTTACATAATATT-AACTTACATA
*
48891067 ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
1 ATTTTCATAATACATAACTTACATAATATT-AACTTACATA
*
48891108 ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
1 ATTTTCATAATACATAACTTACATAATATT-AACTTACATA
* * *
48891149 ATTTTCATAATACATAACTTACTTAA-ATT-TCATA-ATA
1 ATTTTCATAATACATAACTTACATAATATTAACTTACATA
* * * * *
48891186 AGTTTCATAGTACATAACTTACTTAA-ATT-TCATA-ATA
1 ATTTTCATAATACATAACTTACATAATATTAACTTACATA
* * *
48891223 ATTTTCATAGTACATAACTTACATAATTTTCATAACCTACATA
1 ATTTTCATAATACATAACTTACATAA-TAT--TAACTTACATA
* * * * * *
48891266 ACTTATACAATACACAGCTTACTTAAATTTCATAATACATAACTTACTTA
1 A-TT-TTC-AT--A-A---TACATAACTTACATAATA-TTAACTTACATA
* * * *
48891316 AATTTCATAATA-AT---TTTCATAGTACATAACTTACATA
1 ATTTTCATAATACATAACTTACATAATA-TTAACTTACATA
* * * * *
48891353 ATTTTCATAACCTACATAACTTATACAATACATAGCTTACTTA
1 ATTTTCATAA--TACATAACTTACATAATA-TTAACTTACATA
* *
48891396 AATTTCATAATACATAGCTTACATAATATTGAACTTACATA
1 ATTTTCATAATACATAACTTACATAATATT-AACTTACATA
*
48891437 ATTTTCGTAATACATAACTTACATAATATTGAACTTACATA
1 ATTTTCATAATACATAACTTACATAATATT-AACTTACATA
48891478 ATTTTCATAATACATAACTTA
1 ATTTTCATAATACATAACTTA
48891499 TTTAATTTTC
Statistics
Matches: 458, Mismatches: 59, Indels: 74
0.77 0.10 0.13
Matches are distributed among these distances:
37 111 0.24
38 6 0.01
39 11 0.02
40 12 0.03
41 198 0.43
42 32 0.07
43 44 0.10
44 9 0.02
45 3 0.01
46 2 0.00
47 2 0.00
48 3 0.01
49 1 0.00
50 10 0.02
51 1 0.00
52 13 0.03
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.39
Consensus pattern (40 bp):
ATTTTCATAATACATAACTTACATAATATTAACTTACATA
Found at i:48891116 original size:25 final size:25
Alignment explanation
Indices: 48891077--48891134 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
48891067 ATTTTCATAG
* *
48891077 TACATAACTTACATAATA-TTGAACT
1 TACATAATTTACATAATACAT-AACT
* *
48891102 TACATAATTTTCATAGTACATAACT
1 TACATAATTTACATAATACATAACT
48891127 TACATAAT
1 TACATAAT
48891135 ATTGAACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (25 bp):
TACATAATTTACATAATACATAACT
Found at i:48891167 original size:25 final size:25
Alignment explanation
Indices: 48891139--48891270 Score: 76
Period size: 25 Copynumber: 5.2 Consensus size: 25
48891129 CATAATATTG
48891139 AACTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAT
* *
48891164 AACTTACTTAAATTTCATAATA-AGT
1 AACTTACATAATTTTCATAATACA-T
** * * *
48891189 TTCATAGTACATAACTTAC-T--TAAAT
1 AAC-T--TACATAATTTTCATAATACAT
** * *
48891214 TTCATA-ATAATTTTCATAGTACAT
1 AACTTACATAATTTTCATAATACAT
48891238 AACTTACATAATTTTCATAACCTACAT
1 AACTTACATAATTTTCATAA--TACAT
48891265 AACTTA
1 AACTTA
48891271 TACAATACAC
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 7 0.09
22 3 0.04
24 8 0.10
25 40 0.49
26 2 0.02
27 12 0.15
28 9 0.11
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (25 bp):
AACTTACATAATTTTCATAATACAT
Found at i:48891302 original size:142 final size:140
Alignment explanation
Indices: 48891098--48891514 Score: 415
Period size: 142 Copynumber: 2.9 Consensus size: 140
48891088 CATAATATTG
* * *** *
48891098 AACTTACATAATTTTCATAGTACATAACTTACATAATATTGAACTTACATAATTTTCATAATACA
1 AACTTACATAATTTTCATACTACATAACTTACACAATACACAACTTACATAAATTTCATAATACA
*
48891163 TAACTTACTTAAATTTCATAATAAGTTTCATAGTACATAACTTACTTAAATTTCATAATAATTTT
66 TAACTTACTTAAATTTCATAATAAGTTTCATAGTACATAACTTACATAAATTTCATAATAATTTT
48891228 CATAGTACAT
131 CATAGTACAT
* * *
48891238 AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAATA
1 AACTTACATAATTTTCAT-A-CTACATAACTTACACAATACACAACTTACATAAATTTCATAATA
* *
48891303 CATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTTCATAACCTAC
64 CATAACTTACTTAAATTTCATAATAAGTTTCATAGTACATAACTTACATAAATTTCATAA--TA-
48891368 ATAACTTATACA-A-TACAT
126 AT---TT-T-CATAGTACAT
* * * * * * *** * *
48891386 AGCTTACTTAAATTTCATAATACATAGCTTACATAATATTGAACTTACATAATTTTCGTAATACA
1 AACTTACATAATTTTCATACTACATAACTTACACAATACACAACTTACATAAATTTCATAATACA
* * * * * ** *
48891451 TAACTTACATAATATTGAACTTACATAATTTTCATAATACATAACTTATTTAATTTTCATAATA
66 TAACTTACTTAA-ATT--TCATA-ATAAGTTTCATAGTACATAACTTACATAAATTTCATAATA
48891515 TAAAACTTAC
Statistics
Matches: 231, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
140 18 0.08
141 1 0.00
142 92 0.40
144 2 0.01
145 2 0.01
146 46 0.20
147 4 0.02
148 24 0.10
149 5 0.02
150 37 0.16
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.40
Consensus pattern (140 bp):
AACTTACATAATTTTCATACTACATAACTTACACAATACACAACTTACATAAATTTCATAATACA
TAACTTACTTAAATTTCATAATAAGTTTCATAGTACATAACTTACATAAATTTCATAATAATTTT
CATAGTACAT
Found at i:48891311 original size:25 final size:25
Alignment explanation
Indices: 48891274--48891327 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
48891264 TAACTTATAC
*
48891274 AATACACAGCTTACTTAAATTTCAT
1 AATACACAACTTACTTAAATTTCAT
*
48891299 AATACATAACTTACTTAAATTTCAT
1 AATACACAACTTACTTAAATTTCAT
48891324 AATA
1 AATA
48891328 ATTTTCATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (25 bp):
AATACACAACTTACTTAAATTTCAT
Found at i:48891313 original size:105 final size:105
Alignment explanation
Indices: 48891188--48891463 Score: 444
Period size: 105 Copynumber: 2.6 Consensus size: 105
48891178 TCATAATAAG
*
48891188 TTTCATAGTACATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTT
1 TTTCATAATACATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTT
48891253 CATAACCTACATAACTTATACAATACACAGCTTACTTAAA
66 CATAACCTACATAACTTATACAATACACAGCTTACTTAAA
48891293 TTTCATAATACATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTT
1 TTTCATAATACATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTT
*
48891358 CATAACCTACATAACTTATACAATACATAGCTTACTTAAA
66 CATAACCTACATAACTTATACAATACACAGCTTACTTAAA
* * * * * *
48891398 TTTCATAATACATAGCTTACATAATATTGAACTTACATAATTTTCGTAATACATAACTTACATAA
1 TTTCATAATACATAACTTACTTAA-ATT--TCATA-ATAATTTTCATAGTACATAACTTACATAA
48891463 T
62 T
48891464 ATTGAACTTA
Statistics
Matches: 159, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
105 125 0.79
106 3 0.02
108 3 0.02
109 28 0.18
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (105 bp):
TTTCATAATACATAACTTACTTAAATTTCATAATAATTTTCATAGTACATAACTTACATAATTTT
CATAACCTACATAACTTATACAATACACAGCTTACTTAAA
Found at i:48891432 original size:16 final size:15
Alignment explanation
Indices: 48891413--48891479 Score: 54
Period size: 16 Copynumber: 4.7 Consensus size: 15
48891403 TAATACATAG
48891413 CTTACATAATATTGAA
1 CTTACATAATATT-AA
*
48891429 CTTACATAAT-TT-T
1 CTTACATAATATTAA
* *
48891442 CGTA-AT-ACA-TAA
1 CTTACATAATATTAA
48891454 CTTACATAATATTGAA
1 CTTACATAATATT-AA
48891470 CTTACATAAT
1 CTTACATAAT
48891480 TTTCATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
11 2 0.05
12 5 0.13
13 5 0.13
14 2 0.05
15 3 0.08
16 22 0.56
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (15 bp):
CTTACATAATATTAA
Found at i:48891475 original size:25 final size:24
Alignment explanation
Indices: 48891447--48891532 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 24
48891437 ATTTTCGTAA
48891447 TACATAACTTACATAATATTGAACT
1 TACATAACTTACATAATATT-AACT
* * *
48891472 TACATAATTTTCATAATACATAACT
1 TACATAACTTACATAATA-TTAACT
** * * *
48891497 TATTTAATTTTCATAATATAAAACT
1 TACATAACTTACATAATAT-TAACT
48891522 TACATAACTTA
1 TACATAACTTA
48891533 TACAGTACAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (24 bp):
TACATAACTTACATAATATTAACT
Found at i:48891522 original size:50 final size:50
Alignment explanation
Indices: 48891447--48891606 Score: 139
Period size: 50 Copynumber: 3.2 Consensus size: 50
48891437 ATTTTCGTAA
* * ** *
48891447 TACATAACTTACATAATATTGAACTTACATAATTTTCATAATACATAACT
1 TACATAATTTTCATAATATAAAACTTACATAATTTTCATAATACACAACT
** * *
48891497 TATTTAATTTTCATAATATAAAACTTACATAA-CTT-ATACAGTACACAGCT
1 TACATAATTTTCATAATATAAAACTTACATAATTTTCATA-A-TACACAACT
* * *
48891547 TACATAATTTTCATAATACATAAC-TAGCATAATTTTTCATAATACAGC-AGT
1 TACATAATTTTCATAATATAAAACTTA-CATAA-TTTTCATAATACA-CAACT
48891598 TACATAATT
1 TACATAATT
48891607 CTTAAAGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
48 3 0.03
49 5 0.06
50 58 0.67
51 14 0.16
52 4 0.05
53 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (50 bp):
TACATAATTTTCATAATATAAAACTTACATAATTTTCATAATACACAACT
Found at i:48891566 original size:25 final size:25
Alignment explanation
Indices: 48891468--48891606 Score: 124
Period size: 25 Copynumber: 5.5 Consensus size: 25
48891458 CATAATATTG
*
48891468 AACTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
** * *
48891493 AACTTATTTAATTTTCATAATATAA
1 AACTTACATAATTTTCATAATACAC
*
48891518 AACTTACATAA-CTT-ATACAGTACAC
1 AACTTACATAATTTTCATA-A-TACAC
* *
48891543 AGCTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
48891568 AAC-TAGCATAATTTTTCATAATACAGC
1 AACTTA-CATAA-TTTTCATAATACA-C
*
48891595 -AGTTACATAATT
1 AACTTACATAATT
48891607 CTTAAAGAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.03
24 5 0.05
25 56 0.62
26 22 0.24
27 5 0.05
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (25 bp):
AACTTACATAATTTTCATAATACAC
Found at i:48891603 original size:26 final size:25
Alignment explanation
Indices: 48891538--48891606 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
48891528 ACTTATACAG
48891538 TACACAGCTTACATAA-TTTTCATAA
1 TACACAG-TTACATAATTTTTCATAA
* **
48891563 TACATAACTAGCATAATTTTTCATAA
1 TACACAGTTA-CATAATTTTTCATAA
48891589 TACAGCAGTTACATAATT
1 TACA-CAGTTACATAATT
48891607 CTTAAAGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.06
25 10 0.29
26 20 0.57
27 3 0.09
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (25 bp):
TACACAGTTACATAATTTTTCATAA
Found at i:48893574 original size:23 final size:23
Alignment explanation
Indices: 48893547--48893622 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
48893537 AGTGTTATTG
*
48893547 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48893570 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48893593 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48893616 ATCAGTG
1 ATCAGTG
48893623 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48899221 original size:21 final size:21
Alignment explanation
Indices: 48899195--48899241 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
48899185 CTACAACTTA
*
48899195 AAGCAGAGGCGGCACCGAGGG
1 AAGCAGAGGCGGCACCGAGAG
* *
48899216 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCACCGAGAG
48899237 AAGCA
1 AAGCA
48899242 AAGCAGAGCA
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:0.21, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCACCGAGAG
Found at i:48902520 original size:2 final size:2
Alignment explanation
Indices: 48902513--48902555 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
48902503 AATATGCTTT
48902513 TA 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 TA
48902555 T
1 T
48902556 CTTTTGGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48906674 original size:84 final size:84
Alignment explanation
Indices: 48906562--48907065 Score: 882
Period size: 84 Copynumber: 6.0 Consensus size: 84
48906552 CGCAAAAAAT
* *
48906562 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGTGCTGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
48906627 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
48906646 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTTGTCTAGAGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
48906711 AATGTTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
*
48906730 AAAATACAATGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
48906795 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* * *
48906814 AAAATACAACGGCGTCGTTTATTGGCCTTTGGTGGCCTTAGTGGCGTTTTTTGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
48906879 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
*
48906898 AAAATACAACGGCATCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
48906963 AATGGTATGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
48906982 AAAATACAACGGCGTCGTTTTGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
48907047 AATGGTATGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
48907066 GGCGTTTTCA
Statistics
Matches: 400, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 400 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:48907739 original size:14 final size:14
Alignment explanation
Indices: 48907686--48907740 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
48907676 TGGCCGAGAT
48907686 TTAAGATTTAGGGG
1 TTAAGATTTAGGGG
* *
48907700 TTAGGGGTTTAGGGG
1 TTA-AGATTTAGGGG
*
48907715 TT-AGATGTTAGTGG
1 TTAAGAT-TTAGGGG
48907729 TTAAGATTTAGG
1 TTAAGATTTAGG
48907741 AATTTAGGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 2 0.06
14 15 0.47
15 15 0.47
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGATTTAGGGG
Found at i:48908046 original size:32 final size:32
Alignment explanation
Indices: 48908001--48908077 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
48907991 TGGCGGAGTT
*
48908001 TTTGTT-CCAAACGCCGGAAAAAATTCTTAAA
1 TTTGTTACAAAACGCCGGAAAAAATTCTTAAA
*
48908032 TTTGTTACAAAACGCCGGAAAAAATTTTTAAA
1 TTTGTTACAAAACGCCGGAAAAAATTCTTAAA
*
48908064 TTTTTTACAAAACG
1 TTTGTTACAAAACG
48908078 GCGTAGCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 6 0.14
32 36 0.86
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (32 bp):
TTTGTTACAAAACGCCGGAAAAAATTCTTAAA
Found at i:48908534 original size:28 final size:28
Alignment explanation
Indices: 48908515--48908597 Score: 148
Period size: 28 Copynumber: 3.0 Consensus size: 28
48908505 AAAAGAAATA
48908515 AAAACACTAAAATTTAAAAATATTAGTG
1 AAAACACTAAAATTTAAAAATATTAGTG
48908543 AAAACACTAAAATTTAAAAATATTAGTG
1 AAAACACTAAAATTTAAAAATATTAGTG
* *
48908571 AAAACACTAAAATTTATAATTATTAGT
1 AAAACACTAAAATTTAAAAATATTAGT
48908598 ACTATATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.31
Consensus pattern (28 bp):
AAAACACTAAAATTTAAAAATATTAGTG
Found at i:48909112 original size:32 final size:32
Alignment explanation
Indices: 48909048--48909112 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
48909038 ATCTGTTGCA
* ** *
48909048 TTGTCGTCGACCGTCTCTTCTGCTGGCGCTCG
1 TTGTCGTCGACCATCTCTTCTGCCAGCACTCG
*
48909080 TTGTCGTCGACCATCTCTTTTGCCAGCACTCG
1 TTGTCGTCGACCATCTCTTCTGCCAGCACTCG
48909112 T
1 T
48909113 CTACCGTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.34, G:0.23, T:0.35
Consensus pattern (32 bp):
TTGTCGTCGACCATCTCTTCTGCCAGCACTCG
Found at i:48910169 original size:14 final size:14
Alignment explanation
Indices: 48910150--48910179 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
48910140 TAAAAGGTTT
48910150 TTTAGTTAATCATC
1 TTTAGTTAATCATC
48910164 TTTAGTTAATCATC
1 TTTAGTTAATCATC
48910178 TT
1 TT
48910180 ACTGTTCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:48910927 original size:55 final size:55
Alignment explanation
Indices: 48910866--48910981 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 55
48910856 TTAATATAAG
*
48910866 ATATTTTTAATATATGCAATCTATATTTTTAATATACGGCATGGATATGTAACAT
1 ATATTTTTAATAGATGCAATCTATATTTTTAATATACGGCATGGATATGTAACAT
* * *
48910921 ATATTTTTAATAGATGCAATTTATATTTTTAATATATGGTATGGATATGTAACAT
1 ATATTTTTAATAGATGCAATCTATATTTTTAATATACGGCATGGATATGTAACAT
48910976 ATATTT
1 ATATTT
48910982 CAAATTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (55 bp):
ATATTTTTAATAGATGCAATCTATATTTTTAATATACGGCATGGATATGTAACAT
Found at i:48911169 original size:28 final size:28
Alignment explanation
Indices: 48911136--48911249 Score: 88
Period size: 32 Copynumber: 3.9 Consensus size: 28
48911126 TCAATCATAT
*
48911136 CATAACTTATAT-ATAAACTTACATAATA
1 CATAACTTACATAAT-AACTTACATAATA
48911164 CATAACTTACATAATAACTTACATAACTTA
1 CATAACTTACATAATAACTTACATAA--TA
* * * *
48911194 TATAGAACTTATATAACAACTTGCATAACTTA
1 CAT--AACTTACATAATAACTTACATAA--TA
* *
48911226 CATAA-TAACATAATAACGTACATA
1 CATAACTTACATAATAACTTACATA
48911250 CTATATAGCC
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
28 22 0.31
29 16 0.23
30 6 0.09
32 26 0.37
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (28 bp):
CATAACTTACATAATAACTTACATAATA
Found at i:48911176 original size:9 final size:9
Alignment explanation
Indices: 48911151--48911497 Score: 139
Period size: 9 Copynumber: 39.7 Consensus size: 9
48911141 CTTATATATA
48911151 AACTTACAT
1 AACTTACAT
48911160 AA--TACAT
1 AACTTACAT
48911167 AACTTACATAAT
1 AACTTAC---AT
48911179 AACTTACAT
1 AACTTACAT
*
48911188 AACTTATAT
1 AACTTACAT
*
48911197 AGAACTTATAT
1 --AACTTACAT
*
48911208 AACAACTTGCAT
1 ---AACTTACAT
48911220 AACTTACAT
1 AACTTACAT
*
48911229 AA-TAACATAAT
1 AACTTAC---AT
*
48911240 AACGTACAT
1 AACTTACAT
*
48911249 -AC-TATAT
1 AACTTACAT
* * *
48911256 AGCCTACGT
1 AACTTACAT
* *
48911265 AAATTGCAT
1 AACTTACAT
*
48911274 AACTCACAT
1 AACTTACAT
*
48911283 AA--TACAC
1 AACTTACAT
48911290 AACTTACAT
1 AACTTACAT
* *
48911299 AACTAAAAT
1 AACTTACAT
48911308 AACTTACAT
1 AACTTACAT
48911317 AA--TACAT
1 AACTTACAT
48911324 AACTTACAT
1 AACTTACAT
48911333 AACTTA-ATT
1 AACTTACA-T
48911342 AA-TTA-AT
1 AACTTACAT
*
48911349 -ACTAAACAT
1 AACT-TACAT
*
48911358 AACTTGTCA-
1 AACTT-ACAT
*
48911367 GACTTACAT
1 AACTTACAT
48911376 AACTTACAT
1 AACTTACAT
*
48911385 AA--TACAC
1 AACTTACAT
*
48911392 AACTTACAC
1 AACTTACAT
48911401 AACTTACAT
1 AACTTACAT
*
48911410 AA--TACAC
1 AACTTACAT
*
48911417 AACTTATAT
1 AACTTACAT
* *
48911426 AACTTAAAA
1 AACTTACAT
48911435 AACTTACAT
1 AACTTACAT
*
48911444 AA--TACAC
1 AACTTACAT
*
48911451 AACTTATAT
1 AACTTACAT
* *
48911460 ATCTTTCAT
1 AACTTACAT
48911469 AACTTAC-T
1 AACTTACAT
*
48911477 TA--TA-AT
1 AACTTACAT
48911483 AACTTACAT
1 AACTTACAT
48911492 AACTTA
1 AACTTA
48911498 TTAATATTTA
Statistics
Matches: 251, Mismatches: 52, Indels: 70
0.67 0.14 0.19
Matches are distributed among these distances:
6 5 0.02
7 43 0.17
8 18 0.07
9 148 0.59
10 5 0.02
11 13 0.05
12 19 0.08
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:48911234 original size:12 final size:12
Alignment explanation
Indices: 48911165--48911189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48911155 TACATAATAC
48911165 ATAACTTACATA
1 ATAACTTACATA
48911177 ATAACTTACATA
1 ATAACTTACATA
48911189 A
1 A
48911190 CTTATATAGA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:48911310 original size:34 final size:34
Alignment explanation
Indices: 48911272--48911495 Score: 145
Period size: 34 Copynumber: 6.9 Consensus size: 34
48911262 CGTAAATTGC
*
48911272 ATAACTCACATAATACACAACTTACATAACTAAA
1 ATAACTTACATAATACACAACTTACATAACTAAA
* *
48911306 ATAACTTACATAATACATAACTTACATAACTTAA
1 ATAACTTACATAATACACAACTTACATAACTAAA
* * * * * * *
48911340 TTAA-TTA-ATACTAAACATAACTTGTCA-GACTTAC
1 ATAACTTACATA--ATACACAACTT-ACATAACTAAA
48911374 ATAACTTACATAATACACAACTTAC---AC----
1 ATAACTTACATAATACACAACTTACATAACTAAA
*
48911401 --AACTTACATAATACACAACTTATATAACTTAAA
1 ATAACTTACATAATACACAACTTACATAAC-TAAA
* * ***
48911434 A-AACTTACATAATACACAACTTATATATCTTTC
1 ATAACTTACATAATACACAACTTACATAACTAAA
* *
48911467 ATAACTTAC-TTATA-ATAACTTACATAACT
1 ATAACTTACATAATACACAACTTACATAACT
48911496 TATTAATATT
Statistics
Matches: 154, Mismatches: 21, Indels: 32
0.74 0.10 0.15
Matches are distributed among these distances:
25 22 0.14
28 2 0.01
31 2 0.01
32 15 0.10
33 10 0.06
34 95 0.62
35 5 0.03
36 3 0.02
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (34 bp):
ATAACTTACATAATACACAACTTACATAACTAAA
Found at i:48911322 original size:25 final size:26
Alignment explanation
Indices: 48911293--48911362 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
48911283 AATACACAAC
48911293 TTACATAACTAAAATAACTTACA-TAA
1 TTACATAACTAAAATAACTTA-ATTAA
* *
48911319 -TACATAACTTACATAACTTAATTAA
1 TTACATAACTAAAATAACTTAATTAA
48911344 TTA-AT-ACTAAACATAACTT
1 TTACATAACTAAA-ATAACTT
48911363 GTCAGACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.14
25 30 0.81
26 2 0.05
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (26 bp):
TTACATAACTAAAATAACTTAATTAA
Found at i:48911398 original size:25 final size:25
Alignment explanation
Indices: 48911368--48911431 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
48911358 AACTTGTCAG
48911368 ACTTACATAACTTACATAATACACA
1 ACTTACATAACTTACATAATACACA
*
48911393 ACTTACACAACTTACATAATACACA
1 ACTTACATAACTTACATAATACACA
*
48911418 ACTTATATAACTTA
1 ACTTACATAACTTA
48911432 AAAAACTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACACA
Found at i:48911495 original size:23 final size:22
Alignment explanation
Indices: 48911452--48911497 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
48911442 ATAATACACA
* *
48911452 ACTTATATATCTTTCATAACTT
1 ACTTATATAACTTACATAACTT
48911474 ACTTATAATAACTTACATAACTT
1 ACTTAT-ATAACTTACATAACTT
48911497 A
1 A
48911498 TTAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
ACTTATATAACTTACATAACTT
Found at i:48919424 original size:21 final size:21
Alignment explanation
Indices: 48919380--48919421 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48919370 GTGAAAAGTA
**
48919380 AAAAATAAAAATTAAATTCTT
1 AAAAATAAAAATTAAAAACTT
48919401 AAAAATAAAAATATAAAAACT
1 AAAAATAAAAAT-TAAAAACT
48919422 AAATTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATAAAAATTAAAAACTT
Found at i:48926934 original size:2 final size:2
Alignment explanation
Indices: 48926929--48926960 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48926919 ATATATAGAC
48926929 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48926961 TGTGTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48938994 original size:26 final size:27
Alignment explanation
Indices: 48938956--48939018 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
48938946 ATAAAAAATA
48938956 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
*
48938982 ATCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
48939009 ACCAAAATAT
1 ACCAAAATAT
48939019 ACCTGTAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:48940086 original size:3 final size:3
Alignment explanation
Indices: 48940080--48940149 Score: 106
Period size: 3 Copynumber: 23.3 Consensus size: 3
48940070 TTTTTTTTAG
*
48940080 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
48940128 -TA TTA TATA GTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA T
48940150 ACTTACATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 57 0.93
4 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48940229 original size:2 final size:2
Alignment explanation
Indices: 48940213--48940256 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
48940203 TTAAAACACC
* *
48940213 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48940254 TA T
1 TA T
48940257 TTATTTGCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48940406 original size:2 final size:2
Alignment explanation
Indices: 48940399--48940451 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
48940389 CATTATGTTC
48940399 TA 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 TA
48940441 TA TA TA TA TA T
1 TA TA TA TA TA T
48940452 TTTTTTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48940533 original size:21 final size:21
Alignment explanation
Indices: 48940500--48940555 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
48940490 ACCTCATACT
*
48940500 TTATATATCTATATATGTACATA
1 TTAT-TATTTATAT-TGTACATA
* *
48940523 TT-TTATTTATATTTTACTTA
1 TTATTATTTATATTGTACATA
48940543 TTATTATTT-TATT
1 TTATTATTTATATT
48940556 TTCACCATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.41
21 14 0.48
22 1 0.03
23 2 0.07
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTATTTATATTGTACATA
Found at i:48943499 original size:43 final size:43
Alignment explanation
Indices: 48943408--48943526 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
48943398 ACCGAGATTA
* * * * *
48943408 CGTGTAAGACCATATCTGGGATA-TGACATTGATATGAGACTT
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATGAGACTT
* *
48943450 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATGTGATTT
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATGAGACTT
* *
48943493 TGTGTAAGACCATGGCTAGG-CTATTGGCATCGAT
1 CGTGTAAGACCATGTCTAGGAC-ATTGGCATCGAT
48943527 GCGAGATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
42 21 0.32
43 45 0.68
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATTGGCATCGATATGAGACTT
Found at i:48943542 original size:43 final size:43
Alignment explanation
Indices: 48943400--48943544 Score: 107
Period size: 43 Copynumber: 3.4 Consensus size: 43
48943390 ATTAGGTTAC
* ** * * * *
48943400 CGAGATTACGTGTAAGACCATATCTGGGATA-TGACATTGATA
1 CGAGATTACATGTAAGACCATGGCTAGGACATTGGCATCGATA
* * *
48943442 TGAGACTT-CGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 CGAGA-TTACATGTAAGACCATGGCTAGGACATTGGCATCGATA
* * *** *
48943485 TGTGATTTTGTGTAAGACCATGGCTAGG-CTATTGGCATCGATG
1 CGAGATTACATGTAAGACCATGGCTAGGAC-ATTGGCATCGATA
48943528 CGAGATTACATGTAAGA
1 CGAGATTACATGTAAGA
48943545 TCATATCTGG
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.32
43 57 0.68
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
CGAGATTACATGTAAGACCATGGCTAGGACATTGGCATCGATA
Found at i:48948335 original size:163 final size:163
Alignment explanation
Indices: 48948057--48948381 Score: 578
Period size: 163 Copynumber: 2.0 Consensus size: 163
48948047 ATGGTGCCAG
*
48948057 TCTTTATTATTTCGGATAGAGATCCGAAGTCTATATAGTGATTCTAAGAGAAAGTACAGTAAGTT
1 TCTTCATTATTTCGGATAGAGATCCGAAGTCTATATAGTGATTCTAAGAGAAAGTACAGTAAGTT
* *
48948122 TTGAGTATGAGGTTGTATTGTAATATCATAATTCATCTTTAAACGAATAGCTAAATAGAGAAAGT
66 TTGAGTATGAGGTTGTATTGTAATATCATAATTCATCCTTAAACGAATAGCTAAACAGAGAAAGT
**
48948187 GATTCGGGTTCTCGAAAGTATGGTAGATCACTT
131 GATTCAAGTTCTCGAAAGTATGGTAGATCACTT
48948220 TCTTCATTATTTCGGATAGAGATCCGAAGTCTATATAGTGATTCTAAGAGAAAGTACAGTAAGTT
1 TCTTCATTATTTCGGATAGAGATCCGAAGTCTATATAGTGATTCTAAGAGAAAGTACAGTAAGTT
* *
48948285 TTGAGTATGAGGTTGTATTGTAATATCGTAATTCATCCTTAAATGAATAGCTAAACAGAGAAAGT
66 TTGAGTATGAGGTTGTATTGTAATATCATAATTCATCCTTAAACGAATAGCTAAACAGAGAAAGT
*
48948350 GATTCAAGTTCTCGAAAGTATGGTGGATCACT
131 GATTCAAGTTCTCGAAAGTATGGTAGATCACT
48948382 GTGTTTTAGA
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 154 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (163 bp):
TCTTCATTATTTCGGATAGAGATCCGAAGTCTATATAGTGATTCTAAGAGAAAGTACAGTAAGTT
TTGAGTATGAGGTTGTATTGTAATATCATAATTCATCCTTAAACGAATAGCTAAACAGAGAAAGT
GATTCAAGTTCTCGAAAGTATGGTAGATCACTT
Found at i:48952919 original size:9 final size:9
Alignment explanation
Indices: 48952905--48952941 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48952895 TATAGTTTGA
48952905 TATTCGAAT
1 TATTCGAAT
48952914 TATTCGAAT
1 TATTCGAAT
*
48952923 TATTCGAGT
1 TATTCGAAT
48952932 TATTCGAAT
1 TATTCGAAT
48952941 T
1 T
48952942 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48953011 original size:9 final size:9
Alignment explanation
Indices: 48952994--48953024 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48952984 TCGAGTTGAT
48952994 TCGAATAAC
1 TCGAATAAC
*
48953003 TCGATTAAC
1 TCGAATAAC
48953012 TCGAATAAC
1 TCGAATAAC
48953021 TCGA
1 TCGA
48953025 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:48967878 original size:25 final size:25
Alignment explanation
Indices: 48967844--48967894 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48967834 CTAAACCCAA
48967844 AGAACCCGTGCCAGAGACGGCAGAC
1 AGAACCCGTGCCAGAGACGGCAGAC
48967869 AGAACCCGTGCCAGAGACGGCAGAC
1 AGAACCCGTGCCAGAGACGGCAGAC
48967894 A
1 A
48967895 ATTTTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.31, T:0.04
Consensus pattern (25 bp):
AGAACCCGTGCCAGAGACGGCAGAC
Found at i:48968884 original size:29 final size:30
Alignment explanation
Indices: 48968841--48968921 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
48968831 GAATTGAATC
*
48968841 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
*
48968871 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
48968902 AAATCATAGTTCATATATAA
1 AAATCAAAGTTCATGTATAA
48968922 TTTTGGTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 22 0.50
30 5 0.11
31 17 0.39
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:48969481 original size:27 final size:27
Alignment explanation
Indices: 48969450--48969503 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
48969440 GCCTCCAATG
*
48969450 TTCAATTTAGCATCTACGTTTTTTTTA
1 TTCAATTAAGCATCTACGTTTTTTTTA
* * *
48969477 TTCAATTAAGTATTTATGTTTTTTTTA
1 TTCAATTAAGCATCTACGTTTTTTTTA
48969504 CTAGAGCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.59
Consensus pattern (27 bp):
TTCAATTAAGCATCTACGTTTTTTTTA
Found at i:48973381 original size:39 final size:39
Alignment explanation
Indices: 48973327--48973405 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
48973317 TTTCAGAGAG
48973327 TTTGGTTGGTTAGCCCCAAATATATGACCTTTGTTTTGC
1 TTTGGTTGGTTAGCCCCAAATATATGACCTTTGTTTTGC
48973366 TTTGGTTGGTTAGCCCCAAATATATGACCTTTGTTTTGC
1 TTTGGTTGGTTAGCCCCAAATATATGACCTTTGTTTTGC
48973405 T
1 T
48973406 AAGATTACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (39 bp):
TTTGGTTGGTTAGCCCCAAATATATGACCTTTGTTTTGC
Found at i:48974938 original size:25 final size:25
Alignment explanation
Indices: 48974884--48974938 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
48974874 AAAAACAAGG
*
48974884 TTGAGAAAATCTTAGTGACCTAAGA
1 TTGATAAAATCTTAGTGACCTAAGA
48974909 TTGATAAAATCTTAGTGACCTAAGA
1 TTGATAAAATCTTAGTGACCTAAGA
48974934 TTGAT
1 TTGAT
48974939 TCTTTGTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (25 bp):
TTGATAAAATCTTAGTGACCTAAGA
Found at i:48978643 original size:54 final size:54
Alignment explanation
Indices: 48978585--48978697 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
48978575 AGTTAAGTTT
* *
48978585 AATTTATGAACAAAGTAAGAATTACGAGAAAATAAAAAACATAACTTGTACCAC
1 AATTTATGAACAAAGTAAAAATTACGAGAAAATAAAAAACAGAACTTGTACCAC
48978639 AATTTATGAACAAAGTAAAAATTACGAGAAAATAAAAAACAGAACTTGTACCAC
1 AATTTATGAACAAAGTAAAAATTACGAGAAAATAAAAAACAGAACTTGTACCAC
48978693 AATTT
1 AATTT
48978698 TTGTAAAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.23
Consensus pattern (54 bp):
AATTTATGAACAAAGTAAAAATTACGAGAAAATAAAAAACAGAACTTGTACCAC
Found at i:48980598 original size:21 final size:18
Alignment explanation
Indices: 48980572--48980612 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 18
48980562 TAAAAACTAA
48980572 AAGATAATTAATAATCAAAAT
1 AAGATAA-TAA-AAT-AAAAT
48980593 AAGATAATAAAATAAAAT
1 AAGATAATAAAATAAAAT
48980611 AA
1 AA
48980613 AACTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 3 0.15
21 7 0.35
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
AAGATAATAAAATAAAAT
Found at i:48990496 original size:73 final size:72
Alignment explanation
Indices: 48990419--48990564 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 72
48990409 TGTTCGAGTA
*
48990419 TCTACAAAGACGTCAATGAAATATTTTTACCATTTAGTAAATAAATTTAGTTTATTTTTTTAATT
1 TCTACAAAGACGTCAAGGAAATATTTTTACCATTTAGTAAATAAATTTAGTTTA-TTTTTTAATT
*
48990484 GAATAAGT
65 AAATAAGT
* * *
48990492 TCTACACAGGCGTCAAGGAAATATTTTTACCATTTGGTAAATAAATTTAGTTTATTTTTTAATTA
1 TCTACAAAGACGTCAAGGAAATATTTTTACCATTTAGTAAATAAATTTAGTTTATTTTTTAATTA
48990557 AATAAGT
66 AATAAGT
48990564 T
1 T
48990565 ACTTTTGTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 18 0.26
73 50 0.74
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (72 bp):
TCTACAAAGACGTCAAGGAAATATTTTTACCATTTAGTAAATAAATTTAGTTTATTTTTTAATTA
AATAAGT
Found at i:48991339 original size:64 final size:64
Alignment explanation
Indices: 48991218--48991348 Score: 147
Period size: 64 Copynumber: 2.0 Consensus size: 64
48991208 TGGCAAGTCA
* * ***
48991218 TGTAACTCACTATTTTAGAATTAAAAGCACACGGGCTGGGGACAAGGGCTTTTTGTCTAAGCCG
1 TGTAACTCACTATTTTAGAATTAAAAGCACACGGGCTAGGGACAAGAGCTGCGTGTCTAAGCCG
* ** * * *
48991282 TGTAACTCACTATTTTCGAATTTTAGGTCACACGGGCTAGGGACACGAG-TGCGTGTCTAGGCCG
1 TGTAACTCACTATTTTAGAATTAAAAG-CACACGGGCTAGGGACAAGAGCTGCGTGTCTAAGCCG
48991346 TGT
1 TGT
48991349 GAGAGAAATT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 37 0.67
65 18 0.33
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (64 bp):
TGTAACTCACTATTTTAGAATTAAAAGCACACGGGCTAGGGACAAGAGCTGCGTGTCTAAGCCG
Found at i:48998773 original size:44 final size:44
Alignment explanation
Indices: 48998725--48998810 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
48998715 GGTATAGGAA
* * *
48998725 TTGTAG-TTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGGT
1 TTGTAGCTTT-AATCTACTCCACTACAACTTCAGGGAAATAAGGT
* *
48998769 TTGTAGCTTTAATCTGCTCCACTACAACTTTAGGGAAATAAG
1 TTGTAGCTTTAATCTACTCCACTACAACTTCAGGGAAATAAG
48998811 ACTCACTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTTAATCTACTCCACTACAACTTCAGGGAAATAAGGT
Found at i:48998980 original size:44 final size:44
Alignment explanation
Indices: 48998863--48999375 Score: 552
Period size: 44 Copynumber: 11.5 Consensus size: 44
48998853 GGTATAGGAC
* * * *
48998863 CCACTACAACTTTAGGGAGATAAGATTCGTAGCTTC-ATCTTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC-TGCT
* * *
48998907 CCACGGC-ACTTCAGGGGGATAAGACTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
48998950 CCACTGAAACTTCAGGGAGATAATATTTGTAGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * *
48998994 CCACTGCAACTTCAGGGAGATAAGACTCACTATGGTAGATTTAAT-T-CAA
1 CCACTGCAACTTCAGGGAGATAAGA-T---T-T-GTAGCTTCAATCTGC-T
* * *
48999043 CCTACTGCAACTTCAGAGG-TATAGGATTCGTCA-CTTCAATCTGCT
1 CC-ACTGCAACTTCAG-GGAGATAAGATTTGT-AGCTTCAATCTGCT
* *
48999088 TCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * * *
48999132 CTATTACAAATTCAGGAAGATAAGATTTGTAGATTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
*
48999176 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * *
48999220 CCACTGGAACTTCAGGCAGATAAGACTTATAGCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
*
48999264 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
48999308 CCACTGTAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
*
48999352 CTACTGCAACTTCAGGGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
48999376 TTTCGCTATG
Statistics
Matches: 389, Mismatches: 64, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
43 35 0.09
44 311 0.80
45 4 0.01
46 2 0.01
48 2 0.01
49 5 0.01
50 28 0.07
51 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:49008995 original size:16 final size:16
Alignment explanation
Indices: 49008970--49009000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49008960 TATGAATATT
*
49008970 ATTTTTAAAAATTAAA
1 ATTTTAAAAAATTAAA
49008986 ATTTTAAAAAATTAA
1 ATTTTAAAAAATTAA
49009001 TTAAATATTT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTTAAAAAATTAAA
Found at i:49010699 original size:29 final size:30
Alignment explanation
Indices: 49010646--49010704 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
49010636 GAATTGGATC
* *
49010646 AAATCAAAATTTCATGTGTAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
49010676 AAATCAAAA-TTCATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
49010705 TTAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:49014251 original size:7 final size:7
Alignment explanation
Indices: 49014241--49014273 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
49014231 TTTAAATTTT
49014241 AATATTC
1 AATATTC
49014248 AATATTC
1 AATATTC
49014255 AATATTC
1 AATATTC
49014262 AATATTC
1 AATATTC
49014269 AATAT
1 AATAT
49014274 ATATTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:49016320 original size:7 final size:7
Alignment explanation
Indices: 49016304--49016351 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
49016294 GGGAGAACAA
49016304 TTCATGT
1 TTCATGT
*
49016311 TTCATAT
1 TTCATGT
**
49016318 TTCATAC
1 TTCATGT
*
49016325 TGCATGT
1 TTCATGT
49016332 TTCATGTT
1 TTCATG-T
49016340 TTCATGT
1 TTCATGT
49016347 TTCAT
1 TTCAT
49016352 TCTGTACATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (7 bp):
TTCATGT
Found at i:49016974 original size:17 final size:17
Alignment explanation
Indices: 49016954--49017094 Score: 57
Period size: 17 Copynumber: 7.8 Consensus size: 17
49016944 ATTTCAAGAC
*
49016954 TTATGTAATGCTTTTAA
1 TTATGTAATGATTTTAA
* **
49016971 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATT-TTA-A
*
49016990 CTTATGTAATGTTTTTAA
1 -TTATGTAATGATTTTAA
* **
49017008 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATT-TTA-A
* *
49017027 CTTATGTAATGTTTTTAG
1 -TTATGTAATGATTTTAA
* **
49017045 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATT-TTA-A
**
49017064 CTTATGTAATTTTTTTAA
1 -TTATGTAATGATTTTAA
*
49017082 TTATGTAGTGATT
1 TTATGTAATGATT
49017095 CAAAGACTTA
Statistics
Matches: 85, Mismatches: 30, Indels: 18
0.64 0.23 0.14
Matches are distributed among these distances:
17 43 0.51
18 5 0.06
19 5 0.06
20 32 0.38
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.48
Consensus pattern (17 bp):
TTATGTAATGATTTTAA
Found at i:49016990 original size:37 final size:37
Alignment explanation
Indices: 49016949--49017131 Score: 321
Period size: 37 Copynumber: 4.9 Consensus size: 37
49016939 TGTTAATTTC
*
49016949 AAGACTTATGTAATGCTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
49016986 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
49017023 AAGACTTATGTAATGTTTTTAGTTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
49017060 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
49017097 AAGACTTATGTAATTTTTTTAATTATATAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
49017132 TAAATCGGTT
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 141 1.00
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:49016996 original size:20 final size:20
Alignment explanation
Indices: 49016971--49017108 Score: 96
Period size: 20 Copynumber: 7.3 Consensus size: 20
49016961 ATGCTTTTAA
49016971 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
49016991 TTATGTAATG-TTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
49017008 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
49017028 TTATGTAATG-TTTTTAG--
1 TTATGTAGTGATTCAAAGAC
49017045 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* * ***
49017065 TTATGTAAT-TTTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
49017082 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
49017102 TTATGTA
1 TTATGTA
49017109 ATTTTTTTAA
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 26 0.31
18 12 0.14
19 12 0.14
20 33 0.40
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.46
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:49017148 original size:9 final size:9
Alignment explanation
Indices: 49017131--49017268 Score: 179
Period size: 9 Copynumber: 15.4 Consensus size: 9
49017121 ATATAGTGAT
49017131 TTAAATCGG
1 TTAAATCGG
*
49017140 TTAAGTCGG
1 TTAAATCGG
49017149 TTAAATCGG
1 TTAAATCGG
49017158 TTAAATCGG
1 TTAAATCGG
*
49017167 TTAAGTCGG
1 TTAAATCGG
49017176 TTAAATCGG
1 TTAAATCGG
*
49017185 TT-AATCAG
1 TTAAATCGG
*
49017193 TTAAATAGG
1 TTAAATCGG
*
49017202 TTAAAACGG
1 TTAAATCGG
49017211 TTAAATCGG
1 TTAAATCGG
* *
49017220 TTAAGTTGG
1 TTAAATCGG
* *
49017229 TTAAGTCTG
1 TTAAATCGG
49017238 TTAAATCGG
1 TTAAATCGG
*
49017247 TTAAGTCGG
1 TTAAATCGG
49017256 TTAAATCGG
1 TTAAATCGG
49017265 TTAA
1 TTAA
49017269 TTTTTAACCA
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
8 7 0.06
9 103 0.94
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (9 bp):
TTAAATCGG
Found at i:49017161 original size:27 final size:27
Alignment explanation
Indices: 49017131--49017268 Score: 206
Period size: 27 Copynumber: 5.1 Consensus size: 27
49017121 ATATAGTGAT
49017131 TTAAATCGGTTAAGTCGGTTAAATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
49017158 TTAAATCGGTTAAGTCGGTTAAATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
* * * *
49017185 TT-AATCAGTTAAATAGGTTAAAACGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
* * *
49017211 TTAAATCGGTTAAGTTGGTTAAGTCTG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
49017238 TTAAATCGGTTAAGTCGGTTAAATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
49017265 TTAA
1 TTAA
49017269 TTTTTAACCA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 22 0.23
27 75 0.77
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (27 bp):
TTAAATCGGTTAAGTCGGTTAAATCGG
Found at i:49017716 original size:49 final size:49
Alignment explanation
Indices: 49017659--49017752 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
49017649 TGCTATGCAA
*
49017659 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
49017708 TGCTAAACTTAGTCTTCTACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
49017753 CCCTTCTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:49019122 original size:26 final size:26
Alignment explanation
Indices: 49019086--49019136 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
49019076 CTGATCAAAA
49019086 AGGGGTTGCTAAGTGCAGATTCCCCC
1 AGGGGTTGCTAAGTGCAGATTCCCCC
49019112 AGGGGTTGCTAAGTGCAGATTCCCC
1 AGGGGTTGCTAAGTGCAGATTCCCC
49019137 AAATCACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCC
Found at i:49019153 original size:67 final size:67
Alignment explanation
Indices: 49019045--49019177 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
49019035 ATTGAATGTA
* ** *
49019045 AGGGGTTGCTAAGTGTAGATTCCCTGAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCC
1 AGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAAGGGTTGCTAAGTGCAGATTCCC
49019110 CC
66 CC
49019112 AGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAAGGGTTGCTAAGTGCAGATTCCC
1 AGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAAGGGTTGCTAAGTGCAGATTCCC
49019177 C
66 C
49019178 GAATCACTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (67 bp):
AGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAAGGGTTGCTAAGTGCAGATTCCC
CC
Found at i:49019340 original size:41 final size:41
Alignment explanation
Indices: 49019112--49019347 Score: 178
Period size: 41 Copynumber: 5.7 Consensus size: 41
49019102 AGATTCCCCC
* * *
49019112 AGGGGTTGCTAAGTGCAGATTCCCCAAATCACTG-ATCAAAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAAT-ATAA
* *
49019153 AAGGGTTGCTAAGTGCAGATTCCCCGAATCACTG-ATCA-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAAT-ATAA
* * * *
49019193 GAGGGGTTGCTAAGTGCTGATTCCCTC-AATTATTGATTCTAA
1 -AGGGGTTGCTAAGTGCTGATTCCC-CGAATCACTGAATATAA
* * * * *
49019235 AGGTGGTTGCTAAGTGTTGATTCCATCGTATC-CTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGAATAT-AA
**
49019279 AGGGGTTGC-AATGTGCTGATTCCCCTTATCACTGAATATAA
1 AGGGGTTGCTAA-GTGCTGATTCCCCGAATCACTGAATATAA
* *
49019320 AGTGGTTGCTAAGTGTTGATTCCACCGA
1 AGGGGTTGCTAAGTGCTGATTCC-CCGA
49019348 GTAACGGTTA
Statistics
Matches: 159, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.01
41 87 0.55
42 40 0.25
43 25 0.16
44 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAA
Found at i:49022923 original size:3 final size:3
Alignment explanation
Indices: 49022915--49022954 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49022905 AATGGAAATG
49022915 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
49022955 TGAAGTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:49026583 original size:6 final size:6
Alignment explanation
Indices: 49026547--49026581 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
49026537 TATTATTTAT
*
49026547 TATAACA TATAAA TATAAA TATAAA TATATA TATA
1 TATAA-A TATAAA TATAAA TATAAA TATAAA TATA
49026582 TAATCATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (6 bp):
TATAAA
Found at i:49028049 original size:21 final size:21
Alignment explanation
Indices: 49028004--49028049 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
49027994 AAAGTAGGTT
*
49028004 ATATATTATTTTTATAATATT
1 ATATATTATTTTTATAATATC
49028025 ATATATTATGATTTT-TAAT-TC
1 ATATATTAT--TTTTATAATATC
49028046 ATAT
1 ATAT
49028050 TATAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 14 0.64
22 4 0.18
23 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATATTATTTTTATAATATC
Found at i:49028116 original size:58 final size:59
Alignment explanation
Indices: 49028047--49028161 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 59
49028037 TTTTAATTCA
* * *
49028047 TATTATAATAATTATTATATGAAGAATGTTATTAAATTATATATCA-TTTTATTAAATTG
1 TATTATAATAATAATTATATGAA-AATATGATTAAATTATATATCATTTTTATTAAATTG
* * * *
49028106 TATT-TAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAAT
1 TATTATAATAATAATTATATGAAAATATGATTAAATTATATATCATTTTTATTAAAT
49028162 ATATTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 18 0.38
58 26 0.54
59 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (59 bp):
TATTATAATAATAATTATATGAAAATATGATTAAATTATATATCATTTTTATTAAATTG
Found at i:49033621 original size:39 final size:40
Alignment explanation
Indices: 49033558--49033720 Score: 168
Period size: 45 Copynumber: 3.9 Consensus size: 40
49033548 TTACTGATCA
* * *
49033558 GGCA-TTTATGTGCCGACTACTGTTACTGTTACTG-ATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTATTC
49033596 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTATCGACTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTG-TAT----TC
*
49033641 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGGTTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTG-T--A--TTC
* *
49033686 AGCACTTTGTGTGTTGAATACTGTTACTGTTACTG
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
49033721 CTACCGTTAC
Statistics
Matches: 107, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
38 4 0.04
39 27 0.25
41 2 0.02
45 72 0.67
47 1 0.01
49 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (40 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTATTC
Found at i:49033643 original size:45 final size:45
Alignment explanation
Indices: 49033575--49033720 Score: 222
Period size: 45 Copynumber: 3.2 Consensus size: 45
49033565 ATGTGCCGAC
*
49033575 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
*
49033620 TACTGTTACTGTTATC-GACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTA-CAGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
49033665 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
49033710 TACTGTTACTG
1 TACTGTTACTG
49033721 CTACCGTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 90 0.98
46 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:49033715 original size:6 final size:6
Alignment explanation
Indices: 49033704--49033746 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
49033694 GTGTGTTGAA
* *
49033704 TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
49033747 GTGTGTTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:49039564 original size:19 final size:19
Alignment explanation
Indices: 49039539--49039584 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
49039529 TCTCTCAATA
*
49039539 AAAAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTAT
*
49039558 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
49039577 AAAAATTC
1 AAAAATTC
49039585 TACAATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:49042944 original size:2 final size:2
Alignment explanation
Indices: 49042937--49043019 Score: 112
Period size: 2 Copynumber: 38.5 Consensus size: 2
49042927 AAACCATTCA
49042937 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
49042979 AT AT ACT AT ACT ACT AT ACT AT ACT AT AT ACT AT AT AT AT A
1 AT AT A-T AT A-T A-T AT A-T AT A-T AT AT A-T AT AT AT AT A
49043020 CTACTACTAC
Statistics
Matches: 76, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
2 63 0.83
3 13 0.17
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:49043026 original size:3 final size:3
Alignment explanation
Indices: 49042982--49043048 Score: 64
Period size: 3 Copynumber: 25.7 Consensus size: 3
49042972 TATATATATA
49042982 TAC TA- TAC TAC TA- TAC TA- TAC TA- TA- TAC TA- TA- TA- TA- TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
49043021 TAC TAC TAC TAC TAC TAC TAC TA- TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
49043049 TAATAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
2 20 0.34
3 38 0.66
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (3 bp):
TAC
Found at i:49043030 original size:9 final size:8
Alignment explanation
Indices: 49042978--49043048 Score: 78
Period size: 9 Copynumber: 8.9 Consensus size: 8
49042968 TATATATATA
49042978 TATA-TAC
1 TATACTAC
49042985 TATACTAC
1 TATACTAC
49042993 TATACTATAC
1 TATAC--TAC
49043003 TATA-TAC
1 TATACTAC
49043010 TATA-TA-
1 TATACTAC
49043016 TATACTAC
1 TATACTAC
49043024 TACTACTAC
1 TA-TACTAC
49043033 TACTACTAC
1 TA-TACTAC
49043042 TATACTA
1 TATACTA
49043049 TAATAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.07
7 15 0.26
8 15 0.26
9 17 0.29
10 7 0.12
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (8 bp):
TATACTAC
Found at i:49043289 original size:2 final size:2
Alignment explanation
Indices: 49043282--49043307 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49043272 NNNNNNNNNN
49043282 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
49043308 CTACCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49044042 original size:21 final size:21
Alignment explanation
Indices: 49043994--49044035 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49043984 TGCTTTCTCC
49043994 TTCTTTCCTTCCATTTTTCTT
1 TTCTTTCCTTCCATTTTTCTT
*
49044015 TTCTTTCCTTTC-TTTTTCTT
1 TTCTTTCCTTCCATTTTTCTT
49044035 T
1 T
49044036 CATTTTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (21 bp):
TTCTTTCCTTCCATTTTTCTT
Found at i:49044132 original size:13 final size:13
Alignment explanation
Indices: 49044110--49044142 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49044100 ATATTTAATC
*
49044110 ATTAAGAATATAT
1 ATTAATAATATAT
49044123 ATTAATAATATAT
1 ATTAATAATATAT
49044136 A-TAATAA
1 ATTAATAA
49044143 ACTTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTAATAATATAT
Found at i:49045802 original size:20 final size:19
Alignment explanation
Indices: 49045767--49045807 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
49045757 GCCACGATTT
49045767 ATATATATATATATGTTGC
1 ATATATATATATATGTTGC
*
49045786 ATATATGTATGATATGTTGC
1 ATATATATAT-ATATGTTGC
49045806 AT
1 AT
49045808 GGGAATGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (19 bp):
ATATATATATATATGTTGC
Found at i:49052138 original size:42 final size:42
Alignment explanation
Indices: 49052082--49052225 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
49052072 ACTGAGATGT
** *
49052082 GATTACGTGTAAGACCATGTCTGGGAAATTGGCATCCTTATGT
1 GATT-CGTGTAAGACCATGTCTGGGAAATTGGCATCAATATGA
* **
49052125 GATTCGTGTAAGACCGTGTCTGGGATGTTGGCATCAATATGA
1 GATTCGTGTAAGACCATGTCTGGGAAATTGGCATCAATATGA
* * * *
49052167 GAATT-GTGTAAGATCATGTCTGGGACATTGGCATCGATATAA
1 G-ATTCGTGTAAGACCATGTCTGGGAAATTGGCATCAATATGA
*
49052209 GTTTCGTGTAAGACCAT
1 GATTCGTGTAAGACCAT
49052226 AGCTAGCTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.02
42 76 0.89
43 7 0.08
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGAAATTGGCATCAATATGA
Found at i:49061418 original size:22 final size:23
Alignment explanation
Indices: 49061376--49061418 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
49061366 ACTTTTATAT
* *
49061376 TTTTAAAATTTATCTTATTTTTA
1 TTTTAAAATATATATTATTTTTA
49061399 TTTTAAAATATA-ATTATTTT
1 TTTTAAAATATATATTATTTT
49061419 CTTTAAAAAA
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:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTAAAATATATATTATTTTTA
Found at i:49062195 original size:22 final size:22
Alignment explanation
Indices: 49062170--49062213 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
49062160 TTGTTTTGCC
*
49062170 ACTATTTTACT-TTCATTTTATT
1 ACTATGTTACTATT-ATTTTATT
*
49062192 ACTATGTTGCTATTATTTTATT
1 ACTATGTTACTATTATTTTATT
49062214 TTTATTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (22 bp):
ACTATGTTACTATTATTTTATT
Found at i:49069899 original size:9 final size:9
Alignment explanation
Indices: 49069885--49069923 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
49069875 CCTTTTTTTT
49069885 TAATATATA
1 TAATATATA
49069894 TAATATATAA
1 TAATATAT-A
49069904 TATATAATATA
1 TA-AT-ATATA
49069915 TAATATATA
1 TAATATATA
49069924 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 13 0.48
10 5 0.19
11 5 0.19
12 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATATA
Found at i:49069901 original size:7 final size:7
Alignment explanation
Indices: 49069889--49069925 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
49069879 TTTTTTTAAT
49069889 ATATATA
1 ATATATA
49069896 ATATATA
1 ATATATA
49069903 ATATATA
1 ATATATA
49069910 ATATATA
1 ATATATA
49069917 ATATATA
1 ATATATA
49069924 AT
1 AT
49069926 TTAAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:49070582 original size:29 final size:30
Alignment explanation
Indices: 49070544--49070605 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
49070534 TGCAAATTTG
49070544 AAATTCAATCCCTATAATTTTAT-TTTCAA
1 AAATTCAATCCCTATAATTTTATATTTCAA
* * *
49070573 AAATTTAATCTCTATACTTTTATAATTTCAA
1 AAATTCAATCCCTATAATTTTAT-ATTTCAA
49070604 AA
1 AA
49070606 TTGAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATTCAATCCCTATAATTTTATATTTCAA
Found at i:49072239 original size:15 final size:15
Alignment explanation
Indices: 49072219--49072250 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49072209 TATGTTATTG
49072219 CTTGCTAATTAAGTT
1 CTTGCTAATTAAGTT
49072234 CTTGCTAATTAAGTT
1 CTTGCTAATTAAGTT
49072249 CT
1 CT
49072251 CTATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (15 bp):
CTTGCTAATTAAGTT
Found at i:49078252 original size:5 final size:6
Alignment explanation
Indices: 49078235--49078260 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49078225 TGAAATTTAG
49078235 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
49078261 GAAATTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:49080525 original size:15 final size:15
Alignment explanation
Indices: 49080505--49080569 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
49080495 TCCTCCAGCT
49080505 CTTCATCATCATCAA
1 CTTCATCATCATCAA
*
49080520 CTTCAT-ATACATCAT
1 CTTCATCAT-CATCAA
**
49080535 CACCATCATCAT-AA
1 CTTCATCATCATCAA
* *
49080549 TCTTCATCATCTTCGA
1 -CTTCATCATCATCAA
49080565 CTTCA
1 CTTCA
49080570 GCTTCATCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 3 0.08
15 32 0.84
16 3 0.08
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.35
Consensus pattern (15 bp):
CTTCATCATCATCAA
Found at i:49089342 original size:17 final size:18
Alignment explanation
Indices: 49089320--49089363 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
49089310 ATTAGCTTCA
49089320 TATAAAATATT-AATTAT
1 TATAAAATATTGAATTAT
**
49089337 TATAAAATATTGTCTTAT
1 TATAAAATATTGAATTAT
49089355 TATAAAATA
1 TATAAAATA
49089364 AATTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TATAAAATATTGAATTAT
Found at i:49094971 original size:19 final size:19
Alignment explanation
Indices: 49094947--49094983 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
49094937 GGGTAGTGTA
49094947 TTGGGTCTTGTTCATTAGC
1 TTGGGTCTTGTTCATTAGC
49094966 TTGGGTCTTGTTCATTAG
1 TTGGGTCTTGTTCATTAG
49094984 GCCTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.14, G:0.27, T:0.49
Consensus pattern (19 bp):
TTGGGTCTTGTTCATTAGC
Found at i:49096555 original size:7 final size:7
Alignment explanation
Indices: 49096545--49096586 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
49096535 AAAATTGAGT
49096545 ATAAATA
1 ATAAATA
49096552 ATAAATA
1 ATAAATA
49096559 ATAAATA
1 ATAAATA
49096566 ATAAATA
1 ATAAATA
49096573 ATAAATAA
1 ATAAAT-A
49096581 ATAAAT
1 ATAAAT
49096587 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:49096558 original size:4 final size:4
Alignment explanation
Indices: 49096545--49096586 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
49096535 AAAATTGAGT
49096545 ATAA AT-A ATAA AT-A ATAA AT-A ATAA AT-A ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
49096587 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 12 0.35
4 22 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:49098844 original size:43 final size:43
Alignment explanation
Indices: 49098791--49099063 Score: 153
Period size: 43 Copynumber: 6.4 Consensus size: 43
49098781 TGCTTTGGTA
* * *
49098791 TATCCGATGATGCACTATGTGTGCCAGTACATTACCTTCAGTT
1 TATCTGATGATGCACTATGTGTGCCAGTATATTTCCTTCAGTT
** ** * *
49098834 TATCTGATGATGCA-T-TGTGTACGCCAGTATAAATGTTTCGGTA
1 TATCTGATGATGCACTATGTGT--GCCAGTATATTTCCTTCAGTT
* * * * ** **
49098877 TATCCGATGATACACTATGTGTGTCAGTACATTTTTTTTTGGTT
1 TATCTGATGATGCACTATGTGTGCCAGTATA-TTTCCTTCAGTT
* * ** * *
49098921 TATCTGATGATGCAC--TGTATGCCAGTGTAAATGCTTCAGTA
1 TATCTGATGATGCACTATGTGTGCCAGTATATTTCCTTCAGTT
* * * * *
49098962 TATCCGAAGATGCACTATGTGTGCTAGTATATTTTCTT-TGATT
1 TATCTGATGATGCACTATGTGTGCCAGTATATTTCCTTCAG-TT
* * * *
49099005 TAT-TCGATGATGCATTACGTGTGCCAGTATATTTCTTTCAATT
1 TATCT-GATGATGCACTATGTGTGCCAGTATATTTCCTTCAGTT
* *
49099048 TATCTAATGAAGCACT
1 TATCTGATGATGCACT
49099064 GAGGTGCCAG
Statistics
Matches: 166, Mismatches: 53, Indels: 22
0.69 0.22 0.09
Matches are distributed among these distances:
41 23 0.14
42 12 0.07
43 104 0.63
44 22 0.13
45 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (43 bp):
TATCTGATGATGCACTATGTGTGCCAGTATATTTCCTTCAGTT
Found at i:49098978 original size:85 final size:84
Alignment explanation
Indices: 49098788--49099019 Score: 270
Period size: 85 Copynumber: 2.7 Consensus size: 84
49098778 TTATGCTTTG
** ** *
49098788 GTATATCCGATGATGCACTATGTGTGCCAGTACATTACCTTCAGTTTATCTGATGATGCATTGTG
1 GTATATCCGATGATGCACTATGTGTG-CAGTACATTTTCTTTGGTTTATCTGATGATGCA-TCTG
* *
49098853 TACGCCAGTATAAATGTTTCG
64 TACGCCAGTATAAATGCTTCA
* *
49098874 GTATATCCGATGATACACTATGTGTGTCAGTACATTTTTTTTTGGTTTATCTGATGATGCA-CTG
1 GTATATCCGATGATGCACTATGTGTG-CAGTACA-TTTTCTTTGGTTTATCTGATGATGCATCTG
* *
49098938 TATGCCAGTGTAAATGCTTCA
64 TACGCCAGTATAAATGCTTCA
* * *
49098959 GTATATCCGAAGATGCACTATGTGTGCTAGTATATTTTCTTTGATTTAT-TCGATGATGCAT
1 GTATATCCGATGATGCACTATGTGTGC-AGTACATTTTCTTTGGTTTATCT-GATGATGCAT
49099020 TACGTGTGCC
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 23 0.18
85 48 0.38
86 32 0.26
87 21 0.17
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (84 bp):
GTATATCCGATGATGCACTATGTGTGCAGTACATTTTCTTTGGTTTATCTGATGATGCATCTGTA
CGCCAGTATAAATGCTTCA
Found at i:49105619 original size:18 final size:18
Alignment explanation
Indices: 49105568--49105619 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
49105558 GTTAGAAATC
*
49105568 ATTAAAAAAATTA-AAAT
1 ATTAAAAAAATTATTAAT
* *
49105585 ATTATAAATAGTTATTAAT
1 ATTA-AAAAAATTATTAAT
*
49105604 TTTAAAAAAATTATTA
1 ATTAAAAAAATTATTA
49105620 GAAAGTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAAAAAAATTATTAAT
Found at i:49105760 original size:40 final size:40
Alignment explanation
Indices: 49105711--49105794 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
49105701 CTCAACTAAA
* *
49105711 ATTTTAATAATTTTTA-AT-AAATTCTTATAATTTTTTTAT
1 ATTTGAATAATTTTTATATAAAATTC-TATAATTATTTTAT
*
49105750 CATTTGAATAATTTTTATGTAAAATTCTATAATTATTTTAT
1 -ATTTGAATAATTTTTATATAAAATTCTATAATTATTTTAT
49105791 ATTT
1 ATTT
49105795 TATAAAAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 19 0.49
41 14 0.36
42 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (40 bp):
ATTTGAATAATTTTTATATAAAATTCTATAATTATTTTAT
Found at i:49105820 original size:29 final size:28
Alignment explanation
Indices: 49105788--49105885 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 28
49105778 ATAATTATTT
*
49105788 TATATTTTATAAAA-GTTTATTAATTTCCC
1 TATATTTTATAAAATG-TTAATAATTT-CC
* * *
49105817 TATAATTTCTAAAATGTTAATAATTTTC
1 TATATTTTATAAAATGTTAATAATTTCC
* * *
49105845 TATATTCTTATATAATTTTAAATAAATTTTC
1 TATATT-TTATAAAATGTT-AAT-AATTTCC
49105876 TATAATTTTA
1 TAT-ATTTTA
49105886 AATATTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.11
29 30 0.54
30 4 0.07
31 13 0.23
32 3 0.05
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (28 bp):
TATATTTTATAAAATGTTAATAATTTCC
Found at i:49113398 original size:19 final size:18
Alignment explanation
Indices: 49113347--49113397 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
49113337 TAATAATAAT
49113347 AAAATAAATAAAAATATAG
1 AAAA-AAATAAAAATATAG
*
49113366 AAACAAAATGAAAATATA-
1 AAA-AAAATAAAAATATAG
49113384 AAAAGAAATAAAAA
1 AAAA-AAATAAAAA
49113398 AGAAGAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.39
19 15 0.54
20 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (18 bp):
AAAAAAATAAAAATATAG
Found at i:49113507 original size:23 final size:23
Alignment explanation
Indices: 49113463--49113505 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
49113453 AAAAGATAGT
49113463 AAAATATAAAAATAAAATAAAAC
1 AAAATATAAAAATAAAATAAAAC
*
49113486 AAAATAT-ATAA-AAAATAAAA
1 AAAATATAAAAATAAAATAAAA
49113506 AAATAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAATATAAAAATAAAATAAAAC
Found at i:49118242 original size:18 final size:21
Alignment explanation
Indices: 49118227--49118269 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
49118217 ACTTTTATTT
49118227 TTAATT-AAATAATTATTTTA
1 TTAATTAAAATAATTATTTTA
* *
49118247 TTAATTAAAATAATAAATTTA
1 TTAATTAAAATAATTATTTTA
49118268 TT
1 TT
49118270 TTAATTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATTAAAATAATTATTTTA
Found at i:49119033 original size:17 final size:18
Alignment explanation
Indices: 49119013--49119058 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
49119003 TTTTAAAAAA
49119013 TATAAATT-TTATAATTT
1 TATAAATTATTATAATTT
*
49119030 TAT-AATTATTTTAATTTT
1 TATAAATTATTATAA-TTT
*
49119048 TAAAAATTATT
1 TATAAATTATT
49119059 TTGAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 5 0.21
19 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATAAATTATTATAATTT
Found at i:49119040 original size:19 final size:19
Alignment explanation
Indices: 49119018--49119068 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
49119008 AAAAATATAA
*
49119018 ATTTTATAATTTT-ATAATT
1 ATTTTA-AATTTTAAAAATT
*
49119037 ATTTTAATTTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
49119056 ATTTTGAAATTTT
1 ATTTT-AAATTTT
49119069 TTTTATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:49119617 original size:61 final size:62
Alignment explanation
Indices: 49119501--49119622 Score: 201
Period size: 61 Copynumber: 2.0 Consensus size: 62
49119491 AATTTGATAC
*
49119501 ACATATTTAGATCACGTTAAGTTTCAAAAAAACATAAAATGTATTAATATCATACTTAATTA
1 ACATATTTAGATAACGTTAAGTTTCAAAAAAACATAAAATGTATTAATATCATACTTAATTA
** *
49119563 ACATATTTAGATAACGTTAAGTTT-GGAAAAATATAAAATGTATTAATATCATACTTAATT
1 ACATATTTAGATAACGTTAAGTTTCAAAAAAACATAAAATGTATTAATATCATACTTAATT
49119623 CGAAATATGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
61 33 0.59
62 23 0.41
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (62 bp):
ACATATTTAGATAACGTTAAGTTTCAAAAAAACATAAAATGTATTAATATCATACTTAATTA
Found at i:49120190 original size:25 final size:25
Alignment explanation
Indices: 49120161--49120212 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
49120151 TATTAATACA
49120161 AATAC-AAATACA-AAAATATAAATAT
1 AATACTAAA-ACATAAAAT-TAAATAT
*
49120186 AATACTAAAACATTAAATTAAATAT
1 AATACTAAAACATAAAATTAAATAT
49120211 AA
1 AA
49120213 AATAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AATACTAAAACATAAAATTAAATAT
Found at i:49120195 original size:19 final size:20
Alignment explanation
Indices: 49120166--49120216 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
49120156 ATACAAATAC
*
49120166 AAATACAAAAATA-TAAA-T
1 AAATACTAAAATATTAAATT
*
49120184 ATAATACTAAAACATTAAATT
1 A-AATACTAAAATATTAAATT
49120205 AAATA-TAAAATA
1 AAATACTAAAATA
49120217 AATTTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 8 0.30
21 2 0.07
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATACTAAAATATTAAATT
Found at i:49120209 original size:20 final size:19
Alignment explanation
Indices: 49120166--49120214 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
49120156 ATACAAATAC
49120166 AAATAC-AAAAATATAAAT
1 AAATACTAAAAATATAAAT
49120184 ATAATACTAAAACAT-TAAATT
1 A-AATACTAAAA-ATATAAA-T
49120205 AAATA-TAAAA
1 AAATACTAAAA
49120215 TAAATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 12 0.44
21 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATACTAAAAATATAAAT
Found at i:49123755 original size:16 final size:17
Alignment explanation
Indices: 49123729--49123774 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
49123719 TGATTAGTTT
*
49123729 TTAATATTTTATTAATA
1 TTAATATTTTATTAACA
49123746 TTAA-ATTTTATTAACA
1 TTAATATTTTATTAACA
*
49123762 TTATTATCTTTAT
1 TTAATAT-TTTAT
49123775 ATTAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.56
17 6 0.24
18 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATATTTTATTAACA
Found at i:49123805 original size:21 final size:21
Alignment explanation
Indices: 49123779--49123819 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49123769 CTTTATATTA
* *
49123779 ATTTTTGTTTGGGATGGGTTT
1 ATTTTTATTTAGGATGGGTTT
*
49123800 ATTTTTATTTAGGTTGGGTT
1 ATTTTTATTTAGGATGGGTT
49123820 GTGAATAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTAGGATGGGTTT
Done.