Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 112 of 190
Found at i:34042250 original size:18 final size:18
Alignment explanation
Indices: 34042227--34042261 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34042217 AAATTTAATT
34042227 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
34042245 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
34042262 TAAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:34042300 original size:55 final size:55
Alignment explanation
Indices: 34042189--34042370 Score: 251
Period size: 55 Copynumber: 3.3 Consensus size: 55
34042179 AAATTATGTA
*** **
34042189 AAATTATGTAAAATTATTAAG-CCAAAAAAAAT-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAA-T-GGTTA-GTAAAATTATC
34042245 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* * *
34042300 AAATTATGTAAAATTATTAAATCCAACAATTGAGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
34042355 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
34042371 GGTTAGGGTT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
55 79 0.68
56 24 0.21
57 9 0.08
58 4 0.03
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:34042402 original size:29 final size:28
Alignment explanation
Indices: 34042368--34042716 Score: 247
Period size: 29 Copynumber: 13.2 Consensus size: 28
34042358 TTATGTAAAA
34042368 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTA-GGTTAGGGTTTTTAATTAAG
34042397 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTA-GGTTAGGGTTTTTAATTAAG
* * * *
34042426 TTAGGTT--TTTA----ATTAAATTAGG
1 TTAGGTTAGGTTAGGGTTTTTAATTAAG
* *
34042448 CTAGGGTTA-G----GGTTTTTAATTAAA
1 TTA-GGTTAGGTTAGGGTTTTTAATTAAG
34042472 TTAGGTTAGAGTTAGGGTTTTTAATTAAG
1 TTAGGTTAG-GTTAGGGTTTTTAATTAAG
34042501 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTA-GGTTAGGGTTTTTAATTAAG
34042530 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTA-GGTTAGGGTTTTTAATTAAG
* * * *
34042559 TTAGGGTT--TTTA----ATTAAATTAGG
1 TTA-GGTTAGGTTAGGGTTTTTAATTAAG
34042582 TTA-G---GGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGTTAGGGTTTTTAATTAAG
* * * *
34042606 TTAGGGTT--TTTA----ATTAAATTAGG
1 TTA-GGTTAGGTTAGGGTTTTTAATTAAG
*
34042629 TTA-G---GGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGTTAGGGTTTTTAATTAAG
34042653 TTAGGTTTAGAGTTAGGGTTTTTAATTAAG
1 TTAGG-TTAG-GTTAGGGTTTTTAATTAAG
34042683 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTA-GGTTAGGGTTTTTAATTAAG
34042712 TTAGG
1 TTAGG
34042717 GTTTTTAATT
Statistics
Matches: 256, Mismatches: 30, Indels: 68
0.72 0.08 0.19
Matches are distributed among these distances:
20 6 0.02
21 2 0.01
22 10 0.04
23 31 0.12
24 30 0.12
25 2 0.01
26 4 0.02
27 6 0.02
29 136 0.53
30 29 0.11
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (28 bp):
TTAGGTTAGGTTAGGGTTTTTAATTAAG
Found at i:34042430 original size:18 final size:18
Alignment explanation
Indices: 34042407--34042447 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
34042397 TTAGGTTAGG
34042407 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
34042425 GTTA-GGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
34042442 ATTAGG
1 GTTAGG
34042448 CTAGGGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:34042453 original size:75 final size:75
Alignment explanation
Indices: 34042365--34042507 Score: 259
Period size: 75 Copynumber: 1.9 Consensus size: 75
34042355 AAATTATGTA
* * *
34042365 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 AAATTAGGCTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAG
34042430 GTTTTTAATT
66 GTTTTTAATT
34042440 AAATTAGGCTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAG
1 AAATTAGGCTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAG
34042505 GTT
66 GTT
34042508 AGGGTTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (75 bp):
AAATTAGGCTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAG
GTTTTTAATT
Found at i:34042563 original size:47 final size:47
Alignment explanation
Indices: 34042511--34042827 Score: 501
Period size: 47 Copynumber: 6.5 Consensus size: 47
34042501 TTAGGTTAGG
*
34042511 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
34042558 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
34042605 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTTAGA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG--TTT--TT--A--A---TTA-A
*
34042664 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
34042711 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
34042758 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
34042805 GTTAGGG-TTTTAATTAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
34042828 GTTTTTATTA
Statistics
Matches: 255, Mismatches: 3, Indels: 25
0.90 0.01 0.09
Matches are distributed among these distances:
46 16 0.06
47 183 0.72
48 3 0.01
49 3 0.01
51 3 0.01
53 2 0.01
55 3 0.01
57 3 0.01
58 3 0.01
59 36 0.14
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:34042716 original size:153 final size:152
Alignment explanation
Indices: 34042453--34042810 Score: 680
Period size: 153 Copynumber: 2.3 Consensus size: 152
34042443 TTAGGCTAGG
* *
34042453 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGAGTTAGGG
34042518 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGT
66 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGT
34042583 TAGGGTTAGGGTTTTTAATTAA
131 TAGGGTTAGGGTTTTTAATTAA
*
34042605 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTTAGAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGAGTTAGG
34042670 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
65 GTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
34042735 TTAGGGTTAGGGTTTTTAATTAA
130 TTAGGGTTAGGGTTTTTAATTAA
34042758 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
34042811 GTTTTAATTA
Statistics
Matches: 201, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
152 51 0.25
153 150 0.75
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (152 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGAGTTAGGG
TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGT
TAGGGTTAGGGTTTTTAATTAA
Found at i:34042882 original size:25 final size:26
Alignment explanation
Indices: 34042830--34042893 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
34042820 AAATTAGGGT
34042830 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
* *
34042856 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
34042881 TTTTATTACATCA
1 TTTTATTACATCA
34042894 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:34043329 original size:18 final size:18
Alignment explanation
Indices: 34043302--34043336 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34043292 CGGAAAATGA
* *
34043302 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
34043320 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
34043337 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:34044000 original size:7 final size:7
Alignment explanation
Indices: 34043990--34044014 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34043980 TTATATACAT
34043990 AATACTA
1 AATACTA
34043997 AATACTA
1 AATACTA
34044004 AATACTA
1 AATACTA
34044011 AATA
1 AATA
34044015 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:34045115 original size:10 final size:10
Alignment explanation
Indices: 34045096--34045147 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
34045086 GCCATTGATG
34045096 AAAATATAAA
1 AAAATATAAA
*
34045106 AAAATTTAAA
1 AAAATATAAA
* * *
34045116 ATTATTTTAAA
1 A-AAATATAAA
34045127 AAAATATAAA
1 AAAATATAAA
34045137 AAAATATAAA
1 AAAATATAAA
34045147 A
1 A
34045148 TTATTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 27 0.77
11 8 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATATAAA
Found at i:34045131 original size:31 final size:31
Alignment explanation
Indices: 34045096--34045160 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
34045086 GCCATTGATG
*
34045096 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATATAAAATTATTTTAAA
34045127 AAAATATAAAAAAATATAAAATTATTTTAAA
1 AAAATATAAAAAAATATAAAATTATTTTAAA
34045158 AAA
1 AAA
34045161 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAATATAAAAAAATATAAAATTATTTTAAA
Found at i:34045217 original size:29 final size:29
Alignment explanation
Indices: 34045185--34045268 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
34045175 AATTGAAATT
34045185 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
34045214 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
34045236 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
34045265 AAAT
1 AAAT
34045269 TGAGAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:34045218 original size:51 final size:51
Alignment explanation
Indices: 34045162--34045274 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
34045152 TTTAAAAAAT
*
34045162 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
34045213 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
34045264 GAAATTGAGAG
1 GAAATTGAGAG
34045275 AATTTTGGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:34045271 original size:22 final size:22
Alignment explanation
Indices: 34045246--34045296 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
34045236 AAATATGGGT
34045246 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
34045268 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
34045290 TTGAGAG
1 TTGAGAG
34045297 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:34047605 original size:29 final size:29
Alignment explanation
Indices: 34047573--34047674 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 29
34047563 TGAAGAATGC
*
34047573 AAAATGATAAATTTAGCTTTTAAAGAGTT
1 AAAATGATAAGTTTAGCTTTTAAAGAGTT
** ** *
34047602 AAAATGA-AAGTAAAATTTTTAAATGAAGAATGC
1 AAAATGATAAGTTTAGCTTTTAAA-G-AG--T-T
*
34047635 AAAATGATAAGTTTAGCTTTCAAAGAGTT
1 AAAATGATAAGTTTAGCTTTTAAAGAGTT
34047664 AAAATGA-AAGT
1 AAAATGATAAGT
34047675 AAATTTTTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
28 15 0.27
29 15 0.27
30 3 0.05
32 3 0.05
33 8 0.15
34 11 0.20
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (29 bp):
AAAATGATAAGTTTAGCTTTTAAAGAGTT
Found at i:34047624 original size:28 final size:28
Alignment explanation
Indices: 34047590--34047686 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 28
34047580 TAAATTTAGC
34047590 TTTTAAAGAGTTAAAATGAAAGTAAAAT
1 TTTTAAAGAGTTAAAATGAAAGTAAAAT
* ** **
34047618 TTTTAAATGAAGAATGCAAAATGATAAGTTTAGC
1 TTTTAAA-G-AG--T-TAAAATGA-AAGTAAAAT
* *
34047652 TTTCAAAGAGTTAAAATGAAAGTAAATT
1 TTTTAAAGAGTTAAAATGAAAGTAAAAT
34047680 TTTTAAA
1 TTTTAAA
34047687 CATGAAGTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
28 18 0.35
29 8 0.16
30 3 0.06
32 3 0.06
33 8 0.16
34 11 0.22
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (28 bp):
TTTTAAAGAGTTAAAATGAAAGTAAAAT
Found at i:34047640 original size:62 final size:62
Alignment explanation
Indices: 34047563--34047686 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
34047553 AAACAAGACT
*
34047563 TGAAGAATGCAAAATGATAAATTTAGCTTTTAAAGAGTTAAAATGAAAGTAAAATTTTTAAA
1 TGAAGAATGCAAAATGATAAATTTAGCTTTCAAAGAGTTAAAATGAAAGTAAAATTTTTAAA
* *
34047625 TGAAGAATGCAAAATGATAAGTTTAGCTTTCAAAGAGTTAAAATGAAAGTAAATTTTTTAAA
1 TGAAGAATGCAAAATGATAAATTTAGCTTTCAAAGAGTTAAAATGAAAGTAAAATTTTTAAA
34047687 CATGAAGTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.32
Consensus pattern (62 bp):
TGAAGAATGCAAAATGATAAATTTAGCTTTCAAAGAGTTAAAATGAAAGTAAAATTTTTAAA
Found at i:34052656 original size:16 final size:16
Alignment explanation
Indices: 34052637--34052669 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34052627 AAAAATTTTC
34052637 AGTCTAACCCATTTAA
1 AGTCTAACCCATTTAA
34052653 AGTCTAACCCATTTAA
1 AGTCTAACCCATTTAA
34052669 A
1 A
34052670 ATACTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
AGTCTAACCCATTTAA
Found at i:34060504 original size:19 final size:21
Alignment explanation
Indices: 34060472--34060510 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
34060462 TCTATTTACG
*
34060472 AAAAACCTTAGTTTT-TAGAA
1 AAAAACCGTAGTTTTGTAGAA
34060492 AAAAACCGT-GTTTTGTAGA
1 AAAAACCGTAGTTTTGTAGA
34060511 GTTGCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTGTAGAA
Found at i:34061871 original size:28 final size:28
Alignment explanation
Indices: 34061839--34061897 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34061829 TTAACAAAGT
34061839 TTATTATACCTCAAGATTTACAATTCCA
1 TTATTATACCTCAAGATTTACAATTCCA
34061867 TTATTATACCTCAAGATTTACAATTCCA
1 TTATTATACCTCAAGATTTACAATTCCA
34061895 TTA
1 TTA
34061898 CTTACACTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (28 bp):
TTATTATACCTCAAGATTTACAATTCCA
Found at i:34065979 original size:22 final size:23
Alignment explanation
Indices: 34065938--34065980 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34065928 AATAACATAC
* *
34065938 TTAATATTACTTTAACTTTATGA
1 TTAATATCACTTTAAATTTATGA
34065961 TTAATATCA-TTTAAATTTAT
1 TTAATATCACTTTAAATTTAT
34065981 TGCTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATCACTTTAAATTTATGA
Found at i:34070532 original size:45 final size:44
Alignment explanation
Indices: 34070484--34070570 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
34070474 TTTGATTAAA
34070484 AAAAAAACGAAGAA-AAAGAAAA-AAATCAAAATCAAAATCAAAGT
1 AAAAAAACGAA-AAGAAA-AAAATAAATCAAAATCAAAATCAAAGT
* *
34070528 AAAAAAATGAAAATGAAAAAAATCAATCAAAATCAAAATCAAA
1 AAAAAAACGAAAA-GAAAAAAATAAATCAAAATCAAAATCAAA
34070571 ATCAAAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 2 0.05
44 14 0.37
45 22 0.58
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.11
Consensus pattern (44 bp):
AAAAAAACGAAAAGAAAAAAATAAATCAAAATCAAAATCAAAGT
Found at i:34070549 original size:18 final size:18
Alignment explanation
Indices: 34070511--34070627 Score: 101
Period size: 18 Copynumber: 6.3 Consensus size: 18
34070501 GAAAAAAATC
34070511 AAAATCAAAATCAAAGTAAA
1 AAAATCAAAATCAAA--AAA
* *
34070531 AAAATGAAAATGAAAAAA
1 AAAATCAAAATCAAAAAA
* **
34070549 ATCAATCAAAATCAAAATC
1 A-AAATCAAAATCAAAAAA
**
34070568 AAAATCAAAATCAAAATC
1 AAAATCAAAATCAAAAAA
34070586 AAAATCAAAATCAAAATCAA
1 AAAATCAAAATCAAAA--AA
*
34070606 AAAATGAAAAT-AAAAAA
1 AAAATCAAAATCAAAAAA
*
34070623 GAAAT
1 AAAAT
34070628 AGGAAAAGAA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
17 6 0.07
18 36 0.44
19 17 0.21
20 23 0.28
ACGTcount: A:0.70, C:0.10, G:0.04, T:0.15
Consensus pattern (18 bp):
AAAATCAAAATCAAAAAA
Found at i:34070620 original size:12 final size:12
Alignment explanation
Indices: 34070504--34070621 Score: 87
Period size: 12 Copynumber: 9.4 Consensus size: 12
34070494 AGAAAAAGAA
34070504 AAAAATCAAAAT
1 AAAAATCAAAAT
* *
34070516 CAAAATCAAAGTAA
1 AAAAATCAAA--AT
*
34070530 AAAAATGAAAAT
1 AAAAATCAAAAT
34070542 GAAAAA--AATCAAT
1 -AAAAATCAA--AAT
*
34070555 CAAAATCAAAAT
1 AAAAATCAAAAT
*
34070567 CAAAATCAAAAT
1 AAAAATCAAAAT
*
34070579 CAAAATCAAAAT
1 AAAAATCAAAAT
*
34070591 CAAAATCAAAAT
1 AAAAATCAAAAT
*
34070603 CAAAAAATGAAAAT
1 --AAAAATCAAAAT
34070617 AAAAA
1 AAAAA
34070622 AGAAATAGGA
Statistics
Matches: 89, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
11 2 0.02
12 58 0.65
13 8 0.09
14 21 0.24
ACGTcount: A:0.70, C:0.11, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:34070621 original size:6 final size:6
Alignment explanation
Indices: 34070505--34070607 Score: 118
Period size: 6 Copynumber: 16.7 Consensus size: 6
34070495 GAAAAAGAAA
** * * *
34070505 AAAATC AAAATC AAAATC AAAGTAAA AAAATG AAAATG AAAA-A AATCAATC
1 AAAATC AAAATC AAAATC AAA--ATC AAAATC AAAATC AAAATC AA--AATC
34070556 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
34070604 AAAA
1 AAAA
34070608 AATGAAAATA
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
5 2 0.02
6 76 0.88
7 2 0.02
8 6 0.07
ACGTcount: A:0.69, C:0.13, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:34071509 original size:13 final size:13
Alignment explanation
Indices: 34071493--34071519 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34071483 TAAAAAAAAG
34071493 ATGAAAAATGAAA
1 ATGAAAAATGAAA
34071506 ATGAAAAATGAAA
1 ATGAAAAATGAAA
34071519 A
1 A
34071520 AATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:34071512 original size:21 final size:21
Alignment explanation
Indices: 34071488--34071536 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
34071478 TTGAGTAAAA
34071488 AAAAGATG-AAAAATGAAAATG
1 AAAA-ATGAAAAAATGAAAATG
*
34071509 AAAAATGAAAAAATGAAAAAG
1 AAAAATGAAAAAATGAAAATG
34071530 TAAAAAT
1 -AAAAAT
34071537 AGAGAGGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAATGAAAATG
Found at i:34071522 original size:8 final size:7
Alignment explanation
Indices: 34071488--34071528 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
34071478 TTGAGTAAAA
34071488 AAAAGATG
1 AAAA-ATG
34071496 AAAAATG
1 AAAAATG
34071503 -AAAATG
1 AAAAATG
34071509 AAAAATG
1 AAAAATG
34071516 AAAAAATG
1 -AAAAATG
34071524 AAAAA
1 AAAAA
34071529 GTAAAAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:34071535 original size:15 final size:15
Alignment explanation
Indices: 34071487--34071528 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
34071477 TTTGAGTAAA
34071487 AAAAAGATGAAAAATG
1 AAAAA-ATGAAAAATG
34071503 --AAAATGAAAAATG
1 AAAAAATGAAAAATG
34071516 AAAAAATGAAAAA
1 AAAAAATGAAAAA
34071529 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:34073021 original size:120 final size:120
Alignment explanation
Indices: 34072801--34073039 Score: 397
Period size: 120 Copynumber: 2.0 Consensus size: 120
34072791 GAAGACGGTG
* * *
34072801 AATCTTATCTTCATGAGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTG
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTGATCAACAGTG
* * **
34072866 GAATAGGTTGGGAAATTACAGATCTTGTCTTCCTAAGCAATAGTGGAGCAGATCA
66 GAATAGGTTGGGAAATTACAGATCTTGCCTCCCTAAGCAATAACGGAGCAGATCA
* *
34072921 AATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAACAGTG
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTGATCAACAGTG
34072986 GAATAGGTTGGGAAATTACAGATCTTGCCTCCCTAAGCAATAACGGAGCAGATC
66 GAATAGGTTGGGAAATTACAGATCTTGCCTCCCTAAGCAATAACGGAGCAGATC
34073040 GAAGACGGCG
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (120 bp):
AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAATCCTATATCCCTGATCAACAGTG
GAATAGGTTGGGAAATTACAGATCTTGCCTCCCTAAGCAATAACGGAGCAGATCA
Found at i:34073350 original size:44 final size:44
Alignment explanation
Indices: 34073266--34073366 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
34073256 GAAAATGGTG
** **
34073266 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGA
1 AATCTTATCTCCCTGAGGTTACAGCAGAGCAAATCAAAGCCAGA
* * *
34073310 AATCTTATCTCCCTGAGGTTACAGCAGAGTAGATCAAAGCCAGT
1 AATCTTATCTCCCTGAGGTTACAGCAGAGCAAATCAAAGCCAGA
* *
34073354 AATCCTATTTCCC
1 AATCTTATCTCCC
34073367 CAAGATTACA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCAGAGCAAATCAAAGCCAGA
Found at i:34073565 original size:44 final size:43
Alignment explanation
Indices: 34073498--34074045 Score: 231
Period size: 44 Copynumber: 12.6 Consensus size: 43
34073488 CGAAAATGGT
* * *
34073498 GAATCTTATCTCCCTAAGGTTACAGTGGAGTAGATTGAAGCCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
* * *
34073541 GAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCA
1 G-AATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
* * ** ** ***
34073585 GTAATCCTATTTCCCTGAGATTACAGTGGAGCGGAGTAAAATAAA
1 G-AATCTTATCTCCCTGAGATTACAGTGGAGTAGA-TCGAAGCCA
** * * * *
34073630 TG-ATCTTATCTCTTTGAAATTACAGTAGAGTAGATCGCA-TCA
1 -GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
* * * *
34073672 G-GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAG----CCA
* * ****
34073718 -AATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATCGAAAATG
1 GAATCTTATCTCCCTGAG-ATTACAGTGGAG-TAGATCGAAGCCA
* * * * * *
34073759 GAATCTTATTTCTCTGAGATTACAGCGGAGCAGATTGAAGCTA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
* * * ** ***
34073802 GTAATCATATCTCCCTGAGATTACAGTGGGGCAGATTAAAATAAA
1 G-AATCTTATCTCCCTGAGATTACAGTGGAGTAGA-TCGAAGCCA
* * * * * * *
34073847 GGATATTATCTCTCTGAAATTACAGTAGAGTAGATCGCA-TCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
* * * * *
34073889 G-GTCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTTCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAG----CCA
* * ***
34073935 G-ATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATCGAAAATA
1 GAATCTTATCTCCCTGAG-ATTACAGTGGAG-TAGATCGAAGCCA
* * * *
34073976 GAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
*
34074019 GTAATCCTATCTCCCTGAGATTACAGT
1 G-AATCTTATCTCCCTGAGATTACAGT
34074046 AGAGCGGATT
Statistics
Matches: 373, Mismatches: 103, Indels: 57
0.70 0.19 0.11
Matches are distributed among these distances:
41 64 0.17
42 34 0.09
43 32 0.09
44 168 0.45
45 31 0.08
46 40 0.11
47 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGCCA
Found at i:34073918 original size:217 final size:217
Alignment explanation
Indices: 34073543--34074158 Score: 1045
Period size: 217 Copynumber: 2.8 Consensus size: 217
34073533 TGAAGCCAGA
* *
34073543 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * *
34073608 CAGTGGAGCGGAGTAAAATAAATGATCTTATCTCTTTGAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
34073673 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
*
34073738 TAGTGGAGCTAATCGAAAATGG
196 TAGTGGAGCTAATCGAAAATAG
* * *
34073760 AATCTTATTTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCATATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * *
34073825 CAGTGGGGCAGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
* *
34073890 GTCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
34073955 TAGTGGAGCTAATCGAAAATAG
196 TAGTGGAGCTAATCGAAAATAG
34073977 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* *
34074042 CAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATTA
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAA-TTACAGTAGAGTAGATCGCATCA
* * *
34074106 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATTACGAATCTTA
130 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTA
34074159 CTTCCTTGGT
Statistics
Matches: 371, Mismatches: 27, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
216 3 0.01
217 368 0.99
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (217 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
TAGTGGAGCTAATCGAAAATAG
Found at i:34074074 original size:44 final size:44
Alignment explanation
Indices: 34073489--34074130 Score: 195
Period size: 44 Copynumber: 14.8 Consensus size: 44
34073479 ATTCCTAATC
* * * * *
34073489 GAAAATGGTGAATCTTATCTCCCTAAGGTTACAGTGGAGTAGATT
1 GAAAATAGT-AATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
*** * **
34073534 GAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
*** * * * * *
34073578 GAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGAGT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * ** * * *
34073622 -AAAATAAATGATCTTATCTCTTTGAAATTACAGTAGAGTAGATC
1 GAAAAT-AGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * ** **
34073666 G--CATCAG--GTCTTATCTCCCTGAGATTACAGTGGAATAGACC
1 GAAAAT-AGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * * *
34073707 GAAGAAT-TTCAAATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATC
1 GAA-AATAGT--AATCTTATCTCCCTGAG-ATTACAGTAGAGC-AGATT
* * * **
34073752 GAAAAT-GGAATCTTATTTCTCTGAGATTACAGCGGAGCAGATT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
** * * *
34073795 GAAGCTAGTAATCATATCTCCCTGAGATTACAGTGGGGCAGATT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * * * *
34073839 -AAAATAAAG-GATATTATCTCTCTGAAATTACAGTAGAGTAGATC
1 GAAAAT--AGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * ** * **
34073883 G--CATCAG--GTCTTATCTCCCTGAGATTACAGTGGAATAAACC
1 GAAAAT-AGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * * *
34073924 GAAGAAT-TTCAGATCTTATCTCCCTAAGCAGT--AGTGGAGCTA-ATC
1 GAA-AATAGT-A-ATCTTATCTCCCTGAG-ATTACAGTAGAGC-AGATT
**
34073969 GAAAATAG-AATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
** * *
34074012 GAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
* * * * *
34074056 -AAAATAAAG-GATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATC
1 GAAAAT--AGTAATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATT
* * *
34074100 G-CATTAG--GTCTTATCTCCCTGAGATTACAGT
1 GAAAATAGTAATCTTATCTCCCTGAGATTACAGT
34074131 GGAATAGACT
Statistics
Matches: 442, Mismatches: 118, Indels: 78
0.69 0.18 0.12
Matches are distributed among these distances:
41 77 0.17
42 37 0.08
43 44 0.10
44 220 0.50
45 30 0.07
46 30 0.07
47 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
GAAAATAGTAATCTTATCTCCCTGAGATTACAGTAGAGCAGATT
Found at i:34075746 original size:22 final size:23
Alignment explanation
Indices: 34075705--34075747 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34075695 AATAACATAC
* *
34075705 TTAATATTACTTTAACTTTATGA
1 TTAATATCACTTTAAATTTATGA
34075728 TTAATATCA-TTTAAATTTAT
1 TTAATATCACTTTAAATTTAT
34075748 TGCTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATCACTTTAAATTTATGA
Found at i:34085817 original size:29 final size:29
Alignment explanation
Indices: 34085747--34085822 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
34085737 ACGATAACGT
**
34085747 AAGTGACTAAAACATAACATTTCAAACAA
1 AAGTGACTAAAATGTAACATTTCAAACAA
34085776 AAGTGACTAAAATGTAACATTTCAAACAA
1 AAGTGACTAAAATGTAACATTTCAAACAA
34085805 AAGTGACTAAAATGTAAC
1 AAGTGACTAAAATGTAAC
34085823 TTGAGACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTTCAAACAA
Found at i:34085841 original size:31 final size:29
Alignment explanation
Indices: 34085747--34085844 Score: 117
Period size: 29 Copynumber: 3.3 Consensus size: 29
34085737 ACGATAACGT
** *
34085747 AAGTGACTAAAACATAACATTTCAAACAA
1 AAGTGACTAAAATGTAACATTACAAACAA
*
34085776 AAGTGACTAAAATGTAACATTTCAAACAA
1 AAGTGACTAAAATGTAACATTACAAACAA
*
34085805 AAGTGACTAAAATGTAAC-TTGAGACAAATAA
1 AAGTGACTAAAATGTAACATT---ACAAACAA
34085836 AAGTGACTA
1 AAGTGACTA
34085845 TTTTAGTAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.03
29 45 0.73
31 15 0.24
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTACAAACAA
Found at i:34093135 original size:5 final size:5
Alignment explanation
Indices: 34093125--34093164 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
34093115 GTTACTTGAC
* *
34093125 TAAAT TAAAT TAAAA TAAAA TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
34093165 GGAAAATGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
TAAAT
Found at i:34093150 original size:20 final size:20
Alignment explanation
Indices: 34093125--34093163 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34093115 GTTACTTGAC
34093125 TAAATTAAATTAAAATAAAA
1 TAAATTAAATTAAAATAAAA
*
34093145 TAAATTAAATTAAATTAAA
1 TAAATTAAATTAAAATAAA
34093164 TGGAAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATTAAATTAAAATAAAA
Found at i:34094306 original size:48 final size:48
Alignment explanation
Indices: 34094235--34094331 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
34094225 AAAACGATAT
34094235 CGTTTTGGGACGTTTAGGGCCTGGATGAAACGACACCGTTTTGATGAC
1 CGTTTTGGGACGTTTAGGGCCTGGATGAAACGACACCGTTTTGATGAC
34094283 CGTTTTGGGACGTTTAGGGCCTGGATGAAACGACACCGTTTTGATGAC
1 CGTTTTGGGACGTTTAGGGCCTGGATGAAACGACACCGTTTTGATGAC
34094331 C
1 C
34094332 CTATTTAAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (48 bp):
CGTTTTGGGACGTTTAGGGCCTGGATGAAACGACACCGTTTTGATGAC
Found at i:34097859 original size:41 final size:41
Alignment explanation
Indices: 34097766--34098021 Score: 293
Period size: 41 Copynumber: 6.3 Consensus size: 41
34097756 GCATTTAAAA
* **
34097766 AAAATCGCCGCTAATGCTCAGATCTAAAGCGGCGTTTTT-G
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
*
34097806 AAAAGCGCCGCTAACT-CTCATATCTTTAGCGGCGTTTTTGG
1 AAAAGCGCCGCTAA-TGCTCAGATCTTTAGCGGCGTTTTTGG
* *
34097847 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCATTTTTGA
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
*
34097888 AAAAGCGCCGCTAATTCTCAGATCTTTAGCGGCGTTTTTGG
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
* * * *** *
34097929 AAAAGCACCGTTAATGCTCGGGGATTTAGCGGCGTTTTCT-A
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTT-TGG
* * ** * *
34097970 AAAAGCGCCGCCAATGCTCGGGGCTTTAGCGGCATTTTTGA
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
34098011 AAAAGCGCCGC
1 AAAAGCGCCGC
34098022 AAAAACATTT
Statistics
Matches: 188, Mismatches: 23, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
40 35 0.19
41 152 0.81
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
Found at i:34097998 original size:123 final size:122
Alignment explanation
Indices: 34097742--34098021 Score: 348
Period size: 123 Copynumber: 2.3 Consensus size: 122
34097732 TTTATACCTT
*** *
34097742 TCGGGGCTTTAGCGGCATTTAAAAAAAATCGCCGCTAATGCTCAGATCTAAAGCGGCGTTTTTGA
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGATCTAAAGCGGCGTTTTTGA
* * ** * *
34097807 AAAGCGCCGCTAACTCTCATATCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
66 AAAGCACCGCTAACTCTCAGAGATTTAGCGGCGTTTTTGAAAAAGCGCCGCCAATGC
* ** * **
34097864 TCAGATCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATTCTCAGATCTTTAGCGGCGTTTTTGG
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGATCTAAAGCGGCGTTTTT-G
* * *
34097929 AAAAGCACCGTTAA-TGCTCGGGGATTTAGCGGCGTTTTCT-AAAAAGCGCCGCCAATGC
65 AAAAGCACCGCTAACT-CTCAGAGATTTAGCGGCGTTTT-TGAAAAAGCGCCGCCAATGC
34097987 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
34098022 AAAAACATTT
Statistics
Matches: 133, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
122 54 0.41
123 78 0.59
124 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (122 bp):
TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGATCTAAAGCGGCGTTTTTGA
AAAGCACCGCTAACTCTCAGAGATTTAGCGGCGTTTTTGAAAAAGCGCCGCCAATGC
Found at i:34098328 original size:24 final size:21
Alignment explanation
Indices: 34098313--34098354 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34098303 TAATTATCAT
34098313 TATAGTTTAGGGTTTAATATA
1 TATAGTTTAGGGTTTAATATA
* *
34098334 TATTGTTTAGGGTAT-ATATA
1 TATAGTTTAGGGTTTAATATA
34098354 T
1 T
34098355 GGTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (21 bp):
TATAGTTTAGGGTTTAATATA
Found at i:34098439 original size:14 final size:15
Alignment explanation
Indices: 34098406--34098439 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34098396 TAAGGTTTAT
34098406 AGATTATGGAATTAG
1 AGATTATGGAATTAG
34098421 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
34098435 GGATT
1 AGATT
34098440 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:34099116 original size:17 final size:16
Alignment explanation
Indices: 34099083--34099116 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34099073 ATATTAGATT
*
34099083 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
34099099 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
34099116 T
1 T
34099117 TGATAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:34103651 original size:24 final size:23
Alignment explanation
Indices: 34103623--34103670 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
34103613 AAATTTAAAA
34103623 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
34103647 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
34103670 A
1 A
34103671 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:34103797 original size:43 final size:43
Alignment explanation
Indices: 34103695--34103877 Score: 246
Period size: 43 Copynumber: 4.3 Consensus size: 43
34103685 AGATTATGTT
* * * *
34103695 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
*
34103737 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
*
34103780 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
** * *
34103823 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAT-TAT-GTT
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT-TGGTC
34103865 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
34103878 TTTCCGGCAC
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 49 0.39
43 78 0.61
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:34103871 original size:85 final size:84
Alignment explanation
Indices: 34103682--34103877 Score: 284
Period size: 85 Copynumber: 2.3 Consensus size: 84
34103672 AATAATTTTT
* * * *
34103682 TAAAGATTATGTTTTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGCG
1 TAAAGATTATGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCG
*
34103747 TTTGTGATAAAAGCGCCGC
66 TTTGTGAGAAAAGCGCCGC
* * * *
34103766 TAAAGGTCATGGTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
1 TAAAGATTAT-GTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTCTTTAGCGG
*
34103831 CGTTTGTGGGAAAAGCGCCGC
64 CGTTTGTGAGAAAAGCGCCGC
34103852 TAAAGATTATGTTTTTAGCGGCGTTT
1 TAAAGATTATGTTTTTAGCGGCGTTT
34103878 TTTCCGGCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 8 0.08
85 48 0.50
86 40 0.42
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (84 bp):
TAAAGATTATGTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCG
TTTGTGAGAAAAGCGCCGC
Found at i:34105194 original size:21 final size:22
Alignment explanation
Indices: 34105153--34105196 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
34105143 TATGATATGC
*
34105153 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
34105175 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
34105196 A
1 A
34105197 GATATCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:34105430 original size:23 final size:23
Alignment explanation
Indices: 34105386--34105430 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
34105376 TCTTATTTTG
* *
34105386 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
34105409 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
34105431 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:34105512 original size:2 final size:2
Alignment explanation
Indices: 34105505--34105541 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
34105495 TTTTGCCTTT
*
34105505 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34105542 CTCTTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:34105814 original size:37 final size:37
Alignment explanation
Indices: 34105738--34105814 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
34105728 CATACATACG
*
34105738 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
34105776 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
34105813 TT
1 TT
34105815 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:34106108 original size:2 final size:2
Alignment explanation
Indices: 34106101--34106162 Score: 75
Period size: 2 Copynumber: 34.5 Consensus size: 2
34106091 ATCTTTTCAT
34106101 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34106139 -A TA TA TA T- TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34106163 GTTATTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
1 7 0.13
2 46 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34106142 original size:21 final size:25
Alignment explanation
Indices: 34106102--34106162 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
34106092 TCTTTTCATT
34106102 ATATATATATATATATATATA-TAT
1 ATATATATATATATATATATATTAT
34106126 -TATA-ATA-ATAATAATATATATTAT
1 ATATATATATAT-AT-ATATATATTAT
34106150 ATAT-TATATATAT
1 ATATATATATATAT
34106163 GTTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 11 0.35
24 3 0.10
25 8 0.26
26 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATATATATATATATATATTAT
Found at i:34106177 original size:9 final size:10
Alignment explanation
Indices: 34106099--34106179 Score: 66
Period size: 9 Copynumber: 8.5 Consensus size: 10
34106089 TTATCTTTTC
34106099 ATTATATA-T
1 ATTATATATT
34106108 A-TATATA-T
1 ATTATATATT
34106116 ATATATATATT
1 AT-TATATATT
* *
34106127 ATAATA-ATA
1 ATTATATATT
*
34106136 ATAATATA-T
1 ATTATATATT
34106145 ATTATATATT
1 ATTATATATT
*
34106155 ATATATATGTT
1 AT-TATATATT
34106166 ATTAT-TATT
1 ATTATATATT
34106175 ATTAT
1 ATTAT
34106180 NNNNNNNNNN
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 8 0.13
9 24 0.40
10 16 0.27
11 12 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (10 bp):
ATTATATATT
Found at i:34108238 original size:23 final size:22
Alignment explanation
Indices: 34108205--34108247 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
34108195 ATAAAAAAAT
34108205 ATTTTTAAAAAA-TAATATGATG
1 ATTTTTAAAAAAGTAA-ATGATG
34108227 ATTTTTAGAAAAAGTAAATGA
1 ATTTTTA-AAAAAGTAAATGA
34108248 GGTATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 9 0.47
24 3 0.16
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAAAGTAAATGATG
Found at i:34111574 original size:54 final size:54
Alignment explanation
Indices: 34111483--34111592 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
34111473 TCCCCCATAA
* *
34111483 TCCCTTAATTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
1 TCCCCTAACTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
* *
34111537 TCCCCTAACTCACTCCTAAAATCGCT-TCTTCACTTCCCACTATACATCCACCAC
1 TCCCCTAACTCACTCCTAAAATCGCTCCCTT-ACTTCCCACTACACATCCACCAC
34111591 TC
1 TC
34111593 ATAAACCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.06
54 48 0.94
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.28
Consensus pattern (54 bp):
TCCCCTAACTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
Found at i:34113624 original size:21 final size:21
Alignment explanation
Indices: 34113595--34113635 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34113585 AGAACACGCC
34113595 AACAAAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * *
34113616 AACAGAAGCTCGTGAGAGCT
1 AACAAAAGCTCATAAGAGCT
34113636 GATCCACCCA
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:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:34115162 original size:2 final size:2
Alignment explanation
Indices: 34115155--34115195 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
34115145 CAAAAGCTTC
*
34115155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34115196 ATTACATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:34117783 original size:22 final size:22
Alignment explanation
Indices: 34117744--34117788 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34117734 TTTTGACATA
* *
34117744 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
34117766 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
34117788 T
1 T
34117789 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:34120769 original size:8 final size:8
Alignment explanation
Indices: 34120758--34120798 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
34120748 AAAAATAATA
34120758 AAAATTAT
1 AAAATTAT
*
34120766 AAAAATAT
1 AAAATTAT
* *
34120774 AAACTAAT
1 AAAATTAT
34120782 AAAATTAT
1 AAAATTAT
34120790 AAAATTAT
1 AAAATTAT
34120798 A
1 A
34120799 TTTTTACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:34123248 original size:18 final size:19
Alignment explanation
Indices: 34123213--34123249 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34123203 TATATTATAT
*
34123213 TTAATAATTTTTTGACATA
1 TTAATAATTTTATGACATA
34123232 TTAATAATTTTAT-ACATA
1 TTAATAATTTTATGACATA
34123250 GATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAATAATTTTATGACATA
Found at i:34123271 original size:22 final size:22
Alignment explanation
Indices: 34123232--34123276 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34123222 TTTTGACATA
* *
34123232 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
34123254 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
34123276 T
1 T
34123277 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:34125502 original size:25 final size:25
Alignment explanation
Indices: 34125465--34125558 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 25
34125455 GACACACCAC
* * * *
34125465 AGCTCGCAAGAGCGTCCCGTTATTT
1 AGCTCTCATGAGCTTCCCATTATTT
* * **
34125490 AGCTCTCATGAGCATCCTATTAAAT
1 AGCTCTCATGAGCTTCCCATTATTT
* *
34125515 GGCTCTCTTGAGCTTCCCATTATTT
1 AGCTCTCATGAGCTTCCCATTATTT
* *
34125540 GGCTTTCATGAGCTTCCCA
1 AGCTCTCATGAGCTTCCCA
34125559 ATTTTGGCTT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCATTATTT
Found at i:34125581 original size:25 final size:25
Alignment explanation
Indices: 34125523--34125578 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
34125513 ATGGCTCTCT
* *
34125523 TGAGCTTCCCATTATTTGGCTTTCA
1 TGAGCTTCCCAATATTTGGCTTGCA
34125548 TGAGCTTCCCAAT-TTTGGCTTGCA
1 TGAGCTTCCCAATATTTGGCTTGCA
34125572 TGAGCTT
1 TGAGCTT
34125579 TCCGATTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (25 bp):
TGAGCTTCCCAATATTTGGCTTGCA
Found at i:34125591 original size:24 final size:24
Alignment explanation
Indices: 34125523--34125591 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
34125513 ATGGCTCTCT
* *
34125523 TGAGCTTCCC-ATTATTTGGCTTTCA
1 TGAGCTTCCCAATTA--CGGCTTGCA
**
34125548 TGAGCTTCCCAATTTTGGCTTGCA
1 TGAGCTTCCCAATTACGGCTTGCA
* *
34125572 TGAGCTTTCCGATTACGGCT
1 TGAGCTTCCCAATTACGGCT
34125592 CTTATGAGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 24 0.65
25 10 0.27
26 3 0.08
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (24 bp):
TGAGCTTCCCAATTACGGCTTGCA
Found at i:34137001 original size:17 final size:18
Alignment explanation
Indices: 34136971--34137006 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34136961 TTTGGTTATA
34136971 TTTAGTTTTCGATATGTT
1 TTTAGTTTTCGATATGTT
*
34136989 TTTA-TTTTTGATATGTT
1 TTTAGTTTTCGATATGTT
34137006 T
1 T
34137007 CATTTAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.03, G:0.14, T:0.67
Consensus pattern (18 bp):
TTTAGTTTTCGATATGTT
Found at i:34137916 original size:2 final size:2
Alignment explanation
Indices: 34137909--34137939 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
34137899 TTTGTTCTTT
*
34137909 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34137940 GCGGCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:34139886 original size:43 final size:43
Alignment explanation
Indices: 34139801--34139961 Score: 213
Period size: 43 Copynumber: 3.7 Consensus size: 43
34139791 CTCGTACAAC
* *
34139801 GCCAACGTCCCAGACGTGGTCTTACATG-TAATCACAAA-TCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAAT-A-AAAGTCGAT
* *
34139844 GTC-ACTATCCCAGACAG-GGTCTTACACGAAAATAAAAGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAATAAAAGTCGAT
34139887 GCCAACGTCCCAGACGTGGTCTTACACGAAAATAAAAGTCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAATAAAAGTCGAT
*
34139930 GCCAACGTCTCAGACGTGGTCTTACACGAAAA
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAA
34139962 AACTTATCAG
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
42 6 0.06
43 93 0.89
44 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAAATAAAAGTCGAT
Found at i:34143011 original size:8 final size:8
Alignment explanation
Indices: 34142998--34143023 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34142988 TATTTCTCAC
34142998 TATTATAT
1 TATTATAT
34143006 TATTATAT
1 TATTATAT
34143014 TATTATAT
1 TATTATAT
34143022 TA
1 TA
34143024 GGCTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:34143294 original size:33 final size:35
Alignment explanation
Indices: 34143229--34143306 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
34143219 ATATATATAC
* *
34143229 TTTATAATATATATATATATATAAACACGTAC-ATT
1 TTTATAATATATATACACATAT-AACACGTACAATT
*
34143264 TTTATAATATATATACACATAT-ACATGTACATATT
1 TTTATAATATATATACACATATAACACGTACA-ATT
34143299 TTTATAAT
1 TTTATAAT
34143307 CTATTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 7 0.18
35 31 0.82
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (35 bp):
TTTATAATATATATACACATATAACACGTACAATT
Found at i:34146952 original size:58 final size:57
Alignment explanation
Indices: 34146918--34147061 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 57
34146908 TTAGTTCATA
34146918 TAATAATAATTATATTAAGAATTTTATAAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATTTTATAAAATTATATATTATTTTATTAAATTATA-T
* ** * * *
34146976 TAATAATAATTATATTAA-AATATGGTTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAGAATTTTATAAAATTATATATTA-TTTTATTAAATTA-TAT
*
34147034 TAATAATAATCT-TATTAA-AATTTAATAA
1 TAATAATAAT-TATATTAAGAATTTTATAA
34147062 CAATAACAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
57 17 0.23
58 54 0.74
59 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (57 bp):
TAATAATAATTATATTAAGAATTTTATAAAATTATATATTATTTTATTAAATTATAT
Found at i:34147242 original size:16 final size:16
Alignment explanation
Indices: 34147221--34147276 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
34147211 TTGAATTACT
*
34147221 AATTACAACTCTATTC
1 AATTACAGCTCTATTC
*
34147237 AATTACAGCTCTATTT
1 AATTACAGCTCTATTC
*
34147253 AATTGCAGCTCTATTTC
1 AATTACAGCTCTA-TTC
34147270 -ATTACAG
1 AATTACAG
34147277 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 32 0.94
17 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (16 bp):
AATTACAGCTCTATTC
Found at i:34155028 original size:48 final size:48
Alignment explanation
Indices: 34154975--34155076 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
34154965 CCTACCTACT
* * * **
34154975 ATTCGGCCCATTATTCTGTCCACTAACAGGCCCAAGAGACTGGCCTGC
1 ATTCGGCCCACTATTCTATCCACTAACAGGCCCAAGAAACTAACCTGC
*
34155023 ATTCGGCCCACTATTCTATCCACTAGCAGGCCCAAGAAACTAACCTGC
1 ATTCGGCCCACTATTCTATCCACTAACAGGCCCAAGAAACTAACCTGC
34155071 ATTCGG
1 ATTCGG
34155077 TCTAAGGTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (48 bp):
ATTCGGCCCACTATTCTATCCACTAACAGGCCCAAGAAACTAACCTGC
Found at i:34158432 original size:18 final size:18
Alignment explanation
Indices: 34158404--34158448 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
34158394 CGTTCGTTTC
*
34158404 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
34158421 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
34158440 CAAAACGTT
1 CAAAACGTT
34158449 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:34162144 original size:70 final size:70
Alignment explanation
Indices: 34162062--34162205 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
34162052 ATATTAAATC
* *
34162062 ACAATTTTATACAATTTCTTCTCGTAAATTAAACTATGTTAAATATATAATTAGGGTTTGGCTGA
1 ACAATTTCATACAATTTCTTCTCGTAAATTAAACGATGTTAAATATATAATTAGGGTTTGGCTGA
34162127 TAAAA
66 TAAAA
34162132 ACAATTTCATACAATTTCTTCTCGTAAATTAAACGATGTTAAATATATAATTAGGGTTTGGCTGA
1 ACAATTTCATACAATTTCTTCTCGTAAATTAAACGATGTTAAATATATAATTAGGGTTTGGCTGA
34162197 TAAAA
66 TAAAA
34162202 ACAA
1 ACAA
34162206 CCGTACCGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.38
Consensus pattern (70 bp):
ACAATTTCATACAATTTCTTCTCGTAAATTAAACGATGTTAAATATATAATTAGGGTTTGGCTGA
TAAAA
Found at i:34173890 original size:249 final size:248
Alignment explanation
Indices: 34173452--34173945 Score: 841
Period size: 249 Copynumber: 2.0 Consensus size: 248
34173442 TCTTCTCATG
34173452 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCGGTATTCACTCGTAGT
1 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCGGTATTCACTCGTAGT
* *
34173517 ATGCGATATCATTTTCCTAATTTTAAACCTGTCTTTAGTAGATGTTTTTGCCTACTTGATTCATA
66 ATGCGATATCATTTTCCTAATTCTAAACCTGTCTTTAGTAGATGTTTCTGCCTACTTGATTCATA
34173582 AATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCAGAAAGAATTTTAGATAGC
131 AATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCAGAAAGAATTTTAGATAGC
*
34173647 CGATTGAAG-TTTTCTGGGAAATAAGGTGTGAGACAAAAAAAGTATCATGGAGGT
196 CGATGGAAGTTTTTC-GGGAAATAAGGTGTGAGAC-AAAAAAGTATCATGGAGGT
*
34173701 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCGGTATTCAAC-CGTGG
1 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCGGTATTC-ACTCGTAG
34173765 TATGCGATATCATTTTCCTAATTCTAAACC-GCTCTTTAGTAGATGTTTCTGCCTACTTGATTCA
65 TATGCGATATCATTTTCCTAATTCTAAACCTG-TCTTTAGTAGATGTTTCTGCCTACTTGATTCA
* * * *
34173829 TAAATACATAAAATCTTGTTTTTGGTTCTTCATTGTGTATTTTGTCCCGGTAAGAATTTTAGATA
129 TAAATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCAGAAAGAATTTTAGATA
* *
34173894 GCTGATGGAAGTTTTTCGGGAAATAAGGTGTGAGACGAAAAAGTATCATGGA
194 GCCGATGGAAGTTTTTCGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGA
34173946 AGCCCTAGGA
Statistics
Matches: 232, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
248 16 0.07
249 209 0.90
250 7 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (248 bp):
GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCGGTATTCACTCGTAGT
ATGCGATATCATTTTCCTAATTCTAAACCTGTCTTTAGTAGATGTTTCTGCCTACTTGATTCATA
AATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCAGAAAGAATTTTAGATAGC
CGATGGAAGTTTTTCGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGAGGT
Found at i:34174214 original size:22 final size:22
Alignment explanation
Indices: 34174135--34174206 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
34174125 CTGGTTCAAA
* **
34174135 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
34174157 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
34174179 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
34174201 CATGAG
1 CATGAG
34174207 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:34186289 original size:20 final size:20
Alignment explanation
Indices: 34186266--34186326 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
34186256 ACTTCGGTAT
34186266 CCCTGAATGCACATACGTGC
1 CCCTGAATGCACATACGTGC
** * * *
34186286 CCCTGTTTGTAC-TTCGGTAC
1 CCCTGAATGCACATAC-GTGC
*
34186306 CCCTGAATGCACATACATGC
1 CCCTGAATGCACATACGTGC
34186326 C
1 C
34186327 ATTGCTTGTA
Statistics
Matches: 28, Mismatches: 11, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.26
Consensus pattern (20 bp):
CCCTGAATGCACATACGTGC
Found at i:34186336 original size:40 final size:40
Alignment explanation
Indices: 34186189--34186326 Score: 213
Period size: 40 Copynumber: 3.5 Consensus size: 40
34186179 AAGTGTTTTT
* * * *
34186189 TGAATGCACAAACGTGCCCCCGTTTGTACTTTGGTACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34186229 TAAATGCACATACGTGCCCCTGTTTGTACTTCGGTATCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
34186269 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
34186309 TGAATGCACATACATGCC
1 TGAATGCACATACGTGCC
34186327 ATTGCTTGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:34189103 original size:24 final size:24
Alignment explanation
Indices: 34189061--34189113 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
34189051 GCTAGGATAA
* *
34189061 TTAAAATATTATCTGTTAACATAT
1 TTAAAATATTATCTATTAACACAT
*
34189085 TTAAAATATTAT-TAATTAATACAT
1 TTAAAATATTATCT-ATTAACACAT
34189109 TTAAA
1 TTAAA
34189114 TGTTACGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAAATATTATCTATTAACACAT
Found at i:34190214 original size:69 final size:69
Alignment explanation
Indices: 34190134--34190274 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
34190124 CAGTATCATA
34190134 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGCATATATATA
1 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGCATATATATA
34190199 CATC
66 CATC
* * * * *
34190203 TTAACATCATACTTTAAGCGAAAGATCTTTCTCAGGTCAACTTAATTTGTTTGAGCATATATATA
1 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGCATATATATA
34190268 CATC
66 CATC
34190272 TTA
1 TTA
34190275 TAGGAAACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (69 bp):
TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGCATATATATA
CATC
Found at i:34201480 original size:13 final size:13
Alignment explanation
Indices: 34201464--34201529 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
34201454 TTTAAACTAA
*
34201464 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
34201477 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
34201490 ACTTTTTC-ATAGT
1 AC-TTTTCAAAAGC
34201503 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
34201516 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
34201529 A
1 A
34201530 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 5 0.11
13 35 0.80
14 4 0.09
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:34205929 original size:25 final size:25
Alignment explanation
Indices: 34205892--34205957 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
34205882 ACACCTAGCC
*
34205892 GTGTCCCA-GCCCGTGTGCCAGGCT
1 GTGTCACACGCCCGTGTGCCAGGCT
34205916 GTGTCACACGCCCGTGTGCCAGGCT
1 GTGTCACACGCCCGTGTGCCAGGCT
*
34205941 ATGTCACACGCCCGTGT
1 GTGTCACACGCCCGTGT
34205958 CAGGCCGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 7 0.18
25 32 0.82
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (25 bp):
GTGTCACACGCCCGTGTGCCAGGCT
Found at i:34209108 original size:99 final size:98
Alignment explanation
Indices: 34208925--34209107 Score: 246
Period size: 99 Copynumber: 1.9 Consensus size: 98
34208915 CAGCTCTTAA
* * *
34208925 AACCGAATGTATAGTCATTATAAACATGAATAGCTGAATGCATATATACATATATGCTTAATAAA
1 AACCGAATATATAGTCACTATAAACATGAATAGCTGAATGCATATATACA-ATATGCTTAACAAA
*
34208990 TATTAGCTCCAAATGTATATACACTTTGAACATG
65 TATTAGCACCAAATGTATATACACTTTGAACATG
* * *
34209024 AACCGAATATATATTTACTATAAACGTGAATAG-TCGAATGCATATATAC-ATATGCTTAACAAA
1 AACCGAATATATAGTCACTATAAACATGAATAGCT-GAATGCATATATACAATATGCTTAACAAA
*
34209087 TATTA-CAACCAATTGTATATA
65 TATTAGC-ACCAAATGTATATA
34209108 TGTATTTATC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
96 1 0.01
97 30 0.41
98 1 0.01
99 42 0.57
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (98 bp):
AACCGAATATATAGTCACTATAAACATGAATAGCTGAATGCATATATACAATATGCTTAACAAAT
ATTAGCACCAAATGTATATACACTTTGAACATG
Found at i:34209585 original size:41 final size:40
Alignment explanation
Indices: 34209540--34209694 Score: 229
Period size: 41 Copynumber: 3.8 Consensus size: 40
34209530 TGATTCAGTA
* *
34209540 CACCGGCAATTAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGC-ATAAGCCTGCTAGACGTAAAGTCTGAAACATTT
34209581 CACCGGCAATAAGCCTGCTAGACGTAAAGTCTGAAACATTT
1 CACCGGC-ATAAGCCTGCTAGACGTAAAGTCTGAAACATTT
* *
34209622 CACCAGCATTAAGCTTGCTAGACGTAAAGTCTGAAACATTT
1 CACCGGCA-TAAGCCTGCTAGACGTAAAGTCTGAAACATTT
*
34209663 CACGGGCATCAAGCCTGCTAGACGTAAAGTCT
1 CACCGGCAT-AAGCCTGCTAGACGTAAAGTCT
34209695 ATAAAATCCA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.02
41 103 0.98
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCGGCATAAGCCTGCTAGACGTAAAGTCTGAAACATTT
Found at i:34217013 original size:46 final size:46
Alignment explanation
Indices: 34216939--34217114 Score: 271
Period size: 46 Copynumber: 3.8 Consensus size: 46
34216929 ACAATGCTAT
* **
34216939 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTACTTTTCAC
* *
34216985 AACTCAGTATGGTTTTCGTTACTAAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTACTTTTCAC
*
34217031 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTACTTTTCAC
* * *
34217077 AACTCAGCATGGGTTTCTTTACTAAAATATCATACCTA
1 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTA
34217115 TGTTCCACAC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTACTTTTCAC
Found at i:34219615 original size:40 final size:41
Alignment explanation
Indices: 34219571--34219716 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 41
34219561 CAGGGCACCA
* *
34219571 AAGTACAAAAAGGGGCACGTATGTGCAATTTAGAAGTA-CG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGAAGTACCG
* ** **
34219611 AAGTACAAACAGGGGCATGTATGTGCAATTCAGGGGTATTG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGAAGTACCG
** * * *
34219652 AAGTACAAACAGGGGCATTTACGTACAATTCAGATGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGAAGTACCG
*
34219693 AAGTACAAACAGAGGCACGTATGT
1 AAGTACAAACAGGGGCACGTATGT
34219717 AAAATTCATA
Statistics
Matches: 88, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 33 0.38
41 55 0.62
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (41 bp):
AAGTACAAACAGGGGCACGTATGTGCAATTCAGAAGTACCG
Found at i:34219677 original size:20 final size:20
Alignment explanation
Indices: 34219611--34219679 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
34219601 TAGAAGTACG
*
34219611 AAGTACAAACAGGGGCATGT
1 AAGTACAAACAGGGGCATTT
* * * * *
34219631 ATGTGCAATTCAGGGGTATTG
1 AAGTACAA-ACAGGGGCATTT
34219652 AAGTACAAACAGGGGCATTT
1 AAGTACAAACAGGGGCATTT
*
34219672 ACGTACAA
1 AAGTACAA
34219680 TTCAGATGTA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (20 bp):
AAGTACAAACAGGGGCATTT
Found at i:34219723 original size:82 final size:81
Alignment explanation
Indices: 34219571--34219724 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
34219561 CAGGGCACCA
* * * * * *
34219571 AAGTACAAAAAGGGGCACGTATGTGCAATTTAGAAGTACGAAGTACAAACAGGGGCATGTATGTG
1 AAGTACAAAAAGGGGCACGTACGTACAATTCAGAAGTACGAAGTACAAACAGAGGCACGTATGTA
*
34219636 CAATTCAGGGGTATTG
66 AAATTCAGGGGTATTG
* ** *
34219652 AAGTACAAACAGGGGCATTTACGTACAATTCAGATGTACCGAAGTACAAACAGAGGCACGTATGT
1 AAGTACAAAAAGGGGCACGTACGTACAATTCAGAAGTA-CGAAGTACAAACAGAGGCACGTATGT
34219717 AAAATTCA
65 AAAATTCA
34219725 TACAATAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
81 31 0.51
82 30 0.49
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (81 bp):
AAGTACAAAAAGGGGCACGTACGTACAATTCAGAAGTACGAAGTACAAACAGAGGCACGTATGTA
AAATTCAGGGGTATTG
Found at i:34223015 original size:35 final size:35
Alignment explanation
Indices: 34222969--34223120 Score: 178
Period size: 35 Copynumber: 4.3 Consensus size: 35
34222959 TACTCTCTGT
34222969 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
**
34223004 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
* * ** *
34223039 TTGTTGTGTTTCAGTTGGAGTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
* * * * * *
34223074 TTGCTGTGTTTTGGAGGGAATGGCTCGTGTGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
34223109 TCTGGTGTGTTT
1 T-TGGTGTGTTT
34223121 TGGTTGGACT
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 92 0.91
36 9 0.09
ACGTcount: A:0.14, C:0.12, G:0.34, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
Found at i:34227710 original size:32 final size:32
Alignment explanation
Indices: 34227636--34227744 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 32
34227626 TGGTTCTATG
* * *
34227636 AAATGATAACAAATATCAGCTTTTCATTTTGTG
1 AAATGATAACAAATATCAAC-TTTAATTTTGTA
* *
34227669 AATTTATAACAAATTAT-AACTTTAATTTTGTA
1 AAATGATAACAAA-TATCAACTTTAATTTTGTA
* *
34227701 AAATGATAACAAATATCAA-TTAACATTTTGTT
1 AAATGATAACAAATATCAACTTTA-ATTTTGTA
34227733 AAATGATAACAA
1 AAATGATAACAA
34227745 TATTCCTCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
31 6 0.09
32 42 0.66
33 13 0.20
34 3 0.05
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (32 bp):
AAATGATAACAAATATCAACTTTAATTTTGTA
Found at i:34227821 original size:32 final size:32
Alignment explanation
Indices: 34227780--34227845 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
34227770 AAATCATCGA
*
34227780 TACAATATAAATGTTTGATAGAAGGATAAAAT
1 TACAATATAAATGTTCGATAGAAGGATAAAAT
34227812 TACAATATAAATGTTCGATAGAAGGATAAAAT
1 TACAATATAAATGTTCGATAGAAGGATAAAAT
34227844 TA
1 TA
34227846 ATCAATGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (32 bp):
TACAATATAAATGTTCGATAGAAGGATAAAAT
Found at i:34230101 original size:11 final size:11
Alignment explanation
Indices: 34230072--34230132 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
34230062 TTTAGTAAAA
*
34230072 AAATTTAAGAG
1 AAATTTGAGAG
34230083 AGAATTTGAGAG
1 A-AATTTGAGAG
*
34230095 AAATTTGAAAG
1 AAATTTGAGAG
*
34230106 AATTTTGAGAG
1 AAATTTGAGAG
*
34230117 -AATGTTGTGAG
1 AAAT-TTGAGAG
34230128 AAATT
1 AAATT
34230133 AGTAGGGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.05
11 26 0.63
12 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (11 bp):
AAATTTGAGAG
Found at i:34231414 original size:35 final size:35
Alignment explanation
Indices: 34231368--34231434 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
34231358 TCTTTGTGTG
* *
34231368 AATGGTGGAAAAGAAGTTACAGATATAGGTATGTC
1 AATGGTAGAAAAGAAGTTACAAATATAGGTATGTC
34231403 AATGGTAGAAAAGAAGTTACAAATATAGGTAT
1 AATGGTAGAAAAGAAGTTACAAATATAGGTAT
34231435 TTTCTGAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.25
Consensus pattern (35 bp):
AATGGTAGAAAAGAAGTTACAAATATAGGTATGTC
Found at i:34242911 original size:29 final size:27
Alignment explanation
Indices: 34242865--34242936 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 27
34242855 ATTATTTATT
*
34242865 ATTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTAATTTTAAAAT--TTTTTTAAA
34242894 ATTTTTTAAATTTT-AAATTTTTTTAAA
1 ATTTTTT-AATTTTAAAATTTTTTTAAA
34242921 ATGCTTTTTTAATTTT
1 A---TTTTTTAATTTT
34242937 TTAATTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 9 0.24
29 17 0.45
30 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
ATTTTTTAATTTTAAAATTTTTTTAAA
Found at i:34242929 original size:38 final size:39
Alignment explanation
Indices: 34242874--34242976 Score: 156
Period size: 38 Copynumber: 2.6 Consensus size: 39
34242864 TATTTTTTAA
*
34242874 TTTTAAAATACTTTTTTTAAATTTTTTAAATTTT-AAATTT
1 TTTTAAAATACTTTTTTT-AATTTTTT-AATTTTAAAATAT
*
34242914 TTTTAAAATGC-TTTTTTAATTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
34242952 TTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTT
34242977 GTTTTAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
37 6 0.10
38 23 0.40
39 19 0.33
40 10 0.17
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
Found at i:34261136 original size:46 final size:46
Alignment explanation
Indices: 34261069--34261242 Score: 285
Period size: 46 Copynumber: 3.8 Consensus size: 46
34261059 ACAAGGCTAT
* *
34261069 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGATTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
34261115 AACTCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGATTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
34261161 AACTCAGTATGATTTTCTTTACCGAAATACCATACCTACTTTTTAC
1 AACTCAGTATGATTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
34261207 AACTCAGTATGGTTTTCTTTACCGAAATACCATACC
1 AACTCAGTATGATTTTCTTCACCGAAATACCATACC
34261243 AAAATACCAT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGATTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:34261247 original size:13 final size:13
Alignment explanation
Indices: 34261226--34261255 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34261216 TGGTTTTCTT
*
34261226 TACCGAAATACCA
1 TACCAAAATACCA
34261239 TACCAAAATACCA
1 TACCAAAATACCA
34261252 TACC
1 TACC
34261256 TACTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (13 bp):
TACCAAAATACCA
Found at i:34261277 original size:59 final size:59
Alignment explanation
Indices: 34261180--34261301 Score: 199
Period size: 59 Copynumber: 2.1 Consensus size: 59
34261170 TGATTTTCTT
* * *
34261180 TACCGAAATACCATACCTACTTTTTACAACTCAGTATGGTTTTCTTTACCGAAATACCA
1 TACCAAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAATACCA
* *
34261239 TACCAAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGGAATACCA
1 TACCAAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAATACCA
34261298 TACC
1 TACC
34261302 TACGTTTCAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (59 bp):
TACCAAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAATACCA
Found at i:34262586 original size:16 final size:17
Alignment explanation
Indices: 34262540--34262587 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
34262530 AAATTCTTTT
34262540 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
34262557 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
34262574 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
34262588 TTTTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:34269000 original size:21 final size:21
Alignment explanation
Indices: 34268986--34269024 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34268976 AATACTTTTG
34268986 AAAAGCACAAAAATATCTTGA
1 AAAAGCACAAAAATATCTTGA
*
34269007 AAAAGCA-TAAAATATCTT
1 AAAAGCACAAAAATATCTT
34269025 ATTCAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (21 bp):
AAAAGCACAAAAATATCTTGA
Found at i:34274256 original size:6 final size:6
Alignment explanation
Indices: 34274245--34274277 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
34274235 AGTAGATGAT
34274245 GCTGAG GCTGAG GCTGAG GCTGAG GCTGAG GCT
1 GCTGAG GCTGAG GCTGAG GCTGAG GCTGAG GCT
34274278 AATTTTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.48, T:0.18
Consensus pattern (6 bp):
GCTGAG
Found at i:34276703 original size:15 final size:15
Alignment explanation
Indices: 34276667--34276695 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34276657 AAAAGTATAG
34276667 AAAAAAAGAAAAAAC
1 AAAAAAAGAAAAAAC
34276682 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
34276696 TAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAC
Found at i:34279500 original size:43 final size:43
Alignment explanation
Indices: 34279413--34279541 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
34279403 AGCTCATACA
* * * *
34279413 ATGCTAACATCCTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAACACATATCG
* *
34279456 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-ATCCCAGACGTGGTCTTACACGTAAACACATA-TCG
*
34279499 ATGCCAACATCCCAGACGTGGTCTTACACGAAAAACACATATC
1 ATGCCAACATCCCAGACGTGGTCTTACACG-TAAACACATATC
34279542 AAAGGTCTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 3 0.04
43 57 0.79
44 11 0.15
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:34283844 original size:23 final size:23
Alignment explanation
Indices: 34283804--34283847 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34283794 TTCTCACTGT
** *
34283804 AGTAATTTTTGGGGTATTACAGC
1 AGTAATTTTCAGGATATTACAGC
34283827 AGTAATTTTCAGGATATTACA
1 AGTAATTTTCAGGATATTACA
34283848 AAGGGCGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (23 bp):
AGTAATTTTCAGGATATTACAGC
Found at i:34288028 original size:62 final size:62
Alignment explanation
Indices: 34287931--34288050 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
34287921 ATGTAATCCT
* * *
34287931 AGAAATAGGACGATATAAATCTACCAGATTAGAGTCAAATTTATTAGTGGAATCCATAGATC
1 AGAAATAGGACGACATAAATCTACCAGATTAGAGTCAAATCTAATAGTGGAATCCATAGATC
34287993 AGAAATAGGACGACATAAATCTACCAGATTAGAGTCAAATCTAATAGTGGAATCCATA
1 AGAAATAGGACGACATAAATCTACCAGATTAGAGTCAAATCTAATAGTGGAATCCATA
34288051 AATCGAGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (62 bp):
AGAAATAGGACGACATAAATCTACCAGATTAGAGTCAAATCTAATAGTGGAATCCATAGATC
Found at i:34298576 original size:36 final size:36
Alignment explanation
Indices: 34298529--34298608 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
34298519 GGCCCAAGTT
34298529 ACGCCCAAAAGGAGGCCCAAATCAGCACTCCATATC
1 ACGCCCAAAAGGAGGCCCAAATCAGCACTCCATATC
* *
34298565 ACGCCCAAAAGGAGGCCCAAATCTGCACTCTATATC
1 ACGCCCAAAAGGAGGCCCAAATCAGCACTCCATATC
34298601 ACGCCCAA
1 ACGCCCAA
34298609 TTACACGACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.35, C:0.36, G:0.16, T:0.12
Consensus pattern (36 bp):
ACGCCCAAAAGGAGGCCCAAATCAGCACTCCATATC
Found at i:34300727 original size:25 final size:27
Alignment explanation
Indices: 34300672--34300727 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
34300662 TAAATATTAA
*
34300672 ATTAAAATTAATATTAAGATAATCACT
1 ATTAAAATTAATATTAAGAAAATCACT
* *
34300699 -TTAATATTAA-ATTAATAAAAT-ACT
1 ATTAAAATTAATATTAAGAAAATCACT
34300723 ATTAA
1 ATTAA
34300728 GATAAGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
ATTAAAATTAATATTAAGAAAATCACT
Found at i:34300752 original size:68 final size:69
Alignment explanation
Indices: 34300622--34300756 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
34300612 TGATTAAACT
* * *
34300622 TAATCACTTTAATATTAAATTAGCATAATAGTTATCAAGATAAATATTAAATTAAAATTAATATT
1 TAATCACTTTAATATTAAATTAACAAAATAGCTATCAAGATAAATATTAAATTAAAATTAATATT
34300687 AAGA
66 AAGA
* * * * *
34300691 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTTAACTTAATATT
1 TAATCACTTTAATATTAAATTAACAAAATAGCTATCAAGATAAATATTAAATTAAAATTAATATT
34300755 AA
66 AA
34300757 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 31 0.53
69 27 0.47
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.39
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAACAAAATAGCTATCAAGATAAATATTAAATTAAAATTAATATT
AAGA
Found at i:34303304 original size:2 final size:2
Alignment explanation
Indices: 34303292--34303330 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
34303282 TGAAGAAATG
*
34303292 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34303331 GTAAATGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:34305445 original size:21 final size:21
Alignment explanation
Indices: 34305420--34305487 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
34305410 TGTGTTTTAT
*
34305420 TTTCTGTTAAACTCTTATGAG
1 TTTCTGTTAAACTCTTACGAG
* *
34305441 TTTCTGTTCAAGTCTTACGAG
1 TTTCTGTTAAACTCTTACGAG
* * * *
34305462 CTTCTGTTCAGCTCTTTCGAG
1 TTTCTGTTAAACTCTTACGAG
*
34305483 CTTCT
1 TTTCT
34305488 ATTCAGCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (21 bp):
TTTCTGTTAAACTCTTACGAG
Found at i:34305502 original size:19 final size:21
Alignment explanation
Indices: 34305453--34305506 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
34305443 TCTGTTCAAG
* *
34305453 TCTTACGAGCTTCTGTTCAGC
1 TCTTTCGAGCTTCTATTCAGC
34305474 TCTTTCGAGCTTCTATTCAGC
1 TCTTTCGAGCTTCTATTCAGC
34305495 T-TTT-GAGCTTCT
1 TCTTTCGAGCTTCT
34305507 GATTGGAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 20 0.65
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (21 bp):
TCTTTCGAGCTTCTATTCAGC
Found at i:34309204 original size:28 final size:27
Alignment explanation
Indices: 34309151--34309310 Score: 117
Period size: 28 Copynumber: 5.7 Consensus size: 27
34309141 TTTTATTTAT
*
34309151 TTAGGGTTTAAGGG-TTTAGAGAAAATGAA
1 TTAGGGTTT-AGGGTTTTA-A-AAAATAAA
34309180 TTAGGGTTTAGGGGTTTTAAAAAATAAA
1 TTAGGGTTTA-GGGTTTTAAAAAATAAA
* *
34309208 TTAGGGTTTATGTTTTTAAATAAATTAAA
1 TTAGGGTTTAGGGTTTTAAA-AAA-TAAA
***
34309237 TTAGGGGTTT-TTATTTTAAAAAATAAA
1 TTA-GGGTTTAGGGTTTTAAAAAATAAA
*** *
34309264 TTAGGGTTTAAATATTTTTAAAAATAAA
1 TTAGGGTTT-AGGGTTTTAAAAAATAAA
***
34309292 TTTTTGTTTAGGGTTTTAA
1 TTAGGGTTTAGGGTTTTAA
34309311 GGTTTTTATA
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.05
27 21 0.19
28 45 0.41
29 28 0.25
30 10 0.09
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (27 bp):
TTAGGGTTTAGGGTTTTAAAAAATAAA
Found at i:34309537 original size:126 final size:125
Alignment explanation
Indices: 34309390--34310063 Score: 906
Period size: 126 Copynumber: 5.4 Consensus size: 125
34309380 TTTTCAGTGT
* *
34309390 GCAAAAGTACT-AAAAAGAGCTCCCAGCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAATTA
1 GCAAAAGTACTGAAAAA-AGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAAA-TA
* * ** * *
34309454 ATTTTGAGAAGATGATTCTGAAAAAATAAGGTAAAAAACATTTCAAGAAAGATGCACTGTTA
64 ATTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTTA
* * **
34309516 GCAAAAGTACTGAAAAAAGCTCTCACTTGGGTGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAA
1 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTG-AAAAATAA
* *
34309581 TTTTGAGAAGATAGTTTTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACT-TTCA
65 TTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTT-A
* * * * *
34309642 GCAAAAGTACCGAAAAAAGCTCCCACCTAGACACTCTTTTTCTACAATAATTTCTGAAAAA-AAT
1 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAAATAAT
* * *
34309706 AATTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATGCTTCAAACAGGATGCACTGTTA
66 -TTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTTA
34309767 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAAATAAT
1 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAAATAAT
* *
34309832 TTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAAAGCTTCAAGCAGGATGCACTTTTA
66 TTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTTA
* * * *
34309892 GCAAAAGTACTAAAAAAAGCTCCCACCTGGACTCTCTTTTTCTATAGTAGTTTTTGAAAAAATAA
1 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTG-AAAAATAA
* * * * *
34309957 TTTTGAGAAGATGGTTCT-AAATAAATAGGGTCAAAAATGCTTCAAGCGGGATGCATTGTCA
65 TTTTGAGAAGATGGTTCTGAAA-AAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTTA
* * * * * *
34310018 GTAAAAATACTAAAAAAAGCTCCCACCTAGAAGCTTTTTTTCTACA
1 GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACA
34310064 ATACATCCTA
Statistics
Matches: 486, Mismatches: 54, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
124 3 0.01
125 226 0.47
126 247 0.51
127 10 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (125 bp):
GCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTGAAAAATAAT
TTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTGTTA
Found at i:34309608 original size:14 final size:14
Alignment explanation
Indices: 34309563--34309608 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
34309553 TTTTCTACAG
34309563 TAGTTTCTGAAAAAA
1 TAGTTT-TGAAAAAA
* * *
34309578 TAATTTTGAGAAGA
1 TAGTTTTGAAAAAA
34309592 TAGTTTTGAAAAAA
1 TAGTTTTGAAAAAA
34309606 TAG
1 TAG
34309609 GGTAAAAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (14 bp):
TAGTTTTGAAAAAA
Found at i:34309965 original size:251 final size:252
Alignment explanation
Indices: 34309390--34310063 Score: 944
Period size: 251 Copynumber: 2.7 Consensus size: 252
34309380 TTTTCAGTGT
* * * * *
34309390 GCAAAAGTACTAAAAAGAGCTCCCAGCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAATTAA
1 GCAAAAGTACTAAAAAAAGCTCCCACCTGGACACTCTTTTTCTACAGTAGTTTCTGAAAAAATAA
* * *** *
34309455 TTTTGAGAAGATGATTCTGAAAAAATAAGGTAAAAAACATTTCAAGA-AAGATGCACTGTTAGCA
66 TTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATGCTTCAA-ACAGGATGCACTGTTAGCA
* * **
34309519 AAAGTACTGAAAAAAGCTCTCACTTGGGTGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTT
130 AAAGTACTGAAAAAAGCTCCCACCTGGAAGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTT
* *
34309584 TGAGAAGATAGTTTTGAAAAAATAGGGTAAAAAACGCTTCAAGCAGGATGCACTTTCA
195 TGAGAAGATAGTTCTGAAAAAATAGGGTAAAAAAAGCTTCAAGCAGGATGCACTTTCA
** * * *
34309642 GCAAAAGTACCGAAAAAAGCTCCCACCTAGACACTCTTTTTCTACAATAATTTCTGAAAAAAATA
1 GCAAAAGTACTAAAAAAAGCTCCCACCTGGACACTCTTTTTCTACAGTAGTTTCTG-AAAAAATA
34309707 A--TTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATGCTTCAAACAGGATGCACTGTTAGCA
65 ATTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATGCTTCAAACAGGATGCACTGTTAGCA
*
34309770 AAAGTACTGAAAAAAGCTCCCACCTGGACGCTCTTTTTCTACAGTAGTTTCTG-AAAAATAATTT
130 AAAGTACTGAAAAAAGCTCCCACCTGGAAGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTT
* *
34309834 TGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAAAGCTTCAAGCAGGATGCACTTTTA
195 TGAGAAGATAGTTCTGAAAAAATAGGGTAAAAAAAGCTTCAAGCAGGATGCACTTTCA
* * *
34309892 GCAAAAGTACTAAAAAAAGCTCCCACCTGGACTCTCTTTTTCTATAGTAGTTTTTGAAAAAATAA
1 GCAAAAGTACTAAAAAAAGCTCCCACCTGGACACTCTTTTTCTACAGTAGTTTCTGAAAAAATAA
* * * * * *
34309957 TTTTGAGAAGATGGTTCT-AAATAAATAGGGTCAAAAATGCTTCAAGCGGGATGCATTGTCAGTA
66 TTTTGAGAAGATGGTTCTGAAA-AAATAGGGTAAAAAATGCTTCAAACAGGATGCACTGTTAGCA
* * * *
34310021 AAAATACTAAAAAAAGCTCCCACCTAGAAGCTTTTTTTCTACA
130 AAAGTACTGAAAAAAGCTCCCACCTGGAAGCTCTTTTTCTACA
34310064 ATACATCCTA
Statistics
Matches: 374, Mismatches: 43, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
249 9 0.02
250 117 0.31
251 193 0.52
252 47 0.13
253 8 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (252 bp):
GCAAAAGTACTAAAAAAAGCTCCCACCTGGACACTCTTTTTCTACAGTAGTTTCTGAAAAAATAA
TTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAAATGCTTCAAACAGGATGCACTGTTAGCAA
AAGTACTGAAAAAAGCTCCCACCTGGAAGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTTT
GAGAAGATAGTTCTGAAAAAATAGGGTAAAAAAAGCTTCAAGCAGGATGCACTTTCA
Found at i:34310163 original size:25 final size:25
Alignment explanation
Indices: 34310145--34310193 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34310135 GAAATTAGAG
34310145 AAGTTTAGAAGAATAGAAATTGAAA
1 AAGTTTAGAAGAATAGAAATTGAAA
* *
34310170 AAGTTTAGAATAATATAAATTGAA
1 AAGTTTAGAAGAATAGAAATTGAA
34310194 GAAGGTGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (25 bp):
AAGTTTAGAAGAATAGAAATTGAAA
Found at i:34312314 original size:17 final size:18
Alignment explanation
Indices: 34312294--34312327 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34312284 TAATCACCAC
*
34312294 TAATATT-ATTTTGTTTA
1 TAATATTCAATTTGTTTA
34312311 TAATATTCAATTTGTTT
1 TAATATTCAATTTGTTT
34312328 TTGAATGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
TAATATTCAATTTGTTTA
Done.