Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 83 of 120
Found at i:24858120 original size:20 final size:21
Alignment explanation
Indices: 24858099--24858148 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
24858089 CCAAAAGCAT
24858099 AAAAAATATAAAT-AATAAATA
1 AAAAAATA-AAATAAATAAATA
24858120 AATATAAATCAAAATAAATAAATA
1 AA-A-AAAT-AAAATAAATAAATA
24858144 AAAAA
1 AAAAA
24858149 GAAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 9 0.36
24 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAATAAAATAAATAAATA
Found at i:24858128 original size:10 final size:10
Alignment explanation
Indices: 24858106--24858143 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
24858096 CATAAAAAAT
24858106 ATAAATAATAA
1 ATAAAT-ATAA
24858117 ATAAATATAA
1 ATAAATATAA
24858127 ATCAAA-ATAA
1 AT-AAATATAA
24858137 ATAAATA
1 ATAAATA
24858144 AAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 9 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAATATAA
Found at i:24858153 original size:20 final size:20
Alignment explanation
Indices: 24858112--24858158 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
24858102 AAATATAAAT
* *
24858112 AATAAATAAATATAAATCAA
1 AATAAATAAATAAAAAACAA
*
24858132 AATAAATAAATAAAAAAGAA
1 AATAAATAAATAAAAAACAA
24858152 AA-AAATA
1 AATAAATA
24858159 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAAATAAATAAAAAACAA
Found at i:24858733 original size:15 final size:15
Alignment explanation
Indices: 24858708--24858742 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24858698 AACTCTATTT
*
24858708 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24858722 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24858737 TAATTA
1 TAATTA
24858743 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24863210 original size:131 final size:131
Alignment explanation
Indices: 24862947--24863194 Score: 300
Period size: 131 Copynumber: 1.9 Consensus size: 131
24862937 TATTGTCGCG
* * * * * *
24862947 AATTCTTAATTAAAAGCATAACGACAAAATAAATTGTTGTTAAATGCTAAAATATTAACATCAAC
1 AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
* * * * *
24863012 ATTAAAATGTCATTATCTAATTTAATTTTCATGTTATTAATCACAACAATAAGGTTACTCATTAT
66 ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAAAAATAAGATTACTCATTAT
24863077 A
131 A
* **
24863078 AATTCTTAA-TAAAATACACAACAACAAAATAAATTATTGGTAAATGTTATTATATTAACAACAA
1 AATTCTTAATTAAAA-ACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAA
** * **
24863142 TTTTAAAATGTTATTATATAATTTAATTTTTTTAATTACTAATCACAAAAATA
65 CATTAAAATGTCATTATATAATTTAATTTTCAT-ATTACTAATCACAAAAATA
24863195 CAATTTTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 5 0.05
131 76 0.78
132 16 0.16
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (131 bp):
AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAAAAATAAGATTACTCATTAT
A
Found at i:24864026 original size:15 final size:15
Alignment explanation
Indices: 24864001--24864042 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
24863991 TTGATGAAAA
*
24864001 TATATTTTATTGT-T
1 TATATTATATTGTAT
*
24864015 TATTATTATATTATAT
1 TA-TATTATATTGTAT
24864031 TATATTATATTG
1 TATATTATATTG
24864043 ACACTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 18 0.78
16 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TATATTATATTGTAT
Found at i:24865320 original size:17 final size:17
Alignment explanation
Indices: 24865298--24865330 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24865288 ATATAATAAA
24865298 TATTTTTATT-ATTTTAT
1 TATTTTT-TTAATTTTAT
24865315 TATTTTTTTAATTTTA
1 TATTTTTTTAATTTTA
24865331 AAATACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTTAATTTTAT
Found at i:24865357 original size:10 final size:10
Alignment explanation
Indices: 24865344--24865404 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
24865334 TACTTTTATT
24865344 AAATTTTTTA
1 AAATTTTTTA
24865354 AAA---TTTA
1 AAATTTTTTA
24865361 AAATTTTTTA
1 AAATTTTTTA
*
24865371 AAATACTTTTTT
1 AAAT--TTTTTA
*
24865383 TAA--TTTTA
1 AAATTTTTTA
24865391 AAATTTTTTA
1 AAATTTTTTA
24865401 AAAT
1 AAAT
24865405 ACTTTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
7 7 0.17
8 6 0.15
10 20 0.50
12 7 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
AAATTTTTTA
Found at i:24865359 original size:31 final size:27
Alignment explanation
Indices: 24865309--24865364 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 27
24865299 ATTTTTATTA
*
24865309 TTTTATTATTTTTTTAATTTTAAAATAC
1 TTTTATTA-TTTTTTAAATTTAAAATAC
24865337 TTTTATTAAATTTTTTAAAATTTAAAAT
1 TTTTATT--ATTTTTT-AAATTTAAAAT
24865365 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 6 0.25
30 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTATTATTTTTTAAATTTAAAATAC
Found at i:24865383 original size:14 final size:14
Alignment explanation
Indices: 24865364--24865415 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
24865354 AAATTTAAAA
24865364 TTTTTTAAAATACT
1 TTTTTTAAAATACT
** **
24865378 TTTTTTAATTTTAAAA
1 TTTTTTAA-AAT-ACT
24865394 TTTTTTAAAATACT
1 TTTTTTAAAATACT
24865408 TTTTTTAA
1 TTTTTTAA
24865416 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
14 17 0.61
15 2 0.07
16 9 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTAAAATACT
Found at i:24865421 original size:31 final size:30
Alignment explanation
Indices: 24865317--24865419 Score: 138
Period size: 30 Copynumber: 3.4 Consensus size: 30
24865307 TATTTTATTA
* *
24865317 TTTTTTTAATTTTAAAATACTTTTATTAA-A-
1 TTTTTTTAATTTTAAAAT-TTTTTA-AAATAC
* *
24865347 TTTTTTAAAATTTAAAATTTTTTAAAATAC
1 TTTTTTTAATTTTAAAATTTTTTAAAATAC
24865377 TTTTTTTAATTTTAAAATTTTTTAAAATAC
1 TTTTTTTAATTTTAAAATTTTTTAAAATAC
24865407 TTTTTTTAATTTT
1 TTTTTTTAATTTT
24865420 TATTTTAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 2 0.03
29 6 0.09
30 57 0.88
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTTTAATTTTAAAATTTTTTAAAATAC
Found at i:24868106 original size:13 final size:13
Alignment explanation
Indices: 24868036--24868125 Score: 117
Period size: 13 Copynumber: 6.9 Consensus size: 13
24868026 AGTTCTTTAT
24868036 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
24868049 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
24868062 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
24868075 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
24868088 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
24868101 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
24868114 TGCTTTTGAAAA
1 TGCTTTTGAAAA
24868126 TTTTAAGTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 67 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24868407 original size:21 final size:19
Alignment explanation
Indices: 24868351--24868411 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
24868341 TAATTATTTA
24868351 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
24868370 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
24868389 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
24868410 TT
1 TT
24868412 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:24870244 original size:72 final size:73
Alignment explanation
Indices: 24870154--24870328 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 73
24870144 AAAATCACAT
* *
24870154 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATT-AA-ATGAAGA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCAA-A
24870216 AAGACCAAAC
65 AA-ACCAAAC
* * * *
24870226 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAATATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCAAA
24870289 AAACCAAAC
65 AAACCAAAC
* * * *
24870298 ATAAATAAATGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
24870329 TTGTTGTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
71 1 0.01
72 74 0.86
73 8 0.09
74 3 0.03
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCAAAA
AACCAAAC
Found at i:24870773 original size:18 final size:18
Alignment explanation
Indices: 24870750--24870815 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
24870740 TCCATCAATT
24870750 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
24870768 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
24870786 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
24870804 TGAACATCATTT
1 TGAACATCATTT
24870816 CTCATATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:24871571 original size:361 final size:361
Alignment explanation
Indices: 24870907--24871617 Score: 1422
Period size: 361 Copynumber: 2.0 Consensus size: 361
24870897 GGTGCCCATG
24870907 CTTTATCACCTGTTGCAACTATCCCCATGAACATTTGGTCCAACTTCCCTTCGAATTCAGGATCA
1 CTTTATCACCTGTTGCAACTATCCCCATGAACATTTGGTCCAACTTCCCTTCGAATTCAGGATCA
24870972 ATGCCCGATGTTCTAAATTTTTTAGCTTCAGGCAAAACCTACATATAAAATGATAATTTAATAAC
66 ATGCCCGATGTTCTAAATTTTTTAGCTTCAGGCAAAACCTACATATAAAATGATAATTTAATAAC
24871037 AGTAATTATCAATAACATCATAAATAAGAAATAAAATAAAAAAATATTTAGAATTATTAATGTAC
131 AGTAATTATCAATAACATCATAAATAAGAAATAAAATAAAAAAATATTTAGAATTATTAATGTAC
24871102 CTGGAGCCTACTCTCCCACCATTCATCCGATGCATCAACGGTTCTTTTTATAGGATTCCACCCTA
196 CTGGAGCCTACTCTCCCACCATTCATCCGATGCATCAACGGTTCTTTTTATAGGATTCCACCCTA
24871167 AACCAGTATATTCGCCTTTAAGTTTCTTCCAAGCTTTCCATTCTTTTTTTAGGGCATCCCACCTA
261 AACCAGTATATTCGCCTTTAAGTTTCTTCCAAGCTTTCCATTCTTTTTTTAGGGCATCCCACCTA
24871232 TTTTTAAGTTGTCTTTGTGAAAAACATTTGGTCCAA
326 TTTTTAAGTTGTCTTTGTGAAAAACATTTGGTCCAA
24871268 CTTTATCACCTGTTGCAACTATCCCCATGAACATTTGGTCCAACTTCCCTTCGAATTCAGGATCA
1 CTTTATCACCTGTTGCAACTATCCCCATGAACATTTGGTCCAACTTCCCTTCGAATTCAGGATCA
24871333 ATGCCCGATGTTCTAAATTTTTTAGCTTCAGGCAAAACCTACATATAAAATGATAATTTAATAAC
66 ATGCCCGATGTTCTAAATTTTTTAGCTTCAGGCAAAACCTACATATAAAATGATAATTTAATAAC
24871398 AGTAATTATCAATAACATCATAAATAAGAAATAAAATAAAAAAATATTTAGAATTATTAATGTAC
131 AGTAATTATCAATAACATCATAAATAAGAAATAAAATAAAAAAATATTTAGAATTATTAATGTAC
24871463 CTGGAGCCTACTCTCCCACCATTCATCCGATGCATCAACGGTTCTTTTTATAGGATTCCACCCTA
196 CTGGAGCCTACTCTCCCACCATTCATCCGATGCATCAACGGTTCTTTTTATAGGATTCCACCCTA
24871528 AACCAGTATATTCGCCTTTAAGTTTCTTCCAAGCTTTCCATTCTTTTTTTAGGGCATCCCACCTA
261 AACCAGTATATTCGCCTTTAAGTTTCTTCCAAGCTTTCCATTCTTTTTTTAGGGCATCCCACCTA
24871593 TTTTTAAGTTGTCTTTGTGAAAAAC
326 TTTTTAAGTTGTCTTTGTGAAAAAC
24871618 CCTTGCCCGT
Statistics
Matches: 350, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
361 350 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (361 bp):
CTTTATCACCTGTTGCAACTATCCCCATGAACATTTGGTCCAACTTCCCTTCGAATTCAGGATCA
ATGCCCGATGTTCTAAATTTTTTAGCTTCAGGCAAAACCTACATATAAAATGATAATTTAATAAC
AGTAATTATCAATAACATCATAAATAAGAAATAAAATAAAAAAATATTTAGAATTATTAATGTAC
CTGGAGCCTACTCTCCCACCATTCATCCGATGCATCAACGGTTCTTTTTATAGGATTCCACCCTA
AACCAGTATATTCGCCTTTAAGTTTCTTCCAAGCTTTCCATTCTTTTTTTAGGGCATCCCACCTA
TTTTTAAGTTGTCTTTGTGAAAAACATTTGGTCCAA
Found at i:24872202 original size:117 final size:117
Alignment explanation
Indices: 24872064--24872439 Score: 697
Period size: 117 Copynumber: 3.2 Consensus size: 117
24872054 TTATAGGCAC
24872064 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
24872129 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
24872181 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
24872246 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
*
24872298 AAGTTTTTAATTAATATTTATGTAATT-AAAATGGTCCCTTTAAGATGATTATT-A--ATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
* *
24872359 TTGCTACTAACAAAATTTTACATTCTTTTACATTCATTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
24872411 AAGTTTTTAATTAATATTTATGTAATTAA
1 AAGTTTTTAATTAATATTTATGTAATTAA
24872440 TATTTATGTA
Statistics
Matches: 255, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
113 84 0.33
114 1 0.00
115 1 0.00
116 25 0.10
117 144 0.56
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (117 bp):
AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
Found at i:24872438 original size:15 final size:15
Alignment explanation
Indices: 24872418--24872454 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
24872408 ACAAAGTTTT
24872418 TAATTAATATTTATG
1 TAATTAATATTTATG
24872433 TAATTAATATTTATG
1 TAATTAATATTTATG
24872448 TAATTAA
1 TAATTAA
24872455 AAATAGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:24874425 original size:19 final size:19
Alignment explanation
Indices: 24874401--24874527 Score: 83
Period size: 19 Copynumber: 6.1 Consensus size: 19
24874391 GTGGTGGAGA
*
24874401 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
24874420 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
* * *
24874445 AGAGGAAGAAATAACCAGT
1 AGAGGAACAAAGAACCAGC
24874464 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
* *
24874489 AGAGGAAGAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
*
24874508 AAAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
24874527 A
1 A
24874528 CCAGCAAAGG
Statistics
Matches: 84, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
19 50 0.60
21 2 0.02
23 1 0.01
25 31 0.37
ACGTcount: A:0.51, C:0.22, G:0.24, T:0.02
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:24874439 original size:25 final size:25
Alignment explanation
Indices: 24874411--24874602 Score: 201
Period size: 25 Copynumber: 8.2 Consensus size: 25
24874401 AGAGGAACAA
24874411 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
24874436 AGCACCAGCAGAGG----AAGAA--
1 AGCACCAGCAGAGGAACAAAGAACC
** *
24874455 ATAACCAGTAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
24874480 AGCACCAGCAGAGGAAGAAATAACC
1 AGCACCAGCAGAGGAACAAAGAACC
24874505 AG---CA--A-AGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
24874524 AGCACCAGCAAAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
24874549 AACACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* * *
24874574 AGCACCAGCAGAGGATCAATGAAGC
1 AGCACCAGCAGAGGAACAAAGAACC
24874599 AGCA
1 AGCA
24874603 GAGGAACAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
19 25 0.18
20 1 0.01
21 5 0.04
22 4 0.03
23 5 0.04
24 1 0.01
25 96 0.70
ACGTcount: A:0.50, C:0.24, G:0.23, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:24874468 original size:44 final size:44
Alignment explanation
Indices: 24874414--24874615 Score: 255
Period size: 44 Copynumber: 4.5 Consensus size: 44
24874404 GGAACAAAGC
24874414 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
*
24874458 ACCAGTAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
* *
24874502 ACCAGCAAAGGAACAAAGAACCAGCACCAGCAAAGGAACAAAGAACCA-A
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGG----AAGAA--ATA
* **
24874551 CACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGG-ATCAATGA
1 -ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAAT-A
*
24874596 AGCAGCAGAGGAACAAAGAA
1 ACCAGCAGAGGAACAAAGAA
24874616 GCAACGATGA
Statistics
Matches: 138, Mismatches: 11, Indels: 18
0.83 0.07 0.11
Matches are distributed among these distances:
43 1 0.01
44 94 0.68
45 3 0.02
48 5 0.04
49 1 0.01
50 34 0.25
ACGTcount: A:0.51, C:0.23, G:0.23, T:0.02
Consensus pattern (44 bp):
ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
Found at i:24874602 original size:69 final size:69
Alignment explanation
Indices: 24874413--24874620 Score: 226
Period size: 69 Copynumber: 3.0 Consensus size: 69
24874403 AGGAACAAAG
* *
24874413 CACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAAT-AACCAGTAGAGGAACAAAGA
1 CACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAA-CAATGAACCAGCAGAGGAACAAAGA
*
24874477 ACCAG
65 ACCAA
* * * * * * *
24874482 CACCAGCAGAGGAAGAAATAACCAGCA-AAGGAACA-AAGAACCA-GCACCAGCAAAGGAACAAA
1 CACCAGCAGAGGAACAAAGAACCAGCACCA-G--CAGAGGAACAATGAACCAGCAGAGGAACAAA
24874544 GAACCAA
63 GAACCAA
* * *
24874551 CACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGATCAATGAAGCAGCAGAGGAACAAAGAA
1 CACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAATGAACCAGCAGAGGAACAAAGAA
*
24874616 GCAA
66 CCAA
24874620 C
1 C
24874621 GATGAGAGAA
Statistics
Matches: 111, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
67 2 0.02
68 6 0.05
69 96 0.86
70 5 0.05
71 2 0.02
ACGTcount: A:0.50, C:0.24, G:0.23, T:0.02
Consensus pattern (69 bp):
CACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAATGAACCAGCAGAGGAACAAAGAA
CCAA
Found at i:24874603 original size:19 final size:19
Alignment explanation
Indices: 24874579--24874618 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24874569 GAACCAGCAC
* *
24874579 CAGCAGAGGATCAATGAAG
1 CAGCAGAGGAACAAAGAAG
24874598 CAGCAGAGGAACAAAGAAG
1 CAGCAGAGGAACAAAGAAG
24874617 CA
1 CA
24874619 ACGATGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.30, T:0.05
Consensus pattern (19 bp):
CAGCAGAGGAACAAAGAAG
Found at i:24877461 original size:90 final size:90
Alignment explanation
Indices: 24877178--24877471 Score: 272
Period size: 90 Copynumber: 3.3 Consensus size: 90
24877168 ACATTAGGTT
* * * * * *
24877178 GTGGATAAACCACAAAAGTTGCAGGTTAATATGCTGTCAGATGGTTGTGAGTGTACAACATATTT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
* * * * * *
24877243 TCAGATGAGGGCTGTCAG-AATATG
66 GCAAATAAGAGCTGACAGAAATTTG
* * * * * * *
24877267 GATGGATGAACCACCAATATTGTAGGTTAATAGGTTGTCAGATGGTTGTTAATACACAACGTATT
1 G-TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATT
* * * *
24877332 TGTAAATAAGAGCT-ACAAAAAAATGG
65 TGCAAATAAGAGCTGAC-AGAAATTTG
* * * *
24877358 GTGGATGAGCCACCAATGTTGTAGGTTAATACGCTGCCAGATGGTTGTGAATGCACAACATAATT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
*
24877423 GCAAATAAGAGCTGCCAGATAATTTG
66 GCAAATAAGAGCTGACAGA-AATTTG
24877449 G-GGATAAACCACCAGA-GTTGTAG
1 GTGGATAAACCACCA-ATGTTGTAG
24877472 ATTTATTAAT
Statistics
Matches: 161, Mismatches: 38, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
89 2 0.01
90 148 0.92
91 11 0.07
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (90 bp):
GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
GCAAATAAGAGCTGACAGAAATTTG
Found at i:24881276 original size:36 final size:36
Alignment explanation
Indices: 24881231--24881356 Score: 170
Period size: 34 Copynumber: 3.6 Consensus size: 36
24881221 ACCTAATGCT
24881231 CAAATCAATTCGGCAATATATATATGTATACATATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
*
24881267 CAAATCAATTCGAC-A-ATATATATGTATACATATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
* * * *
24881301 CAAATCAATTCAGCAATGTATATA--TATATATATT
1 CAAATCAATTCGGCAATATATATATGTATACATATA
*
24881335 TAAATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATATATA
24881357 AAACATATAC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 58 0.73
35 2 0.03
36 19 0.24
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (36 bp):
CAAATCAATTCGGCAATATATATATGTATACATATA
Found at i:24887429 original size:13 final size:13
Alignment explanation
Indices: 24887397--24887437 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24887387 TATATTTTTA
24887397 TTAAATTA-TATT
1 TTAAATTATTATT
*
24887409 TAATAATTATTATT
1 TTA-AATTATTATT
24887423 TTAAATTATT-TT
1 TTAAATTATTATT
24887435 TTA
1 TTA
24887438 TAGTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAAATTATTATT
Found at i:24887478 original size:18 final size:17
Alignment explanation
Indices: 24887455--24887507 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
24887445 ATATATTATG
*
24887455 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
24887473 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
24887490 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
24887508 TTAATAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:24887715 original size:44 final size:46
Alignment explanation
Indices: 24887666--24887758 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
24887656 TTACACCTAT
* * *
24887666 ATTCCATTCAACCAAACACAAGAA-TACC-ATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
*
24887710 ATTCCATTCAACTAAACAAAAGAATTACCTATTACGCATCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
24887756 ATT
1 ATT
24887759 ACACCTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 4 0.09
46 17 0.40
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
Found at i:24889228 original size:4 final size:4
Alignment explanation
Indices: 24889221--24889268 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
24889211 TGCATGCATG
24889221 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
24889269 ACCATTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:24889831 original size:15 final size:16
Alignment explanation
Indices: 24889799--24889831 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24889789 GGATCTTTTT
*
24889799 CAAAAATTACTTATTA
1 CAAAAATTACTTAATA
24889815 CAAAAATTAC-TAATA
1 CAAAAATTACTTAATA
24889830 CA
1 CA
24889832 TATATGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
CAAAAATTACTTAATA
Found at i:24890646 original size:16 final size:16
Alignment explanation
Indices: 24890610--24890647 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
24890600 AACTAAAATG
*
24890610 TAAACAAATTTAAAAA
1 TAAATAAATTTAAAAA
*
24890626 T-AATAAATTTGAAAA
1 TAAATAAATTTAAAAA
24890641 TAAATAA
1 TAAATAA
24890648 TAAGAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAATAAATTTAAAAA
Found at i:24891515 original size:23 final size:22
Alignment explanation
Indices: 24891489--24891533 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
24891479 AAATTAAATC
24891489 TCTAAGATTACATAATCATATCT
1 TCTAAGATTACAT-ATCATATCT
*
24891512 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACATATCATATCT
24891534 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTACATATCATATCT
Found at i:24891536 original size:19 final size:20
Alignment explanation
Indices: 24891489--24891546 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 20
24891479 AAATTAAATC
*
24891489 TCTAAGATTACATAATCATATCT
1 TCTAAGATTGCAT-ATCATA--T
24891512 TCTAAGATTGCATATCATA-
1 TCTAAGATTGCATATCATAT
24891531 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
24891547 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
22 6 0.18
23 12 0.35
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCATATCATAT
Found at i:24891750 original size:17 final size:17
Alignment explanation
Indices: 24891713--24891760 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
24891703 GCATTTATAA
*
24891713 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
24891729 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
24891746 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
24891761 AAAAGAATTT
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:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:24893057 original size:46 final size:46
Alignment explanation
Indices: 24892987--24893171 Score: 273
Period size: 46 Copynumber: 4.0 Consensus size: 46
24892977 CCTGGAAAAG
24892987 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
* * *
24893033 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
* * *
24893079 TATGAAAAGTAGGTATGGTGTTTC-AGTAAAGAAAACTATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TAAAGAAAACCATACTGAGT
* * *
24893125 TGTGAAAAGTAGGTATGGTATTTCCATTAACAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
24893171 T
1 T
24893172 ATAGCAATGT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 124 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
Found at i:24895287 original size:89 final size:89
Alignment explanation
Indices: 24895149--24895341 Score: 262
Period size: 89 Copynumber: 2.2 Consensus size: 89
24895139 TATTTCTCTG
* * *
24895149 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGCTTCGTTGTCAATACAGGAAGACAAGATT
1 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTCCTTGCCAATACAGGAAGACAAGATT
* *
24895214 TGCTATCGCCAGTCTGCTCTGCTT
66 TGCTATCGCCAGTCTGCTCCGCTA
* * * * *
24895238 CAAACTTAGGGAGGCAAGGCTGGTGTCTTTGATCTGATTCACTT-CCAATACAGGAAGACAATAT
1 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTC-CTTGCCAATACAGGAAGACAAGAT
* *
24895302 TTTCTATCGTCAGTCTGCTCCGCTA
65 TTGCTATCGCCAGTCTGCTCCGCTA
24895327 CAAACTCAGGGAGGC
1 CAAACTCAGGGAGGC
24895342 GAGACTTGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 88 0.98
90 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (89 bp):
CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTCCTTGCCAATACAGGAAGACAAGATT
TGCTATCGCCAGTCTGCTCCGCTA
Found at i:24895420 original size:44 final size:44
Alignment explanation
Indices: 24895363--24895613 Score: 185
Period size: 44 Copynumber: 5.7 Consensus size: 44
24895353 CTTCAATCCC
* * **
24895363 CTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCTG
*
24895407 CTCTACTGCAACTT----GAGATAAGATCTGTGATTTATAGCTTTAATC--
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TTA-A-CTTTAATCTG
* * * * * *
24895452 CATCCCACTGCAACTTTAGAGAAATAAGATTCACTATCTTTAGTCTG
1 C-T-CCACTGCAACTTCAGGGAGATAAGATT-ATTAACTTTAATCTG
* * * *
24895499 CTCCACTGCAACTTCAGGGAGATAAGA--CTTCACTTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCTG
* *
24895541 CTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCTG
* *
24895585 CTCCACTACAAATTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
24895614 TGCCATCTTC
Statistics
Matches: 161, Mismatches: 29, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
40 8 0.05
42 35 0.22
43 1 0.01
44 50 0.31
45 32 0.20
46 2 0.01
47 22 0.14
48 2 0.01
49 1 0.01
51 8 0.05
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCTG
Found at i:24902563 original size:15 final size:16
Alignment explanation
Indices: 24902543--24902575 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24902533 AAATGTAAAC
*
24902543 AAATTT-AAAAATAAT
1 AAATTTGAAAAAAAAT
24902558 AAATTTGAAAAAAAAT
1 AAATTTGAAAAAAAAT
24902574 AA
1 AA
24902576 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATTTGAAAAAAAAT
Found at i:24903454 original size:17 final size:17
Alignment explanation
Indices: 24903432--24903475 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
24903422 ATTACAAAAT
*
24903432 CATATCTTCTAAGATTG
1 CATATCTTATAAGATTG
24903449 CATATCATATATAAGATTG
1 CATATC-T-TATAAGATTG
24903468 CATATCTT
1 CATATCTT
24903476 TAAAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 15 0.62
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (17 bp):
CATATCTTATAAGATTG
Found at i:24903483 original size:17 final size:17
Alignment explanation
Indices: 24903432--24903483 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
24903422 ATTACAAAAT
24903432 CATATCTTCT-AAGATTG
1 CATATCTT-TAAAGATTG
*
24903449 CATATCATATATAAGATTG
1 CATATC-TTTA-AAGATTG
24903468 CATATCTTTAAAGATT
1 CATATCTTTAAAGATT
24903484 ATGTTTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 13 0.43
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (17 bp):
CATATCTTTAAAGATTG
Found at i:24903814 original size:2 final size:2
Alignment explanation
Indices: 24903807--24903839 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24903797 TTGGAAATTA
24903807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24903840 GTTTATAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24905968 original size:20 final size:22
Alignment explanation
Indices: 24905931--24905970 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
24905921 TTGTATTATT
*
24905931 TTATATTATGTTATTTTATATA
1 TTATATTATGTTAATTTATATA
24905953 TTAT-TTATG-TAATTTATA
1 TTATATTATGTTAATTTATA
24905971 ACATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATATTATGTTAATTTATATA
Found at i:24906098 original size:7 final size:7
Alignment explanation
Indices: 24906088--24906112 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24906078 AATAAATAAA
24906088 AAATATT
1 AAATATT
24906095 AAATATT
1 AAATATT
24906102 AAATATT
1 AAATATT
24906109 AAAT
1 AAAT
24906113 TAAAAAATAT
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:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:24906099 original size:14 final size:14
Alignment explanation
Indices: 24906080--24906127 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
24906070 AAAATTTTAA
24906080 TAAATAAAAAATAT
1 TAAATAAAAAATAT
**
24906094 TAAATATTAAATAT
1 TAAATAAAAAATAT
24906108 TAAATTAAAAAATAT
1 TAAA-TAAAAAATAT
24906123 ATAAA
1 -TAAA
24906128 AATATTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 8 0.29
16 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAAAAATAT
Found at i:24908828 original size:40 final size:40
Alignment explanation
Indices: 24908716--24908828 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
24908706 AGCGGCACTT
* * *
24908716 TTAGCGGCGTTTGGAGCAAAAACGCTGCTAAAGAGTGAGCA
1 TTAGCGGCGTTT-AAGGAAAAGCGCTGCTAAAGAGTGAGCA
* ***
24908757 TTAGCGGCGTTTAAGTAAAAGCGCCATTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAGAGTGAGCA
* *
24908797 TTAGTGGCGTTTAAGGAGAAGCGCTGCTAAAG
1 TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAG
24908829 CGTCGCTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 48 0.80
41 12 0.20
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAGAGTGAGCA
Found at i:24909104 original size:112 final size:112
Alignment explanation
Indices: 24908824--24909198 Score: 615
Period size: 112 Copynumber: 3.3 Consensus size: 112
24908814 GAAGCGCTGC
* *
24908824 TAAAGCGTCGCTAAAGAGTGAGCATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* *
24908889 ACGGTGCCGTTCTGTGGCCTTTATGGGGGGGAAATAGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCC-TT-TGGGGGGGAATTAGTGGCGTTTATTG
* *
24908938 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACACCCAA
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
*
24909003 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
* * * *
24909050 TGAATCGCCGCTAAAGAGTGAACATTAGCAGCGTTTTTAAAAAATGCCGCAAATAATACACCCAG
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* *
24909115 ACGGTGCCGTTTTTTGGCCTTTGGGGGGGAATTCGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
24909162 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTA
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTA
24909199 NNNNNNNNNN
Statistics
Matches: 242, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
112 161 0.67
113 2 0.01
114 79 0.33
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (112 bp):
TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
Found at i:24909866 original size:60 final size:60
Alignment explanation
Indices: 24909801--24909930 Score: 235
Period size: 60 Copynumber: 2.2 Consensus size: 60
24909791 AGGGGTTAGT
*
24909801 GTTGGGGTTAGCACTTAGGGGTTATTAGGAGTTAATTAAGGATTTAGGGTTTAGTTAGGG
1 GTTGGGGTTAGCACTTAGGGGTTATTAGGAGTTAATTAAGGATTTAGGGTTTAGCTAGGG
*
24909861 GTTGGGGTTAGCACTTAGGGTTTATTAGGAGTTAATTAAGGATTTAGGGTTTAGCTAGGG
1 GTTGGGGTTAGCACTTAGGGGTTATTAGGAGTTAATTAAGGATTTAGGGTTTAGCTAGGG
24909921 GTT-GGGTTAG
1 GTTGGGGTTAG
24909931 GGTTTAGCTA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 7 0.10
60 61 0.90
ACGTcount: A:0.22, C:0.04, G:0.37, T:0.37
Consensus pattern (60 bp):
GTTGGGGTTAGCACTTAGGGGTTATTAGGAGTTAATTAAGGATTTAGGGTTTAGCTAGGG
Found at i:24909942 original size:11 final size:11
Alignment explanation
Indices: 24909905--24909948 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
24909895 ATTAAGGATT
24909905 TAGGGTTTAGC
1 TAGGGTTTAGC
** *
24909916 TAGGGGTTGGGT
1 TA-GGGTTTAGC
24909928 TAGGGTTTAGC
1 TAGGGTTTAGC
24909939 TAGGGTTTAG
1 TAGGGTTTAG
24909949 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.16, C:0.05, G:0.43, T:0.36
Consensus pattern (11 bp):
TAGGGTTTAGC
Found at i:24911190 original size:84 final size:84
Alignment explanation
Indices: 24911100--24911544 Score: 809
Period size: 84 Copynumber: 5.3 Consensus size: 84
24911090 TAAACTTTTG
*
24911100 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACAAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
24911165 TTCACAGATGTAATATTTA
66 TTCACAGATGTAATATTTA
**
24911184 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
*
24911249 TTCACAGATGTCATATTTA
66 TTCACAGATGTAATATTTA
24911268 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
24911333 TTCACAGATGTAATATTTA
66 TTCACAGATGTAATATTTA
**
24911352 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
* *
24911417 TTCACAGATGTCATGTTTA
66 TTCACAGATGTAATATTTA
24911436 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
24911501 TTCACAGATGTAATATTTA
66 TTCACAGATGTAATATTTA
24911520 GTGGCGTTTTTACCAAAAACGCCAC
1 GTGGCGTTTTTACC-AAAACGCCAC
24911545 TAAACGGTGT
Statistics
Matches: 345, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
84 335 0.97
85 10 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (84 bp):
GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
TTCACAGATGTAATATTTA
Found at i:24912888 original size:11 final size:11
Alignment explanation
Indices: 24912868--24912896 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24912858 GAATATCTCA
24912868 AACT-ATGGGT
1 AACTAATGGGT
24912878 AACTAATGGGT
1 AACTAATGGGT
24912889 AACTAATG
1 AACTAATG
24912897 TATTATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:24913676 original size:17 final size:17
Alignment explanation
Indices: 24913654--24913754 Score: 114
Period size: 17 Copynumber: 5.6 Consensus size: 17
24913644 GTTAAATTTA
24913654 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
24913671 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
24913688 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
24913711 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
24913728 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
24913745 TTACTAAAAT
1 TTACTAAAAT
24913755 TTGTTTAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 16
0.80 0.02 0.17
Matches are distributed among these distances:
16 3 0.04
17 55 0.74
23 13 0.18
24 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:24913787 original size:57 final size:57
Alignment explanation
Indices: 24913645--24913777 Score: 248
Period size: 57 Copynumber: 2.3 Consensus size: 57
24913635 CGATTGAATG
24913645 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
*
24913702 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
24913759 TTAAATTTATTACTTAAAA
1 TTAAATTTATTAC-TAAAA
24913778 ATGTTACTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 69 0.93
58 5 0.07
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:24913797 original size:13 final size:13
Alignment explanation
Indices: 24913759--24913803 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
24913749 TAAAATTTGT
24913759 TTAAATTTATTAC
1 TTAAATTTATTAC
** *
24913772 TTAAAAATGTTAC
1 TTAAATTTATTAC
24913785 TTAAATTTATTAC
1 TTAAATTTATTAC
*
24913798 CTAAAT
1 TTAAAT
24913804 GATTATAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:24914573 original size:19 final size:19
Alignment explanation
Indices: 24914548--24914757 Score: 80
Period size: 19 Copynumber: 10.7 Consensus size: 19
24914538 TTTAACTTAC
* * *
24914548 ATAACTTACGTAATCCATC
1 ATAACTTACATAATACATA
*
24914567 TTAACTTACATAATACATA
1 ATAACTTACATAATACATA
24914586 ATAACTTACAACTTACATAACATA
1 ATAACTTAC-A--TA-AT-ACATA
* **
24914610 CATTACTTTGATAACTTACATA
1 -ATAACTTACATAA--TACATA
*
24914632 ACTTACTTACATAATACATA
1 A-TAACTTACATAATACATA
*
24914652 ATAACTTACA-ACTTACATA
1 ATAACTTACATA-ATACATA
*
24914671 AT-ACATT---T-A-AC-TT
1 ATAAC-TTACATAATACATA
*
24914684 ACAACTTACATAATACATTTA
1 ATAACTTACATAATACA--TA
24914705 ACTTACAACTTACATAATACAT-
1 A--T--AACTTACATAATACATA
*
24914727 TTAACTTACATAATACAT-
1 ATAACTTACATAATACATA
*
24914745 TTAACTTACATAA
1 ATAACTTACATAA
24914758 CTTACCATTG
Statistics
Matches: 148, Mismatches: 18, Indels: 51
0.68 0.08 0.24
Matches are distributed among these distances:
13 4 0.03
14 4 0.03
16 1 0.01
17 1 0.01
18 34 0.23
19 41 0.28
20 9 0.06
21 4 0.03
22 19 0.13
23 4 0.03
24 6 0.04
25 21 0.14
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:24914684 original size:18 final size:18
Alignment explanation
Indices: 24914661--24914757 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
24914651 AATAACTTAC
24914661 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
24914679 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
* *
24914695 AA--TACAT-TTA-ACTT
1 AACTTACATAATACATTT
24914709 ACAACTTACATAATACATTT
1 A-A-CTTACATAATACATTT
24914729 AACTTACATAATACATTT
1 AACTTACATAATACATTT
24914747 AACTTACATAA
1 AACTTACATAA
24914758 CTTACCATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
12 1 0.02
13 3 0.05
14 6 0.09
15 1 0.02
16 3 0.05
17 1 0.02
18 44 0.67
19 3 0.05
20 4 0.06
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:24914744 original size:25 final size:25
Alignment explanation
Indices: 24914636--24914736 Score: 184
Period size: 25 Copynumber: 4.0 Consensus size: 25
24914626 TACATAACTT
*
24914636 ACTTACATAATACATAATAACTTACA
1 ACTTACATAATACAT-TTAACTTACA
24914662 ACTTACATAATACATTTAACTTACA
1 ACTTACATAATACATTTAACTTACA
24914687 ACTTACATAATACATTTAACTTACA
1 ACTTACATAATACATTTAACTTACA
24914712 ACTTACATAATACATTTAACTTACA
1 ACTTACATAATACATTTAACTTACA
24914737 TAATACATTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
25 59 0.80
26 15 0.20
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.35
Consensus pattern (25 bp):
ACTTACATAATACATTTAACTTACA
Found at i:24920255 original size:21 final size:22
Alignment explanation
Indices: 24920229--24920277 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
24920219 CTACAACTTA
*
24920229 AAGCAGAC-GCAGAAGCGAGGG
1 AAGCAGACGGCAGAAGCGAGAG
* *
24920250 AAGCAG-CGGCTGCAGCGAGAG
1 AAGCAGACGGCAGAAGCGAGAG
24920271 AAGCAGA
1 AAGCAGA
24920278 GCAAAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.37, C:0.20, G:0.41, T:0.02
Consensus pattern (22 bp):
AAGCAGACGGCAGAAGCGAGAG
Found at i:24920652 original size:42 final size:42
Alignment explanation
Indices: 24920602--24920720 Score: 195
Period size: 42 Copynumber: 2.8 Consensus size: 42
24920592 TGTATAAAAA
* *
24920602 CGCCGCTAAAGACCATGTTCTTGAGCGGCGTTTTTC-CTTAAG
1 CGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTTTCTC-TAAG
24920644 CGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTTTCTCTAAG
1 CGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTTTCTCTAAG
*
24920686 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTTT
24920721 GTTTGTAAAC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTTTCTCTAAG
Found at i:24921206 original size:56 final size:56
Alignment explanation
Indices: 24921130--24921241 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
24921120 AAAGTATGCA
24921130 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
1 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
** *
24921186 AGGTTATTTTTTTATTCTTTTGACTCTTCTTGTGCCCTTAAGCTTGTCCAAAATCT
1 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
24921242 CTTTGTCATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (56 bp):
AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
Found at i:24921668 original size:23 final size:23
Alignment explanation
Indices: 24921641--24921982 Score: 165
Period size: 23 Copynumber: 14.7 Consensus size: 23
24921631 ACTACATATT
24921641 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* * *
24921664 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
*
24921687 ACAAAATTT-GACAGCAT-TGATTC
1 AC-AAATTTGGACAGCATGT-ATAC
* * ** *
24921710 ACCAAAATTGGTCAGCATACATAT
1 A-CAAATTTGGACAGCATGTATAC
24921734 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* *
24921757 ACAAAATAT-AACAGCATGTATGTAC
1 AC-AAATTTGGACAGCATGTA--TAC
24921782 A-AAATTT-GACAGCATTGCT-T-C
1 ACAAATTTGGACAGCA-TG-TATAC
* * **
24921803 ACCAAAATTGGGCAGCATACATAC
1 A-CAAATTTGGACAGCATGTATAC
24921827 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* * *
24921850 ACAAAATTT-AACAGAATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
* *
24921873 ACAAAATTGGACAGCAT-TGATTC
1 ACAAATTTGGACAGCATGT-ATAC
* * ** *
24921896 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCATGTATAC
*
24921920 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCATGTATAC
* *
24921943 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
24921966 ACAAAATTT-GACAGCAT
1 AC-AAATTTGGACAGCAT
24921983 TGATTTATCA
Statistics
Matches: 245, Mismatches: 48, Indels: 52
0.71 0.14 0.15
Matches are distributed among these distances:
21 2 0.01
22 11 0.04
23 164 0.67
24 63 0.26
25 5 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (23 bp):
ACAAATTTGGACAGCATGTATAC
Found at i:24921744 original size:93 final size:93
Alignment explanation
Indices: 24921633--24922013 Score: 654
Period size: 93 Copynumber: 4.1 Consensus size: 93
24921623 CTAACTATAC
24921633 TACATATTACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
1 TACATA-TACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
*
24921698 CAGCATTGATTCACCAAAATTGGTCAGCA
65 CAGCATTGATTCACCAAAATTGGGCAGCA
*
24921727 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATGTACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
*
24921792 AGCATTGCTTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* * * *
24921820 TACATACACAAATTTGGACAGCACTTATACACAAAATTTAACAGAATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
24921885 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* *
24921913 TACATATACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
24921978 AGCATTGATTTATCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
24922006 TACATATA
1 TACATATA
24922014 ACAATTGGGC
Statistics
Matches: 272, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
93 266 0.98
94 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (93 bp):
TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
AGCATTGATTCACCAAAATTGGGCAGCA
Found at i:24922027 original size:46 final size:45
Alignment explanation
Indices: 24921691--24922029 Score: 213
Period size: 46 Copynumber: 7.3 Consensus size: 45
24921681 GTATATACAA
* *
24921691 AATTTGACAGCATTGATTCACCAAAATTGGTCAGCATACATAT-AC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* ** ** * *
24921736 AAATTTGGACAGCACTT-ATACACAAAATAT-AACAGCATGTATGTACAA
1 -AA-TTGGACAGCA-TTGATTCACAAAAT-TGGGCAGCATACATATA-AC
* * *
24921784 AATTTGACAGCATTGCTTCACCAAAATTGGGCAGCATACATA-CAC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* *** * ** *
24921829 AAATTTGGACAGCACTT-ATACACAAAATTTAACAGAATGTATATACAA
1 -AA-TTGGACAGCA-TTGATTCACAAAATTGGGCAGCATACATATA-AC
24921877 AATTGGACAGCATTGATTCACCAAAATTGGGCAGCATACATAT-AC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* * *** ** *
24921922 AAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAA
1 -AA-TTGGACAGCATTGATTCACAAAATTGGGCAGCATACATATA-AC
* *
24921970 AATTTGACAGCATTGATTTATCAAAATTGGGCAGCATACATATAAC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
*
24922016 AATTGGGCAGCATT
1 AATTGGACAGCATT
24922030 TAAGCATAAC
Statistics
Matches: 216, Mismatches: 57, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
45 6 0.03
46 107 0.50
47 96 0.44
48 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (45 bp):
AATTGGACAGCATTGATTCACAAAATTGGGCAGCATACATATAAC
Found at i:24922788 original size:28 final size:28
Alignment explanation
Indices: 24922752--24922878 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
24922742 ATTTAATAAG
* * *
24922752 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* * *
24922780 CTCGTACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
24922808 CTCGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
*
24922836 CTCGCACACTTAGTGCTCTATAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
*
24922864 TTCGCACACTTAGTG
1 CTCGCACACTTAGTG
24922879 TCGAAAATCA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCTACAATTAAA
Found at i:24925630 original size:17 final size:17
Alignment explanation
Indices: 24925608--24925651 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
24925598 ACAAAATCCA
24925608 AATTTATTTTCCAATTT
1 AATTTATTTTCCAATTT
*
24925625 AATTTAATTTCCAATTT
1 AATTTATTTTCCAATTT
24925642 -ATTTAATTTT
1 AATTT-ATTTT
24925652 TTATTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTATTTTCCAATTT
Found at i:24926581 original size:18 final size:20
Alignment explanation
Indices: 24926554--24926595 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
24926544 TGACTAATTA
24926554 CTTACAAATG-TAT-GATAC
1 CTTACAAATGATATCGATAC
* *
24926572 CTTACCAATGATATCGATAT
1 CTTACAAATGATATCGATAC
24926592 CTTA
1 CTTA
24926596 AGTCAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
CTTACAAATGATATCGATAC
Found at i:24931193 original size:20 final size:21
Alignment explanation
Indices: 24931158--24931203 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
24931148 GTCTTAAAAA
24931158 TTTTAAATAATTTAAT-TATT
1 TTTTAAATAATTTAATATATT
24931178 TTTTAAAT-ATTATAATATATT
1 TTTTAAATAATT-TAATATATT
*
24931199 ATTTA
1 TTTTA
24931204 TAACTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 12 0.52
21 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAATAATTTAATATATT
Found at i:24936012 original size:12 final size:13
Alignment explanation
Indices: 24935983--24936012 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24935973 TAGAGTTTTT
24935983 TTTTTACTTTTAA
1 TTTTTACTTTTAA
24935996 TTTTT-CTTTTAA
1 TTTTTACTTTTAA
24936008 TTTTT
1 TTTTT
24936013 TTCACTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACTTTTAA
Found at i:24936036 original size:27 final size:28
Alignment explanation
Indices: 24935980--24936037 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
24935970 TTTTAGAGTT
* *
24935980 TTTTTTTTACTTTTAATTTTTCTTTTAA
1 TTTTTTTCACTTTTAATTTTTCTTTGAA
*
24936008 TTTTTTTCACTTTT-CTTCTTTC-TTGAA
1 TTTTTTTCACTTTTAATT-TTTCTTTGAA
24936035 TTT
1 TTT
24936038 AGTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTTCACTTTTAATTTTTCTTTGAA
Found at i:24936147 original size:21 final size:20
Alignment explanation
Indices: 24936119--24936158 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24936109 TATTAAAAAT
* *
24936119 TAAATCAAACAAATTTTTAA
1 TAAATCAAAAAAATATTTAA
24936139 TAAACTCAAAAAAATATTTA
1 TAAA-TCAAAAAAATATTTA
24936159 TTTTCAGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATCAAAAAAATATTTAA
Found at i:24936967 original size:29 final size:29
Alignment explanation
Indices: 24936935--24936999 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
24936925 TTCCAAAATT
24936935 CTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAAACCCATATTTAATTTCAATTTC
*
24936964 CTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAAACCCATATTTAATTTCAATTTC
*
24936993 CCCTCAA
1 CTCTCAA
24937000 TTTCATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (29 bp):
CTCTCAAACCCATATTTAATTTCAATTTC
Found at i:24937049 original size:31 final size:31
Alignment explanation
Indices: 24937011--24937069 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
24937001 TTCATTTTTT
24937011 AAAATAATTTTAAATTTTTTTATATTTTTAA
1 AAAATAATTTTAAATTTTTTTATATTTTTAA
*
24937042 AAAATAATTTTATATTTTTTTATATTTT
1 AAAATAATTTTAAATTTTTTTATATTTT
24937070 CATCAATGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
AAAATAATTTTAAATTTTTTTATATTTTTAA
Found at i:24937978 original size:20 final size:20
Alignment explanation
Indices: 24937942--24937979 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24937932 TAACGAGGCA
24937942 AATTTTATATTACATTTTGG
1 AATTTTATATTACATTTTGG
*
24937962 AATTATTAT-TTAGATTTT
1 AATT-TTATATTACATTTT
24937980 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
AATTTTATATTACATTTTGG
Found at i:24938164 original size:7 final size:7
Alignment explanation
Indices: 24938152--24938218 Score: 134
Period size: 7 Copynumber: 9.6 Consensus size: 7
24938142 AGTCGATTGA
24938152 TATTTAG
1 TATTTAG
24938159 TATTTAG
1 TATTTAG
24938166 TATTTAG
1 TATTTAG
24938173 TATTTAG
1 TATTTAG
24938180 TATTTAG
1 TATTTAG
24938187 TATTTAG
1 TATTTAG
24938194 TATTTAG
1 TATTTAG
24938201 TATTTAG
1 TATTTAG
24938208 TATTTAG
1 TATTTAG
24938215 TATT
1 TATT
24938219 ATGTATATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TATTTAG
Found at i:24938867 original size:18 final size:18
Alignment explanation
Indices: 24938841--24938875 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24938831 AGGTGTGTTT
* *
24938841 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
24938859 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
24938876 TCCTTTTCCA
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:24939437 original size:29 final size:29
Alignment explanation
Indices: 24939395--24939458 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
24939385 TAATAAAAAC
24939395 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
24939424 CCTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
24939453 CCTAAT
1 CCTAAT
24939459 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:24939657 original size:10 final size:10
Alignment explanation
Indices: 24939642--24939666 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24939632 TTTGGACTTA
24939642 ATAATTTTAC
1 ATAATTTTAC
24939652 ATAATTTTAC
1 ATAATTTTAC
24939662 ATAAT
1 ATAAT
24939667 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:24943081 original size:126 final size:125
Alignment explanation
Indices: 24942777--24943127 Score: 589
Period size: 126 Copynumber: 2.8 Consensus size: 125
24942767 CCCAAACTTG
* * * * *
24942777 CTACTGCAGCAAAATCGCATCCACGAGGACGCGGTTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
24942842 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
24942900 CAACTATAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTAG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
24942965 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAACAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAA-AAAATTATTTCTTACATGAC
* *
24943026 CTACTGTAGCAAAATAGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
24943091 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
24943128 CTCGAAATAA
Statistics
Matches: 212, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
123 92 0.43
125 3 0.01
126 117 0.55
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:24950984 original size:41 final size:40
Alignment explanation
Indices: 24950922--24951048 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 40
24950912 TAACCGTTAC
24950922 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* *
24950964 ACGGGGAATCAGCACATAGCAACCCCTT-TCACAGTCAAGGAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTAT-A-A-TCAATGAT
* * *
24951006 ACGATGGAATTAGCACTTAGCAACCTCCTTTATATTCAATGAT
1 ACG-GGGAATCAGCACTTAGCAACC-CC-TTATAATCAATGAT
24951049 GCGGACTCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 20 0.28
42 14 0.20
43 25 0.35
44 2 0.03
45 3 0.04
46 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (40 bp):
ACGGGGAATCAGCACTTAGCAACCCCTTATAATCAATGAT
Found at i:24951021 original size:43 final size:40
Alignment explanation
Indices: 24950925--24951037 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 40
24950915 CCGTTACACG
*
24950925 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
1 GTGGAATCAGCACTTAGCAACCACCTT-TAATCAAGGATAC
* *
24950966 GGGGAATCAGCACATAGCAACC-CCTTTCACAGTCAAGGATAC
1 GTGGAATCAGCACTTAGCAACCACCTTT-A-A-TCAAGGATAC
* *
24951008 GATGGAATTAGCACTTAGCAACCTCCTTTA
1 G-TGGAATCAGCACTTAGCAACCACCTTTA
24951038 TATTCAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 5 0.08
41 21 0.34
42 10 0.16
43 19 0.31
44 5 0.08
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAATCAAGGATAC
Found at i:24951136 original size:51 final size:51
Alignment explanation
Indices: 24951060--24951351 Score: 294
Period size: 51 Copynumber: 5.8 Consensus size: 51
24951050 CGGACTCACA
* * * *
24951060 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
24951111 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* *** *
24951162 TAGTAGCCTGCACATAGTACTACACATACGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* * *
24951212 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * * *
24951263 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
*
24951313 TAGTAGCCTACACATAATACTACACACGTGACCATCACT
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
24951352 TTCACTTTTA
Statistics
Matches: 194, Mismatches: 34, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.01
49 4 0.02
50 78 0.40
51 107 0.55
52 2 0.01
53 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:24951234 original size:101 final size:101
Alignment explanation
Indices: 24951058--24951343 Score: 493
Period size: 101 Copynumber: 2.8 Consensus size: 101
24951048 TGCGGACTCA
* * * *
24951058 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
24951122 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
24951160 CATAGTAGCCTGCACATAGTACTACACATACGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
24951225 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
24951261 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
*
24951326 ATAATACTACACACGTGA
66 ATAGTACTACACACGTGA
24951344 CCATCACTTT
Statistics
Matches: 176, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
101 139 0.79
102 33 0.19
103 4 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:24953973 original size:49 final size:47
Alignment explanation
Indices: 24953918--24954044 Score: 139
Period size: 49 Copynumber: 2.7 Consensus size: 47
24953908 GTTTTCACAT
* * *
24953918 TGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAAT--CATAACGA
* * * * *
24953967 TGCCATAGCCCAGCTATAGTCTTACACGGAATCACAAATCATAATGA
1 TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAATCATAACGA
*
24954014 TGCCATATTCCAGA-TATGGTCTTACATGGAA
1 TGCCATAGTCCA-ACTATGGTCTTACATGGAA
24954045 ATTTCCTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 31 0.48
49 33 0.52
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (47 bp):
TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAATCATAACGA
Found at i:24954036 original size:47 final size:48
Alignment explanation
Indices: 24953918--24954044 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 48
24953908 GTTTTCACAT
* * *
24953918 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAGA-TATGGTCTTACATGGAATCACAAAT-ACATAACGA
* * * * *
24953967 TGCCATAGCCCAGCTATAGTCTTACACGGAATCACAAAT-CATAATGA
1 TGCCATAGTCCAGATATGGTCTTACATGGAATCACAAATACATAACGA
*
24954014 TGCCATATTCCAGATATGGTCTTACATGGAA
1 TGCCATAGTCCAGATATGGTCTTACATGGAA
24954045 ATTTCCTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 32 0.50
49 32 0.50
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (48 bp):
TGCCATAGTCCAGATATGGTCTTACATGGAATCACAAATACATAACGA
Found at i:24955172 original size:2 final size:2
Alignment explanation
Indices: 24955167--24955202 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24955157 CATTATTATC
24955167 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
24955203 CATGACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24956378 original size:51 final size:51
Alignment explanation
Indices: 24956302--24956593 Score: 285
Period size: 51 Copynumber: 5.8 Consensus size: 51
24956292 CGGACTCACA
* * * *
24956302 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
24956353 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* ** *
24956404 TAGTAGCCTGCACATAGTACTACACATATGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* * * *
24956454 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCAGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * * * *
24956505 TAGTAGTCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
*
24956555 TAGTAGCCTACACATAATACTACACACGTGACCATCACT
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
24956594 TTCACTTTCA
Statistics
Matches: 192, Mismatches: 36, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
48 1 0.01
49 4 0.02
50 77 0.40
51 106 0.55
52 2 0.01
53 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:24956480 original size:101 final size:101
Alignment explanation
Indices: 24956300--24956585 Score: 475
Period size: 101 Copynumber: 2.8 Consensus size: 101
24956290 TGCGGACTCA
* * *
24956300 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
*
24956364 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCAGTACG
*
24956402 CATAGTAGCCTGCACATAGTACTACACATATGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTACACGTAGTAGCCTACAC
24956467 ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* *
24956503 CATAGTAGTCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTACACGTAGTAGCCTACAC
*
24956568 ATAATACTACACACGTGA
66 ATAGTACTACACACGTGA
24956586 CCATCACTTT
Statistics
Matches: 174, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
101 136 0.78
102 34 0.20
103 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:24959535 original size:13 final size:13
Alignment explanation
Indices: 24959517--24959542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24959507 GTTTAAGAAA
24959517 AAAACCATTTGTT
1 AAAACCATTTGTT
24959530 AAAACCATTTGTT
1 AAAACCATTTGTT
24959543 TACGTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:24960711 original size:19 final size:19
Alignment explanation
Indices: 24960689--24960729 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
24960679 AAACTAAAAC
24960689 AAAAAAAACAAATA-AATA
1 AAAAAAAACAAATATAATA
*
24960707 AAAAACAACAAATATAATA
1 AAAAAAAACAAATATAATA
24960726 AAAA
1 AAAA
24960730 GTTCAGTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAAACAAATATAATA
Found at i:24961305 original size:11 final size:11
Alignment explanation
Indices: 24961289--24961322 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
24961279 GTCCGTAAGA
24961289 AAAATTATTTT
1 AAAATTATTTT
24961300 AAAATTATTTT
1 AAAATTATTTT
24961311 AAAATTATTTT
1 AAAATTATTTT
24961322 A
1 A
24961323 TGGTCTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:24961587 original size:21 final size:22
Alignment explanation
Indices: 24961562--24961602 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
24961552 CGCACAAACT
24961562 AAAACAAAAAAT-AAATAAATA
1 AAAACAAAAAATAAAATAAATA
24961583 AAAACAAAAAATAAAATAAA
1 AAAACAAAAAATAAAATAAA
24961603 AAGTTCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAACAAAAAATAAAATAAATA
Found at i:24961699 original size:15 final size:15
Alignment explanation
Indices: 24961679--24961707 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24961669 AATACCCACT
24961679 AAACCCAATTAACCC
1 AAACCCAATTAACCC
24961694 AAACCCAATTAACC
1 AAACCCAATTAACC
24961708 TAGCCCAGCT
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:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCAATTAACCC
Found at i:24961731 original size:878 final size:863
Alignment explanation
Indices: 24959958--24961686 Score: 2996
Period size: 878 Copynumber: 2.0 Consensus size: 863
24959948 TATCTCTGAC
* * *
24959958 CATCCCATTACACCATATAGGGTTAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
1 CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
24960023 CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
66 CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
24960088 CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
131 CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
*
24960153 ACATACCCGTATACAGATAACATATATATATACTTAAACAGAACAGTTAGACATACACATCAATG
196 ACATACCCGTATACAGATAACATATATACATACTTAAACAGAACAGTTAGACATACACATCAATG
*
24960218 TCCTACTCAAATTAGACTATTAGAATATCATATCCTAAAAATTAGGGTTTGGTTAGCCCTTATCA
261 TCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTATCA
* *
24960283 ACTCTACGGCAGGCCTACAGTCGATCTGAACGACCTGTGTGACCCTAGAGAAAATTTTAGAATTT
326 ACTCTACGGCAGGCCCACAGTCGATCTGAACGACCTGTGCGACCCTAGAGAAAATTTTAGAATTT
*
24960348 TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCGAGACCACAAATTCGAG
391 TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATTCGAG
24960413 TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
456 TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
24960478 ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
521 ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
24960543 CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
586 CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
* * * *
24960608 TATGGCAAATAAACCATTAAGAATAATTTGTAGATAATTATTGTAATAGCCCATTTTGCCTGGGC
651 TATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGCCCATTTTGCCCGGGC
* * *
24960673 CCGTACAAACTAAAACAAAAAAAACAAATAAATAAAAAACAACAAATATAATAAAAAGTTCAGTC
716 CCGCACAAACTAAAAC-AAAAAAACAAATAAATAAAAAACAAAAAATAAAATAAAAAGTTCAGTC
*
24960738 CAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCTAC
780 CAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCCAC
*
24960803 TAAATCCAACTACCTCTAA
845 TAAACCCAACTACCTCTAA
* * *
24960822 CCATCCCATTACACCATATAGGGTTAAAAACACCCACCCATCCCAACACACCATATAGTGTCGAT
1 -CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGAT
* *
24960887 ACAACACATGATAGAATCACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGA
65 ACAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGA
*
24960952 TCACTTCCTCCACATATGCAAATCTCACTCGAAACACAGATATAGAATACAGAATTAACATGCTG
130 TCACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTG
24961017 AACATACCCGTATACAGATAACACATATATACATACTTAAACAGAACAGTTAGACATACACATCA
195 AACATACCCGTATACAGAT-A-ACATATATACATACTTAAACAGAACAGTTAGACATACACATCA
*
24961082 ATGTCCTACTCAGATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTA
258 ATGTCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTA
24961147 TCAACTCTACGGCAGGCCCACAGTCGATC-GAAACGACCTGTGCGACCCTAGAGAAAATTTTAGA
323 TCAACTCTACGGCAGGCCCACAGTCGATCTG-AACGACCTGTGCGACCCTAGAGAAAATTTTAGA
* * *
24961211 ATTTTAGGCCCATGTAACAGCTCGTTTTTAGTGAAATCAGAATAGTGGTTTTAAGACCACAAATT
387 ATTTTAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATT
*
24961276 CGAGTCCGTAAGAAAAATTATTTTAAAATTATTTTAAAATTATTTTATGGTCTACCGTATGATAG
452 CGAGTCCGTAAG-------A----AAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAG
* *
24961341 GTATATCATATAAAAATTTTGTTAAGAAAATTTTATCGATTACATGTTTAATTGATAAAAGAATC
506 GAATATCATATAAAAATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATC
*
24961406 AAATTGCATGAAATGCAAAAGTTGAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAA
571 AAATTGCATGAAATGCAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAA
24961471 AATTTGAGATCCTTATATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGC
636 AATTTGAGATCCTTATATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGC
*
24961536 CCATTTTGCCCGGGCCCGCACAAACTAAAAC-AAAAAATAAATAAAT-AAAAACAAAAAATAAAA
701 CCATTTTGCCCGGGCCCGCACAAACTAAAACAAAAAAACAAATAAATAAAAAACAAAAAATAAAA
*
24961599 TAAAAAGTTCAGTCCAAACGTCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTA
766 TAAAAAGTTCAGTCCAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTA
24961664 GCCCAAATACCCACTAAACCCAA
831 GCCCAAATACCCACTAAACCCAA
24961687 TTAACCCAAA
Statistics
Matches: 823, Mismatches: 27, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
865 210 0.26
866 2 0.00
867 238 0.29
874 1 0.00
875 100 0.12
876 14 0.02
878 258 0.31
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (863 bp):
CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
ACATACCCGTATACAGATAACATATATACATACTTAAACAGAACAGTTAGACATACACATCAATG
TCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTATCA
ACTCTACGGCAGGCCCACAGTCGATCTGAACGACCTGTGCGACCCTAGAGAAAATTTTAGAATTT
TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATTCGAG
TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
TATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGCCCATTTTGCCCGGGC
CCGCACAAACTAAAACAAAAAAACAAATAAATAAAAAACAAAAAATAAAATAAAAAGTTCAGTCC
AAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCCACT
AAACCCAACTACCTCTAA
Found at i:24963576 original size:18 final size:18
Alignment explanation
Indices: 24963553--24963588 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
24963543 TTATTTAAGC
24963553 TTTATTA-AAAATTATAAA
1 TTTATTATAAAA-TATAAA
24963571 TTTATTATAAAATATAAA
1 TTTATTATAAAATATAAA
24963589 AGCTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATTATAAAATATAAA
Found at i:24964402 original size:19 final size:19
Alignment explanation
Indices: 24964369--24964418 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
24964359 AGAGCGTTTG
*
24964369 TTTTATTATTTTTTTATAAA
1 TTTTATTATTTTTTAAT-AA
24964389 TTTTATTATTTTTTAATAA
1 TTTTATTATTTTTTAATAA
*
24964408 TTTTATAATTT
1 TTTTATTATTT
24964419 ATATACCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTTTTAATAA
Found at i:24964498 original size:10 final size:10
Alignment explanation
Indices: 24964483--24964607 Score: 64
Period size: 10 Copynumber: 12.5 Consensus size: 10
24964473 TATATATCAT
24964483 TTTTTTATAA
1 TTTTTTATAA
*
24964493 TTTTTTTCTATAT
1 --TTTTT-TATAA
24964506 TTTTTTATAAA
1 TTTTTTAT-AA
* *
24964517 CTTTCTAT-A
1 TTTTTTATAA
24964526 -TTTTTAT-A
1 TTTTTTATAA
*
24964534 -TTTTAATAA
1 TTTTTTATAA
24964543 -TTTTTATATA
1 TTTTTTATA-A
*
24964553 TTTTTAATAA
1 TTTTTTATAA
* * *
24964563 TATTCTATAC
1 TTTTTTATAA
24964573 TTTTTTAT-A
1 TTTTTTATAA
*
24964582 TATTTTTATTA
1 T-TTTTTATAA
*
24964593 TTTTTTATCA
1 TTTTTTATAA
24964603 TTTTT
1 TTTTT
24964608 CTCCACATGT
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
8 13 0.14
9 10 0.11
10 37 0.41
11 21 0.23
12 5 0.06
13 4 0.04
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:24964499 original size:12 final size:11
Alignment explanation
Indices: 24964481--24964515 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
24964471 TATATATATC
24964481 ATTTTTTTATA
1 ATTTTTTTATA
*
24964492 ATTTTTTTCTA
1 ATTTTTTTATA
24964503 TATTTTTTTATA
1 -ATTTTTTTATA
24964515 A
1 A
24964516 ACTTTCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:24964542 original size:27 final size:27
Alignment explanation
Indices: 24964507--24964558 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24964497 TTTCTATATT
* *
24964507 TTTTTATAAACTTTCTATATTTTTATA
1 TTTTAATAAACTTTATATATTTTTATA
**
24964534 TTTTAATAATTTTTATATATTTTTA
1 TTTTAATAAACTTTATATATTTTTA
24964559 ATAATATTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTAATAAACTTTATATATTTTTATA
Found at i:24964559 original size:20 final size:20
Alignment explanation
Indices: 24964526--24964607 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
24964516 ACTTTCTATA
24964526 TTTT-TATA-TTTTAATAAT
1 TTTTATATATTTTTAATAAT
24964544 TTTTATATATTTTTAATAAT
1 TTTTATATATTTTTAATAAT
*
24964564 ATTCTATACT-TTTTT-ATATAT
1 -TTTTATA-TATTTTTAATA-AT
* *
24964585 TTTTAT-TATTTTTTATCAT
1 TTTTATATATTTTTAATAAT
24964604 TTTT
1 TTTT
24964608 CTCCACATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.09
19 15 0.28
20 20 0.37
21 13 0.24
22 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATATATTTTTAATAAT
Found at i:24964597 original size:19 final size:19
Alignment explanation
Indices: 24964522--24964607 Score: 72
Period size: 19 Copynumber: 4.5 Consensus size: 19
24964512 ATAAACTTTC
*
24964522 TATATTTTTA-TATTTTAA
1 TATATTTTTATTATTTTTA
24964540 TA-ATTTTTATATATTTTTAA
1 TATATTTTTAT-TATTTTT-A
* *
24964560 TAATATTCTATACT-TTTTTA
1 T-ATATT-TTTATTATTTTTA
24964580 TATATTTTTATTATTTTT-
1 TATATTTTTATTATTTTTA
24964598 TATCATTTTT
1 TAT-ATTTTT
24964608 CTCCACATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
17 7 0.13
18 9 0.16
19 22 0.40
20 4 0.07
21 6 0.11
22 4 0.07
23 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATTTTTATTATTTTTA
Found at i:24964598 original size:21 final size:20
Alignment explanation
Indices: 24964484--24964598 Score: 67
Period size: 21 Copynumber: 5.7 Consensus size: 20
24964474 ATATATCATT
*
24964484 TTTTTATAATTTTTTTCTATA
1 TTTTTAT-ATTTTTTTATATA
* *** *
24964505 TTTTTTTATAAACTTTCTATA
1 TTTTTATAT-TTTTTTATATA
*
24964526 TTTTTATA--TTTTAATA-A
1 TTTTTATATTTTTTTATATA
*
24964543 TTTTTATATATTTTTA-ATAA
1 TTTTTATATTTTTTTATAT-A
* *
24964563 TATTCTATACTTTTTTATATA
1 T-TTTTATATTTTTTTATATA
24964584 TTTTTATTATTTTTT
1 TTTTTA-TATTTTTT
24964599 ATCATTTTTC
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
17 9 0.13
18 5 0.07
19 5 0.07
20 8 0.11
21 42 0.59
22 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTTTTATATA
Found at i:24970955 original size:38 final size:39
Alignment explanation
Indices: 24970899--24970979 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
24970889 CATCGTCAAT
* * *
24970899 AGAAGCTCATAGAGCTGGTCTACACGAA-CACAC-CAAC
1 AGAAGCTCAAAGAGCTGGTCCACACGAATCACACGAAAC
*
24970936 AGAAGCTCAAAAGAGCTGGTCCACCCGAATCACACGAAAC
1 AGAAGCTC-AAAGAGCTGGTCCACACGAATCACACGAAAC
24970976 AGAA
1 AGAA
24970980 AGTATAACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.22
38 17 0.46
39 5 0.14
40 7 0.19
ACGTcount: A:0.41, C:0.28, G:0.20, T:0.11
Consensus pattern (39 bp):
AGAAGCTCAAAGAGCTGGTCCACACGAATCACACGAAAC
Found at i:24972406 original size:31 final size:31
Alignment explanation
Indices: 24972366--24972439 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
24972356 ACGGCCTGTT
24972366 ACAGAACTCGTAAAAGAAGATTCATAGATATG
1 ACAG-ACTCGTAAAAGAAGATTCATAGATATG
* * * **
24972398 ACAGACTCGCACATGTGGATTCATAGATATG
1 ACAGACTCGTAAAAGAAGATTCATAGATATG
* *
24972429 GCAAACTCGTA
1 ACAGACTCGTA
24972440 CATGGGAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (31 bp):
ACAGACTCGTAAAAGAAGATTCATAGATATG
Found at i:24972443 original size:31 final size:30
Alignment explanation
Indices: 24972384--24972455 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
24972374 CGTAAAAGAA
*
24972384 GATTCATAGATATGACAGACTCGCACATGTG
1 GATTCATAGATATGACAAACTCGCACATG-G
* *
24972415 GATTCATAGATATGGCAAACTCGTACATGG
1 GATTCATAGATATGACAAACTCGCACATGG
24972445 GAATTCATAGA
1 G-ATTCATAGA
24972456 AGAAGATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (30 bp):
GATTCATAGATATGACAAACTCGCACATGG
Found at i:24972480 original size:45 final size:45
Alignment explanation
Indices: 24972415--24972515 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
24972405 CGCACATGTG
* * *
24972415 GATTCATAGATATGGCAAACTCGTACATGGGAATTCATAGAAGAA
1 GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
* * * **
24972460 GATTCTTAGATATAGAAAACTTATACATGTGAATTTGTAGAAGAA
1 GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
*
24972505 GATTTATAGAT
1 GATTCATAGAT
24972516 TTGACGGACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
Found at i:24978450 original size:16 final size:16
Alignment explanation
Indices: 24978393--24978453 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
24978383 AATAAATAAT
24978393 AAAATAAAA-TAAAGTA
1 AAAATAAAAGTAAA-TA
24978409 ATAAAT-AAAGTAAATAATA
1 A-AAATAAAAGT--A-AATA
24978428 AATAATAAAAGTAAATA
1 AA-AATAAAAGTAAATA
24978445 AAAATAAAA
1 AAAATAAAA
24978454 ATTAGGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
16 11 0.29
17 11 0.29
18 2 0.05
19 7 0.18
20 7 0.18
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAAAAGTAAATA
Found at i:24982935 original size:67 final size:65
Alignment explanation
Indices: 24982863--24983212 Score: 191
Period size: 67 Copynumber: 5.3 Consensus size: 65
24982853 ATTTTATTTG
* * * *
24982863 AGTTAGCTGATTTAATATTGTAACTCTGAACAGCTCACTGATTTAATATCGTAGTTAATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTGAA-AGCTCATTGATTTAATATCGCAGCTAATATCATT
24982928 A
65 A
* * * * *
24982929 AGGTTAGCTAATTTAATATCCTAAC-CT--AAGTTCATTTGATTTAAGATTACGAACAAG-T-TT
1 A-GTTAGCTGATTTAATATCGTAACTCTGAAAGCTCA-TTGATTTAATA-T-CG--C-AGCTAAT
* *
24982989 AT-GTTG
59 ATCATTA
* * ** * * *
24982995 AGTTAGCTAATTTAAGATCACAACTCTGAACAGCTCACTAATTTAATATCGCAGCTGATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTGAA-AGCTCATTGATTTAATATCGCAGCTAATATCATT
24983060 AA
65 -A
* * * ** * *
24983062 AGTTAGTTTATTTAATATCGTAAC-CT--AAGTTCATTTGATTTAATAT--CATGAAACATTTTA
1 AGTTAGCTGATTTAATATCGTAACTCTGAAAGCTCA-TTGATTTAATATCGCA-GCTA-ATATCA
*
24983122 TTTT
63 -TTA
* * * * *
24983126 AGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTCATTGATTTAATATCACAGCTGATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTG-AAAGCTCATTGATTTAATATCGCAGCTAATATCATT
24983191 A
65 A
*
24983192 AGGTTAGCTGATTTAAGATCG
1 A-GTTAGCTGATTTAATATCG
24983213 CAACCTAAGT
Statistics
Matches: 210, Mismatches: 48, Indels: 51
0.68 0.16 0.17
Matches are distributed among these distances:
62 2 0.01
63 13 0.06
64 46 0.22
65 28 0.13
66 19 0.09
67 76 0.36
68 17 0.08
69 9 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (65 bp):
AGTTAGCTGATTTAATATCGTAACTCTGAAAGCTCATTGATTTAATATCGCAGCTAATATCATTA
Found at i:24983192 original size:131 final size:131
Alignment explanation
Indices: 24982770--24983269 Score: 619
Period size: 131 Copynumber: 3.8 Consensus size: 131
24982760 TTGATTTAGA
* * * *
24982770 TGATTTAAGATCGCACCTGATATCATTAAGGTT-GACTGATTTAATATCACAACTTAAGTTCATT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAG-CTGATTTAATATCGCAACCTAAGTTCATT
* * *
24982834 TGATTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGTAACTCTGAACAGCTC
65 TGATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTC
24982899 AC
130 AC
* * * *
24982901 TGATTTAATATCGTAGTTAATATCATTAAGGTTAGCTAATTTAATATC-CTAACCTAAGTTCATT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGC-AACCTAAGTTCATT
* * * * **
24982965 TGATTTAAGATTACGAACAAGTTTATGTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAGCT
65 TGATTTAAGATCACGAACAATTTTAT-TTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCT
24983030 CAC
129 CAC
* * * * *
24983033 TAATTTAATATCGCAGCTGATATCATTAAAGTTAGTTTATTTAATATCGTAACCTAAGTTCATTT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
* * * * *
24983098 GATTTAATATCATGAA-ACATTTTATTTTAGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTC
66 GATTTAAGATCACGAACA-ATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTC
*
24983162 AT
130 AC
* * *
24983164 TGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATTT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
* * * * *
24983229 AATTTAACATCACGAACAATTTTATGTGAGCTAGTTGATTT
66 GATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTT
24983270 TAGATCACAA
Statistics
Matches: 313, Mismatches: 50, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
130 1 0.00
131 199 0.64
132 113 0.36
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (131 bp):
TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
GATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTCA
C
Found at i:24983255 original size:263 final size:262
Alignment explanation
Indices: 24982772--24983281 Score: 693
Period size: 263 Copynumber: 1.9 Consensus size: 262
24982762 GATTTAGATG
* *
24982772 ATTTAAGATCGCACCTGATATCATTAAGGTTGACTGATTTAATATCACAACTTAAGTTCATTTGA
1 ATTTAAGATCGCACCTGATATCATTAAAGTTGACTGATTTAATATCACAACCTAAGTTCATTTGA
* *
24982837 TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGTAACTCTGAACAGCTCACT
66 TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCACT
** * * *
24982902 GATTTAATATCGTAGTTAATATCATTAAGGTTAGCTAATTTAATATCCTAACCTAAGTTCATTTG
131 GATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATCCTAACCTAAGTTCATTTA
* * *
24982967 ATTTAAGATTACGAACAAGTTTATGTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAGCTCA
196 ATTTAACATCACGAACAAGTTTATG-TGAGCTAGCTAATTTAAGATCACAACTCTGAACAGCTCA
24983032 CTA
260 CTA
* * * * **
24983035 ATTTAATATCGCAGCTGATATCATTAAAGTT-AGTTTATTTAATATCGTAACCTAAGTTCATTTG
1 ATTTAAGATCGCACCTGATATCATTAAAGTTGA-CTGATTTAATATCACAACCTAAGTTCATTTG
* * * *
24983099 ATTTAATATCATGAA-ACATTTTATTTTAGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTCA
65 ATTTAAGATAATGAACA-ATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCA
* * * *
24983163 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGC-AACCTAAGTTTAT
129 CTGATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATC-CTAACCTAAGTTCAT
* * * *
24983227 TTAATTTAACATCACGAACAATTTTATGTGAGCTAGTTGATTTTAGATCACAACT
193 TTAATTTAACATCACGAACAAGTTTATGTGAGCTAGCTAATTTAAGATCACAACT
24983282 GATATTATTA
Statistics
Matches: 214, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
262 25 0.12
263 188 0.88
264 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (262 bp):
ATTTAAGATCGCACCTGATATCATTAAAGTTGACTGATTTAATATCACAACCTAAGTTCATTTGA
TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCACT
GATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATCCTAACCTAAGTTCATTTA
ATTTAACATCACGAACAAGTTTATGTGAGCTAGCTAATTTAAGATCACAACTCTGAACAGCTCAC
TA
Found at i:24983285 original size:100 final size:100
Alignment explanation
Indices: 24983163--24983348 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 100
24983153 GAAAAGCTCA
* * * * *
24983163 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATT
1 TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
*
24983228 TAATTTAACATCACGAACAATTTTATGTGAGCTAG
66 CAATTTAACATCACGAACAATTTTATGTGAGCTAG
* * * * * *
24983263 TTGATTTTAGATCACAACTGATATTATTAAGGTTTGTTGATTCAAGATTGAAACCTATGTTCATT
1 TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* * *
24983328 CGATTTAAGATCATGAACAAT
66 CAATTTAACATCACGAACAAT
24983349 CGCACTTGAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (100 bp):
TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
CAATTTAACATCACGAACAATTTTATGTGAGCTAG
Found at i:24983364 original size:100 final size:100
Alignment explanation
Indices: 24983163--24983371 Score: 231
Period size: 100 Copynumber: 2.1 Consensus size: 100
24983153 GAAAAGCTCA
* * * * * *
24983163 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATT
1 TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* ***
24983228 TAATTTAACATCACGAACAATTTTATGTGAGCTAG
66 CAATTTAACATCACGAACAATCGCATGTGAGCTAG
* * * * *
24983263 TTGATTTTAGATCACAACTGATATTATTAAGGTTTGTTGATTCAAGATTGAAACCTATGTTCATT
1 TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* * * *
24983328 CGATTTAAGATCATGAACAATCGCACT-TGAGTTAG
66 CAATTTAACATCACGAACAATCGCA-TGTGAGCTAG
24983363 TTGATTTTA
1 TTGATTTTA
24983372 CAATCTTTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
100 88 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (100 bp):
TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
CAATTTAACATCACGAACAATCGCATGTGAGCTAG
Found at i:24987446 original size:23 final size:23
Alignment explanation
Indices: 24987418--24987501 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
24987408 AAATTTAGTA
24987418 TATTTTAAATTTATTAACAATAT
1 TATTTTAAATTTATTAACAATAT
24987441 TATTTT-AATATTA-TAACATAGTAT
1 TATTTTAAAT-TTATTAACA-A-TAT
* * **** *
24987465 TATTCTAAATGTATCGTTAACAT
1 TATTTTAAATTTATTAACAATAT
24987488 TATTTTAAATTTAT
1 TATTTTAAATTTAT
24987502 CATGTACAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
22 8 0.17
23 24 0.51
24 11 0.23
25 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTTTAAATTTATTAACAATAT
Found at i:24987845 original size:12 final size:12
Alignment explanation
Indices: 24987808--24987845 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
24987798 ATTTCAACTT
*
24987808 TTTATAATATTA
1 TTTATATTATTA
*
24987820 TATATATTATTA
1 TTTATATTATTA
24987832 TTTATATTATTA
1 TTTATATTATTA
24987844 TT
1 TT
24987846 AAACTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:24995835 original size:25 final size:25
Alignment explanation
Indices: 24995792--24995846 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
24995782 TCTCTCGAGT
* **
24995792 CATATAACAGAAAGTTCATGTGAGC
1 CATATAACAGAAAGCTCATAAGAGC
* *
24995817 CATATAACGGGAAGCTCATAAGAGC
1 CATATAACAGAAAGCTCATAAGAGC
24995842 CATAT
1 CATAT
24995847 TCAGGAAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (25 bp):
CATATAACAGAAAGCTCATAAGAGC
Found at i:24995929 original size:25 final size:25
Alignment explanation
Indices: 24995898--24995967 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
24995888 AGCCATATAG
* *
24995898 GGAAGCTCTGGAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
24995923 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CGAAGAGCCATTAATCA
24995949 GGAAGCTCCGAAGAGCCAT
1 GGAAGCTCCGAAGAGCCAT
24995968 ATAACGGGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 17 0.46
26 20 0.54
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:24995975 original size:25 final size:25
Alignment explanation
Indices: 24995813--24995981 Score: 100
Period size: 25 Copynumber: 6.8 Consensus size: 25
24995803 AAGTTCATGT
**
24995813 GAGCCATATAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCCGAA
* * *
24995838 GAGCCATAT-TCAGGAAGCTCCGGA
1 GAGCCATATAACGGGAAGCTCCGAA
* * * * *
24995862 TAGACATATATCGAGAAG-TTC-AA
1 GAGCCATATAACGGGAAGCTCCGAA
* *
24995885 GCGAGCCATAT-A-GGGAAGCTCTGGA
1 --GAGCCATATAACGGGAAGCTCCGAA
* *
24995910 GAGCCAT-TAATCAGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
*
24995936 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCATATAA-CGGGAAGCTCCGAA
*
24995961 GAGCCATATAACGGGACGCTC
1 GAGCCATATAACGGGAAGCTC
24995982 ATAAGAGTTG
Statistics
Matches: 107, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 14 0.13
24 20 0.19
25 49 0.46
26 23 0.21
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCCGAA
Found at i:25009136 original size:58 final size:58
Alignment explanation
Indices: 25009073--25009188 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
25009063 ACAATCCAAG
25009073 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
1 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
25009131 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
1 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
25009189 CAACATTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (58 bp):
TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
Found at i:25015452 original size:68 final size:68
Alignment explanation
Indices: 25015340--25015467 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 68
25015330 CCAGTTACTC
* *
25015340 CAACCATATGTTTTGAATAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATGG
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAAAATGG
25015405 CAG
66 CAG
*
25015408 CAACCATGTGTTTTGAAGAA-AAAAAGTGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAA
1 CAACCATATGTTTTGAAGAAGAAAAA-TGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAA
25015468 TTTTGTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 5 0.09
68 51 0.91
ACGTcount: A:0.48, C:0.07, G:0.25, T:0.20
Consensus pattern (68 bp):
CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAAAATGG
CAG
Found at i:25022250 original size:12 final size:10
Alignment explanation
Indices: 25022221--25022251 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
25022211 AATTTTGAAT
25022221 TATTTTATTA
1 TATTTTATTA
25022231 TATTTTATTA
1 TATTTTATTA
25022241 TATTTT-TTA
1 TATTTTATTA
25022250 TA
1 TA
25022252 ATTATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTTTATTA
Found at i:25022256 original size:18 final size:20
Alignment explanation
Indices: 25022221--25022258 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
25022211 AATTTTGAAT
*
25022221 TATTTTATTATATTTTATTA
1 TATTTTATTATATATTATTA
25022241 TATTTT-TTATA-ATTATTA
1 TATTTTATTATATATTATTA
25022259 AACAACTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTATTATATATTATTA
Found at i:25027993 original size:3 final size:3
Alignment explanation
Indices: 25027985--25028058 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
25027975 GAAATAATTC
25027985 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25028033 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
25028059 AGAATGGAGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.