Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_pilon, whole genome shotgun sequence
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: 2946335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 14
Found at i:2828961 original size:21 final size:21
Alignment explanation
Indices: 2828850--2828977 Score: 107
Period size: 21 Copynumber: 6.1 Consensus size: 21
2828840 ACTCACCTGT
2828850 CATCGTTCAAGAGGCCTCC-CC
1 CATCGTTCAAGAGGCC-CCTCC
*
2828871 TATCGTTCAAGAGGCCTCC-CC
1 CATCGTTCAAGAGGCC-CCTCC
* **
2828892 TATCGTTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
** *
2828913 CATCCCTCAAGAGTCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
2828934 CACCGTTCAAGAGGCCACTGT
1 CATCGTTCAAGAGGCCCCTCC
* *
2828955 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
2828976 CA
1 CA
2828978 ACATTCTAGA
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 2 0.02
21 82 0.98
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:2830404 original size:14 final size:14
Alignment explanation
Indices: 2830369--2830405 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2830359 GCTTGTTTAA
*
2830369 TTGATTTATAAAAG
1 TTGATTTGTAAAAG
*
2830383 CTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2830397 TTGATTTGT
1 TTGATTTGT
2830406 TTAATATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2830579 original size:20 final size:20
Alignment explanation
Indices: 2830542--2830580 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2830532 ACACTAAACT
* *
2830542 CAAAATCGCAATGCGAAAGA
1 CAAAATCACAACGCGAAAGA
*
2830562 CAAAATCACAACGTGAAAG
1 CAAAATCACAACGCGAAAG
2830581 TCAATTCACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.21, G:0.18, T:0.10
Consensus pattern (20 bp):
CAAAATCACAACGCGAAAGA
Found at i:2830652 original size:20 final size:20
Alignment explanation
Indices: 2830623--2830901 Score: 227
Period size: 20 Copynumber: 14.8 Consensus size: 20
2830613 GCGATTTTCT
* * *
2830623 CGTTGAGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
2830643 CGTTACGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830663 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830683 CGTTGCGATAGTAAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
2830703 CGTTGCGAT--T----TTAT
1 CGTTGCGATAGTCAAATTCG
* * *
2830717 CATTGTGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
2830736 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
*
2830757 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830777 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
2830791 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830811 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830831 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
2830845 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830865 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2830885 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
2830902 GAATGTGTAA
Statistics
Matches: 207, Mismatches: 32, Indels: 40
0.74 0.11 0.14
Matches are distributed among these distances:
14 32 0.15
16 3 0.01
18 2 0.01
19 2 0.01
20 166 0.80
21 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2830732 original size:74 final size:74
Alignment explanation
Indices: 2830648--2830839 Score: 273
Period size: 74 Copynumber: 2.6 Consensus size: 74
2830638 ATACCCGTTA
* *
2830648 CGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATAGTA-AAATTCGCGTTGCGAT
1 CGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAG-ACAAATTCGCGTTGCGAT
2830712 TTTAT-CATTG
65 TTT-TGCATTG
* *
2830722 TGATAGTCAAA-TAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGAT
1 CGATAGTCAAATTCG-CGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGAT
*
2830786 TTTTGCGTTG
65 TTTTGCATTG
* *
2830796 CGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
2830840 TTTTGAGTTG
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
73 4 0.04
74 99 0.94
75 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (74 bp):
CGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATT
TTTGCATTG
Found at i:2830746 original size:94 final size:94
Alignment explanation
Indices: 2830583--2830785 Score: 289
Period size: 94 Copynumber: 2.2 Consensus size: 94
2830573 CGTGAAAGTC
* ** * * *
2830583 AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGAGATAGTCAAATACCCGTTA
1 AATTCGCGTTGCGATAGTAAAATACGCGTTGCGATTTTATCATTGAGATAGTCAAATACCCGTTA
*
2830648 CGATAATCAAATTCGCGTTGCGATACTCA
66 CGATAATCAAATTCGCGTTGCGATACACA
* * * *
2830677 AATTCGCGTTGCGATAGTAAAATTCGCGTTGCGATTTTATCATTGTGATAGTCAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTAAAATACGCGTTGCGATTTTATCATTGAGATAGTCAAATACCCGTTA
* *
2830742 CGATAGTCAAATTCGCGTTGCGATAGACA
66 CGATAATCAAATTCGCGTTGCGATACACA
2830771 AATTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
2830786 TTTTGCGTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTAAAATACGCGTTGCGATTTTATCATTGAGATAGTCAAATACCCGTTA
CGATAATCAAATTCGCGTTGCGATACACA
Found at i:2830795 original size:54 final size:54
Alignment explanation
Indices: 2830579--2830893 Score: 264
Period size: 54 Copynumber: 5.7 Consensus size: 54
2830569 ACAACGTGAA
* * * * *
2830579 AGTC-AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCT-CGTTGAGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGCGTTGCGAT
* * * * *
2830632 AGTCAAATACCCGTTACGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTTGCGTTGCGAT
* * * * * * ** *
2830692 AGTAAAATTCGCGTTGCGAT-TTTATCATT-GTGATAGTC-A-AATAGCCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCA-AATTCGCG-TTG-CGATTTTTG-CGTTGCGAT
*
2830746 AGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTTGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGAT
* * *
2830800 AGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGAT
* *
2830854 AATCAAATTCGCGTTGTGATAGTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
2830894 ATTCAAATGA
Statistics
Matches: 207, Mismatches: 39, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
53 7 0.03
54 157 0.76
55 5 0.02
56 1 0.00
59 4 0.02
60 32 0.15
61 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (54 bp):
AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGAT
Found at i:2831124 original size:140 final size:140
Alignment explanation
Indices: 2830872--2831141 Score: 513
Period size: 140 Copynumber: 1.9 Consensus size: 140
2830862 TCGCGTTGTG
*
2830872 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
2830937 TAGCAATGTTCAAACTCAAGTTACTAATACATTCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
2831002 AATACACATA
131 AATACACATA
2831012 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
2831077 TAGCAATGTTCAAACTCAAGTTACTAATGCATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
2831142 TACAACGTTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:2831224 original size:18 final size:18
Alignment explanation
Indices: 2831201--2831235 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2831191 AAGCCGGTTG
*
2831201 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2831219 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2831236 GTCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2834357 original size:21 final size:21
Alignment explanation
Indices: 2834331--2834381 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
2834321 CAAAACATTT
2834331 GTGTTGCGAATTTGAAATTCA
1 GTGTTGCGAATTTGAAATTCA
2834352 GTGTTGCGAATTTGAAATTCA
1 GTGTTGCGAATTTGAAATTCA
2834373 GTGTTGCGA
1 GTGTTGCGA
2834382 CAGTCAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (21 bp):
GTGTTGCGAATTTGAAATTCA
Found at i:2834400 original size:20 final size:20
Alignment explanation
Indices: 2834375--2834421 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2834365 GAAATTCAGT
2834375 GTTGCGACAGTCAAAATCGC
1 GTTGCGACAGTCAAAATCGC
* *
2834395 GTTGCGATAGTCATAATCGC
1 GTTGCGACAGTCAAAATCGC
*
2834415 ATTGCGA
1 GTTGCGA
2834422 TTTACATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
GTTGCGACAGTCAAAATCGC
Found at i:2834422 original size:20 final size:20
Alignment explanation
Indices: 2834389--2834482 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
2834379 CGACAGTCAA
*
2834389 AATCGCGTTGCGATAGT-CAT
1 AATCGCATTGCGAT-GTACAT
*
2834409 AATCGCATTGCGATTTACAT
1 AATCGCATTGCGATGTACAT
* *
2834429 ATTCGCATTGCGATTTACAT
1 AATCGCATTGCGATGTACAT
* *
2834449 ACTCGCATTGCGATTTACAT
1 AATCGCATTGCGATGTACAT
* *
2834469 ATTCCCATTGCGAT
1 AATCGCATTGCGAT
2834483 AGTCAGAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.01
20 66 0.99
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (20 bp):
AATCGCATTGCGATGTACAT
Found at i:2834440 original size:40 final size:40
Alignment explanation
Indices: 2834391--2834487 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
2834381 ACAGTCAAAA
*
2834391 TCGCGTTGCGATAGTCATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
* *
2834431 TCGCATTGCGAT-TTACATACTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGT-CATAATCGCATTGCGATTTACATAT
*
2834471 TCCCATTGCGATAGTCA
1 TCGCATTGCGATAGTCA
2834488 GAAAATCGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 48 0.96
41 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
Found at i:2834524 original size:21 final size:22
Alignment explanation
Indices: 2834478--2834533 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
2834468 TATTCCCATT
*
2834478 GCGATAGTCAGAAAATCGCAAC
1 GCGATAGTTAGAAAATCGCAAC
* * *
2834500 GCGA-ATTTAGAAAATCGTAAT
1 GCGATAGTTAGAAAATCGCAAC
2834521 GCGATAGTTAGAA
1 GCGATAGTTAGAA
2834534 TCGCGTTGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (22 bp):
GCGATAGTTAGAAAATCGCAAC
Found at i:2834855 original size:54 final size:54
Alignment explanation
Indices: 2834750--2834902 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 54
2834740 TATTTTTTTA
* *
2834750 TTTTAAAATTATATATAATATTATATTTTAGTTTTACTTTCATCACCAACTAT-T
1 TTTTAAAATTATATTTAATATTATATTTTA-TTTTATTTTCATCACCAACTATAT
* * **
2834804 TTTTAAAATTAAATTTAATATTATATTTTATTTTTATTTTGAT-ATTTAACTATAT
1 TTTTAAAATTATATTTAATATTATATTTTA-TTTTATTTTCATCA-CCAACTATAT
* * *
2834859 TTTTAAAA-CATATTTAACATTATATTTTGATTTTATTTTTATCA
1 TTTTAAAATTATATTTAATATTATATTTT-ATTTTATTTTCATCA
2834903 TATTATTAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.01
54 72 0.86
55 11 0.13
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (54 bp):
TTTTAAAATTATATTTAATATTATATTTTATTTTATTTTCATCACCAACTATAT
Found at i:2835018 original size:31 final size:32
Alignment explanation
Indices: 2834980--2835045 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
2834970 AATTACGATG
* *
2834980 ATATATTAATATTATTG-TAATTTATTTGATA
1 ATATATTAATATCATTGTTAATTTATTTAATA
*
2835011 ATATATTAATATCATTGTTAATTTCTTTAATA
1 ATATATTAATATCATTGTTAATTTATTTAATA
2835043 ATA
1 ATA
2835046 AAATAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (32 bp):
ATATATTAATATCATTGTTAATTTATTTAATA
Found at i:2835185 original size:3 final size:3
Alignment explanation
Indices: 2835155--2835243 Score: 87
Period size: 3 Copynumber: 29.3 Consensus size: 3
2835145 TCTATAAAAA
2835155 TAT T-T TAT T-T TAT T-T TATT TAT TA- TAT TATT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT
* *
2835199 TATT TAC TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TTT TAT T
1 TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
2835244 GTTTTTTTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
2 8 0.11
3 50 0.68
4 16 0.22
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:2835189 original size:16 final size:17
Alignment explanation
Indices: 2835159--2835243 Score: 104
Period size: 19 Copynumber: 4.9 Consensus size: 17
2835149 TAAAAATATT
2835159 TTATT-TTATTTTATTTA
1 TTATTATTA-TTTATTTA
2835176 TTA-TATTATTTATTTA
1 TTATTATTATTTATTTA
2835192 TTATTATTATTTACTATTA
1 TTATTATTATTTA-T-TTA
2835211 TTATTATTATTATTATTTA
1 TTATTATTA-T-TTATTTA
2835230 TTATTATT-TTTATT
1 TTATTATTATTTATT
2835244 GTTTTTTTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 13
0.83 0.00 0.17
Matches are distributed among these distances:
16 17 0.27
17 16 0.26
18 1 0.02
19 23 0.37
20 2 0.03
21 3 0.05
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTATTTATTTA
Found at i:2835198 original size:22 final size:21
Alignment explanation
Indices: 2835163--2835242 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 21
2835153 AATATTTTAT
2835163 TTTATT-TTATTTATTATATTA
1 TTTATTATTA-TTATTATATTA
2835184 TTTATTTATTATTATTAT-TTA
1 TTTA-TTATTATTATTATATTA
*
2835205 -CTATTATTATTATTATTATTA
1 TTTATTATTATTATTA-TATTA
*
2835226 TTTATTATTATTTTTAT
1 TTTATTATTATTATTAT
2835243 TGTTTTTTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
19 12 0.24
20 3 0.06
21 11 0.22
22 22 0.43
23 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTATTATTATTATATTA
Found at i:2835243 original size:22 final size:23
Alignment explanation
Indices: 2835158--2835243 Score: 85
Period size: 25 Copynumber: 3.8 Consensus size: 23
2835148 ATAAAAATAT
2835158 TTTATT-TTA-TT-TTATTTATTA
1 TTTATTATTATTTATTA-TTATTA
2835179 TATTA-T-TTATTTATTATTATTA
1 T-TTATTATTATTTATTATTATTA
*
2835201 TTTACTATTATTATTATTATTATTA
1 TTTATTATTA-T-TTATTATTATTA
2835226 TTTATTATTATTT-TTATT
1 TTTATTATTATTTATTATT
2835244 GTTTTTTTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
21 8 0.14
22 18 0.32
23 8 0.14
24 2 0.04
25 21 0.37
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATTATTTATTATTATTA
Found at i:2835251 original size:12 final size:12
Alignment explanation
Indices: 2835162--2835243 Score: 87
Period size: 13 Copynumber: 6.6 Consensus size: 12
2835152 AAATATTTTA
2835162 TTTTATT-TTAT
1 TTTTATTATTAT
2835173 TTATTA-TATTATT
1 TT-TTATTATTA-T
2835186 TATTTATTATTAT
1 T-TTTATTATTAT
*
2835199 TATTTACTATTAT
1 T-TTTATTATTAT
*
2835212 TATTATTATTAT
1 TTTTATTATTAT
2835224 TATTTATTATTAT
1 T-TTTATTATTAT
2835237 TTTTATT
1 TTTTATT
2835244 GTTTTTTTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
11 3 0.05
12 22 0.36
13 30 0.49
14 6 0.10
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:2836817 original size:19 final size:19
Alignment explanation
Indices: 2836778--2836816 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2836768 TTTATTTCAA
2836778 TTATTTTATTACTTTTGTT
1 TTATTTTATTACTTTTGTT
2836797 TTATTTTATTACTTTT-TT
1 TTATTTTATTACTTTTGTT
2836815 TT
1 TT
2836817 TTCTTTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (19 bp):
TTATTTTATTACTTTTGTT
Found at i:2836872 original size:3 final size:3
Alignment explanation
Indices: 2836856--2836909 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
2836846 TTTTATTTTT
2836856 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TT- TTCA TTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA
*
2836899 TAA TTA TTA TT
1 TTA TTA TTA TT
2836910 TCTTAACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 7 0.16
3 33 0.77
4 1 0.02
5 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2837911 original size:16 final size:16
Alignment explanation
Indices: 2837890--2837932 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
2837880 AACAATAAGA
2837890 ATGTGAGGTAGATAGC
1 ATGTGAGGTAGATAGC
*
2837906 ATGTGAGGTAGATATC
1 ATGTGAGGTAGATAGC
2837922 ATGTGAGGTAG
1 ATGTGAGGTAG
2837933 GACTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (16 bp):
ATGTGAGGTAGATAGC
Found at i:2841042 original size:43 final size:43
Alignment explanation
Indices: 2840970--2841052 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
2840960 CGAATGGGCC
* *
2840970 ATCCACGATTTTAACTCCACGACGGAGGATATCATGCCCACAG
1 ATCCACGATTTCAACTCCACGACGAAGGATATCATGCCCACAG
* **
2841013 ATCCACGATTTCAACTTCACGGTGAAGGATATCATGCCCA
1 ATCCACGATTTCAACTCCACGACGAAGGATATCATGCCCA
2841053 TCTACACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGAAGGATATCATGCCCACAG
Found at i:2841353 original size:116 final size:116
Alignment explanation
Indices: 2841194--2841412 Score: 366
Period size: 116 Copynumber: 1.9 Consensus size: 116
2841184 CAATACGAGC
* * * *
2841194 TTGGATTTCAACTTCACGATGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAAGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGAATATCCAAGTCAAGGCTCAACTTCACAACGAAAGGGCCAT
2841259 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCA
* *
2841310 TTGGATTTCAACTTCACGACGAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGAATATCCAAGTCAAGGCTCAACTTCACAACGAAAGGGCCAT
* *
2841375 CCATGTTTTCAACTTCACGACGAAGGGAATCGTGCTCA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCA
2841413 TAGCAAACAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 95 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (116 bp):
TTGGATTTCAACTTCACGACGAAGAATATCCAAGTCAAGGCTCAACTTCACAACGAAAGGGCCAT
CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCA
Found at i:2841621 original size:36 final size:36
Alignment explanation
Indices: 2841578--2841649 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
2841568 CAAAATAAAG
2841578 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2841614 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2841650 ATCTTTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:2841715 original size:36 final size:36
Alignment explanation
Indices: 2841662--2841821 Score: 257
Period size: 36 Copynumber: 4.4 Consensus size: 36
2841652 CTTTGAATAT
* *
2841662 GTTTTCCTTGAAACAAATTTCGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
2841698 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
2841734 GTTTCCCTTGAAACAAATTTTGTCTCTTTTGATACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
2841770 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
2841807 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
2841822 CAAAAAAAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 83 0.73
37 31 0.27
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:2841876 original size:35 final size:35
Alignment explanation
Indices: 2841807--2841932 Score: 182
Period size: 35 Copynumber: 3.5 Consensus size: 35
2841797 TCTTGAGACA
2841807 GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACAC--AAAAAAAACCTTTGAAATC
* *
2841844 GTTTCTTTTGAAACACAAAAGAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAATC
* *
2841879 GTTTCTCTTGAAACACAAAATAAACCTATGAAAAT-
1 GTTTCTCTTGAAACACAAAAAAAACCTTTG-AAATC
2841914 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
2841933 GACCTTCGAG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
35 64 0.77
36 4 0.05
37 15 0.18
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAAAAACCTTTGAAATC
Found at i:2843586 original size:9 final size:10
Alignment explanation
Indices: 2843549--2843627 Score: 67
Period size: 9 Copynumber: 7.8 Consensus size: 10
2843539 TTTCTTTCCC
2843549 TATTGATTTAT
1 TATT-ATTTAT
*
2843560 TAAATATTT-T
1 T-ATTATTTAT
2843570 TATTTATTTAT
1 TA-TTATTTAT
2843581 T-TTATTTAT
1 TATTATTTAT
2843590 TATTA-TTAT
1 TATTATTTAT
2843599 TATTATTT-T
1 TATTATTTAT
*
2843608 CATTTATTTAAT
1 TA-TTATTT-AT
2843620 TATTATTT
1 TATTATTT
2843628 CTTAACTAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
9 21 0.38
10 18 0.32
11 13 0.23
12 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:2843621 original size:24 final size:24
Alignment explanation
Indices: 2843577--2843626 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2843567 TTTTATTTAT
*
2843577 TTATTTTATTTATTATTATTATTA
1 TTATTTTATTTATTATAATTATTA
2843601 TTATTTTCATTTATT-TAATTATTA
1 TTATTTT-ATTTATTATAATTATTA
2843625 TT
1 TT
2843627 TCTTAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATTTTATTTATTATAATTATTA
Found at i:2846212 original size:15 final size:15
Alignment explanation
Indices: 2846189--2846230 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
2846179 CTCCAGTCAA
*
2846189 CTGAGGACGTGGCTC
1 CTGAAGACGTGGCTC
2846204 CTGAAGACGTGGCTC
1 CTGAAGACGTGGCTC
*
2846219 CTGAAGAAGTGG
1 CTGAAGACGTGG
2846231 TGGAACCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.19
Consensus pattern (15 bp):
CTGAAGACGTGGCTC
Found at i:2849988 original size:30 final size:30
Alignment explanation
Indices: 2849927--2849988 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
2849917 CTGGAAGAAT
* * *
2849927 CGGCTGAGAACCGACAAAATCAGGGTGAAC
1 CGGCTGAAAACCGACAAAACCAGGGTAAAC
* * *
2849957 CGGCTGAAAATCGGCAAAACCAGTGTAAAC
1 CGGCTGAAAACCGACAAAACCAGGGTAAAC
2849987 CG
1 CG
2849989 CCGGTTCTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.11
Consensus pattern (30 bp):
CGGCTGAAAACCGACAAAACCAGGGTAAAC
Found at i:2853085 original size:21 final size:21
Alignment explanation
Indices: 2853059--2853120 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
2853049 GTTCTACGTG
*
2853059 GTCCTTCAGGATATATATGTT
1 GTCCTTCAGGACATATATGTT
*
2853080 GTCCTTCGGGACATATATG-T
1 GTCCTTCAGGACATATATGTT
* *
2853100 GATCCTTTAGAACATATATGT
1 G-TCCTTCAGGACATATATGT
2853121 GATCCTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (21 bp):
GTCCTTCAGGACATATATGTT
Found at i:2853121 original size:21 final size:21
Alignment explanation
Indices: 2853090--2853169 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
2853080 GTCCTTCGGG
2853090 ACATATATGTGATCCTTTAGA
1 ACATATATGTGATCCTTTAGA
***
2853111 ACATATATGTGATCCTTTTTTT
1 ACATATATGTGATCC-TTTAGA
* * *
2853133 ACATATATTTGGTCCTTTGGA
1 ACATATATGTGATCCTTTAGA
*
2853154 ACATATATGTGGTCCT
1 ACATATATGTGATCCT
2853170 ACGGGACAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 33 0.67
22 16 0.33
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
ACATATATGTGATCCTTTAGA
Found at i:2853211 original size:21 final size:21
Alignment explanation
Indices: 2853156--2853222 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
2853146 CCTTTGGAAC
* *
2853156 ATATATGTGGTCCTACGGGACA
1 ATATATGTGGTCCTACAGGA-T
* *
2853178 ATTCTATGGGGTCCTACAGGAT
1 A-TATATGTGGTCCTACAGGAT
*
2853200 ATATATGTGGTCCTTCAGGAT
1 ATATATGTGGTCCTACAGGAT
2853221 AT
1 AT
2853223 TTTATATGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 19 0.51
22 2 0.05
23 16 0.43
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (21 bp):
ATATATGTGGTCCTACAGGAT
Found at i:2857962 original size:20 final size:21
Alignment explanation
Indices: 2857930--2857976 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
2857920 ATAGAGGTAT
*
2857930 CGATA-CTGTAAGGGTAGTAC
1 CGATACCTGTAAGGATAGTAC
* *
2857950 CGATACCTG-AAGGATGGTAT
1 CGATACCTGTAAGGATAGTAC
2857970 CGATACC
1 CGATACC
2857977 CTTAAAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (21 bp):
CGATACCTGTAAGGATAGTAC
Found at i:2858059 original size:54 final size:54
Alignment explanation
Indices: 2857959--2858088 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
2857949 CCGATACCTG
* * * *
2857959 AAGGATGGTATCGATACCCTTAAAACATTGAATGCCAGATTGGTATCAGTACCTT
1 AAGGA-GGTATCGATACCCTTGAAACATCGAATGCCAGATTAGTATCAGTACCAT
* ** * *
2858014 GAGGAGGTATCGATACCCTTGAAACATCGAATGTTA-TTTCAGTATCGGTACCAT
1 AAGGAGGTATCGATACCCTTGAAACATCGAATGCCAGATT-AGTATCAGTACCAT
*
2858068 AAGGAGGCATCGATACCCTTG
1 AAGGAGGTATCGATACCCTTG
2858089 TAGGGTAGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.90
55 4 0.06
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (54 bp):
AAGGAGGTATCGATACCCTTGAAACATCGAATGCCAGATTAGTATCAGTACCAT
Found at i:2858101 original size:22 final size:21
Alignment explanation
Indices: 2858076--2858125 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2858066 ATAAGGAGGC
*
2858076 ATCGATACCCTTGTAGGGTAGT
1 ATCGATACCCAT-TAGGGTAGT
*
2858098 ATCGGTA-CCATTAGGGTAGT
1 ATCGATACCCATTAGGGTAGT
*
2858118 ACCGATAC
1 ATCGATAC
2858126 TTCCAAGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 6 0.26
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (21 bp):
ATCGATACCCATTAGGGTAGT
Found at i:2858680 original size:21 final size:21
Alignment explanation
Indices: 2858642--2858681 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2858632 GTCATTTGGA
*
2858642 ACAAATATGTGGTCCTTCGAG
1 ACAAATATGTGGACCTTCGAG
2858663 ACAAATATGT-GACACTTCG
1 ACAAATATGTGGAC-CTTCG
2858682 GTGCAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
ACAAATATGTGGACCTTCGAG
Found at i:2858701 original size:23 final size:23
Alignment explanation
Indices: 2858668--2858755 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
2858658 TCGAGACAAA
*
2858668 TATGTGACACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* * *
2858691 CATGTGGCACTTTGGTGTAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
2858714 TATGTGGTC-CTTCGG-G-ACAA-T
1 TATGTGG-CACTTCGGTGCA-AACC
2858735 TATGTGGCACTTCGGTGCAAA
1 TATGTGGCACTTCGGTGCAAA
2858756 TTATGAGTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 14 0.26
22 6 0.11
23 31 0.58
24 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:2861426 original size:2 final size:2
Alignment explanation
Indices: 2861419--2861448 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2861409 CTACACAATC
2861419 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
2861449 GTTATCAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2861574 original size:24 final size:20
Alignment explanation
Indices: 2861525--2861582 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2861515 TTCCCATTGA
*
2861525 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
2861545 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2861568 AGGTGCATCGATGCA
1 A-GTGCATCGATGCA
2861583 CTACCATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2868330 original size:23 final size:23
Alignment explanation
Indices: 2868226--2868323 Score: 160
Period size: 23 Copynumber: 4.3 Consensus size: 23
2868216 CAGGACAAAT
2868226 ATGTGGCACTTCGGTGCAAACCC
1 ATGTGGCACTTCGGTGCAAACCC
* *
2868249 ATATGGCACTTCGGTGCAAGCCC
1 ATGTGGCACTTCGGTGCAAACCC
*
2868272 ATGTGGCACTTCGGTGCAAGCCC
1 ATGTGGCACTTCGGTGCAAACCC
*
2868295 ATGTGGCACTTCGGTGCAAACCT
1 ATGTGGCACTTCGGTGCAAACCC
2868318 ATGTGG
1 ATGTGG
2868324 TCATTCGAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (23 bp):
ATGTGGCACTTCGGTGCAAACCC
Found at i:2872395 original size:23 final size:23
Alignment explanation
Indices: 2872314--2872388 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
2872304 CAGGACAAAT
2872314 ATGTGGCACTTCGGTGCAAACCC
1 ATGTGGCACTTCGGTGCAAACCC
* *
2872337 ATATGGCACTTCGGTGCAAGCCC
1 ATGTGGCACTTCGGTGCAAACCC
*
2872360 ATGTGGCACTTCGGTGCAAACCT
1 ATGTGGCACTTCGGTGCAAACCC
2872383 ATGTGG
1 ATGTGG
2872389 TCATTCGAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (23 bp):
ATGTGGCACTTCGGTGCAAACCC
Found at i:2873727 original size:20 final size:20
Alignment explanation
Indices: 2873689--2873744 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2873679 GCTCAAAATC
***
2873689 GTTTTTCAAAATTTCATTTT
1 GTTTTTCAAAATCAAATTTT
2873709 GTTTTTCAAAATCAAATTTT
1 GTTTTTCAAAATCAAATTTT
*
2873729 G-CTTTCAAAATCAAAT
1 GTTTTTCAAAATCAAAT
2873745 CATTTTCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (20 bp):
GTTTTTCAAAATCAAATTTT
Found at i:2876013 original size:18 final size:19
Alignment explanation
Indices: 2875978--2876050 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 19
2875968 CAATCGGTCT
2875978 GACCCGTTGACTTTGACCC
1 GACCCGTTGACTTTGACCC
2875997 GACCCGTTGAC-TTGACCC
1 GACCCGTTGACTTTGACCC
* **
2876015 GACCTGTTGACTTTGACAT
1 GACCCGTTGACTTTGACCC
*
2876034 GACCCGTTAACTTTGAC
1 GACCCGTTGACTTTGAC
2876051 TAGAGTTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 17 0.35
19 31 0.65
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.29
Consensus pattern (19 bp):
GACCCGTTGACTTTGACCC
Found at i:2882478 original size:37 final size:36
Alignment explanation
Indices: 2882437--2882512 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 36
2882427 CTTGTGTCGG
2882437 TTAAATGTATTGCACTACTAATTATGTAGTTGGATGA
1 TTAAATGTATTGCACTACTAATTATGTAGTTGGAT-A
* * *
2882474 TTAAATGTGTTGTACTATTAATTATGTAGTTGGATA
1 TTAAATGTATTGCACTACTAATTATGTAGTTGGATA
2882510 TTA
1 TTA
2882513 TCTTCTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (36 bp):
TTAAATGTATTGCACTACTAATTATGTAGTTGGATA
Found at i:2882611 original size:37 final size:37
Alignment explanation
Indices: 2882570--2882641 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
2882560 TGTTTGAAGG
2882570 TTAAATGTATTGTACTATTAATTATGTAGTTGGATGA
1 TTAAATGTATTGTACTATTAATTATGTAGTTGGATGA
*
2882607 TTAAATGTGTTGTACTATTAATTATGTAGTTGGAT
1 TTAAATGTATTGTACTATTAATTATGTAGTTGGAT
2882642 ACTATTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (37 bp):
TTAAATGTATTGTACTATTAATTATGTAGTTGGATGA
Found at i:2882626 original size:17 final size:17
Alignment explanation
Indices: 2882570--2882627 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
2882560 TGTTTGAAGG
*
2882570 TTAAATGTATTGTACTA
1 TTAAATGTGTTGTACTA
*
2882587 TTAATTATGTAGTTGGA-TGA
1 TTAA--ATGT-GTTGTACT-A
2882607 TTAAATGTGTTGTACTA
1 TTAAATGTGTTGTACTA
2882624 TTAA
1 TTAA
2882628 TTATGTAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
17 14 0.42
18 5 0.15
19 5 0.15
20 9 0.27
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (17 bp):
TTAAATGTGTTGTACTA
Found at i:2882784 original size:14 final size:14
Alignment explanation
Indices: 2882737--2882799 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
2882727 ATTTGATTTA
2882737 TTTATAAAAATGAAAT
1 TTTATAAAAAT--AAT
*
2882753 GTTATAATATATATAAT
1 TTTATAA-A-A-ATAAT
*
2882770 TTTGTAAAAATAAT
1 TTTATAAAAATAAT
2882784 TTTATAAAAATTAAT
1 TTTATAAAAA-TAAT
2882799 T
1 T
2882800 AAATAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 14 0.36
15 6 0.15
16 7 0.18
17 9 0.23
18 1 0.03
19 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
TTTATAAAAATAAT
Found at i:2887581 original size:44 final size:44
Alignment explanation
Indices: 2887523--2887610 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
2887513 TTGGCATTTG
*
2887523 TGGTTAGTTCCGAAAACTGCCAATGAAATATTATGATTTGGGAC
1 TGGTTAGTTCCGAAAACTGCCAATGAAATATTATGATTCGGGAC
* *
2887567 TGGTTAGTTTCGAAAACTGCCGATGAAATATTATGATTCGGGAC
1 TGGTTAGTTCCGAAAACTGCCAATGAAATATTATGATTCGGGAC
2887611 AATGATTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
TGGTTAGTTCCGAAAACTGCCAATGAAATATTATGATTCGGGAC
Found at i:2888756 original size:53 final size:53
Alignment explanation
Indices: 2888698--2888802 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
2888688 AAACGAAAAC
* *
2888698 TAAAGTATTTAACAACGGGTTATTAAAATGAA-ATAAAAATTAAACTTTAAGTA
1 TAAAGTATTTAACAACGGGGTATTAAAAT-AATATAAAAAATAAACTTTAAGTA
*
2888751 TAAAGTATTTAATAACGGGGTATTAAAATAATATAAAAAATAAACTTTAAGT
1 TAAAGTATTTAACAACGGGGTATTAAAATAATATAAAAAATAAACTTTAAGT
2888803 TTTGAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (53 bp):
TAAAGTATTTAACAACGGGGTATTAAAATAATATAAAAAATAAACTTTAAGTA
Found at i:2895572 original size:44 final size:44
Alignment explanation
Indices: 2895506--2895591 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
2895496 GCTAGAATGT
* *
2895506 ATGAACATCTCCCTTGGTCGAATGGTCTTGTGATGATTCATTGG
1 ATGAACATCTCCCTTGGCCGAATGGTCTTGTGATGAATCATTGG
2895550 ATGAACATCTCCCTTGGCCGAATGGTCTTGTGATGAATCATT
1 ATGAACATCTCCCTTGGCCGAATGGTCTTGTGATGAATCATT
2895592 TTAGCACCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (44 bp):
ATGAACATCTCCCTTGGCCGAATGGTCTTGTGATGAATCATTGG
Found at i:2909797 original size:20 final size:20
Alignment explanation
Indices: 2909760--2909802 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2909750 ATTCCATCAC
*
2909760 ATGCAACTATATGCTCCTAA
1 ATGCAACTACATGCTCCTAA
* *
2909780 ATGCACCTACATGGTCCTAA
1 ATGCAACTACATGCTCCTAA
2909800 ATG
1 ATG
2909803 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
ATGCAACTACATGCTCCTAA
Found at i:2928167 original size:182 final size:182
Alignment explanation
Indices: 2927670--2930181 Score: 4395
Period size: 182 Copynumber: 13.9 Consensus size: 182
2927660 GTAAAGCGCT
*
2927670 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
* *
2927734 CCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
2927799 ACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
2927851 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
* *
2927913 GTCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
* *
2927978 GACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTG
130 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
2928031 AAAGTGTCGATAATTTATTATAAGTATCGAAACTTTTGGAATTCAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
* * * *
2928096 CCAATAAAGTGTCTATATTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
2928161 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
2928213 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
2928278 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
2928343 ACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCAGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
2928395 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
2928460 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
2928525 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
2928577 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
2928641 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
2928706 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTA
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
2928758 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
*
2928820 GCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
*
2928885 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGATACCGGTTATGTTG
130 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* * * *
2928938 AAAGTGTCGATAATTTGTCATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
2929003 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
2929068 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
2929120 AAAGTGTCGATAATTTATTATAAGTTTTGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
2929185 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
2929250 ACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTACCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* * *
2929301 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAATAGAAGAAGTTATAGTG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
2929366 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
2929431 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
2929483 AAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
2929547 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
2929612 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
2929664 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATATC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
* *
2929726 GCCAATAACGTGTCGATACTTTATCAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
2929791 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
130 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
2929844 AAAGTGTTGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGAG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
2929909 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* * *
2929974 ACAAAACTGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
2930026 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
*
2930090 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
* **
2930155 GATAAAACCGGTCTATAAATGACAAAA
130 GACAAAACCGGTCTCGAAATGACAAAA
2930182 GGTGAATGCA
Statistics
Matches: 2219, Mismatches: 95, Indels: 33
0.95 0.04 0.01
Matches are distributed among these distances:
178 12 0.01
179 54 0.02
180 449 0.20
181 508 0.23
182 1186 0.53
183 10 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
Found at i:2928918 original size:725 final size:726
Alignment explanation
Indices: 2927542--2930181 Score: 4511
Period size: 725 Copynumber: 3.7 Consensus size: 726
2927532 TTTTACCTTT
* **
2927542 TTTAAAAGAGAAGAAGTTATATCATCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
2927607 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCG----
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
*
2927668 C--------T-AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
* * *
2927724 -AGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAT
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
* *
2927788 GTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTGAA
261 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
2927853 AGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGTC
326 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCC
*
2927916 AATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
391 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
* *
2927981 AAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATT
456 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
*
2928046 TATTATAAGTATCGAAACTTTTGGAATTCAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCTA
521 TATTATAAGTATCG-AACTTTTGGAATT-AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGA
* * *
2928111 TATTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAACCGGTCTCG
584 TACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCG
* *
2928176 AAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATC
649 AAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATC
2928241 GACACTTTTGGAA
714 GACACTTTTGGAA
2928254 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2928319 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
* *
2928384 CAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
2928449 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
*
2928514 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTGAA
261 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
2928579 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAA-AAGAGAAG-AGTTATAGCGC
326 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCGC
2928642 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGA
390 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGA
*
2928707 CAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTAAAAGTGTCGATAAT
455 CAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAAT
*
2928772 TTATTATAAGTATCG-ACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGA
520 TTATTATAAGTATCGAACTTTTGGAATTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGA
2928836 TACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCG
584 TACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCG
* * *
2928901 AAATGACAAAACAGGTAAAGCGATACCGGTTATGTTGAAAGTGTCGATAATTTGTCATAAGTATC
649 AAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATC
2928966 GACACTTTTGGAA
714 GACACTTTTGGAA
* *
2928979 TTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2929044 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
* * *
2929109 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTTTTGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
2929174 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
2929239 GTAAAAATATGACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTACCGGTTATGTTGAA
261 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
* * *
2929303 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAA-AATAGAAGAAGTTATAGTGC
326 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCGC
*
2929367 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
390 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGA
*
2929432 CAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTGAAAGTGTCGATAAT
455 CAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAAT
*
2929497 TTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCG
520 TTATTATAAGTATCGA-ACTTTTGGAA-TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCG
2929561 ATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTC
583 ATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTC
* *
2929626 GAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAT
648 GAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAT
2929691 CG--ACTTTTGGAA
713 CGACACTTTTGGAA
* * *
2929703 -TTAATAAGAGAAGAAGTTATATCGCCAATAACGTGTCGATACTTTATCAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* *
2929767 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTA
*
2929832 CCGGTTATGTTGAAAGTGTTGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
*
2929897 GAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
195 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* * *
2929962 GGTAAAAATATGACAAAACTGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGA
260 GGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
2930027 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGC
325 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGC
*
2930092 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACATGTAAAAATATGA
390 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGA
* **
2930157 TAAAACCGGTCTATAAATGACAAAA
455 CAAAACCGGTCTCGAAATGACAAAA
2930182 GGTGAATGCA
Statistics
Matches: 1831, Mismatches: 72, Indels: 37
0.94 0.04 0.02
Matches are distributed among these distances:
712 122 0.07
716 1 0.00
723 3 0.00
724 374 0.20
725 837 0.46
726 299 0.16
727 169 0.09
728 22 0.01
729 4 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (726 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCC
AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
TATTATAAGTATCGAACTTTTGGAATTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATA
CTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAA
ATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA
CACTTTTGGAA
Found at i:2929731 original size:906 final size:906
Alignment explanation
Indices: 2927542--2930184 Score: 4800
Period size: 906 Copynumber: 2.9 Consensus size: 906
2927532 TTTTACCTTT
2927542 TTTAAAAGAGAAGAAGTTATA-T-CATCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
1 TTTAAAAGAGAAGAAGTTATAGTGC--CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
*
2927605 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCG--
64 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
2927668 --C--------T-AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGA
129 TCCGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGA
* *
2927722 AGAGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACA
194 AGAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* *
2927787 TGTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTGA
259 TGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
*
2927852 AAGTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGTCA
324 AAGTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCA
2927917 ATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACA
389 ATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACA
* *
2927982 AAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTT
454 AAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTT
* * *
2928047 ATTATAAGTATCGAAACTTTTGGAATTCAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCTAT
519 ATTATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGAT
* *
2928112 ATTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA
584 ACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA
*
2928177 AATGACAAAACAGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG
649 AATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG
2928242 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAAT
714 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAAT
2928307 GTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAG
779 GTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGAC-AAACAG
2928372 GTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
843 GTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
2928436 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
2928501 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
2928566 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
2928631 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
*
2928696 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTAAAA
261 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
2928761 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
2928826 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
391 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
* *
2928891 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGATACCGGTTATGTTGAAAGTGTCGATAATTTGT
456 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTAT
*
2928956 CATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
521 TATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
2929021 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
586 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
* *
2929086 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTTTTGAC
651 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
2929151 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
716 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
*
2929216 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTA
781 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAACAGGTA
*
2929281 AAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
846 AAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
2929342 TTTAAAATAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
2929407 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
*
2929472 CGGTTATGTTGAAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
2929537 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
* *
2929602 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTGAAA
261 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
*
2929667 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATATCGCCAAT
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
*
2929732 AACGTGTCGATACTTTATCAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
391 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
*
2929797 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTTGATAATTTAT
456 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTAT
*
2929862 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
521 TATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
*
2929927 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTGGTCTCGAAA
586 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
*
2929992 TGACAAAACAGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
651 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
2930057 ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
716 ACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
* *
2930121 TATCGATCCATAATAATATAACATGTAAAAATATGATAAAACCGGTCT-ATAAATGACAAA-AGG
780 TATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCA-AAATGACAAACAGG
2930184 T
844 T
2930185 GAATGCATAG
Statistics
Matches: 1689, Mismatches: 43, Indels: 23
0.96 0.02 0.01
Matches are distributed among these distances:
894 121 0.07
896 1 0.00
898 1 0.00
905 8 0.00
906 883 0.52
907 675 0.40
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (906 bp):
TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTAT
TATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAACAGGTA
AAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
Found at i:2930364 original size:23 final size:23
Alignment explanation
Indices: 2930308--2930364 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
2930298 TTACTTATAA
*
2930308 AATAGGTTAATATAAGCGCTACCT
1 AATACGTT-ATATAAGCGCTACCT
* *
2930332 ATTACATTATATAAGCGCTACCT
1 AATACGTTATATAAGCGCTACCT
*
2930355 AATATGTTAT
1 AATACGTTAT
2930365 TGTACTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
AATACGTTATATAAGCGCTACCT
Found at i:2933657 original size:15 final size:17
Alignment explanation
Indices: 2933639--2933675 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
2933629 ATATTTCCAT
2933639 AAATTATA-TTTAAAA-
1 AAATTATACTTTAAAAC
2933654 AAA-TATACTTTAAAAC
1 AAATTATACTTTAAAAC
2933670 AAATTA
1 AAATTA
2933676 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 10 0.53
16 3 0.16
17 2 0.11
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATACTTTAAAAC
Found at i:2935916 original size:27 final size:27
Alignment explanation
Indices: 2935889--2935941 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
2935879 CTAATATTTA
2935889 TCATCATATAATAGTTATATAAAATTAT
1 TCATCATATAATAG-TATATAAAATTAT
*
2935917 TTATCATATAATAGTATATAAAATT
1 TCATCATATAATAGTATATAAAATT
2935942 TAAGATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
TCATCATATAATAGTATATAAAATTAT
Found at i:2936503 original size:20 final size:21
Alignment explanation
Indices: 2936478--2936611 Score: 130
Period size: 21 Copynumber: 6.5 Consensus size: 21
2936468 TTTTCCCAAT
*
2936478 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2936498 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2936519 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2936539 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
2936560 TCGCAATGTGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2936580 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2936601 TCGCAATGCGA
1 TCGCAATGCGA
2936612 TACTTACTAT
Statistics
Matches: 88, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
20 42 0.48
21 46 0.52
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2936625 original size:20 final size:20
Alignment explanation
Indices: 2936600--2936693 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
2936590 AATTGGGAAA
*
2936600 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
2936620 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
2936641 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
2936661 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
2936681 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2936694 TTACATAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:2936626 original size:41 final size:41
Alignment explanation
Indices: 2936478--2936611 Score: 259
Period size: 41 Copynumber: 3.3 Consensus size: 41
2936468 TTTTCCCAAT
2936478 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2936519 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
2936560 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2936601 TCGCAATGCGA
1 TCGCAATGCGA
2936612 TACTTACTAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2936642 original size:41 final size:41
Alignment explanation
Indices: 2936597--2936674 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
2936587 GCGAATTGGG
* * * *
2936597 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCACAACGCGATAATAC
*
2936638 AAAATCGCAACGAGATACTTACTTTCACAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCACAACGCGATA
2936675 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCACAACGCGATAATAC
Found at i:2936642 original size:82 final size:82
Alignment explanation
Indices: 2936478--2936647 Score: 236
Period size: 82 Copynumber: 2.1 Consensus size: 82
2936468 TTTTCCCAAT
2936478 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
* **
2936543 AACGCGAATTGGGAAAA
66 AACGCGAAATGACAAAA
* ** *
2936560 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACTATCG
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-AATCG
*
2936624 CAATGCGATAAT-ACAAAA
65 CAACGCGA-AATGACAAAA
2936642 TCGCAA
1 TCGCAA
2936648 CGAGATACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 5 0.06
82 71 0.91
83 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (82 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
AACGCGAAATGACAAAA
Found at i:2936909 original size:22 final size:22
Alignment explanation
Indices: 2936881--2936924 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2936871 CACTCTCTCA
2936881 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
2936903 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2936925 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2937212 original size:20 final size:20
Alignment explanation
Indices: 2937187--2937224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2937177 CGATTCTCTC
2937187 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
2937207 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
2937225 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:2938561 original size:18 final size:18
Alignment explanation
Indices: 2938540--2938584 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2938530 TCCACTTCGG
* *
2938540 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
2938558 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
2938576 GAGCCATCA
1 GAGCCATCA
2938585 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:2939130 original size:14 final size:14
Alignment explanation
Indices: 2939111--2939168 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2939101 ATGCGAAATG
2939111 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2939125 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2939141 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2939157 AAAATCGCAACG
1 AAAATCGCAACG
2939169 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2939153 original size:32 final size:33
Alignment explanation
Indices: 2939095--2939185 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2939085 GGAAATGGCT
*
2939095 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2939128 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2939160 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2939186 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2939179 original size:19 final size:19
Alignment explanation
Indices: 2939057--2939190 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
2939047 TAGTTTACTT
* **
2939057 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
2939076 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
2939096 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2939115 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2939129 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2939147 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2939161 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2939180 TCGCAATGCGA
1 TCGCAACGCGA
2939191 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2939242 original size:19 final size:19
Alignment explanation
Indices: 2939227--2939282 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
2939217 GTTGCGATTT
*
2939227 TCATTTCGCATTGCGATAG
1 TCATTTCGTATTGCGATAG
*
2939246 CCATTTCCGTATTGCGATAG
1 TCATTT-CGTATTGCGATAG
*
2939266 TCATTTCGTGTTGCGAT
1 TCATTTCGTATTGCGAT
2939283 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
TCATTTCGTATTGCGATAG
Found at i:2941302 original size:19 final size:19
Alignment explanation
Indices: 2941272--2941425 Score: 211
Period size: 19 Copynumber: 8.6 Consensus size: 19
2941262 AAAACAGACT
* *
2941272 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
*
2941291 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2941310 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2941329 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2941348 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2941367 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
2941381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2941400 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
2941414 ATCGCAATGCGA
1 ATCGCAATGCGA
2941426 TTTTCATTTC
Statistics
Matches: 123, Mismatches: 4, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
14 22 0.18
15 2 0.02
16 4 0.03
17 4 0.03
18 1 0.01
19 90 0.73
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2941413 original size:14 final size:14
Alignment explanation
Indices: 2941363--2941420 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
2941353 AATGCGAAAT
2941363 GAAAATCGCAACGA
1 GAAAATCGCAACGA
2941377 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
2941395 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
2941410 GAAAATCGCAA
1 GAAAATCGCAA
2941421 TGCGATTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:2941438 original size:33 final size:33
Alignment explanation
Indices: 2941306--2941425 Score: 195
Period size: 33 Copynumber: 3.5 Consensus size: 33
2941296 AATGCGAAAT
2941306 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A
2941343 TGAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAACGA
2941377 GAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGA
2941410 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2941426 TTTTCATTTC
Statistics
Matches: 82, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
33 49 0.60
34 1 0.01
36 2 0.02
38 30 0.37
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGA
Found at i:2941501 original size:20 final size:20
Alignment explanation
Indices: 2941444--2941501 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2941434 TCGCATTGCG
* *
2941444 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
2941464 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2941484 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2941502 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:2942501 original size:23 final size:23
Alignment explanation
Indices: 2942473--2942525 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2942463 AGTATTCGAA
* *
2942473 ATTTGATCTTGGTC-ATACCCGG
1 ATTTGATATTGGTCAATACACGG
2942495 ACTTTGATATTGGTCAATACACGG
1 A-TTTGATATTGGTCAATACACGG
2942519 ATTTGAT
1 ATTTGAT
2942526 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 18 0.67
24 8 0.30
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (23 bp):
ATTTGATATTGGTCAATACACGG
Found at i:2945008 original size:19 final size:19
Alignment explanation
Indices: 2944986--2945115 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
2944976 GGAAATTACT
2944986 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2945005 ATCGC-A--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2945018 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2945037 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
2945051 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2945070 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2945084 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2945103 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2945116 TTTAATTTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 32
0.65 0.10 0.25
Matches are distributed among these distances:
13 8 0.10
14 19 0.23
15 2 0.02
16 8 0.10
17 4 0.05
18 4 0.05
19 37 0.45
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2945061 original size:33 final size:32
Alignment explanation
Indices: 2944987--2945117 Score: 176
Period size: 33 Copynumber: 4.0 Consensus size: 32
2944977 GAAATTACTA
* *
2944987 TCGCAATGCGAAATGAAAATCGC-ACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-AT
*
2945019 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAA-T
*
2945052 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA-
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAAT
2945085 TCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAAT
2945117 T
1 T
2945118 TAATTTTGCG
Statistics
Matches: 88, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
31 4 0.05
32 25 0.28
33 56 0.64
35 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (32 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAAT
Found at i:2945100 original size:66 final size:65
Alignment explanation
Indices: 2944987--2945118 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
2944977 GAAATTACTA
*
2944987 TCGCAATGCGAAATGAAAATCGCACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
2945052 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGC-ACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2945117 T
65 T
2945118 T
1 T
2945119 AATTTTGCGT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 23 0.36
66 41 0.64
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:2945153 original size:19 final size:18
Alignment explanation
Indices: 2945115--2945186 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
2945105 CGCAACGCGA
* *
2945115 ATTTAATTTTGCGTTGCG
1 ATTTCATTTCGCGTTGCG
2945133 ATTTCATTTTCGCGTTGCG
1 ATTTCA-TTTCGCGTTGCG
2945152 A-TTC---TCGCGTTGCG
1 ATTTCATTTCGCGTTGCG
*
2945166 ATTTTCATTTCGCATTGCG
1 A-TTTCATTTCGCGTTGCG
2945185 AT
1 AT
2945187 AGTACTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
18 9 0.20
19 22 0.49
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (18 bp):
ATTTCATTTCGCGTTGCG
Found at i:2945161 original size:14 final size:14
Alignment explanation
Indices: 2945142--2945168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2945132 GATTTCATTT
2945142 TCGCGTTGCGATTC
1 TCGCGTTGCGATTC
2945156 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2945169 TTCATTTCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.26, G:0.30, T:0.37
Consensus pattern (14 bp):
TCGCGTTGCGATTC
Found at i:2945310 original size:14 final size:14
Alignment explanation
Indices: 2945291--2945326 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2945281 CATCAATTAA
2945291 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2945305 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2945319 AC-AATCAA
1 ACAAATCAA
2945327 TTAACAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Done.