Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 26
Found at i:3023344 original size:54 final size:54
Alignment explanation
Indices: 3023266--3023657 Score: 597
Period size: 54 Copynumber: 7.3 Consensus size: 54
3023256 TAACATTTGA
* * *
3023266 GCACACATAGTGCCCAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
*
3023320 GCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
*
3023374 GCACACTTAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
** * **
3023428 GCACACTTAGTGTTGAAACAGTTATTCATCCACATAGGATGAATTCTTTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* *
3023482 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTGAATT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * *
3023536 GCACACTTAGTGCCGAAACAGTTATTCATCCATATAGGATGAATTCCGTGATAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * *
3023590 GCACACTTAGTGCTGAAATGGTTATTCATCCACATAAGATGAAGTT-CGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAA-TTCCGTGAAAT
*
3023644 TCACACTTAGTGCC
1 GCACACTTAGTGCC
3023658 TATTTGGTAA
Statistics
Matches: 309, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
54 307 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
Found at i:3023432 original size:25 final size:25
Alignment explanation
Indices: 3023350--3023432 Score: 60
Period size: 27 Copynumber: 3.2 Consensus size: 25
3023340 GTTATTCATC
3023350 CACATAGGATGAATTCCGTGAAATG
1 CACATAGGATGAATTCCGTGAAATG
* * * * * *
3023375 CACACTTAGTGCTGAA-ACGGTTATTCATC
1 CACA--TAG-GATGAATTCCGTGA--AATG
3023404 CACATAGGATGAATTCCGTGAAATG
1 CACATAGGATGAATTCCGTGAAATG
3023429 CACA
1 CACA
3023433 CTTAGTGTTG
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 10 0.25
26 5 0.12
27 14 0.35
28 5 0.12
29 6 0.15
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (25 bp):
CACATAGGATGAATTCCGTGAAATG
Found at i:3024143 original size:95 final size:95
Alignment explanation
Indices: 3024013--3024201 Score: 270
Period size: 95 Copynumber: 2.0 Consensus size: 95
3024003 CTGATACTTT
* * * * * **
3024013 TATACTATGGTACCGATACCCCCTACCGGTATCGATACCAATCTTAGGTTCAATGTTGCCTGGTA
1 TATACTATAGTACAGATACCCCCTACCAGAATCGATACCAATCTTAGATTCAATGTTGCCTAATA
3024078 TCGATACCCTTACCATGGTATCGATACTAC
66 TCGATACCCTTACCATGGTATCGATACTAC
* * * * *
3024108 TATACTATAGTACAGATACCTCCTTCCAGAATCGATACCAATTTTAGATTCGATGTTGCTTAATA
1 TATACTATAGTACAGATACCCCCTACCAGAATCGATACCAATCTTAGATTCAATGTTGCCTAATA
3024173 TCGATACCCTTACCATGGTATCGATACTA
66 TCGATACCCTTACCATGGTATCGATACTA
3024202 ACTCGTCGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (95 bp):
TATACTATAGTACAGATACCCCCTACCAGAATCGATACCAATCTTAGATTCAATGTTGCCTAATA
TCGATACCCTTACCATGGTATCGATACTAC
Found at i:3025920 original size:14 final size:14
Alignment explanation
Indices: 3025903--3025934 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3025893 CATAAAGTTA
3025903 AAAAAGAAATTAAT
1 AAAAAGAAATTAAT
*
3025917 AAAAGGAAATTAAT
1 AAAAAGAAATTAAT
3025931 AAAA
1 AAAA
3025935 TTAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (14 bp):
AAAAAGAAATTAAT
Found at i:3028829 original size:16 final size:16
Alignment explanation
Indices: 3028791--3028832 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
3028781 TTAAAACATT
3028791 TTGA-ATGTTTTTGGA
1 TTGATATGTTTTTGGA
*
3028806 TTTATATGTTTTTGGA
1 TTGATATGTTTTTGGA
*
3028822 TTGCTATGTTT
1 TTGATATGTTT
3028833 GAATTTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.17, C:0.02, G:0.21, T:0.60
Consensus pattern (16 bp):
TTGATATGTTTTTGGA
Found at i:3029562 original size:18 final size:18
Alignment explanation
Indices: 3029541--3029608 Score: 118
Period size: 18 Copynumber: 3.8 Consensus size: 18
3029531 AATGCATTTT
*
3029541 ATGCATCGATGCACAACC
1 ATGCATCGATGCACACCC
*
3029559 ATGCATAGATGCACACCC
1 ATGCATCGATGCACACCC
3029577 ATGCATCGATGCACACCC
1 ATGCATCGATGCACACCC
3029595 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3029609 TCTGGATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGCATCGATGCACACCC
Found at i:3029714 original size:65 final size:64
Alignment explanation
Indices: 3029584--3029719 Score: 168
Period size: 65 Copynumber: 2.1 Consensus size: 64
3029574 CCCATGCATC
* * * * *
3029584 GATGCACACCCATGCATCGATGCACTCTGGATTTTCTTGAAACATCGAATGTATTTTATGCACT
1 GATGCACAACCATGCATCAATGCACTCTGGATTGTCTTGAAACATCGAATATATATTATGCACT
* *
3029648 GATGCACAGACCATGCATCAATGCACTCCTGGCTTGT-TTGAAACATCGAATATA-ATTAGTGTA
1 GATGCACA-ACCATGCATCAATGCACT-CTGGATTGTCTTGAAACATCGAATATATATTA-TGCA
3029711 CT
63 CT
3029713 GATGCAC
1 GATGCAC
3029720 TCCTAGTGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 11 0.18
65 44 0.71
66 7 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (64 bp):
GATGCACAACCATGCATCAATGCACTCTGGATTGTCTTGAAACATCGAATATATATTATGCACT
Found at i:3031256 original size:27 final size:27
Alignment explanation
Indices: 3031225--3031292 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
3031215 TAAGGCACAT
*
3031225 GTTTAATAATGATCATTAGAATAA-AA
1 GTTTAATTATGATCATTAGAATAATAA
*
3031251 TTTTTAATTATGATCATTAGAATAATAA
1 -GTTTAATTATGATCATTAGAATAATAA
3031279 GTTTAATTATGATC
1 GTTTAATTATGATC
3031293 GCATAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (27 bp):
GTTTAATTATGATCATTAGAATAATAA
Found at i:3054981 original size:14 final size:14
Alignment explanation
Indices: 3054958--3055024 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
3054948 TTTTTTAAGG
*
3054958 TTAAGAGTTTAGGAT
1 TTAAG-GTTTAGAAT
*
3054973 TTAAGGTTTATAAT
1 TTAAGGTTTAGAAT
** *
3054987 TTAAATTTTAAAAT
1 TTAAGGTTTAGAAT
* *
3055001 TTAGGGTTTAGGAT
1 TTAAGGTTTAGAAT
*
3055015 TTAAGATTTA
1 TTAAGGTTTA
3055025 TGGTTTAGGA
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
14 35 0.88
15 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
TTAAGGTTTAGAAT
Found at i:3054989 original size:21 final size:21
Alignment explanation
Indices: 3054951--3055042 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
3054941 AATAAAATTT
*
3054951 TTTAAGGTTAAGAGTTTAGGA
1 TTTAAGGTTTAGAGTTTAGGA
* * *
3054972 TTTAAGGTTTATAATTTA-AA
1 TTTAAGGTTTAGAGTTTAGGA
** *
3054992 TTTTAAAATTTAGGGTTTAGGA
1 -TTTAAGGTTTAGAGTTTAGGA
*
3055014 TTTAAGATTTATG-GTTTAGGA
1 TTTAAGGTTTA-GAGTTTAGGA
*
3055035 TTTGAGGT
1 TTTAAGGT
3055043 ATAATGTATG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.02
21 52 0.95
22 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTAGAGTTTAGGA
Found at i:3069035 original size:2 final size:2
Alignment explanation
Indices: 3069028--3069052 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3069018 TTAAAACGAC
3069028 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 A
3069053 CAAGGGCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3069346 original size:5 final size:5
Alignment explanation
Indices: 3069336--3069360 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3069326 ATTAGTGGTA
3069336 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
3069361 GGGACAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3070400 original size:14 final size:14
Alignment explanation
Indices: 3070381--3070442 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
3070371 AGAAATGTAA
* *
3070381 AATAAAATATTATT
1 AATAAAATAATAAT
3070395 AATAAAATAATAAT
1 AATAAAATAATAAT
* *
3070409 AATAATAGTAAATGAT
1 AATAA-AAT-AATAAT
3070425 AATAATCAATAATAAT
1 AATAA--AATAATAAT
3070441 AA
1 AA
3070443 AAACAACTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 17 0.45
15 2 0.05
16 17 0.45
17 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:3070406 original size:3 final size:3
Alignment explanation
Indices: 3070381--3070442 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
3070371 AGAAATGTAA
* * * *
3070381 AAT AA- AAT ATT ATT AAT AA- AAT AAT AAT AAT AAT AGT AAAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
3070425 AAT AAT CAAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AA
3070443 AAACAACTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3070439 original size:13 final size:12
Alignment explanation
Indices: 3070381--3070442 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 12
3070371 AGAAATGTAA
*
3070381 AATAA-AATATT
1 AATAATAATAAT
*
3070392 ATTAATAA-AAT
1 AATAATAATAAT
3070403 AATAATAATAAT
1 AATAATAATAAT
* *
3070415 AGTAAATGATAAT
1 AAT-AATAATAAT
3070428 AATCAATAATAAT
1 AAT-AATAATAAT
3070441 AA
1 AA
3070443 AAACAACTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 13 0.32
12 7 0.17
13 20 0.50
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:3071254 original size:137 final size:137
Alignment explanation
Indices: 3071008--3071396 Score: 458
Period size: 137 Copynumber: 2.8 Consensus size: 137
3070998 AGTCGAGTCA
* * * * *
3071008 ATTTGGATAATTTAAAGATAACACGGTTTCTTCGTGTTGAGGAAGTCTAATTGTCTGAGTATGAC
1 ATTTGGATAATTTAGAGATAACACGGTTTCTTCGTGTTGAGGAAGTCTGATTATCTAAGGATGAC
* * * * ** * *
3071073 ACTACTCCTTCGTATT-ACAAAGATTTGGTTAGTGGACAACATTGTTTCTTCACATTGAGGATGT
66 ACTACTCCTTTGCATTGAC-GAGATCTGGTCGGTGGACGACATTGTTCCTTCACATTGAGGATGT
*
3071137 CTATA-CGT
130 CTA-ACCAT
* *
3071145 ATTTGGATAATTTAGAGACAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTATCTAAGGATGAC
1 ATTTGGATAATTTAGAGATAACACGGTTTCTTCGTGTTGAGGAAGTCTGATTATCTAAGGATGAC
* * *** *** *
3071210 ACTGCTCTTTTGCATTGACGAGATCAAATCGGTGGACGACATTGTTCCTTCGTGTTGAGGATGTT
66 ACTACTCCTTTGCATTGACGAGATCTGGTCGGTGGACGACATTGTTCCTTCACATTGAGGATGTC
3071275 TAACCAT
131 TAACCAT
* * * * *
3071282 ATTTGGATAATTTGGAGATAACATGGTTTATTCATGTTGAGGAAGCCTGATTATCTAAGGATGAC
1 ATTTGGATAATTTAGAGATAACACGGTTTCTTCGTGTTGAGGAAGTCTGATTATCTAAGGATGAC
* *
3071347 ACTACTCCTTTGCATTGAGGAGATCTGGTCGGTGGACGATATTGTTCCTT
66 ACTACTCCTTTGCATTGACGAGATCTGGTCGGTGGACGACATTGTTCCTT
3071397 TGTGTTAAGG
Statistics
Matches: 211, Mismatches: 39, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
136 1 0.00
137 208 0.99
138 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (137 bp):
ATTTGGATAATTTAGAGATAACACGGTTTCTTCGTGTTGAGGAAGTCTGATTATCTAAGGATGAC
ACTACTCCTTTGCATTGACGAGATCTGGTCGGTGGACGACATTGTTCCTTCACATTGAGGATGTC
TAACCAT
Found at i:3074391 original size:7 final size:7
Alignment explanation
Indices: 3074374--3074476 Score: 77
Period size: 7 Copynumber: 14.4 Consensus size: 7
3074364 AATTTATCCA
*
3074374 TTTTTTA
1 TTTTTTC
*
3074381 TTTTCTTT
1 TTTT-TTC
3074389 TTTTCTTC
1 TTTT-TTC
*
3074397 ATTTTTC
1 TTTTTTC
* *
3074404 TATTTTA
1 TTTTTTC
3074411 TTTATTTC
1 TTT-TTTC
3074419 TTTTTTC
1 TTTTTTC
3074426 TTTTTTC
1 TTTTTTC
*
3074433 --TTCT-
1 TTTTTTC
3074437 TTTTTTC
1 TTTTTTC
3074444 TTTTTTC
1 TTTTTTC
3074451 TTTTTTTC
1 -TTTTTTC
3074459 TTGTTTTC
1 TT-TTTTC
*
3074467 TTTTTAC
1 TTTTTTC
3074474 TTT
1 TTT
3074477 GTGTTTTCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
5 3 0.04
6 3 0.04
7 40 0.51
8 32 0.41
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:3074392 original size:8 final size:8
Alignment explanation
Indices: 3074381--3074471 Score: 89
Period size: 8 Copynumber: 11.2 Consensus size: 8
3074371 CCATTTTTTA
3074381 TTTTCTTT
1 TTTTCTTT
3074389 TTTTCTTCAT
1 TTTTCTT--T
*
3074399 TTTTC-TA
1 TTTTCTTT
*
3074406 TTTTATTT
1 TTTTCTTT
*
3074414 ATTTC-TT
1 TTTTCTTT
3074421 TTTTCTTTT
1 TTTTC-TTT
3074430 TTCTTCTTT
1 TT-TTCTTT
3074439 TTTTC-TT
1 TTTTCTTT
3074446 TTTTCTTT
1 TTTTCTTT
*
3074454 TTTTCTTG
1 TTTTCTTT
3074462 TTTTCTTT
1 TTTTCTTT
3074470 TT
1 TT
3074472 ACTTTGTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
7 17 0.25
8 32 0.47
9 10 0.15
10 9 0.13
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:3074407 original size:25 final size:25
Alignment explanation
Indices: 3074372--3074468 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
3074362 ATAATTTATC
3074372 CATTTTT-TATTTTCTTTTTTTCTT
1 CATTTTTCTATTTTCTTTTTTTCTT
* *
3074396 CATTTTTCTATTTTATTTATTTC-T
1 CATTTTTCTATTTTCTTTTTTTCTT
*
3074420 --TTTTTCTTTTTTCTTCTTTTT-TT
1 CATTTTTCTATTTTCTT-TTTTTCTT
* * *
3074443 CTTTTTTCTTTTTTTCTTGTTTTCTT
1 CATTTTTC-TATTTTCTTTTTTTCTT
3074469 TTTACTTTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
22 13 0.22
23 5 0.08
24 8 0.13
25 23 0.38
26 11 0.18
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.79
Consensus pattern (25 bp):
CATTTTTCTATTTTCTTTTTTTCTT
Found at i:3074425 original size:40 final size:42
Alignment explanation
Indices: 3074381--3074471 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 42
3074371 CCATTTTTTA
3074381 TTTTCTTTTTTTCTTC-ATTTTTCTATTTTATTTATTTCTT-
1 TTTTCTTTTTTTCTTCTATTTTTCTATTTTATTTATTTCTTG
* * * *
3074421 TTTTC-TTTTTTCTTCTTTTTTTCTTTTTTCTTTTTTTCTTG
1 TTTTCTTTTTTTCTTCTATTTTTCTATTTTATTTATTTCTTG
3074462 TTTTCTTTTT
1 TTTTCTTTTT
3074472 ACTTTGTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 10 0.23
40 25 0.57
41 5 0.11
42 4 0.09
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (42 bp):
TTTTCTTTTTTTCTTCTATTTTTCTATTTTATTTATTTCTTG
Found at i:3080336 original size:32 final size:31
Alignment explanation
Indices: 3080291--3080351 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
3080281 TTATACTACA
*
3080291 TAGTGTTCAAGAGAAACTAAATAAATGATCTT
1 TAGTGTTCAAGAGAAACTAAAGAAA-GATCTT
*
3080323 TAGTGTTCGAGAGAAACTAAAGAAAGATC
1 TAGTGTTCAAGAGAAACTAAAGAAAGATC
3080352 GACGTAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (31 bp):
TAGTGTTCAAGAGAAACTAAAGAAAGATCTT
Found at i:3081465 original size:115 final size:115
Alignment explanation
Indices: 3081254--3081465 Score: 307
Period size: 115 Copynumber: 1.8 Consensus size: 115
3081244 TATTTATAGG
* *** * *
3081254 TTATAAATTTTAATTAAATCTAAGTTATTTATTTATTTAAATCTAATTACTATAAATTAGGGTAA
1 TTATAAATTTTAATTAAATCCAAACCATTTATTTATTTAAATATAATGACTATAAATTAGGGTAA
* *
3081319 AACTTATTAGTTTTACATAATGTAAGTGGATCCTAGCCCTTATTTATGTA
66 AACTTATTAGTTTTACATAATCTAAGCGGATCCTAGCCCTTATTTATGTA
* * *
3081369 TTATAAATTTTAATTGAATCCAAACCATTTATTTATTTAAATATAATGGCTATAAATTAGTGTAA
1 TTATAAATTTTAATTAAATCCAAACCATTTATTTATTTAAATATAATGACTATAAATTAGGGTAA
**
3081434 AACTTATTAGTTTTACATCGTCTAAGCGGATC
66 AACTTATTAGTTTTACATAATCTAAGCGGATC
3081466 ATGCCCATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
115 84 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (115 bp):
TTATAAATTTTAATTAAATCCAAACCATTTATTTATTTAAATATAATGACTATAAATTAGGGTAA
AACTTATTAGTTTTACATAATCTAAGCGGATCCTAGCCCTTATTTATGTA
Found at i:3082631 original size:14 final size:14
Alignment explanation
Indices: 3082609--3082688 Score: 60
Period size: 14 Copynumber: 5.7 Consensus size: 14
3082599 CATTTTACGG
3082609 TTAGAGTTTATGAT
1 TTAGAGTTTATGAT
* *
3082623 TTAGGGTTT-TCTAT
1 TTAGAGTTTAT-GAT
*
3082637 TTA-AGCTTTAAGAT
1 TTAGAG-TTTATGAT
*
3082651 TTAGAGTTTATAAT
1 TTAGAGTTTATGAT
3082665 TTATGA-TTTA-GAGT
1 TTA-GAGTTTATGA-T
3082679 TTAGAGTTTA
1 TTAGAGTTTA
3082689 GAGTTGAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 5 0.10
14 42 0.82
15 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.50
Consensus pattern (14 bp):
TTAGAGTTTATGAT
Found at i:3082688 original size:21 final size:21
Alignment explanation
Indices: 3082643--3082688 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3082633 CTATTTAAGC
*
3082643 TTTAAGATTTAGAGTTTATAA
1 TTTAAGATTTAGAGTTTAGAA
* *
3082664 TTTATGATTTAGAGTTTAGAG
1 TTTAAGATTTAGAGTTTAGAA
3082685 TTTA
1 TTTA
3082689 GAGTTGAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTAAGATTTAGAGTTTAGAA
Found at i:3083106 original size:2 final size:2
Alignment explanation
Indices: 3083099--3083140 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3083089 ATCTAATGTT
3083099 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3083141 CTCATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3083480 original size:29 final size:29
Alignment explanation
Indices: 3083445--3083540 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
3083435 TTTAATGAAA
*
3083445 TTAGAATATTCAAAAGTTTAAGAATTAAT
1 TTAGAATATTCAAAAGTTTAAGAATCAAT
* * * *
3083474 TTAGAATGGAATC-AAAGTTTAAGGATGAAA
1 TTAGAAT--ATTCAAAAGTTTAAGAATCAAT
*
3083504 TTAGAATATTCAAAAGTGTAAGAATCAAT
1 TTAGAATATTCAAAAGTTTAAGAATCAAT
3083533 TTAGAATA
1 TTAGAATA
3083541 ACGTTTATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
28 3 0.05
29 28 0.51
30 21 0.38
31 3 0.05
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (29 bp):
TTAGAATATTCAAAAGTTTAAGAATCAAT
Found at i:3086069 original size:13 final size:13
Alignment explanation
Indices: 3086051--3086080 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3086041 TTTATGGGGG
3086051 AAAATTAAAAATT
1 AAAATTAAAAATT
*
3086064 AAAATTAAAATTT
1 AAAATTAAAAATT
3086077 AAAA
1 AAAA
3086081 CATCGATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:3086241 original size:19 final size:18
Alignment explanation
Indices: 3086219--3086274 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
3086209 AAAAGTTAGT
*
3086219 AAAAATAATAAAATAAACA
1 AAAAATAAAAAAATAAA-A
* *
3086238 AAAATTAAAAAAATTAAA
1 AAAAATAAAAAAATAAAA
*
3086256 ATAAATAAAGAAAATAAAA
1 AAAAATAAA-AAAATAAAA
3086275 TGAATAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAA
Found at i:3086274 original size:18 final size:17
Alignment explanation
Indices: 3086221--3086283 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
3086211 AAGTTAGTAA
* *
3086221 AAATAATAAAATAAACAA
1 AAATAAAAAAATAAA-AT
3086239 AAATTAAAAAAATTAAAAT
1 AAA-TAAAAAAA-TAAAAT
3086258 AAATAAAGAAAATAAAAT
1 AAATAAA-AAAATAAAAT
*
3086276 GAATAAAA
1 AAATAAAA
3086284 TAAAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 19 0.49
19 15 0.38
20 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATAAAAAAATAAAAT
Found at i:3086275 original size:14 final size:15
Alignment explanation
Indices: 3086225--3086288 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 15
3086215 TAGTAAAAAT
*
3086225 AATAAAATAAACAAA
1 AATAAAATAAACTAA
*
3086240 AATTAAAA-AAATTAA
1 AA-TAAAATAAACTAA
*
3086255 AAT-AAATAAA-GAA
1 AATAAAATAAACTAA
*
3086268 AATAAAATGAA-TAA
1 AATAAAATAAACTAA
3086282 AATAAAA
1 AATAAAA
3086289 AAGTAAAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
13 8 0.20
14 19 0.46
15 9 0.22
16 5 0.12
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.19
Consensus pattern (15 bp):
AATAAAATAAACTAA
Found at i:3092665 original size:2 final size:2
Alignment explanation
Indices: 3092607--3092650 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
3092597 CATATTTTTG
3092607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3092647 TA TA
1 TA TA
3092651 AGTGTGTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3092959 original size:2 final size:2
Alignment explanation
Indices: 3092952--3092983 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3092942 TTATTATTCA
3092952 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
3092984 TAAATGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3093133 original size:2 final size:2
Alignment explanation
Indices: 3093126--3093167 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3093116 ATCTCAAGTG
3093126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3093168 ATTTTAAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3093497 original size:16 final size:16
Alignment explanation
Indices: 3093478--3093543 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
3093468 ATATTAGATA
3093478 AGTTCAATAACAAGTC
1 AGTTCAATAACAAGTC
* * *
3093494 AGTTCATTTACAAGTTG
1 AGTTCAATAACAAG-TC
*
3093511 AG-TCAATTACAAGTC
1 AGTTCAATAACAAGTC
*
3093526 AGGTTC-ATAACATGTC
1 A-GTTCAATAACAAGTC
3093542 AG
1 AG
3093544 GTTGATATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 3 0.08
16 32 0.80
17 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (16 bp):
AGTTCAATAACAAGTC
Found at i:3093582 original size:37 final size:37
Alignment explanation
Indices: 3093541--3093629 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
3093531 CATAACATGT
3093541 CAGGTTGATATCAGGATGGGTAATACCAGTTATTTAC
1 CAGGTTGATATCAGGATGGGTAATACCAGTTATTTAC
3093578 CAGGTTGATATCAGGATGGGTAATACCAGTTATTTAC
1 CAGGTTGATATCAGGATGGGTAATACCAGTTATTTAC
* *
3093615 CAGGTTAATCTCAGG
1 CAGGTTGATATCAGG
3093630 TTCGGTTTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (37 bp):
CAGGTTGATATCAGGATGGGTAATACCAGTTATTTAC
Found at i:3098634 original size:18 final size:19
Alignment explanation
Indices: 3098613--3098649 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3098603 AAAAATTGCC
3098613 AAAGGTTT-CAAAACCCCT
1 AAAGGTTTACAAAACCCCT
*
3098631 AAAGGTTTAGAAAACCCCT
1 AAAGGTTTACAAAACCCCT
3098650 TACCTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (19 bp):
AAAGGTTTACAAAACCCCT
Found at i:3099486 original size:21 final size:22
Alignment explanation
Indices: 3099456--3099496 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3099446 TGACACTAGG
* *
3099456 TACCTTAGCTAGCTTCCTAAAC
1 TACCTTAGCTAACTACCTAAAC
3099478 TACC-TAGCTAACTACCTAA
1 TACCTTAGCTAACTACCTAA
3099497 GCTTCTTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (22 bp):
TACCTTAGCTAACTACCTAAAC
Found at i:3099506 original size:21 final size:21
Alignment explanation
Indices: 3099459--3099508 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
3099449 CACTAGGTAC
* *
3099459 CTTAGCTAGCTTCCTAAACTA
1 CTTAGCTAACTACCTAAACTA
* * *
3099480 CCTAGCTAACTACCTAAGCTT
1 CTTAGCTAACTACCTAAACTA
3099501 CTTAGCTA
1 CTTAGCTA
3099509 GTTTACTAGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (21 bp):
CTTAGCTAACTACCTAAACTA
Found at i:3105771 original size:16 final size:16
Alignment explanation
Indices: 3105750--3105780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3105740 AATTTGCATT
3105750 TCATAAGCAGATTTAC
1 TCATAAGCAGATTTAC
*
3105766 TCATAAGCTGATTTA
1 TCATAAGCAGATTTA
3105781 ACAGTAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (16 bp):
TCATAAGCAGATTTAC
Found at i:3109222 original size:96 final size:96
Alignment explanation
Indices: 3109058--3109249 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 96
3109048 CTAGCCGTTT
*
3109058 GTGAGAGGGGGTATCAATACTCCAACCTAAATATCAATACTGGTATCGATACTTGAGTAATATCG
1 GTGAGAGGGGGTATCAATACTCCAACATAAATATCAATACTGGTATCGATACTTGAGTAATATCG
* *
3109123 GTACAAAATTGTCTATTGGAATTTGTTTTTG
66 GTACAAAATTGGCTACTGGAATTTGTTTTTG
* *
3109154 GTGAGAGGGGGTATCAATACTCCAACATGAGTATCAATACTGGTATCGATACTTGAGTAATATCG
1 GTGAGAGGGGGTATCAATACTCCAACATAAATATCAATACTGGTATCGATACTTGAGTAATATCG
*
3109219 GTACAAAATTGGCTACTGGAATTTTTTTTTG
66 GTACAAAATTGGCTACTGGAATTTGTTTTTG
3109250 CAATACCACA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (96 bp):
GTGAGAGGGGGTATCAATACTCCAACATAAATATCAATACTGGTATCGATACTTGAGTAATATCG
GTACAAAATTGGCTACTGGAATTTGTTTTTG
Found at i:3109478 original size:24 final size:23
Alignment explanation
Indices: 3109451--3109496 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
3109441 TCGAAAGGTT
*
3109451 GAATCAAATATAAGCTTGAAAATC
1 GAATCAAAAATAAGCTT-AAAATC
* *
3109475 GAATTAAAAATAATCTTAAAAT
1 GAATCAAAAATAAGCTTAAAAT
3109497 TTCTTCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (23 bp):
GAATCAAAAATAAGCTTAAAATC
Found at i:3112387 original size:19 final size:19
Alignment explanation
Indices: 3112359--3112402 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
3112349 GATAAAAGTT
*
3112359 TTTTGCAAGAAAATGAAAA
1 TTTTGAAAGAAAATGAAAA
3112378 TTTTGAAAGAAAATGAAAA
1 TTTTGAAAGAAAATGAAAA
3112397 TTTTGA
1 TTTTGA
3112403 CACAAGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.32
Consensus pattern (19 bp):
TTTTGAAAGAAAATGAAAA
Found at i:3119015 original size:15 final size:16
Alignment explanation
Indices: 3118992--3119021 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3118982 AAAATAAAAT
3118992 ATAATTATAAATAATA
1 ATAATTATAAATAATA
3119008 ATAA-TATAAATAAT
1 ATAATTATAAATAAT
3119022 GACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATTATAAATAATA
Found at i:3119657 original size:115 final size:114
Alignment explanation
Indices: 3119282--3119714 Score: 728
Period size: 115 Copynumber: 3.8 Consensus size: 114
3119272 ATTGAATTGA
**
3119282 GGCAGACTTGTTCCA-TTCACTCTGAAAGGAATATCAAATCTTGAAAAAGAAGAGACCTGTTCCG
1 GGCAGACTTGTTCCACTT-ACTCTGAAAGGAATATCAAATCTTGGGAAAG-AGAGACCTGTTCCG
*
3119346 CTTACTCTGAAGGGAATATCAGATCTGAAGGAGTTTGA-TCTATTGAATC-G
64 CTTACTCTGAAGGGAATATCAGATCTGAAGGAGTTTGATTC-CTTGAATCAG
3119396 AGGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGC
1 -GGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGC
*
3119461 TTACTCTGAAGGGAATATCATATCTGAAGGAGTTTGATTCCTTGAATCAG
65 TTACTCTGAAGGGAATATCAGATCTGAAGGAGTTTGATTCCTTGAATCAG
*
3119511 GGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCT
1 GGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCT
*
3119576 TACTCTGAAGGGAATATCAGATCTTGAAGGAGTTCGATTCCTTGAATCAG
66 TACTCTGAAGGGAATATCAGATC-TGAAGGAGTTTGATTCCTTGAATCAG
* *
3119626 GGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAAAGACCTGTTCCGCT
1 GGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCT
3119691 TACTCTGAAGGGAATATCAGATCT
66 TACTCTGAAGGGAATATCAGATCT
3119715 TGGGAAAGAG
Statistics
Matches: 306, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
114 145 0.47
115 159 0.52
116 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (114 bp):
GGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCT
TACTCTGAAGGGAATATCAGATCTGAAGGAGTTTGATTCCTTGAATCAG
Found at i:3119683 original size:229 final size:229
Alignment explanation
Indices: 3119282--3119714 Score: 730
Period size: 229 Copynumber: 1.9 Consensus size: 229
3119272 ATTGAATTGA
3119282 GGCAGACTTGTTCCATTCACTCTGAAAGGAATATCAAATCTTGAAAAAGAAGAGACCTGTTCCGC
1 GGCAGACTTGTTCCATTCACTCTGAAAGGAATATCAAATCTTGAAAAAGAAGAGACCTGTTCCGC
*
3119347 TTACTCTGAAGGGAATATCAGATCTGAAGGAGTTTGATCTATTGAATCGAGGCAGACTTGTTCCA
66 TTACTCTGAAGGGAATATCAGATCTGAAGGAGTTCGATCTATTGAATCGAGGCAGACTTGTTCCA
*
3119412 CTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAAT
131 CTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAAAGACCTGTTCCGCTTACTCTGAAGGGAAT
*
3119477 ATCATATCTGAAGGAGTTTGATTCCTTGAATCAG
196 ATCAGATCTGAAGGAGTTTGATTCCTTGAATCAG
* **
3119511 GGCAGACTTGTTCCACTT-ACTCTGAAGGGAATATCAAATCTTGGGAAAG-AGAGACCTGTTCCG
1 GGCAGACTTGTTCCA-TTCACTCTGAAAGGAATATCAAATCTTGAAAAAGAAGAGACCTGTTCCG
*
3119574 CTTACTCTGAAGGGAATATCAGATCTTGAAGGAGTTCGAT-TCCTTGAATC-AGGGCAGACTTGT
65 CTTACTCTGAAGGGAATATCAGATC-TGAAGGAGTTCGATCT-ATTGAATCGA-GGCAGACTTGT
*
3119637 TCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAAAGACCTGTTCCGCTTACTCTGAAGG
127 TCCACTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAAAGACCTGTTCCGCTTACTCTGAAGG
3119702 GAATATCAGATCT
192 GAATATCAGATCT
3119715 TGGGAAAGAG
Statistics
Matches: 192, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
228 41 0.21
229 149 0.78
230 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (229 bp):
GGCAGACTTGTTCCATTCACTCTGAAAGGAATATCAAATCTTGAAAAAGAAGAGACCTGTTCCGC
TTACTCTGAAGGGAATATCAGATCTGAAGGAGTTCGATCTATTGAATCGAGGCAGACTTGTTCCA
CTTACTCTGAAAGGAATATCAAATCTTGGGAAAGAAAGACCTGTTCCGCTTACTCTGAAGGGAAT
ATCAGATCTGAAGGAGTTTGATTCCTTGAATCAG
Found at i:3119693 original size:48 final size:48
Alignment explanation
Indices: 3119629--3119737 Score: 182
Period size: 48 Copynumber: 2.3 Consensus size: 48
3119619 GAATCAGGGC
* *
3119629 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAA
1 AGACCTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAA
* *
3119677 AGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGGGAAAGAG
1 AGACCTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAA
3119725 AGACCTGTTCCGC
1 AGACCTGTTCCGC
3119738 ATTGCATAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
AGACCTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAA
Found at i:3121164 original size:17 final size:17
Alignment explanation
Indices: 3121125--3121166 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
3121115 ACGCATGTTG
*
3121125 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
* *
3121142 TGCATTTAAGCATGTAT
1 TTCATTTAAGCATGCAT
3121159 TTCATTTA
1 TTCATTTA
3121167 GGGAAGTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:3121193 original size:17 final size:17
Alignment explanation
Indices: 3121173--3121231 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
3121163 TTTAGGGAAG
3121173 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
3121190 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
3121206 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
3121223 TAGTTCATT
1 TAGTTCATT
3121232 GAATAATGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:3121245 original size:18 final size:18
Alignment explanation
Indices: 3121222--3121267 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
3121212 ATTCATGCAT
3121222 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAATG
*
3121240 TTAGTTAATTGAATAATG
1 TTAGTTCATTGAATAATG
*
3121258 TTATTTCATT
1 TTAGTTCATT
3121268 AATCAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (18 bp):
TTAGTTCATTGAATAATG
Found at i:3123281 original size:24 final size:24
Alignment explanation
Indices: 3123254--3123305 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
3123244 AACGGATATA
*
3123254 TCAAAAATCAAAACATAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * *
3123278 TCAAGTATCAGATCAAAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
3123302 TCAA
1 TCAA
3123306 GTATTCGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (24 bp):
TCAAAAATCAAAACAAAATCCAGG
Found at i:3123305 original size:12 final size:13
Alignment explanation
Indices: 3123270--3123352 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 13
3123260 ATCAAAACAT
3123270 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
3123283 TAT-CAGATCAA-
1 AATCCAGGTCAAG
3123294 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
3123307 TATTC-GATC-AG
1 AATCCAGGTCAAG
*
3123318 AATCCAGATCAAG
1 AATCCAGGTCAAG
* *
3123331 TATCC-GATC-AG
1 AATCCAGGTCAAG
3123342 AATCCAGGTCA
1 AATCCAGGTCA
3123353 GGTATTAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
11 13 0.25
12 28 0.54
13 11 0.21
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:3123306 original size:24 final size:23
Alignment explanation
Indices: 3123270--3123357 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 23
3123260 ATCAAAACAT
*
3123270 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATC-GATCAG
3123294 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTA-TCGATCAG
*
3123318 AATCCAGATCAAGTATCCGATCAG
1 AATCCAGGTCAAGTAT-CGATCAG
*
3123342 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
3123358 TAAAATAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.02
24 55 0.95
25 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (23 bp):
AATCCAGGTCAAGTATCGATCAG
Found at i:3133413 original size:11 final size:11
Alignment explanation
Indices: 3133397--3133426 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
3133387 TTTGAAGGAT
3133397 GTTAGAAAATG
1 GTTAGAAAATG
3133408 GTTAGAAAATG
1 GTTAGAAAATG
3133419 GTTAGAAA
1 GTTAGAAA
3133427 TATTATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (11 bp):
GTTAGAAAATG
Found at i:3156567 original size:80 final size:80
Alignment explanation
Indices: 3156392--3156704 Score: 511
Period size: 80 Copynumber: 3.9 Consensus size: 80
3156382 GGCCTATGGC
* **
3156392 CTACCC-AAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACATTAAAAAGGAAACCAACC
1 CTACCCAAAGG-TATCCTTAGATCCGTAGGGTTACCTTATGCACACA--GCAAAGGAAACCAACC
3156456 TAAGGATATACCTTGGGT
63 TAAGGATATACCTTGGGT
* * *
3156474 ATACCCAAGGGTATCCTTAGATCCGTAGGCTTACCTTATGCACACAGCAAAGGAAACCAACCTAA
1 CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAGCAAAGGAAACCAACCTAA
*
3156539 GGATATACCCTGGGT
66 GGATATACCTTGGGT
*
3156554 CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGTACACAGCAAAGGAAACCAACCTAA
1 CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAGCAAAGGAAACCAACCTAA
3156619 GGATATACCTTGGGT
66 GGATATACCTTGGGT
*
3156634 CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACATAGCAAAGGAAACCAACCTAA
1 CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAGCAAAGGAAACCAACCTAA
3156699 GGATAT
66 GGATAT
3156705 GTCTTAGGCC
Statistics
Matches: 216, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
80 175 0.81
82 38 0.18
83 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
CTACCCAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAGCAAAGGAAACCAACCTAA
GGATATACCTTGGGT
Found at i:3156644 original size:38 final size:38
Alignment explanation
Indices: 3156521--3156644 Score: 101
Period size: 38 Copynumber: 3.2 Consensus size: 38
3156511 ATGCACACAG
*
3156521 CAAAGGAAACCAACCTAAGGATATACCCTGGGTCTACC
1 CAAAGGAAACCAACCTAAGGATATACCTTGGGTCTACC
* * * ** *
3156559 CAAAGGTATCCTTAGATCCGT-AGGGT-TACCTTATGTAC-ACAG
1 CAAAGGAAACC--A-A-CC-TAAGGATATACCTTGGGT-CTAC-C
3156601 CAAAGGAAACCAACCTAAGGATATACCTTGGGTCTACC
1 CAAAGGAAACCAACCTAAGGATATACCTTGGGTCTACC
3156639 CAAAGG
1 CAAAGG
3156645 TATCCTTAGA
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
37 1 0.02
38 22 0.35
39 11 0.17
40 2 0.03
41 10 0.16
42 16 0.25
43 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (38 bp):
CAAAGGAAACCAACCTAAGGATATACCTTGGGTCTACC
Found at i:3156670 original size:41 final size:41
Alignment explanation
Indices: 3156544--3156670 Score: 113
Period size: 38 Copynumber: 3.1 Consensus size: 41
3156534 CCTAAGGATA
*
3156544 TACCCTGGGTCTACCCAAAGGTATCCTTAGATCCGTAGGGT
1 TACCTTGGGTCTACCCAAAGGTATCCTTAGATCCGTAGGGT
** * * * *
3156585 TACCTTATGTAC-ACAGCAAAGGAAACC--A-A-CC-TAAGGAT
1 TACCTTGGGT-CTAC-CCAAAGGTATCCTTAGATCCGT-AGGGT
3156623 ATACCTTGGGTCTACCCAAAGGTATCCTTAGATCCGTAGGGT
1 -TACCTTGGGTCTACCCAAAGGTATCCTTAGATCCGTAGGGT
3156665 TACCTT
1 TACCTT
3156671 ATGCACATAG
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
37 1 0.02
38 16 0.25
39 11 0.17
40 2 0.03
41 16 0.25
42 16 0.25
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (41 bp):
TACCTTGGGTCTACCCAAAGGTATCCTTAGATCCGTAGGGT
Found at i:3156686 original size:42 final size:42
Alignment explanation
Indices: 3156559--3156686 Score: 99
Period size: 42 Copynumber: 3.1 Consensus size: 42
3156549 TGGGTCTACC
* *
3156559 CAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGTACACAG
1 CAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACATAG
* * * * ** *
3156601 CAAAGGAAACC--A-A-CC-TAAGGATATACCTT-GGGTC-TACC
1 CAAAGGTATCCTTAGATCCGT-AGGGT-TACCTTATGCACATA-G
3156639 CAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACATAG
1 CAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACATAG
3156681 CAAAGG
1 CAAAGG
3156687 AAACCAACCT
Statistics
Matches: 61, Mismatches: 15, Indels: 20
0.64 0.16 0.21
Matches are distributed among these distances:
37 2 0.03
38 17 0.28
39 7 0.11
40 2 0.03
41 7 0.11
42 23 0.38
43 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
CAAAGGTATCCTTAGATCCGTAGGGTTACCTTATGCACATAG
Found at i:3161133 original size:13 final size:13
Alignment explanation
Indices: 3161115--3161161 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
3161105 TGACCGGTCA
3161115 TGACCCGACTCGT
1 TGACCCGACTCGT
* *
3161128 TGACCCGAATCAT
1 TGACCCGACTCGT
*
3161141 TGACCCGACCCGT
1 TGACCCGACTCGT
3161154 TGACCCGA
1 TGACCCGA
3161162 ACCGACCCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.19
Consensus pattern (13 bp):
TGACCCGACTCGT
Found at i:3161245 original size:29 final size:28
Alignment explanation
Indices: 3161184--3161325 Score: 110
Period size: 29 Copynumber: 4.9 Consensus size: 28
3161174 ACCGTTGACC
** *
3161184 GGTGCTATTCTGGGAATTAATTC-AGGTTT
1 GGTGCTATTCT-GGAATTAATTCGA-AATA
3161213 GGTGCTATTCTGAGAATTAATTCGAAATA
1 GGTGCTATTCTG-GAATTAATTCGAAATA
* * *
3161242 GGTGCTATTTTGGTAATT-TTTCGAAAAA
1 GGTGCTATTCTGG-AATTAATTCGAAATA
** *
3161270 AATGATATTCTAGGAATTAATTCGAAATTA
1 GGTGCTATTCT-GGAATTAATTCGAAA-TA
*
3161300 -GTGCTATTTTGGTAATTAATTCGAAA
1 GGTGCTATTCTGG-AATTAATTCGAAA
3161326 AGGGTACTAT
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
28 23 0.25
29 66 0.73
30 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (28 bp):
GGTGCTATTCTGGAATTAATTCGAAATA
Found at i:3161287 original size:57 final size:58
Alignment explanation
Indices: 3161218--3161326 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
3161208 GGTTTGGTGC
*
3161218 TATTCTGAGAATTAATTCGAAA-TAGGTGCTATTTTGGTAATT-TTTCGAAAAAAATGA
1 TATTCTGAGAATTAATTCGAAATTA-GTGCTATTTTGGTAATTAATTCGAAAAAAATGA
3161275 TATTCT-AGGAATTAATTCGAAATTAGTGCTATTTTGGTAATTAATTCGAAAA
1 TATTCTGA-GAATTAATTCGAAATTAGTGCTATTTTGGTAATTAATTCGAAAA
3161327 GGGTACTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
56 1 0.02
57 37 0.77
58 10 0.21
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (58 bp):
TATTCTGAGAATTAATTCGAAATTAGTGCTATTTTGGTAATTAATTCGAAAAAAATGA
Found at i:3161335 original size:29 final size:29
Alignment explanation
Indices: 3161213--3161365 Score: 127
Period size: 29 Copynumber: 5.3 Consensus size: 29
3161203 ATTCAGGTTT
*
3161213 GGTGCTATTCTGAG-AATTAATTCGAAATA-
1 GGTGCTATTTTG-GTAATTAATTCGAAA-AG
* *
3161242 GGTGCTATTTTGGTAATT-TTTCGAAAAA
1 GGTGCTATTTTGGTAATTAATTCGAAAAG
** * * **
3161270 AATGATATTCTAGG-AATTAATTCGAAATT
1 GGTGCTATT-TTGGTAATTAATTCGAAAAG
*
3161299 AGTGCTATTTTGGTAATTAATTCGAAAAG
1 GGTGCTATTTTGGTAATTAATTCGAAAAG
* **
3161328 GGTACTATTTTGGTAATT-ATTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTCGAAAAG
3161356 GGTGCTATTT
1 GGTGCTATTT
3161366 GTGTAAAATG
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.01
28 38 0.38
29 61 0.61
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCGAAAAG
Found at i:3162095 original size:29 final size:28
Alignment explanation
Indices: 3161981--3162130 Score: 128
Period size: 29 Copynumber: 5.4 Consensus size: 28
3161971 ATTCAGTTTT
*
3161981 GGTGCTATTCT-GGAATTAATTCGAAATA
1 GGTGCTATTTTGGGAATTAATTCGAAA-A
* *
3162009 GTTGCTATTTTGGTAATT--TTC-AAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAA
* * * *
3162034 AGTGATATTCTGGGAATTAATTCGAAATT
1 GGTGCTATTTTGGGAATTAATTCGAAA-A
*
3162063 GGTGATATTTTGGGAATTAATTCGAAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAA
* * **
3162091 GGGTGCTATTTTGGTAATTATTTTAAAAA
1 -GGTGCTATTTTGGGAATTAATTCGAAAA
3162120 GGGTGCTATTT
1 -GGTGCTATTT
3162131 GTGTAAAATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
25 14 0.14
26 3 0.03
27 6 0.06
28 12 0.12
29 64 0.65
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (28 bp):
GGTGCTATTTTGGGAATTAATTCGAAAA
Found at i:3163115 original size:118 final size:118
Alignment explanation
Indices: 3162905--3163125 Score: 372
Period size: 118 Copynumber: 1.9 Consensus size: 118
3162895 TTACTGTTAC
* * *
3162905 TGGGTGATTGGTGTGATTGGATGGGAAAGTTATTATCGTAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGAATGGTGTGATTGGATGGAAAAGTTATTATCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
*
3162970 AAGTCCTTACTGGTGTGCAGGTGGGTGTACGGTTCTGGGGAACCTACACATTT
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGGGGAACCTACACATTT
*
3163023 TGGGTGAATGGTGTGATTGGATGGAAAAGTTATTA-CTGCATGCTCCTCAGCTTTGTGCTCAGGG
1 TGGGTGAATGGTGTGATTGGATGGAAAAGTTATTATC-GCAGGCTCCTCAGCTTTGTGCTCAGGG
*
3163087 TAAGTCCTTACTGGTGTGCAGGTAGGTGTATGGTTCTGG
65 TAAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGG
3163126 AAAATATACA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.01
118 95 0.99
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.33
Consensus pattern (118 bp):
TGGGTGAATGGTGTGATTGGATGGAAAAGTTATTATCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGGGGAACCTACACATTT
Found at i:3165782 original size:118 final size:118
Alignment explanation
Indices: 3165572--3165792 Score: 370
Period size: 118 Copynumber: 1.9 Consensus size: 118
3165562 TTACTGTTAC
* **
3165572 TGGGTGATTGGTGTGATTAGATGGGAAAGTTATTATTGCAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTAGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
* *
3165637 AAGTCCTTACTGGTGTGCAGGTGGGTGTACGGTTCTGGGGAACCTACACATTT
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGATTCTGGGGAACCTACACATTT
* *
3165690 TGGGTGATTGGTGTGATTGGATGGAAAAGTTATTACCGTAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTAGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
*
3165755 AAGTCCTTACTGGTGTGCAGGTAGGTGTATGATTCTGG
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGATTCTGG
3165793 AAAATATACA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 95 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (118 bp):
TGGGTGATTGGTGTGATTAGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
AAGTCCTTACTGGTGTGCAGGTAGGTGTACGATTCTGGGGAACCTACACATTT
Found at i:3193179 original size:20 final size:20
Alignment explanation
Indices: 3193154--3193202 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3193144 ATAGAAGTAT
3193154 CGATACTATAGTAGGGGTAC
1 CGATACTATAGTAGGGGTAC
*
3193174 CGATACTATAGTAGTGGTAC
1 CGATACTATAGTAGGGGTAC
*
3193194 AGATACTAT
1 CGATACTAT
3193203 TGAGCCTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (20 bp):
CGATACTATAGTAGGGGTAC
Found at i:3203698 original size:22 final size:21
Alignment explanation
Indices: 3203657--3203696 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3203647 CTATCGTTTT
* *
3203657 TCAAGGGGATCGATTCTTTAG
1 TCAAAGGGATCGATGCTTTAG
3203678 TCAAAGGGATCGATGCTTT
1 TCAAAGGGATCGATGCTTT
3203697 TACTAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
TCAAAGGGATCGATGCTTTAG
Found at i:3204264 original size:5 final size:5
Alignment explanation
Indices: 3204254--3204422 Score: 338
Period size: 5 Copynumber: 33.8 Consensus size: 5
3204244 GGTCTAATAT
3204254 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
3204304 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
3204354 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
3204404 TATGA TATGA TATGA TATG
1 TATGA TATGA TATGA TATG
3204423 GATGCTCAAC
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 164 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:3204729 original size:30 final size:30
Alignment explanation
Indices: 3204660--3204739 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
3204650 CTCGGGTTCC
*
3204660 TCTCCATCACGAGCATCATCCATCTTCTCA
1 TCTCCATCATGAGCATCATCCATCTTCTCA
3204690 TCTCCATCATGAGCATCATCCATCTTCTCA
1 TCTCCATCATGAGCATCATCCATCTTCTCA
* *
3204720 TCTCCATCATCATCATCATC
1 TCTCCATCATGAGCATCATC
3204740 ATCCTCATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.24, C:0.39, G:0.05, T:0.33
Consensus pattern (30 bp):
TCTCCATCATGAGCATCATCCATCTTCTCA
Found at i:3206718 original size:20 final size:21
Alignment explanation
Indices: 3206692--3206731 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3206682 ATCCATCGCA
* *
3206692 AAAAAGGATGGATCCTTTTAG
1 AAAAGGGATCGATCCTTTTAG
3206713 AAAAGGGATCGATCCTTTT
1 AAAAGGGATCGATCCTTTT
3206732 TTAGAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (21 bp):
AAAAGGGATCGATCCTTTTAG
Found at i:3213262 original size:2 final size:2
Alignment explanation
Indices: 3213255--3213293 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3213245 TTTTATGAGT
3213255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3213294 GTTGAAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3232046 original size:10 final size:10
Alignment explanation
Indices: 3232011--3232051 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
3232001 GAAGGGAAGA
3232011 AGAA-AAATG
1 AGAAGAAATG
*
3232020 AAAAGAAAT-
1 AGAAGAAATG
3232029 AGAAGAAATG
1 AGAAGAAATG
*
3232039 AGATGAAATG
1 AGAAGAAATG
3232049 AGA
1 AGA
3232052 GATATAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 11 0.41
10 16 0.59
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (10 bp):
AGAAGAAATG
Found at i:3234482 original size:21 final size:21
Alignment explanation
Indices: 3234451--3234533 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 21
3234441 GATCGTTATA
3234451 ATAAAGAGATTGATCCTTTTC
1 ATAAAGAGATTGATCCTTTTC
** * * *
3234472 ATCGAGGGATTGAACATTTTC
1 ATAAAGAGATTGATCCTTTTC
* *
3234493 ATAAAGAGATTGATTCTTTTG
1 ATAAAGAGATTGATCCTTTTC
* * *
3234514 GTGAAGAGATTGATTCTTTT
1 ATAAAGAGATTGATCCTTTT
3234534 GGTGAACAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (21 bp):
ATAAAGAGATTGATCCTTTTC
Found at i:3234534 original size:21 final size:21
Alignment explanation
Indices: 3234496--3234547 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
3234486 CATTTTCATA
3234496 AAGAGATTGATTCTTTTGGTG
1 AAGAGATTGATTCTTTTGGTG
3234517 AAGAGATTGATTCTTTTGGTG
1 AAGAGATTGATTCTTTTGGTG
*
3234538 AACA-ATTGAT
1 AAGAGATTGAT
3234548 CCAAAAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (21 bp):
AAGAGATTGATTCTTTTGGTG
Found at i:3238083 original size:22 final size:22
Alignment explanation
Indices: 3238056--3238097 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3238046 TGCTAAGGAA
3238056 ACTTTAATAACAATGCTAATGC
1 ACTTTAATAACAATGCTAATGC
* **
3238078 ACTTTAGTATTAATGCTAAT
1 ACTTTAATAACAATGCTAAT
3238098 TAACTTTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (22 bp):
ACTTTAATAACAATGCTAATGC
Found at i:3238103 original size:22 final size:22
Alignment explanation
Indices: 3238067--3238108 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3238057 CTTTAATAAC
*
3238067 AATGCTAATGCACTTTAGTATT
1 AATGCTAATGAACTTTAGTATT
*
3238089 AATGCTAATTAACTTTAGTA
1 AATGCTAATGAACTTTAGTA
3238109 CATTGCTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
AATGCTAATGAACTTTAGTATT
Found at i:3239041 original size:45 final size:45
Alignment explanation
Indices: 3238972--3239182 Score: 253
Period size: 45 Copynumber: 4.7 Consensus size: 45
3238962 ATAAAAGAAT
* *
3238972 AATGAATATGGGTGCATTATCAACAGAAAAGTGTACTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
*
3239017 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* * *
3239062 AATGCATATGGGTACATTCTCAACAGAAAAGGTATACTATG-GTTAA
1 AATGCATATGGGTGCATTATCAACAGAAAA-GTATACTA-GAGTTGA
* * * * *
3239108 AATGTATATGGGTACATTATCAACATAGAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
*** * *
3239153 AATGCATCCCGTTGCATTATTAACAGAAAA
1 AATGCATATGGGTGCATTATCAACAGAAAA
3239183 TATGTTATAG
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
45 103 0.73
46 37 0.26
47 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
Found at i:3239131 original size:91 final size:90
Alignment explanation
Indices: 3238972--3239159 Score: 252
Period size: 91 Copynumber: 2.1 Consensus size: 90
3238962 ATAAAAGAAT
* * * * *
3238972 AATGAATATGGGTGCATTATCAACAGAAAAGTGTACTAGAGTTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTAAAATGCATATGGGTACATTAT
*
3239037 CAACAGAAAAGTATGCTAGAGTTGA
66 CAACAGAAAAGTATACTAGAGTTGA
* *
3239062 AATGCATATGGGTACATTCTCAACAGAAAAGGTATACTATG-GTTAAAATGTATATGGGTACATT
1 AATGCATATGGGTACATTATCAACAGAAAA-GTATACTA-GAGTTAAAATGCATATGGGTACATT
* * *
3239126 ATCAACATAGAAGTATACTATAGTTGA
64 ATCAACAGAAAAGTATACTAGAGTTGA
3239153 AATGCAT
1 AATGCAT
3239160 CCCGTTGCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 27 0.32
91 57 0.67
92 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (90 bp):
AATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTAAAATGCATATGGGTACATTAT
CAACAGAAAAGTATACTAGAGTTGA
Found at i:3239178 original size:91 final size:90
Alignment explanation
Indices: 3238982--3239205 Score: 245
Period size: 91 Copynumber: 2.5 Consensus size: 90
3238972 AATGAATATG
* * *
3238982 GGTGCATTATCAACAGAAAAGTGTACTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAA
1 GGTGCATTATCAACAGAAAAGTATACTAGAGTTAAAATGCATATGGGTACATTATCAACAGAAAA
* **
3239047 GTATGCTAGAGTTGAAATGCATATG
66 GTATACTAGAGTTGAAATGCATACC
* * * * *
3239072 GGTACATTCTCAACAGAAAAGGTATACTATG-GTTAAAATGTATATGGGTACATTATCAACATAG
1 GGTGCATTATCAACAGAAAA-GTATACTA-GAGTTAAAATGCATATGGGTACATTATCAACAGAA
* *
3239136 AAGTATACTATAGTTGAAATGCATCCC
64 AAGTATACTAGAGTTGAAATGCATACC
* * ** *
3239163 GTTGCATTATTAACAGAAAA-TATGTTATAGTGTAAAATGCATA
1 GGTGCATTATCAACAGAAAAGTATACTAGAGT-TAAAATGCATA
3239206 ATGATGTATT
Statistics
Matches: 109, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
89 7 0.06
90 28 0.26
91 73 0.67
92 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (90 bp):
GGTGCATTATCAACAGAAAAGTATACTAGAGTTAAAATGCATATGGGTACATTATCAACAGAAAA
GTATACTAGAGTTGAAATGCATACC
Found at i:3248591 original size:31 final size:31
Alignment explanation
Indices: 3248554--3248631 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
3248544 TTAAAAAACA
* *
3248554 TAAGTTTTGTTCACTTATGTTATCATTTTAT
1 TAAGTTTTGGTCACTTACGTTATCATTTTAT
**
3248585 TAAGTTTTGGTCACTTACGTTATTGTTTTAT
1 TAAGTTTTGGTCACTTACGTTATCATTTTAT
*
3248616 TAAGTTGTGGTCACTT
1 TAAGTTTTGGTCACTT
3248632 GGACATTGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACGTTATCATTTTAT
Found at i:3250018 original size:32 final size:31
Alignment explanation
Indices: 3249949--3250027 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
3249939 TTCAACATCC
* **
3249949 AAGTGACCAAAACTTAATAAAACGATAACAT
1 AAGTGATCAAAACTTAATAAAAAAATAACAT
** *
3249980 GTGTGATCAAAACTTAATAAAAAAAATAACGT
1 AAGTGATCAAAACTTAAT-AAAAAAATAACAT
*
3250012 AAGTGATAAAAACTTA
1 AAGTGATCAAAACTTA
3250028 TGTTTTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 15 0.39
32 23 0.61
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (31 bp):
AAGTGATCAAAACTTAATAAAAAAATAACAT
Found at i:3250190 original size:25 final size:25
Alignment explanation
Indices: 3250156--3250209 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
3250146 CACATTAGCA
3250156 AACCGTTAAAGGTTGAACGGATGTT
1 AACCGTTAAAGGTTGAACGGATGTT
3250181 AACCGTTAAAGGTTGAACGGATGTT
1 AACCGTTAAAGGTTGAACGGATGTT
3250206 AACC
1 AACC
3250210 TTTAGTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (25 bp):
AACCGTTAAAGGTTGAACGGATGTT
Found at i:3251956 original size:2 final size:2
Alignment explanation
Indices: 3251945--3251976 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3251935 CATTGGACAA
3251945 AT AT -T 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
3251977 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3252227 original size:32 final size:30
Alignment explanation
Indices: 3252178--3252259 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
3252168 TTTTAAACGA
*
3252178 TTAAAAGATATCATTAAATTTTACTAAATTAC
1 TTAAAA-AAATCATTAAATTTTACTAAATT-C
* * * *
3252210 TATAAAATAATCATTAAA-TTTATTGAATTG
1 T-TAAAAAAATCATTAAATTTTACTAAATTC
3252240 TTAAAAAAATCATTAAATTT
1 TTAAAAAAATCATTAAATTT
3252260 ATCATTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 15 0.36
30 3 0.07
31 9 0.21
32 10 0.24
33 5 0.12
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (30 bp):
TTAAAAAAATCATTAAATTTTACTAAATTC
Found at i:3253308 original size:60 final size:59
Alignment explanation
Indices: 3253191--3253306 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
3253181 CGAGTAACCA
* *
3253191 TTTTGTAACTTTTAATAGTCGAGTGAGTCAACAAAACAACACCCTATAGTTAGGGGACC
1 TTTTGTAACTTTTAATAGTCGAGGGAGTCAACAAAACAACACCCTATAATTAGGGGACC
* * * * *
3253250 TTTTAGTAACTTTTAATAGTCGGGGGATTCAATAAAATATCACCCTATAATTGAGGG
1 TTTT-GTAACTTTTAATAGTCGAGGGAGTCAACAAAACAACACCCTATAATT-AGGG
3253307 ACAAATTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 4 0.08
60 40 0.83
61 4 0.08
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (59 bp):
TTTTGTAACTTTTAATAGTCGAGGGAGTCAACAAAACAACACCCTATAATTAGGGGACC
Found at i:3255560 original size:67 final size:67
Alignment explanation
Indices: 3255469--3255600 Score: 264
Period size: 67 Copynumber: 2.0 Consensus size: 67
3255459 GACTTCACTT
3255469 TCAGCATTATTTCCTCTCTTTTTTTAAGGTTTATATGTAAAATAAATATACATGGTAAAATTAAA
1 TCAGCATTATTTCCTCTCTTTTTTTAAGGTTTATATGTAAAATAAATATACATGGTAAAATTAAA
3255534 AG
66 AG
3255536 TCAGCATTATTTCCTCTCTTTTTTTAAGGTTTATATGTAAAATAAATATACATGGTAAAATTAAA
1 TCAGCATTATTTCCTCTCTTTTTTTAAGGTTTATATGTAAAATAAATATACATGGTAAAATTAAA
3255601 GTCGTCAAGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (67 bp):
TCAGCATTATTTCCTCTCTTTTTTTAAGGTTTATATGTAAAATAAATATACATGGTAAAATTAAA
AG
Found at i:3259274 original size:21 final size:21
Alignment explanation
Indices: 3259223--3259274 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
3259213 TAAAGGGAAT
*
3259223 GGATCAATCTTTTTCATCAAG
1 GGATCAATCCTTTTCATCAAG
* * ** *
3259244 GGGTCGATCCTTTTGGTGAAG
1 GGATCAATCCTTTTCATCAAG
3259265 GGATCAATCC
1 GGATCAATCC
3259275 ATGGCTACTG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (21 bp):
GGATCAATCCTTTTCATCAAG
Found at i:3259759 original size:25 final size:25
Alignment explanation
Indices: 3259722--3259770 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3259712 TATAATACTT
* *
3259722 GTAAAATATTTTTATTTAAAAATCG
1 GTAAAAAACTTTTATTTAAAAATCG
* *
3259747 GTAAAAAACTTTTCTTTTAAAATC
1 GTAAAAAACTTTTATTTAAAAATC
3259771 ATTAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (25 bp):
GTAAAAAACTTTTATTTAAAAATCG
Found at i:3263450 original size:17 final size:17
Alignment explanation
Indices: 3263430--3263463 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3263420 TTAGTGGTAC
3263430 ATGAGGTGTAGTGTTAT
1 ATGAGGTGTAGTGTTAT
3263447 ATGAGGTGTAGTGTTAT
1 ATGAGGTGTAGTGTTAT
3263464 GGATTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (17 bp):
ATGAGGTGTAGTGTTAT
Found at i:3263532 original size:24 final size:24
Alignment explanation
Indices: 3263476--3263592 Score: 110
Period size: 24 Copynumber: 4.9 Consensus size: 24
3263466 ATTGATTTTG
* **
3263476 ATTTGTGCACTCCTGTATTA-TTT
1 ATTTGTGCACTCTTGTATTAGTGC
* *
3263499 TTTTGTGCACTTTTGTATTAGTGC
1 ATTTGTGCACTCTTGTATTAGTGC
* *
3263523 ATTTGTGCACTCATGTATCAGTGC
1 ATTTGTGCACTCTTGTATTAGTGC
** * *
3263547 ATTCATGCACTCCTGAATTAGTGC
1 ATTTGTGCACTCTTGTATTAGTGC
* *
3263571 AATTGAGCACTCTTGTATTAGT
1 ATTTGTGCACTCTTGTATTAGT
3263593 ACAAATACGC
Statistics
Matches: 73, Mismatches: 20, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
23 17 0.23
24 56 0.77
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (24 bp):
ATTTGTGCACTCTTGTATTAGTGC
Found at i:3263652 original size:24 final size:24
Alignment explanation
Indices: 3263577--3263640 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
3263567 GTGCAATTGA
3263577 GCACTCTTGTATTAGTACAAATAC
1 GCACTCTTGTATTAGTACAAATAC
*
3263601 GCACTTTTGTATTAGTACAAATAC
1 GCACTCTTGTATTAGTACAAATAC
3263625 GCACTCTTGTATTAGT
1 GCACTCTTGTATTAGT
3263641 GTGAATATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (24 bp):
GCACTCTTGTATTAGTACAAATAC
Found at i:3263813 original size:160 final size:160
Alignment explanation
Indices: 3263633--3263932 Score: 600
Period size: 160 Copynumber: 1.9 Consensus size: 160
3263623 ACGCACTCTT
3263633 GTATTAGTGTGAATATGCACCCTTATATTTGTGCTTTGTGAACTCTCGTATTAGTACCATTGGGT
1 GTATTAGTGTGAATATGCACCCTTATATTTGTGCTTTGTGAACTCTCGTATTAGTACCATTGGGT
3263698 ACTCCTTTTTAGTACATCAGTGTACTCTTGGCACTATGTGTGCAATTATGGAGTTCATGATGTTT
66 ACTCCTTTTTAGTACATCAGTGTACTCTTGGCACTATGTGTGCAATTATGGAGTTCATGATGTTT
3263763 TGACGTCATGAACTACCATCCCGATACCTA
131 TGACGTCATGAACTACCATCCCGATACCTA
3263793 GTATTAGTGTGAATATGCACCCTTATATTTGTGCTTTGTGAACTCTCGTATTAGTACCATTGGGT
1 GTATTAGTGTGAATATGCACCCTTATATTTGTGCTTTGTGAACTCTCGTATTAGTACCATTGGGT
3263858 ACTCCTTTTTAGTACATCAGTGTACTCTTGGCACTATGTGTGCAATTATGGAGTTCATGATGTTT
66 ACTCCTTTTTAGTACATCAGTGTACTCTTGGCACTATGTGTGCAATTATGGAGTTCATGATGTTT
3263923 TGACGTCATG
131 TGACGTCATG
3263933 TGTTATTGTG
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 140 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (160 bp):
GTATTAGTGTGAATATGCACCCTTATATTTGTGCTTTGTGAACTCTCGTATTAGTACCATTGGGT
ACTCCTTTTTAGTACATCAGTGTACTCTTGGCACTATGTGTGCAATTATGGAGTTCATGATGTTT
TGACGTCATGAACTACCATCCCGATACCTA
Found at i:3264065 original size:17 final size:17
Alignment explanation
Indices: 3264033--3264109 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
3264023 AAAATGAAAT
* *
3264033 TAAAAGAAATAATACAG
1 TAAAAGATACAATACAG
* * *
3264050 TGAAAGATACATTACAA
1 TAAAAGATACAATACAG
* *
3264067 TAAAAGATATAGTACAG
1 TAAAAGATACAATACAG
*
3264084 TAAAGGATACAATACAG
1 TAAAAGATACAATACAG
3264101 TAAAAGATA
1 TAAAAGATA
3264110 TAGAACAATA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 47 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.21
Consensus pattern (17 bp):
TAAAAGATACAATACAG
Found at i:3264083 original size:34 final size:34
Alignment explanation
Indices: 3264033--3264112 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
3264023 AAAATGAAAT
* * *
3264033 TAAAAGAAATAATACAGTGAAA-GATACATTACAA
1 TAAAAGATATAGTACAGT-AAAGGATACAATACAA
*
3264067 TAAAAGATATAGTACAGTAAAGGATACAATACAG
1 TAAAAGATATAGTACAGTAAAGGATACAATACAA
3264101 TAAAAGATATAG
1 TAAAAGATATAG
3264113 AACAATACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 3 0.07
34 38 0.93
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.21
Consensus pattern (34 bp):
TAAAAGATATAGTACAGTAAAGGATACAATACAA
Found at i:3268289 original size:43 final size:41
Alignment explanation
Indices: 3268102--3268442 Score: 326
Period size: 41 Copynumber: 8.2 Consensus size: 41
3268092 CGGCGTTTTT
* * * * *
3268102 AACGCCGCTATAAACTCGTACTTTAGTGCCATTTTTATACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTTTACA
* * * ** *
3268143 AACGTCG-TCATAGAGTAGTACTTTAGCAGCGTTTTTATACA
1 AACGCCGCT-ATAGACTTGTACTTTAGTGGCGTTTTTTTACA
** * *
3268184 AACGCCGCTATAGACTCCTACTTTAGTGGCATTTTTATACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTTTACA
* *
3268225 AATGCCGCTATAGACTAGTACTTTAGTGGCGTTTGTGTTTACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTT-T-TTTACA
* *
3268268 AACGCCGCAATAGGCTTGTACTTTAGTGGCGTTTGTGTTTACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTT-T-TTTACA
** * * * *
3268311 AATACCGCAATAGGCTTGTACTTTAGTAGCGTTTTTGTACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTTTACA
* * * *
3268352 AACGCCGTTATAGACTCGTACATTAGTGGCGTTTTTATACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTTTACA
*
3268393 AACGTCGCTATAGACTTGT-CTTTAGTGGCGTTTGTGTTTACA
1 AACGCCGCTATAGACTTGTACTTTAGTGGCGTTT-T-TTTACA
*
3268435 AATGCCGC
1 AACGCCGC
3268443 AAGTTGCTTC
Statistics
Matches: 250, Mismatches: 44, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
40 14 0.06
41 147 0.59
42 14 0.06
43 75 0.30
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (41 bp):
AACGCCGCTATAGACTTGTACTTTAGTGGCGTTTTTTTACA
Found at i:3268352 original size:127 final size:124
Alignment explanation
Indices: 3268102--3268444 Score: 359
Period size: 127 Copynumber: 2.8 Consensus size: 124
3268092 CGGCGTTTTT
* * * * * * * *
3268102 AACGCCGCTATAAACTCGTACTTTAGTGCCATTTTTATACAAACGTCGTC-ATAGAGTAGTACTT
1 AACGCCGCTATAGACTAGTACATTAGTGGCGTTTTTATACAAACGCCG-CAATAGACTTGT-CTT
** * ** * * ** *
3268166 TAGCAGCGTTT-T-TATACAAACGCCGCTATAGACTCCTACTTTAGTGGCATTTTTATACA
64 TAGTGGCGTTTGTGTTTACAAATACCGCAATAGGCTTGTACTTTAGTAGCATTTTTATACA
* * * *
3268225 AATGCCGCTATAGACTAGTACTTTAGTGGCGTTTGTGTTTACAAACGCCGCAATAGGCTTGTACT
1 AACGCCGCTATAGACTAGTACATTAGTGGCGTTT-T-TATACAAACGCCGCAATAGACTTGT-CT
* *
3268290 TTAGTGGCGTTTGTGTTTACAAATACCGCAATAGGCTTGTACTTTAGTAGCGTTTTTGTACA
63 TTAGTGGCGTTTGTGTTTACAAATACCGCAATAGGCTTGTACTTTAGTAGCATTTTTATACA
* * * *
3268352 AACGCCGTTATAGACTCGTACATTAGTGGCGTTTTTATACAAACGTCGCTATAGACTTGTCTTTA
1 AACGCCGCTATAGACTAGTACATTAGTGGCGTTTTTATACAAACGCCGCAATAGACTTGTCTTTA
*
3268417 GTGGCGTTTGTGTTTACAAATGCCGCAA
66 GTGGCGTTTGTGTTTACAAATACCGCAA
3268445 GTTGCTTCTT
Statistics
Matches: 184, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
123 29 0.16
124 34 0.18
125 52 0.28
126 2 0.01
127 67 0.36
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (124 bp):
AACGCCGCTATAGACTAGTACATTAGTGGCGTTTTTATACAAACGCCGCAATAGACTTGTCTTTA
GTGGCGTTTGTGTTTACAAATACCGCAATAGGCTTGTACTTTAGTAGCATTTTTATACA
Found at i:3272555 original size:85 final size:84
Alignment explanation
Indices: 3272369--3272584 Score: 279
Period size: 85 Copynumber: 2.5 Consensus size: 84
3272359 GGTAATTAGT
* * *
3272369 GGCGTTTGTTCCAAAAACGCTGCTACAGATATGACCTTTTGCGGCGTTTGTTCCAAAAAGGCCAC
1 GGCGTTTGTTCCAAAAACGCTGCTACAGATCTGACCTTTTGCGGCGTTTGTTACAAAAACGCCAC
*
3272434 TATAGATCTGACCTTTTGC
66 TATAGATCTGACCTTTTAC
* * *
3272453 GGCATTTGTATCCAAAAACGTTACTACAGATCTGACCTTTTGCGGCGTTTGTCTACAAAAACGCC
1 GGCGTTTGT-TCCAAAAACGCTGCTACAGATCTGACCTTTTGCGGCGTTTGT-TACAAAAACGCC
*
3272518 GCTATAGATCTGACCTTTTAC
64 ACTATAGATCTGACCTTTTAC
* ** * * *
3272539 GGTGTTTGTTTAAAAAACGCTGCTATAGATCTTGACTTTTTACGGC
1 GGCGTTTGTTCCAAAAACGCTGCTACAGATC-TGACCTTTTGCGGC
3272585 ATTTTTATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 8 0.07
85 56 0.50
86 48 0.43
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (84 bp):
GGCGTTTGTTCCAAAAACGCTGCTACAGATCTGACCTTTTGCGGCGTTTGTTACAAAAACGCCAC
TATAGATCTGACCTTTTAC
Found at i:3272580 original size:43 final size:42
Alignment explanation
Indices: 3272369--3272584 Score: 252
Period size: 43 Copynumber: 5.1 Consensus size: 42
3272359 GGTAATTAGT
* *
3272369 GGCGTTTGTTCCAAAAACGCTGCTACAGATATGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCTGCTATAGATCTGACCTTTTGC
* **
3272411 GGCGTTTGTTCCAAAAAGGCCACTATAGATCTGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCTGCTATAGATCTGACCTTTTGC
* * * *
3272453 GGCATTTGTATCCAAAAACGTTACTACAGATCTGACCTTTTGC
1 GGCGTTTGT-TCCAAAAACGCTGCTATAGATCTGACCTTTTGC
* * *
3272496 GGCGTTTGTCTACAAAAACGCCGCTATAGATCTGACCTTTTAC
1 GGCGTTTGT-TCCAAAAACGCTGCTATAGATCTGACCTTTTGC
* ** * *
3272539 GGTGTTTGTTTAAAAAACGCTGCTATAGATCTTGACTTTTTAC
1 GGCGTTTGTTCCAAAAACGCTGCTATAGATC-TGACCTTTTGC
3272582 GGC
1 GGC
3272585 ATTTTTATTT
Statistics
Matches: 148, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
42 64 0.43
43 84 0.57
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
GGCGTTTGTTCCAAAAACGCTGCTATAGATCTGACCTTTTGC
Found at i:3278918 original size:37 final size:36
Alignment explanation
Indices: 3278868--3279062 Score: 248
Period size: 37 Copynumber: 5.3 Consensus size: 36
3278858 ACTTTCGAAA
*
3278868 CAAATCAATCTTAAGCCTTCACAGAGGAGTAGTGAAG
1 CAAATCAATCTTAAGCCTTCA-AGAAGAGTAGTGAAG
*
3278905 CAAATCAATCTTAAGCCTTCACGAAAGAGTAGTGAAG
1 CAAATCAATCTTAAGCCTTCAAG-AAGAGTAGTGAAG
* * *
3278942 CAAATCAATCTTAAGCCTTCATGAAAAAATAGTGAAG
1 CAAATCAATCTTAAGCCTTCAAG-AAGAGTAGTGAAG
* * *
3278979 CAAGTCAATCTTAAGCCTTCATGGAAGAGTAGGGAAG
1 CAAATCAATCTTAAGCCTTCA-AGAAGAGTAGTGAAG
**
3279016 CAAATCAATCTT-AGCCTTCAAGGAAGAGTAGCAAAG
1 CAAATCAATCTTAAGCCTTCAA-GAAGAGTAGTGAAG
3279052 CAAATCAATCT
1 CAAATCAATCT
3279063 CGAGTCTGGT
Statistics
Matches: 141, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
36 32 0.23
37 108 0.77
38 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
CAAATCAATCTTAAGCCTTCAAGAAGAGTAGTGAAG
Found at i:3279177 original size:55 final size:54
Alignment explanation
Indices: 3279110--3279866 Score: 577
Period size: 55 Copynumber: 13.8 Consensus size: 54
3279100 TCATTTTCTC
* * ****
3279110 AAGATTGTTCAAGTCCTATACTCCTTGGAAGAAGAGGGAGCGGAAATATTTTATG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TG
** ** **
3279165 AAGATTGTTCAAGTCCTATACT-CTCTGAAAGAAGAGGGAGTGGACATGTTTGCCG
1 AAGATTGTTCAAGTCCTATACTCCT-TGAAAGAAGAGGGAGCAGACCCGTTT-TTG
* * * * ** * ***
3279220 AAGATTTTTCAAGTTCTATAATCCTTGAAAAAAGAATGAGC-GAACCCATTTGCCA
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAG-ACCCGTTT-TTG
* * * * * * * *
3279275 AATATTATTCGAGTCATATACTCCCTGAAAGAAGAGGGAGTAGACACGTTTCGTCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTT--TTG
* * * * * *
3279331 AAGATTGTTTAAGTCCTATACTCCCTGAAAGAAGAGAGAACGGACCCGTTTGTCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTT-TTG
* * ** *
3279386 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGTAGACTGGTTTTCCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TG
* * * ** * *
3279441 AAGATTGTTCGAGTCCTATACTCCCTAAAAGAAGAGGGAGTGGACACATTTTTCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTT-G
* * ** * * *
3279496 AAGATTATTCGAA-TCCTATACTCCTTGAAAGAAGAAGGAGTGGGCTCATTTTATG
1 AAGATTGTTC-AAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TG
* * * *
3279551 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGTAGACTCGTTTTTCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTT-G
* * * *
3279606 AAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACTCATTTTCTG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TG
* * * * * * *
3279661 AAGATTGTTCAACTCCTACAATCCTTGAAAAAAGTGGGAGCATACACGTTTTTCG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTT-G
* * * * * * *
3279716 AATATTGTTCGAGTCTTATACTCCTTAAAAGAAGAAGGATCAGACCCATTTTCTG
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TG
* *
3279771 AAGATTGTTCAAGCCCTATACTCGC-TGAAAGAAGAGGGAGCAGACACGTTTGTTG
1 AAGATTGTTCAAGTCCTATACTC-CTTGAAAGAAGAGGGAGCAGACCCGTTT-TTG
* * * *
3279826 AAGATTGTTCGAGTCCTATACTCCCTAAAAAAAGAGGGAGC
1 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGC
3279867 GTGTAACACC
Statistics
Matches: 571, Mismatches: 113, Indels: 36
0.79 0.16 0.05
Matches are distributed among these distances:
54 8 0.01
55 511 0.89
56 52 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (54 bp):
AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTG
Found at i:3279497 original size:110 final size:110
Alignment explanation
Indices: 3279091--3279849 Score: 717
Period size: 110 Copynumber: 6.9 Consensus size: 110
3279081 AAGGAATAGC
* * * *
3279091 GGAGTAGATTCATTTTCTC-AAGATTGTTCAAGTCCTATACTCCTTGGAAGAAGAGGGAGCGGAA
1 GGAGTAGACTCATTTTC-CGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGAC
** *
3279155 ATATTTTAT-GAAGATTGTTCAAGTCCTATACT-CTCTGAAAGAAGAG
65 ACGTTTT-TCGAAGATTGTTCAAGTCCTATACTCCT-TGAAAGAAGAA
* * * * * * ** *
3279201 GGAGTGGA--CATGTTTGCCGAAGATTTTTCAAGTTCTATAATCCTTGAAAAAAGAATGAGCGAA
1 GGAGTAGACTCAT-TTT-CCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGA
* * ** * * * * * * *
3279264 CCCATTTGCCAAATATTATTCGAGTCATATACTCCCTGAAAGAAGAG
64 CACGTTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * * * *
3279311 GGAGTAGACAC-GTTTCGTCGAAGATTGTTTAAGTCCTATACTCCCTGAAAGAAGAGAGAACGGA
1 GGAGTAGACTCATTTTC--CGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGA
* *
3279375 CCCGTTTGTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
64 CACGTTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
** * * *
3279422 GGAGTAGACTGGTTTTCCGAAGATTGTTCGAGTCCTATACTCCCTAAAAGAAGAGGGAGTGGACA
1 GGAGTAGACTCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACA
* *
3279487 CATTTTTCGAAGATTATTCGAA-TCCTATACTCCTTGAAAGAAGAA
66 CGTTTTTCGAAGATTGTTC-AAGTCCTATACTCCTTGAAAGAAGAA
* * ** * ** *
3279532 GGAGTGGGCTCATTTTATGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGTAGACT
1 GGAGTAGACTCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACA
* *
3279597 CGTTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAG
66 CGTTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * * * * * * * * **
3279642 GGAGCATACTCATTTTCTGAAGATTGTTCAACTCCTACAATCCTTGAAAAAAGTGGGAGCATACA
1 GGAGTAGACTCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACA
* * * *
3279707 CGTTTTTCGAATATTGTTCGAGTCTTATACTCCTTAAAAGAAGAA
66 CGTTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * * * *
3279752 GGA-TCAGACCCATTTTCTGAAGATTGTTCAAGCCCTATACTCGCTGAAAGAAGAGGGAGCAGAC
1 GGAGT-AGACTCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGAC
*
3279816 ACGTTTGTT-GAAGATTGTTCGAGTCCTATACTCC
65 ACGTTT-TTCGAAGATTGTTCAAGTCCTATACTCC
3279850 CTAAAAAAAG
Statistics
Matches: 533, Mismatches: 102, Indels: 28
0.80 0.15 0.04
Matches are distributed among these distances:
108 3 0.01
109 7 0.01
110 430 0.81
111 88 0.17
112 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (110 bp):
GGAGTAGACTCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACA
CGTTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
Found at i:3279568 original size:165 final size:164
Alignment explanation
Indices: 3279091--3279867 Score: 699
Period size: 165 Copynumber: 4.7 Consensus size: 164
3279081 AAGGAATAGC
** * * * *
3279091 GGAGTAGATTCATTTTCTC-AAGATTGTTCAAGTCCTATACTCCTTGGAAGAAGAGGGAGCGGAA
1 GGAGTAGACCCATTTTC-CGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGAC
* * * ** *
3279155 ATATTTTAT-GAAGATTGTTCAAGTCCTATACT-CTCTGAAAGAAGAGGGAGTGGACATGTTTGC
65 ACATTTT-TCGAAGATTGTTCAAGTCCTATACTCCT-TGAAAGAAGAAGGAGCGGACACATTT-T
* * * *
3279218 CGAAGATTTTTCAAGTTCTATAATCCTTGAAAAAAGAA
127 CGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * * * * * * * *
3279256 TGAG-CGAACCCATTTGCCAAATATTATTCGAGTCATATACTCCCTGAAAGAAGAGGGAGTAGAC
1 GGAGTAG-ACCCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGAC
* * * * * * *
3279320 ACGTTTCGTCGAAGATTGTTTAAGTCCTATACTCCCTGAAAGAAG-AGAGAACGGACCCGTTTGT
65 ACATTT-TTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAG-GAGCGGACACATTT-T
3279384 CGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
127 CGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
*** * * **
3279422 GGAGTAGACTGGTTTTCCGAAGATTGTTCGAGTCCTATACTCCCTAAAAGAAGAGGGAGTGGACA
1 GGAGTAGACCCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACA
* * * * *
3279487 CATTTTTCGAAGATTATTCGAA-TCCTATACTCCTTGAAAGAAGAAGGAGTGGGCTCATTTTATG
66 CATTTTTCGAAGATTGTTC-AAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACACATTTT-CG
* * *
3279551 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAG
129 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * * * *
3279587 GGAGTAGACTCGTTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACT
1 GGAGTAGACCCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACA
* * * * ** ** *
3279652 CA-TTTTCTGAAGATTGTTCAACTCCTACAATCCTTGAAAAAAGTGGGAGCATACACGTTTTTCG
66 CATTTTTC-GAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACAC-ATTTTCG
* * * *
3279716 AATATTGTTCGAGTCTTATACTCCTTAAAAGAAGAA
129 AAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
* * *
3279752 GGA-TCAGACCCATTTTCTGAAGATTGTTCAAGCCCTATACTCGCTGAAAGAAGAGGGAGCAGAC
1 GGAGT-AGACCCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGAC
* * * * * *
3279816 ACGTTTGTT-GAAGATTGTTCGAGTCCTATACTCCCTAAAAAAAGAGGGAGCG
65 ACATTT-TTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCG
3279868 TGTAACACCC
Statistics
Matches: 498, Mismatches: 98, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
164 11 0.02
165 342 0.69
166 141 0.28
167 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (164 bp):
GGAGTAGACCCATTTTCCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACA
CATTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACACATTTTCGAA
GATTGTTCAAGTCCTATACTCCTTGAAAGAAGAA
Found at i:3283476 original size:22 final size:22
Alignment explanation
Indices: 3283394--3283476 Score: 53
Period size: 22 Copynumber: 3.8 Consensus size: 22
3283384 CAGAACTGAT
* *
3283394 GGGGGTATCGATTCCC-TAAAG
1 GGGGGAATCGATTCCCTTCAAG
* * *
3283415 GAGGAAATCGGTTCCCATTCAA-
1 GGGGGAATCGATTCCC-TTCAAG
* * *
3283437 AGGGGAATTGGTTCCCCTTCAAG
1 GGGGGAATCGATT-CCCTTCAAG
*
3283460 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
3283477 CTGCACTAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
21 12 0.27
22 18 0.40
23 15 0.33
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTTCAAG
Found at i:3289254 original size:45 final size:44
Alignment explanation
Indices: 3289188--3289635 Score: 572
Period size: 44 Copynumber: 10.3 Consensus size: 44
3289178 AATTTCTTAT
* * *
3289188 CAATATACATACCATTTAATCCATAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
3289233 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
*
3289278 CAATAAACTTACCATTATTCCAT-A------AAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
3289315 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
*
3289360 CAATATACTTACCACTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
*
3289404 CAATATACTTACCATTATTCCATAAGCTCGCAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
3289448 CCATATACTTACCATTATTCCAGAAGCTCATAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
3289492 CCATATACTTATCATTATTCCATAAAC-CTGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTC-GTAAGCTTATTTTAC
* * *
3289536 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
3289581 CAATATACTTACTATAATTTCATAAGCTCGTAAGCTTA-TTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
3289624 CAATATACTTAC
1 CAATATACTTAC
3289636 TATAATTTGC
Statistics
Matches: 353, Mismatches: 38, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
37 27 0.08
38 5 0.01
39 1 0.00
43 18 0.05
44 185 0.52
45 116 0.33
46 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:3289959 original size:60 final size:59
Alignment explanation
Indices: 3289796--3289964 Score: 203
Period size: 60 Copynumber: 2.8 Consensus size: 59
3289786 TTTCTTCTCA
* ** * * *
3289796 TTTTAGTACATGAAGTGCAATATTCGAGAATCCATACCATTAATATGATTCATTTACCAT
1 TTTTAGAACATGAAGTGCCCTATT-GAAAATCCATACCATTAGTATGATCCATTTACCAT
* * * *
3289856 TTTTAGCACCTGAAGTGCCCTATTTAAGAATCCATACCATTAGTATGATCCCTTTACCAT
1 TTTTAGAACATGAAGTGCCCTATTGAA-AATCCATACCATTAGTATGATCCATTTACCAT
**
3289916 TTTTAGAACATGAAGTGCCCTATATGAAAATCCATACTGTTAGTATGAT
1 TTTTAGAACATGAAGTGCCCTAT-TGAAAATCCATACCATTAGTATGAT
3289965 TTCCTTATCC
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 89 0.96
61 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (59 bp):
TTTTAGAACATGAAGTGCCCTATTGAAAATCCATACCATTAGTATGATCCATTTACCAT
Found at i:3290020 original size:59 final size:58
Alignment explanation
Indices: 3289929--3290337 Score: 288
Period size: 59 Copynumber: 6.9 Consensus size: 58
3289919 TAGAACATGA
* * ** * * * *
3289929 AGTGCCCTATATGAAAATCCATACTGTTAGTATGATTTCCTTATCCTTGTAGCACCCTG
1 AGTGCTCTATCTGAAAA-CCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCTC
* * * * *
3289988 AGTGCTTTTTCTAGAAAACCATACACTCAGTATGA-TTCACTTACCATTTTAGCA-CATAT
1 AGTGCTCTATCT-GAAAACCATACACTCAGTATGATTTC-CTTATCATTTTAGCACCCT-C
* * * * * * *
3290047 AATGCCCTATCTGTAAATCCATATATTCAATATGATTTCCTTATCATTTTAGCACGCTC
1 AGTGCTCTATCTG-AAAACCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCTC
* * * * *
3290106 AGTGCTCCATATGGAAAGCCATACACTCAGTATGATTTCCTTATCATTTTAGCA-CATAT
1 AGTGCTCTATCT-GAAAACCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCT-C
* * * * *
3290165 AGTGCTCCATATGGAAATA-CATACACTCAATATGATTTCCTTATCATTTTAGCA-CATAT
1 AGTGCTCTATCT-GAAA-ACCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCT-C
* ** * * * *
3290224 AGTGCTCCATAAGGAAATCCATACACTCAGTATGATTTCTTTATCATTTTAGCACACTT
1 AGTGCTCTAT-CTGAAAACCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCTC
* * ** * *
3290283 AGTGCTCCATATGGAAATTCATACATTCAGTATGATTTTCTTATCATTTTAGCAC
1 AGTGCTCTATCT-GAAAACCATACACTCAGTATGATTTCCTTATCATTTTAGCAC
3290338 ATATAGTGTC
Statistics
Matches: 289, Mismatches: 48, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
58 8 0.03
59 269 0.93
60 12 0.04
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (58 bp):
AGTGCTCTATCTGAAAACCATACACTCAGTATGATTTCCTTATCATTTTAGCACCCTC
Found at i:3290089 original size:118 final size:118
Alignment explanation
Indices: 3289909--3290337 Score: 442
Period size: 118 Copynumber: 3.6 Consensus size: 118
3289899 TATGATCCCT
* * *
3289909 TTACCATTTTTAGAACATGA-AGTGCCCTATATGAAAATCCATACTGTT-AGTATGATTTCCTTA
1 TTACCA-TTTTAGCACAT-ATAGTGCCCTATATGAAAATCCATA-TATTCAATATGATTTCCTTA
* * * *** *
3289972 TCCTTGTAGCACCCTGAGTGCTTTTTCTAGAAAACCATACACTCAGTATGA-TTCAC
63 TCATTTTAGCACCCTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTTC-C
* * *
3290028 TTACCATTTTAGCACATATAATGCCCTATCTGTAAATCCATATATTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATATAGTGCCCTATATGAAAATCCATATATTCAATATGATTTCCTTATCA
* * *
3290093 TTTTAGCACGCTCAGTGCTCCATATGGAAAGCCATACACTCAGTATGATTTCC
66 TTTTAGCACCCTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTTCC
* * * * *
3290146 TTATCATTTTAGCACATATAGTGCTCC-ATATGGAAATACATACACTCAATATGATTTCCTTATC
1 TTACCATTTTAGCACATATAGTGC-CCTATATGAAAATCCATATATTCAATATGATTTCCTTATC
* * * *
3290210 ATTTTAGCA-CATATAGTGCTCCATA-AGGAAATCCATACACTCAGTATGATTTCT
65 ATTTTAGCACCCT-CAGTGCTCCATATA-GAAAACCATACACTCAGTATGATTTCC
* * * * * *
3290264 TTATCATTTTAGCACACT-TAGTGCTCC-ATATGGAAATTCATACATTCAGTATGATTTTCTTAT
1 TTACCATTTTAGCACA-TATAGTGC-CCTATATGAAAATCCATATATTCAATATGATTTCCTTAT
3290327 CATTTTAGCAC
64 CATTTTAGCAC
3290338 ATATAGTGTC
Statistics
Matches: 269, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
117 5 0.02
118 252 0.94
119 12 0.04
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (118 bp):
TTACCATTTTAGCACATATAGTGCCCTATATGAAAATCCATATATTCAATATGATTTCCTTATCA
TTTTAGCACCCTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTTCC
Found at i:3290367 original size:59 final size:59
Alignment explanation
Indices: 3290001--3290345 Score: 464
Period size: 59 Copynumber: 5.8 Consensus size: 59
3289991 GCTTTTTCTA
* * * *
3290001 GAAAACCATACACTCAGTATGA-TTCACTTACCATTTTAGCACATATAATGC-CCTATCTG
1 GAAATCCATACACTCAGTATGATTTC-CTTATCATTTTAGCACATATAGTGCTCC-ATATG
* * * * * *
3290060 TAAATCCATATATTCAATATGATTTCCTTATCATTTTAGCACGCT-CAGTGCTCCATATG
1 GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCAC-ATATAGTGCTCCATATG
*
3290119 GAAAGCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATG
1 GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATG
* * *
3290178 GAAATACATACACTCAATATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATAAG
1 GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATG
*
3290237 GAAATCCATACACTCAGTATGATTTCTTTATCATTTTAGCACACT-TAGTGCTCCATATG
1 GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACA-TATAGTGCTCCATATG
* * *
3290296 GAAATTCATACATTCAGTATGATTTTCTTATCATTTTAGCACATATAGTG
1 GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTG
3290346 TCATTTGGTA
Statistics
Matches: 251, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
58 2 0.01
59 242 0.96
60 7 0.03
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (59 bp):
GAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATG
Found at i:3291652 original size:20 final size:20
Alignment explanation
Indices: 3291623--3291660 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3291613 TTTCAAAGGG
3291623 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
* *
3291643 ATGCATCGATTCACCAAT
1 ATGCACCGATGCACCAAT
3291661 GAATAAATTA
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:0.32, C:0.34, G:0.13, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:3291777 original size:19 final size:19
Alignment explanation
Indices: 3291753--3291804 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
3291743 AATGCATTTG
3291753 ATGCATCGATGCACAAGAC
1 ATGCATCGATGCACAAGAC
3291772 ATGCATCGATGCACAAGAC
1 ATGCATCGATGCACAAGAC
3291791 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3291805 TCAGGCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACAAGAC
Found at i:3291783 original size:84 final size:83
Alignment explanation
Indices: 3291688--3291849 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 83
3291678 AATGCAGTTT
* * ** * *
3291688 ATGCATTGATGCACTATCCATGCATTGATGCACTCAAGG-T-TTTATGAAAACATCAAATGCATT
1 ATGCATCGATGCACAAGACATGCATCGATGCACTC-AGGCTATTT-TG-AAACATCAAATGCACT
*
3291751 TGATGCATCGATGCACAAGAC
63 TCATGCATCGATGCACAAGAC
*
3291772 ATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCACTTCA
1 ATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGAAACATCAAATGCACTTCA
*
3291837 TGCATCGGTGCAC
66 TGCATCGATGCAC
3291850 TCTTAGTAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
83 31 0.46
84 33 0.49
85 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
ATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGAAACATCAAATGCACTTCA
TGCATCGATGCACAAGAC
Found at i:3297020 original size:44 final size:44
Alignment explanation
Indices: 3296926--3297211 Score: 414
Period size: 44 Copynumber: 6.5 Consensus size: 44
3296916 TCCATAAAGA
* * *
3296926 TTATTTTACCAATAGACTTACCATTAAATCCCTAAGCTCGTAAGC
1 TTATTTTACCAATATACTTACCATT-ATTCCATAAGCTCGTAAGC
* *
3296971 TTATTTTATCAATATACTTACAATTATTCCATAAGCTCGTAAGC
1 TTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGC
3297015 TTATTTTACCAATATACTTACCATTATAT-CATAAGCTCGTAAGC
1 TTATTTTACCAATATACTTACCATTAT-TCCATAAGCTCGTAAGC
* *
3297059 TTCTTTTACCCATATACTTACCATTATTCCATAAGCTCGTAAGC
1 TTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGC
** * *
3297103 TTATTTTACCCTTATACTTACCATTATTCCATAAACGCGTAAGC
1 TTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGC
* *
3297147 TTATTTTACCAATATACTTACCATTAAATCCCTAAGCTCGTAAGC
1 TTATTTTACCAATATACTTACCATT-ATTCCATAAGCTCGTAAGC
3297192 TTA-TTTACCAATATACTTAC
1 TTATTTTACCAATATACTTAC
3297212 TATAATTTGC
Statistics
Matches: 219, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.00
44 177 0.81
45 41 0.19
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (44 bp):
TTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGC
Found at i:3297415 original size:59 final size:58
Alignment explanation
Indices: 3297348--3297923 Score: 446
Period size: 59 Copynumber: 9.8 Consensus size: 58
3297338 AGAATATCAT
* * * *
3297348 ATAC-TTAATATGATTTCCTTCTCATTTTAGCACACGAAGTGCCCTAT-TTGAGAATCC
1 ATACATTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCCCTATATGGA-AATCC
* * * * * * *
3297405 ATACCATTAATACGATTACTTTACCATTTTTAGCAC-CTGAAGTGCCTTAT-TCGAGAATCC
1 ATA-CATTAGTATGATTTCCTTATCA-TTTTAGCACACT-AAGTGCCCTATATGGA-AATCC
* * *
3297465 ATACCATTAGTATGA--TCCATTTACCATTTTTAGCATA-TGAAGTGCCCTATATGAAAATCC
1 ATA-CATTAGTATGATTTCC--TTATCA-TTTTAGCACACT-AAGTGCCCTATATGGAAATCC
** * * * ** * *
3297525 ATATTGTTAGTATGATTTCCTTATCCTTGTAGCACCCTTAA-TGCTTTTTCTGGAAATCC
1 ATA-CATTAGTATGATTTCCTTATCATTTTAGCACAC-TAAGTGCCCTATATGGAAATCC
* * *
3297584 ATACACTTAGTATGA-TTCACTTACCATTTTAGCACA-TATAATGCCCTATCTGGAAATCC
1 ATACA-TTAGTATGATTTC-CTTATCATTTTAGCACACTA-AGTGCCCTATATGGAAATCC
* * * * *
3297643 ATATATTCAATATGATTTCCTTATCACTTTAGCACACTCAGTGCTCTATATGGAAATCC
1 ATACATT-AGTATGATTTCCTTATCATTTTAGCACACTAAGTGCCCTATATGGAAATCC
* *
3297702 ATACACTCAGTATGATTTCCTCATCATTTTAGCACA-TATAGTGCTCC-ATATGGAAATCC
1 ATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTA-AGTGC-CCTATATGGAAATCC
** *
3297761 ATACACACAATATGATTTCCTTATCATTTTAGCACA-TATAGTGCTCC-ATATGGAAATCC
1 ATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTA-AGTGC-CCTATATGGAAATCC
* * * *
3297820 ATACACTCAGTATGATTTCTTTATCATTTTAGCACACTTAGTGCTCC-ATATGGAAATTC
1 ATACA-TTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGC-CCTATATGGAAATCC
3297879 ATACATTCAGTATGATTTCCTTATCATTTTAGCACA-TATAGTGCC
1 ATACATT-AGTATGATTTCCTTATCATTTTAGCACACTA-AGTGCC
3297924 ATTTGGTAAT
Statistics
Matches: 430, Mismatches: 64, Indels: 49
0.79 0.12 0.09
Matches are distributed among these distances:
57 5 0.01
58 12 0.03
59 309 0.72
60 98 0.23
61 3 0.01
62 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (58 bp):
ATACATTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCCCTATATGGAAATCC
Found at i:3297439 original size:60 final size:60
Alignment explanation
Indices: 3297372--3297527 Score: 199
Period size: 60 Copynumber: 2.6 Consensus size: 60
3297362 TTCCTTCTCA
3297372 TTTTAGCACACGAAGTGCCCTATTTGAGAATCCATACCATTAATACGATTAC-TTTACCAT
1 TTTTAGCACACGAAGTGCCCTATTTGAGAATCCATACCATTAATACGA-TACATTTACCAT
* * * * *
3297432 TTTTAGCAC-CTGAAGTGCCTTATTCGAGAATCCATACCATTAGTATGATCCATTTACCAT
1 TTTTAGCACAC-GAAGTGCCCTATTTGAGAATCCATACCATTAATACGATACATTTACCAT
* * * *
3297492 TTTTAGCATATGAAGTGCCCTATATGAAAATCCATA
1 TTTTAGCACACGAAGTGCCCTATTTGAGAATCCATA
3297528 TTGTTAGTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.04
60 79 0.96
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (60 bp):
TTTTAGCACACGAAGTGCCCTATTTGAGAATCCATACCATTAATACGATACATTTACCAT
Found at i:3297717 original size:177 final size:178
Alignment explanation
Indices: 3297505--3297918 Score: 505
Period size: 177 Copynumber: 2.3 Consensus size: 178
3297495 TAGCATATGA
* * *** * * * *
3297505 AGTGCCCTATATGAAAATCCATATTGTTAGTATGATTTCCTTATCCTTGTAGCACCCT-TAATGC
1 AGTGCTCTATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCATATAATGC
*** * ** *
3297569 TTTTTCTGGAAATCCATACACTTAGTATGA-TTCACTTACCATTTTAGCACATATAATGC-CCTA
66 TCCATATGGAAATCCATACACACAATATGATTTC-CTTACCATTTTAGCACATATAATGCTCC-A
* * *
3297632 TCTGGAAATCCATATATTCAATATGATTTCCTTATCACTTTAGCACACTC
129 TATGGAAATCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTC
* *
3297682 AGTGCTCTATATGGAAATCCATACACTCAGTATGATTTCCTCATCATTTTAGCA-CATATAGTGC
1 AGTGCTCTATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCATATAATGC
* *
3297746 TCCATATGGAAATCCATACACACAATATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATA
66 TCCATATGGAAATCCATACACACAATATGATTTCCTTACCATTTTAGCACATATAATGCTCCATA
* * * *
3297811 TGGAAATCCATACACTCAGTATGATTTCTTTATCATTTTAGCACACTT
131 TGGAAATCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTC
* * *
3297859 AGTGCTCCATATGGAAATTCATACATTCAGTATGATTTCCTTATCATTTTAGCA-CATATA
1 AGTGCTCTATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCATATA
3297919 GTGCCATTTG
Statistics
Matches: 203, Mismatches: 31, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
176 2 0.01
177 196 0.97
178 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (178 bp):
AGTGCTCTATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCATATAATGC
TCCATATGGAAATCCATACACACAATATGATTTCCTTACCATTTTAGCACATATAATGCTCCATA
TGGAAATCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTC
Found at i:3297914 original size:118 final size:118
Alignment explanation
Indices: 3297575--3297922 Score: 506
Period size: 118 Copynumber: 2.9 Consensus size: 118
3297565 ATGCTTTTTC
* * * *
3297575 TGGAAATCCATACACTTAGTATGA-TTCACTTACCATTTTAGCACATATAATGC-CCTATCTGGA
1 TGGAAATCCATACACTCAGTATGATTTC-CTTATCATTTTAGCACATATAGTGCTCC-ATATGGA
* * * *
3297638 AATCCATATATTCAATATGATTTCCTTATCACTTTAGCACACT-CAGTGCTCTATA
64 AATCCATACATTCAATATGATTTCCTTATCATTTTAGCACA-TATAGTGCTCCATA
*
3297693 TGGAAATCCATACACTCAGTATGATTTCCTCATCATTTTAGCACATATAGTGCTCCATATGGAAA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATGGAAA
**
3297758 TCCATACACACAATATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATA
66 TCCATACATTCAATATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATA
*
3297811 TGGAAATCCATACACTCAGTATGATTTCTTTATCATTTTAGCACACT-TAGTGCTCCATATGGAA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACA-TATAGTGCTCCATATGGAA
* *
3297875 ATTCATACATTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGC
65 ATCCATACATTCAATATGATTTCCTTATCATTTTAGCACATATAGTGC
3297923 CATTTGGTAA
Statistics
Matches: 209, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
117 1 0.00
118 202 0.97
119 6 0.03
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (118 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATGGAAA
TCCATACATTCAATATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATA
Found at i:3297919 original size:177 final size:177
Alignment explanation
Indices: 3297575--3297922 Score: 520
Period size: 177 Copynumber: 2.0 Consensus size: 177
3297565 ATGCTTTTTC
** * *
3297575 TGGAAATCCATACACTTAGTATGATTCACTTACCATTTTAGCACATATAATGCCCTATCTGGAAA
1 TGGAAATCCATACACACAATATGATTCACTTACCATTTTAGCACATATAATGCCCTATATGGAAA
* * *
3297640 TCCATATATTCAATATGATTTCCTTATCACTTTAGCACACTCAGTGCTCTATATGGAAATCCATA
66 TCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTCAGTGCTCCATATGGAAATCCATA
3297705 CACTCAGTATGATTTCCTCATCATTTTAGCACATATAGTGCTCCATA
131 CACTCAGTATGATTTCCTCATCATTTTAGCACATATAGTGCTCCATA
* *
3297752 TGGAAATCCATACACACAATATGATTTC-CTTATCATTTTAGCACATATAGTGCTCC-ATATGGA
1 TGGAAATCCATACACACAATATGA-TTCACTTACCATTTTAGCACATATAATGC-CCTATATGGA
* * * * *
3297815 AATCCATACACTCAGTATGATTTCTTTATCATTTTAGCACACTTAGTGCTCCATATGGAAATTCA
64 AATCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTCAGTGCTCCATATGGAAATCCA
* *
3297880 TACATTCAGTATGATTTCCTTATCATTTTAGCACATATAGTGC
129 TACACTCAGTATGATTTCCTCATCATTTTAGCACATATAGTGC
3297923 CATTTGGTAA
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
177 148 0.97
178 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (177 bp):
TGGAAATCCATACACACAATATGATTCACTTACCATTTTAGCACATATAATGCCCTATATGGAAA
TCCATACACTCAATATGATTTCCTTATCACTTTAGCACACTCAGTGCTCCATATGGAAATCCATA
CACTCAGTATGATTTCCTCATCATTTTAGCACATATAGTGCTCCATA
Found at i:3303831 original size:21 final size:21
Alignment explanation
Indices: 3303805--3303857 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
3303795 ACCAAATAAA
*
3303805 AATAATAATAGTAA-ACGTAGT
1 AATAATAATAGTAACA-GTAAT
*
3303826 AATAATAATAATAACAGTAAT
1 AATAATAATAGTAACAGTAAT
*
3303847 GATAATAATAG
1 AATAATAATAG
3303858 ACACTAACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (21 bp):
AATAATAATAGTAACAGTAAT
Found at i:3309338 original size:14 final size:14
Alignment explanation
Indices: 3309316--3309346 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3309306 TCGATTATAT
*
3309316 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
3309330 GTTCATTTATGTTC
1 GTTCATTTATGTTC
3309344 GTT
1 GTT
3309347 TATATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:3311450 original size:53 final size:53
Alignment explanation
Indices: 3311370--3311476 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
3311360 TGAGGGTGGG
3311370 CACTAAAATCCGAATTTATTCGATTAGTTACTTATTATATTGACAGTGCCCAC
1 CACTAAAATCCGAATTTATTCGATTAGTTACTTATTATATTGACAGTGCCCAC
3311423 CACTAAAATCCGAATTTATTCGATTAGTTACTTATTATATTGACAGTGCCCAC
1 CACTAAAATCCGAATTTATTCGATTAGTTACTTATTATATTGACAGTGCCCAC
3311476 C
1 C
3311477 CTGAATTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (53 bp):
CACTAAAATCCGAATTTATTCGATTAGTTACTTATTATATTGACAGTGCCCAC
Found at i:3316910 original size:21 final size:21
Alignment explanation
Indices: 3316869--3316910 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3316859 TTGATAAAAA
*
3316869 ATTATTTAAAAAATTATTATT
1 ATTATTTAAAAAATTAATATT
3316890 ATTATTTAAAACAA-TAATATT
1 ATTATTTAAAA-AATTAATATT
3316911 TTTTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTATTTAAAAAATTAATATT
Done.