Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 179 of 199
Found at i:57249426 original size:23 final size:23
Alignment explanation
Indices: 57249399--57249474 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
57249389 AGTGTTATTG
*
57249399 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57249422 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57249445 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
57249468 ATCAGTG
1 ATCAGTG
57249475 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:57250957 original size:18 final size:17
Alignment explanation
Indices: 57250924--57250960 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
57250914 ATGGAATGAG
*
57250924 AATAAATTTTTTAATTA
1 AATAAATTTATTAATTA
57250941 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
57250959 AA
1 AA
57250961 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Found at i:57254551 original size:30 final size:30
Alignment explanation
Indices: 57254517--57254583 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
57254507 GTTCAATTTT
*
57254517 TTTGTTAAATTTGTCTTATTTATTATGGTA
1 TTTGTTAAATTTGTCCTATTTATTATGGTA
*
57254547 TTTGTTAAATTTTTCCTATTTATTATGGTA
1 TTTGTTAAATTTGTCCTATTTATTATGGTA
57254577 TTATGTT
1 TT-TGTT
57254584 CAACTTGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.61
Consensus pattern (30 bp):
TTTGTTAAATTTGTCCTATTTATTATGGTA
Found at i:57255681 original size:20 final size:19
Alignment explanation
Indices: 57255635--57255691 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
57255625 TTTAATTAAT
57255635 ATTTTAAAGTTTTAAAAAA
1 ATTTTAAAGTTTTAAAAAA
** * *
57255654 ATAATAAATGTTTTTAAATA
1 ATTTTAAA-GTTTTAAAAAA
*
57255674 ATTTTAAAATTTTAAAAA
1 ATTTTAAAGTTTTAAAAA
57255692 TAAGTTATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTTTAAAGTTTTAAAAAA
Found at i:57256689 original size:13 final size:13
Alignment explanation
Indices: 57256671--57256695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57256661 ATTAAAACTA
57256671 AAATTAACTAAAT
1 AAATTAACTAAAT
57256684 AAATTAACTAAA
1 AAATTAACTAAA
57256696 GAACACGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAACTAAAT
Found at i:57259166 original size:3 final size:3
Alignment explanation
Indices: 57259158--57259216 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
57259148 TAATGTAGGT
* *
57259158 ATA ATA ATA ATT AT- ATA AT- ATA ATA ATA ATAA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
57259202 ATA CAGTA ATA ATA A
1 ATA -A-TA ATA ATA A
57259217 CAATTTAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
2 4 0.08
3 37 0.77
4 5 0.10
5 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:57259182 original size:16 final size:15
Alignment explanation
Indices: 57259161--57259204 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
57259151 TGTAGGTATA
*
57259161 ATAATAATTATATAAT
1 ATAATAATAATA-AAT
57259177 ATAATAATAATAAAT
1 ATAATAATAATAAAT
57259192 ACTAATAATAATA
1 A-TAATAATAATA
57259205 CAGTAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:57259197 original size:10 final size:10
Alignment explanation
Indices: 57259158--57259204 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
57259148 TAATGTAGGT
57259158 ATAATAATAA
1 ATAATAATAA
*
57259168 TTATATAATATA
1 ATA-ATAATA-A
57259180 ATAATAATAA
1 ATAATAATAA
*
57259190 ATACTAAT-A
1 ATAATAATAA
57259199 ATAATA
1 ATAATA
57259205 CAGTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 10 0.32
11 12 0.39
12 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAATAATAA
Found at i:57259199 original size:19 final size:19
Alignment explanation
Indices: 57259157--57259204 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
57259147 ATAATGTAGG
*
57259157 TATAATAATAATTATATAA
1 TATAATAATAATTAAATAA
*
57259176 TATAATAATAA-TAAATAC
1 TATAATAATAATTAAATAA
57259194 TAATAATAATA
1 T-ATAATAATA
57259205 CAGTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAATAATAATTAAATAA
Found at i:57259241 original size:20 final size:20
Alignment explanation
Indices: 57259204--57259241 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57259194 TAATAATAAT
*
57259204 ACAGTAATAATAACAATTTA
1 ACAGTAATAATAAAAATTTA
57259224 ACAGTATATAA-AAAAATT
1 ACAGTA-ATAATAAAAATT
57259242 AAAAATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (20 bp):
ACAGTAATAATAAAAATTTA
Found at i:57260338 original size:13 final size:14
Alignment explanation
Indices: 57260308--57260340 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
57260298 TTAAATGTTA
*
57260308 AAATAATAAAAAGT
1 AAATAATAAAAAGG
57260322 AAATAAT-AAAAGG
1 AAATAATAAAAAGG
57260335 AAATAA
1 AAATAA
57260341 AAACAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (14 bp):
AAATAATAAAAAGG
Found at i:57261078 original size:3 final size:3
Alignment explanation
Indices: 57261064--57261122 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
57261054 GTGAGGTAAG
* * *
57261064 TAT TAG TAT TAT TAT TGT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57261112 TAT TAT TAT TA
1 TAT TAT TAT TA
57261123 AGATGAGTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:57261541 original size:37 final size:39
Alignment explanation
Indices: 57261482--57261574 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
57261472 CGGATAGATT
* * * *
57261482 CGATGAGGTACTGGGTAACAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGACAACTATTGCTTCGAACTAT-C
* *
57261519 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGACAACTATTGCTTCGAACTATC
57261558 CGATGAGGCACTGGGTG
1 CGATGAGGCACTGGGTG
57261575 CCAATCTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGACAACTATTGCTTCGAACTATC
Found at i:57265293 original size:29 final size:27
Alignment explanation
Indices: 57265252--57265305 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
57265242 ACCGAAATCA
*
57265252 TATAAAAATAATTAATTATAAAAATGG
1 TATAAAAATAATTAATTACAAAAATGG
57265279 TATAGAAAATAAATTAATTACAAAAAT
1 TATA-AAAAT-AATTAATTACAAAAAT
57265306 AAGGCATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 5 0.21
29 15 0.62
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
TATAAAAATAATTAATTACAAAAATGG
Found at i:57281332 original size:15 final size:14
Alignment explanation
Indices: 57281312--57281341 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
57281302 ATAACCTTCT
57281312 AAATATTTATTATTA
1 AAATATTTA-TATTA
57281327 AAATATTTATATTA
1 AAATATTTATATTA
57281341 A
1 A
57281342 TCAAAATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:57284957 original size:31 final size:33
Alignment explanation
Indices: 57284922--57284985 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
57284912 AGCCCAACTC
57284922 AAATTT-AATTTAAATAATAAAAA-ATA-TTTTA
1 AAATTTAAATTT-AATAATAAAAACATACTTTTA
*
57284953 AAATTTAAATTTAATTATAAAAACATACTTTTA
1 AAATTTAAATTTAATAATAAAAACATACTTTTA
57284986 TTTTTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 16 0.55
32 8 0.28
33 5 0.17
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
AAATTTAAATTTAATAATAAAAACATACTTTTA
Found at i:57285227 original size:34 final size:34
Alignment explanation
Indices: 57285184--57285255 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
57285174 GGAAACAGCA
*
57285184 TGGGGGTTGCTACGACGTGGGGCGTGCACGGCGC
1 TGGGGGTTGCTACGACGTGGGGCGTGCACGACGC
** *
57285218 TGGGGGTTGCTGTGACGTGGGGTGTGCACGACGC
1 TGGGGGTTGCTACGACGTGGGGCGTGCACGACGC
57285252 TGGG
1 TGGG
57285256 AGAGAAGGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.08, C:0.19, G:0.51, T:0.21
Consensus pattern (34 bp):
TGGGGGTTGCTACGACGTGGGGCGTGCACGACGC
Found at i:57285250 original size:16 final size:18
Alignment explanation
Indices: 57285186--57285255 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 18
57285176 AAACAGCATG
57285186 GGGGT-TGCTACGACG-T
1 GGGGTGTGCTACGACGCT
* *
57285202 GGGGCGTGC-ACGGCGCT
1 GGGGTGTGCTACGACGCT
**
57285219 GGGG-GTTGCTGTGACG-T
1 GGGGTG-TGCTACGACGCT
57285236 GGGGTGTGC-ACGACGCT
1 GGGGTGTGCTACGACGCT
57285253 GGG
1 GGG
57285256 AGAGAAGGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
16 14 0.34
17 23 0.56
18 4 0.10
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (18 bp):
GGGGTGTGCTACGACGCT
Found at i:57288242 original size:3 final size:3
Alignment explanation
Indices: 57288234--57288297 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
57288224 TTTAGCAATT
* * *
57288234 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA GTA -TA TTTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
57288279 TTA TTG TCA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA T
57288298 GTTTTTTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:57288359 original size:14 final size:14
Alignment explanation
Indices: 57288342--57288381 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
57288332 GATATATATG
*
57288342 TTTTATTATATTAT
1 TTTTATTATATAAT
57288356 TTTTATTATATAAT
1 TTTTATTATATAAT
57288370 TGTTTA-TATATA
1 T-TTTATTATATA
57288382 TGCGTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTTATTATATAAT
Found at i:57288921 original size:18 final size:19
Alignment explanation
Indices: 57288876--57288924 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
57288866 GCTTAGGTGC
* *
57288876 TTTAATTTTTATTTGTTCA
1 TTTACTTTTTATTTATTCA
*
57288895 TTTAC-TTTTATTTATTGA
1 TTTACTTTTTATTTATTCA
57288913 TTT-CTTTTTATT
1 TTTACTTTTTATT
57288925 ATATGTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.81
19 4 0.15
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTACTTTTTATTTATTCA
Found at i:57296361 original size:15 final size:14
Alignment explanation
Indices: 57296341--57296370 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
57296331 ATAACCTTCT
57296341 AAATATTTATGATTA
1 AAATATTTAT-ATTA
57296356 AAATATTTATATTA
1 AAATATTTATATTA
57296370 A
1 A
57296371 TCAAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:57298882 original size:37 final size:37
Alignment explanation
Indices: 57298841--57298926 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
57298831 TAATGCTTTC
**
57298841 TGCTATAATGTTGTCCTCCGCAAGTTTTATTTCAATT
1 TGCTATAATGTTGTCCTCCGCAAGTTTTATTGAAATT
57298878 TGCTATAATGTTGTCCTCCGCAAGTTTTATTGAAATT
1 TGCTATAATGTTGTCCTCCGCAAGTTTTATTGAAATT
57298915 TGCTATAATGTT
1 TGCTATAATGTT
57298927 TTATCTCACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.45
Consensus pattern (37 bp):
TGCTATAATGTTGTCCTCCGCAAGTTTTATTGAAATT
Found at i:57301045 original size:33 final size:33
Alignment explanation
Indices: 57300980--57301045 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
57300970 GGTCCAACTC
*
57300980 AAATTTAATTTAAATAATACAAAATTATTTTTA
1 AAATTTAATTTAAATAATACAAAATTACTTTTA
*
57301013 AAATTTAAATTT-AATTATA-AAAATATACTTTTA
1 AAATTT-AATTTAAATAATACAAAAT-TACTTTTA
57301046 TTTTTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
33 19 0.66
34 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATTTAATTTAAATAATACAAAATTACTTTTA
Found at i:57305205 original size:16 final size:16
Alignment explanation
Indices: 57305184--57305215 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57305174 AATTTCACAC
57305184 CCTAATACAACTCATT
1 CCTAATACAACTCATT
57305200 CCTAATACAACTCATT
1 CCTAATACAACTCATT
57305216 GACTTGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
CCTAATACAACTCATT
Found at i:57311442 original size:23 final size:23
Alignment explanation
Indices: 57311416--57311470 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
57311406 AATTAAAAAG
57311416 ATGAAAGCAT-TATAACTATCATT
1 ATGAAAGCATAT-TAACTATCATT
**
57311439 ATGAAAGCATATTAGTTATCATT
1 ATGAAAGCATATTAACTATCATT
57311462 ATGAAAGCA
1 ATGAAAGCA
57311471 AAAGATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (23 bp):
ATGAAAGCATATTAACTATCATT
Found at i:57311503 original size:23 final size:23
Alignment explanation
Indices: 57311475--57311526 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
57311465 AAAGCAAAAG
57311475 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
57311498 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
57311521 ATGAAA
1 ATGAAA
57311527 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:57311503 original size:59 final size:59
Alignment explanation
Indices: 57311411--57311526 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
57311401 TTAATAATTA
*
57311411 AAAAGATGAAAGCATTATAACTATCATTATGAAAGCATATTAGTTATCATTATGAAAGC
1 AAAAGATGAAAGCATTATAACTATCATTATGAAAGCATATTAGCTATCATTATGAAAGC
* *
57311470 AAAAGATGAAAGCATTATAGCTATCATTATGAAAGCATATTAGCTATTATTATGAAA
1 AAAAGATGAAAGCATTATAACTATCATTATGAAAGCATATTAGCTATCATTATGAAA
57311527 CCAAGTTGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (59 bp):
AAAAGATGAAAGCATTATAACTATCATTATGAAAGCATATTAGCTATCATTATGAAAGC
Found at i:57315398 original size:33 final size:33
Alignment explanation
Indices: 57315333--57315398 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
57315323 AGTCCAACTC
*
57315333 AAATTTAATTTAAATAATAAAAAATTATTTTTA
1 AAATTTAATTTAAATAATAAAAAATTACTTTTA
*
57315366 AAATTTAAATTT-AATTATAAAATAA-TACTTTTA
1 AAATTT-AATTTAAATAATAAAA-AATTACTTTTA
57315399 TTTTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATTTAATTTAAATAATAAAAAATTACTTTTA
Found at i:57317673 original size:53 final size:53
Alignment explanation
Indices: 57317593--57317695 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
57317583 CTATTTTTGG
57317593 AATTGTTACTGTAATTGAGTCTATTCTGCCTGTTTGGGTTGAGTTACACATGT
1 AATTGTTACTGTAATTGAGTCTATTCTGCCTGTTTGGGTTGAGTTACACATGT
*
57317646 AATTGTTACTGTATTTGAGTCTATTCTGCCTGTTTGGGTTGAGTTACACA
1 AATTGTTACTGTAATTGAGTCTATTCTGCCTGTTTGGGTTGAGTTACACA
57317696 CTAAGCCTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (53 bp):
AATTGTTACTGTAATTGAGTCTATTCTGCCTGTTTGGGTTGAGTTACACATGT
Found at i:57318780 original size:38 final size:37
Alignment explanation
Indices: 57318723--57318797 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
57318713 TTACAACTTG
* *
57318723 AATTTAATTTAAATAATAAAATATATTTTTAA-ATTTTA
1 AATTTAATTAAAATAATAAAA-A-AATTTTAATATTTTA
57318761 AATTTAATTAAAA-ATATAAAAAAATTTTAATATTTTA
1 AATTTAATTAAAATA-ATAAAAAAATTTTAATATTTTA
57318798 TTATTTTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 7 0.21
37 8 0.24
38 18 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
AATTTAATTAAAATAATAAAAAAATTTTAATATTTTA
Found at i:57318788 original size:37 final size:38
Alignment explanation
Indices: 57318723--57318797 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 38
57318713 TTACAACTTG
* *
57318723 AATTTAATTTAAATAATAAAATATATTTTTAA-ATTTTA
1 AATTTAATTTAAATAATAAAA-AAAATTTTAATATTTTA
57318761 AATTTAA-TTAAA-AATATAAAAAAATTTTAATATTTTA
1 AATTTAATTTAAATAATA-AAAAAAATTTTAATATTTTA
57318798 TTATTTTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 12 0.36
37 14 0.42
38 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
AATTTAATTTAAATAATAAAAAAAATTTTAATATTTTA
Found at i:57330601 original size:17 final size:18
Alignment explanation
Indices: 57330579--57330624 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
57330569 TATAAAATCA
*
57330579 TTTAAAAAAATCAAAAT-
1 TTTAAAAAAATAAAAATG
*
57330596 TTTAAAAATATAAAAATG
1 TTTAAAAAAATAAAAATG
*
57330614 TTTATAAAAAT
1 TTTAAAAAAAT
57330625 TATAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TTTAAAAAAATAAAAATG
Found at i:57330644 original size:16 final size:17
Alignment explanation
Indices: 57330617--57330651 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
57330607 AAAAATGTTT
57330617 ATAAAAATTATAGAAAA
1 ATAAAAATTATAGAAAA
*
57330634 ATAAAAA-TATAGAGAA
1 ATAAAAATTATAGAAAA
57330650 AT
1 AT
57330652 TTTGTAGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (17 bp):
ATAAAAATTATAGAAAA
Found at i:57330649 original size:18 final size:17
Alignment explanation
Indices: 57330617--57330650 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57330607 AAAAATGTTT
*
57330617 ATAAAAATTATAGAAAA
1 ATAAAAATTAGAGAAAA
57330634 ATAAAAATATAGAGAAA
1 ATAAAAAT-TAGAGAAA
57330651 TTTTGTAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
ATAAAAATTAGAGAAAA
Found at i:57335853 original size:15 final size:15
Alignment explanation
Indices: 57335828--57335870 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
57335818 AGAATTTGCA
57335828 AAACTGAAGCAAGAAG
1 AAAC-GAAGCAAGAAG
*
57335844 AATCGAAGCAAAGAAG
1 AAACGAAGC-AAGAAG
57335860 AAAC-AAGCAAG
1 AAACGAAGCAAG
57335871 CAAAGCAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.12
15 9 0.38
16 12 0.50
ACGTcount: A:0.58, C:0.14, G:0.23, T:0.05
Consensus pattern (15 bp):
AAACGAAGCAAGAAG
Found at i:57338608 original size:28 final size:28
Alignment explanation
Indices: 57338568--57338623 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
57338558 CTTCAAGAAG
57338568 TAGACCCAGCACAACCTAGTTAAATCAT
1 TAGACCCAGCACAACCTAGTTAAATCAT
57338596 TAGACCCAGCACAACCTAGTTAAATCAT
1 TAGACCCAGCACAACCTAGTTAAATCAT
57338624 CTATGAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (28 bp):
TAGACCCAGCACAACCTAGTTAAATCAT
Found at i:57340441 original size:15 final size:15
Alignment explanation
Indices: 57340421--57340458 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
57340411 TTGCAAAATT
*
57340421 GAAGCAAGAAGAATC
1 GAAGCAAGAAGAAAC
57340436 GAAGCAAAGAAGAAAC
1 GAAGC-AAGAAGAAAC
57340452 -AAGCAAG
1 GAAGCAAG
57340459 CAAAGCAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 9 0.43
ACGTcount: A:0.58, C:0.13, G:0.26, T:0.03
Consensus pattern (15 bp):
GAAGCAAGAAGAAAC
Found at i:57340931 original size:19 final size:19
Alignment explanation
Indices: 57340907--57340944 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57340897 AAATCCGGCC
57340907 TATGAGATAAACCATTCAG
1 TATGAGATAAACCATTCAG
57340926 TATGAGATAAACCATTCAG
1 TATGAGATAAACCATTCAG
57340945 ATTGAACTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
TATGAGATAAACCATTCAG
Found at i:57350756 original size:26 final size:28
Alignment explanation
Indices: 57350721--57350773 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
57350711 GGTAATTTTC
57350721 TTTCATTTGCTTCATTCATGAC-ATGCT
1 TTTCATTTGCTTCATTCATGACTATGCT
57350748 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTGCTTCATTCATGACTATGC
57350774 AATGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTCATTCATGACTATGCT
Found at i:57352640 original size:45 final size:45
Alignment explanation
Indices: 57352576--57352666 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
57352566 GGAAAATGTC
57352576 TCGAGTGAAAGAGTAAAAATGCATGATGCAGAGAGAGACATGGCA
1 TCGAGTGAAAGAGTAAAAATGCATGATGCAGAGAGAGACATGGCA
* *
57352621 TCGAGTGAAAGAGTTAAAATGCATGATGCAGTGAGAGACATGGCA
1 TCGAGTGAAAGAGTAAAAATGCATGATGCAGAGAGAGACATGGCA
57352666 T
1 T
57352667 TGTCGATCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.19
Consensus pattern (45 bp):
TCGAGTGAAAGAGTAAAAATGCATGATGCAGAGAGAGACATGGCA
Found at i:57352644 original size:23 final size:22
Alignment explanation
Indices: 57352568--57352644 Score: 54
Period size: 23 Copynumber: 3.4 Consensus size: 22
57352558 TGCTTGTTGG
57352568 AAAATGTC-TCGAGTGAAAGAGT
1 AAAATG-CATCGAGTGAAAGAGT
*
57352590 AAAAATGCAT-GA-TGCAGAGAG-
1 -AAAATGCATCGAGTG-AAAGAGT
*
57352611 AGACATGGCATCGAGTGAAAGAGTT
1 A-AAAT-GCATCGAGTGAAAGAG-T
57352636 AAAATGCAT
1 AAAATGCAT
57352645 GATGCAGTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
20 1 0.02
21 5 0.12
22 12 0.29
23 18 0.43
24 5 0.12
25 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.27, T:0.19
Consensus pattern (22 bp):
AAAATGCATCGAGTGAAAGAGT
Found at i:57355992 original size:30 final size:31
Alignment explanation
Indices: 57355958--57356021 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
57355948 TCCATATTTA
57355958 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
57355988 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
57356019 TGG
1 TGG
57356022 CATTATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:57355998 original size:15 final size:16
Alignment explanation
Indices: 57355956--57356006 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
57355946 TATCCATATT
57355956 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
57355972 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
57355987 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
57356002 TATGG
1 TATGG
57356007 GTATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:57360615 original size:30 final size:30
Alignment explanation
Indices: 57360581--57360674 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
57360571 TCCATATTTA
57360581 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
57360611 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57360641 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57360672 TGG
1 TGG
57360675 CATTATAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 54 0.87
31 8 0.13
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57360621 original size:15 final size:16
Alignment explanation
Indices: 57360579--57360659 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 16
57360569 TATCCATATT
57360579 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
57360595 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
57360610 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
57360625 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
57360640 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
57360655 TATGG
1 TATGG
57360660 GTATCGAGAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.16
15 28 0.57
16 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:57361984 original size:30 final size:30
Alignment explanation
Indices: 57361950--57362043 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
57361940 TCCATATTTA
57361950 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
57361980 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57362010 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57362041 TGG
1 TGG
57362044 CATTATAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 54 0.87
31 8 0.13
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57361990 original size:15 final size:16
Alignment explanation
Indices: 57361948--57362028 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 16
57361938 TATCCATATT
57361948 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
57361964 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
57361979 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
57361994 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
57362009 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
57362024 TATGG
1 TATGG
57362029 GTATCGAGAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.16
15 28 0.57
16 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:57369528 original size:40 final size:40
Alignment explanation
Indices: 57369433--57369516 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 40
57369423 ATTATTAAAT
* * *
57369433 ATGATCAATATATTTTAAGTCATGGTAACTTTATAAATAC
1 ATGATCAATATATTTTAAGTCATGGTAACTTAATAAAAAA
57369473 ATGATCAATATATTTTAAGTCATGGTAACTTAAATAATAAAA
1 ATGATCAATATATTTTAAGTCATGGTAACTT-AATAA-AAAA
57369515 AT
1 AT
57369517 ATTTTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 31 0.79
41 4 0.10
42 4 0.10
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (40 bp):
ATGATCAATATATTTTAAGTCATGGTAACTTAATAAAAAA
Found at i:57372562 original size:20 final size:20
Alignment explanation
Indices: 57372534--57372571 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57372524 TATTTTCCAC
*
57372534 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
57372554 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
57372572 TCATTTTACG
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:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:57372576 original size:34 final size:35
Alignment explanation
Indices: 57372520--57372586 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
57372510 CAAACACCAG
* *
57372520 AAAATATTTTCCACTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCACGAAATCATTTTACAGAAAAGT
*
57372555 AAAACATTTTCCA-GAAATCATTTTACGGAAAA
1 AAAACATTTTCCACGAAATCATTTTACAGAAAA
57372587 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCACGAAATCATTTTACAGAAAAGT
Found at i:57372578 original size:14 final size:14
Alignment explanation
Indices: 57372555--57372594 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57372545 ACAGAAAAGT
*
57372555 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
57372569 AAATCATTTTACGG
1 AAAACATTTTACAG
57372583 AAAACATTTTAC
1 AAAACATTTTAC
57372595 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:57373270 original size:40 final size:40
Alignment explanation
Indices: 57373226--57373309 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
57373216 AAGCATTTAA
57373226 TTAAT-ATTTTAAAGTTTTAAAAAATAA-TAATAAATATTTT
1 TTAATAATTTTAAA-TTTTAAAAAATAAGTAATAAAT-TTTT
* *
57373266 TTAATAATTTTAAATTTTAAAAAATAAGTTATATATTTTT
1 TTAATAATTTTAAATTTTAAAAAATAAGTAATAAATTTTT
57373306 TTAA
1 TTAA
57373310 AACCTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (40 bp):
TTAATAATTTTAAATTTTAAAAAATAAGTAATAAATTTTT
Found at i:57373763 original size:17 final size:17
Alignment explanation
Indices: 57373722--57373764 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
57373712 AATTCAAAAT
* * *
57373722 AATTTTTAAATTTTTAA
1 AATTTATAAAATTTCAA
57373739 ATATTTATAAAATTTCAA
1 A-ATTTATAAAATTTCAA
57373757 AATTTATA
1 AATTTATA
57373765 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTATAAAATTTCAA
Found at i:57373782 original size:24 final size:24
Alignment explanation
Indices: 57373742--57373789 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57373732 TTTTTAAATA
* *
57373742 TTTATAAAATTTCAAAATTTATAT
1 TTTATAAAATTTAAAAATATATAT
57373766 TTTA-AAAATTCTAAAAATATATAT
1 TTTATAAAATT-TAAAAATATATAT
57373790 AAATAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTATAAAATTTAAAAATATATAT
Found at i:57381961 original size:26 final size:27
Alignment explanation
Indices: 57381932--57381985 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
57381922 TATCTACTTT
57381932 CTTTAATTTGCTTCATTCATGAC-ATG
1 CTTTAATTTGCTTCATTCATGACTATG
**
57381958 CTTTTCTTTGCTTCATTCATGACTATG
1 CTTTAATTTGCTTCATTCATGACTATG
57381985 C
1 C
57381986 AATGATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (27 bp):
CTTTAATTTGCTTCATTCATGACTATG
Found at i:57389111 original size:16 final size:16
Alignment explanation
Indices: 57389090--57389123 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57389080 TCCCAATAAC
57389090 GAAAGGAATGGGACCT
1 GAAAGGAATGGGACCT
57389106 GAAAGGAATGGGACCT
1 GAAAGGAATGGGACCT
57389122 GA
1 GA
57389124 TAGTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (16 bp):
GAAAGGAATGGGACCT
Found at i:57391383 original size:17 final size:17
Alignment explanation
Indices: 57391361--57391399 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
57391351 AGATATAAGA
* *
57391361 TTTAAATAATTTTTAAT
1 TTTAAAAAATTTTGAAT
57391378 TTTAAAAAAATTTTGAAT
1 TTT-AAAAAATTTTGAAT
57391396 TTTA
1 TTTA
57391400 CTTAATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAAAAATTTTGAAT
Found at i:57393239 original size:13 final size:14
Alignment explanation
Indices: 57393223--57393256 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
57393213 TCAAAAATAG
57393223 GAGAAAAAA-AAAA
1 GAGAAAAAAGAAAA
57393236 GAGAAAAAAGAAAA
1 GAGAAAAAAGAAAA
57393250 -AGAAAAA
1 GAGAAAAA
57393257 GGAGAGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
GAGAAAAAAGAAAA
Found at i:57394081 original size:8 final size:8
Alignment explanation
Indices: 57394063--57394098 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
57394053 AGTCAAACAA
57394063 AAAAAATTG
1 AAAAAA-TG
57394072 AAAAAATG
1 AAAAAATG
57394080 -AAAAATG
1 AAAAAATG
57394087 AAAAAATG
1 AAAAAATG
57394095 AAAA
1 AAAA
57394099 GGTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 13 0.50
9 6 0.23
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:57394088 original size:15 final size:16
Alignment explanation
Indices: 57394064--57394098 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
57394054 GTCAAACAAA
57394064 AAAAATTGAAAAAATG
1 AAAAATTGAAAAAATG
57394080 AAAAA-TGAAAAAATG
1 AAAAATTGAAAAAATG
57394095 AAAA
1 AAAA
57394099 GGTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAAATTGAAAAAATG
Found at i:57394658 original size:16 final size:16
Alignment explanation
Indices: 57394637--57394672 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
57394627 TAGGACTATT
57394637 GTTTAGAAAACACCGA
1 GTTTAGAAAACACCGA
57394653 GTTTAGAAAACACCGA
1 GTTTAGAAAACACCGA
57394669 GTTT
1 GTTT
57394673 TGCATTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (16 bp):
GTTTAGAAAACACCGA
Found at i:57395537 original size:46 final size:46
Alignment explanation
Indices: 57395240--57395519 Score: 445
Period size: 46 Copynumber: 6.1 Consensus size: 46
57395230 ATATCAATGG
* * *
57395240 AGATAGCAGATCTTGTCTTCCTATATTTGGTAGCGGAGGAGATCAA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
* *
57395286 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATCAA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
57395332 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
* *
57395378 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAAGAGATCAA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
57395424 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
* * * *
57395470 AGATAGCAAATCTTATCTTCCTGTATTCT-GCAGTGGAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATT-TGGCAGCGGAGGAGATCGA
57395516 AGAT
1 AGAT
57395520 GGTGAATCTT
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 219 1.00
47 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGA
Found at i:57395742 original size:132 final size:132
Alignment explanation
Indices: 57395501--57396042 Score: 937
Period size: 132 Copynumber: 4.1 Consensus size: 132
57395491 TGTATTCTGC
* *
57395501 AGTGGAGT-AGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCC
1 AGTGGA-TCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCC
*
57395565 ATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAAATTGCAGATTCTGTCACCCTAAGC
65 ATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGC
57395630 AGT
130 AGT
* *
57395633 AGTGGATCAGATCAAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAAATTTAAGCCA
1 AGTGGATCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
*
57395698 TTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCA
66 TTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCA
57395763 GT
131 GT
57395765 AGTGGATCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
1 AGTGGATCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
57395830 TTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCA
66 TTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCA
57395895 GT
131 GT
* *
57395897 AGTGG-TGCAGATCAAAGATGGTGAATCATATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCC
1 AGTGGAT-CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCC
* * *
57395961 ATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGATTCTGTC-CCCTAAGC
65 ATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGC
57396025 AGT
130 AGT
*
57396028 AGTGGAGCAGATCAA
1 AGTGGATCAGATCAA
57396043 CAATAACGAA
Statistics
Matches: 392, Mismatches: 15, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
131 26 0.07
132 366 0.93
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (132 bp):
AGTGGATCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
TTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCA
GT
Found at i:57395757 original size:44 final size:44
Alignment explanation
Indices: 57395704--57396039 Score: 151
Period size: 44 Copynumber: 7.7 Consensus size: 44
57395694 GCCATTAGTC
* *
57395704 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTAAAGATTGCAGATT
* * ** *
57395748 CTGTCACCCTAAGCAGTAGTGGA-TCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGT-AGATTAAAGATTGCAGATT
* * * * * * * *
57395791 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTAAAG--ATTGCAGATT
*
57395836 CTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTAAAGATTGCAGATT
* * * * ** *
57395880 CTGTCACCCTAAGCAGTAGTGGTGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTAAAGATTGCAGATT
* * * * *
57395923 CATATCTTCCC-AA-TA-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAAGCAGTAGT-G-G-AGTAGATTAAAG--ATTGCAGATT
* * * *
57395968 CTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTAAAGATTGCAGATT
* *
57396012 CTGTC-CCCTAAGCAGTAGTGGAGCAGAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGAT
57396040 CAACAATAAC
Statistics
Matches: 210, Mismatches: 56, Indels: 53
0.66 0.18 0.17
Matches are distributed among these distances:
41 5 0.02
42 4 0.02
43 69 0.33
44 89 0.42
45 33 0.16
46 6 0.03
47 2 0.01
48 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATTAAAGATTGCAGATT
Found at i:57397650 original size:13 final size:13
Alignment explanation
Indices: 57397634--57397659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57397624 ATTTATTCCT
57397634 TATTATATTATTA
1 TATTATATTATTA
57397647 TATTATATTATTA
1 TATTATATTATTA
57397660 GCTTTGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:57397731 original size:29 final size:29
Alignment explanation
Indices: 57397696--57397762 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
57397686 TCTATATTTA
57397696 TATTTGTTTTATTATATGTTATCATTATG
1 TATTTGTTTTATTATATGTTATCATTATG
57397725 TATTTGTTTTATTATATGTTATCATTATG
1 TATTTGTTTTATTATATGTTATCATTATG
57397754 TATTTGTTT
1 TATTTGTTT
57397763 ATATCTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (29 bp):
TATTTGTTTTATTATATGTTATCATTATG
Found at i:57397752 original size:16 final size:16
Alignment explanation
Indices: 57397704--57397752 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
57397694 TATATTTGTT
57397704 TTATTATATGTTATCA
1 TTATTATATGTTATCA
*
57397720 TTATGTATTTG-T-T--
1 TTAT-TATATGTTATCA
57397733 TTATTATATGTTATCA
1 TTATTATATGTTATCA
57397749 TTAT
1 TTAT
57397753 GTATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 1 0.04
15 1 0.04
16 9 0.35
17 5 0.19
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (16 bp):
TTATTATATGTTATCA
Found at i:57397926 original size:17 final size:17
Alignment explanation
Indices: 57397905--57397988 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 17
57397895 TATAATTTTG
*
57397905 TTATTGTTATTATTGTT
1 TTATTGTTATTATTATT
* *
57397922 GTATTTGATATTTATT-TGT
1 TTA-TTGTTA-TTATTAT-T
57397941 TTATATGTTTATTATTATT
1 TTAT-TG-TTATTATTATT
*
57397960 TTATTATTATTATTATT
1 TTATTGTTATTATTATT
*
57397977 TTATTTTTATTA
1 TTATTGTTATTA
57397989 CTGTGGTTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
17 24 0.44
18 8 0.15
19 20 0.36
20 3 0.05
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
TTATTGTTATTATTATT
Found at i:57397955 original size:11 final size:11
Alignment explanation
Indices: 57397948--57397988 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
57397938 TGTTTATATG
57397948 TTTATTATTAT
1 TTTATTATTAT
57397959 TTTATTATTAT
1 TTTATTATTAT
57397970 TATTATT-TTATT
1 T-TTATTATTA-T
57397982 TTTATTA
1 TTTATTA
57397989 CTGTGGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:57397957 original size:3 final size:3
Alignment explanation
Indices: 57397949--57397988 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
57397939 GTTTATATGT
*
57397949 TTA TTA TTA TT- TTA TTA TTA TTA TTA TT- TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57397989 CTGTGGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:57397987 original size:14 final size:14
Alignment explanation
Indices: 57397948--57397988 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
57397938 TGTTTATATG
57397948 TTTATTATTATT-T
1 TTTATTATTATTAT
57397961 TATTATTATTATTAT
1 T-TTATTATTATTAT
*
57397976 TTTATTTTTATTA
1 TTTATTATTATTA
57397989 CTGTGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 22 0.88
15 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:57401991 original size:16 final size:16
Alignment explanation
Indices: 57401970--57402002 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57401960 TTTGAAAGAG
57401970 TTTCAAATATATATGC
1 TTTCAAATATATATGC
*
57401986 TTTCAAATTTATATGC
1 TTTCAAATATATATGC
57402002 T
1 T
57402003 CTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGC
Found at i:57403323 original size:22 final size:23
Alignment explanation
Indices: 57403295--57403337 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57403285 TAAAATTTAA
57403295 AAATTAAAG-ACAAAAATTAATT
1 AAATTAAAGTACAAAAATTAATT
*
57403317 AAATTAAAGTATAAAAATTAA
1 AAATTAAAGTACAAAAATTAA
57403338 ATATAGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (23 bp):
AAATTAAAGTACAAAAATTAATT
Found at i:57405589 original size:43 final size:43
Alignment explanation
Indices: 57405469--57405604 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
57405459 TTCACAAACG
* *
57405469 CGCTAAAGGTCA-TATTCTTTAGCGGTGT-TTTTATAGAAAACGC
1 CGCTAAAGGTCATTA-TCTTTAGCGGT-TCCTTTATAGAAAATGC
* *
57405512 CGCTAAAGGTCATGATCTTTAGCGG--CGCTGTTATAGCAAATGC
1 CGCTAAAGGTCATTATCTTTAGCGGTTC-CT-TTATAGAAAATGC
* *
57405555 CGCTAAAAGTCATTATCTTTAGCGGTTCCTTTATAAAAAATG-
1 CGCTAAAGGTCATTATCTTTAGCGGTTCCTTTATAGAAAATGC
57405597 CGCTAAAG
1 CGCTAAAG
57405605 AACATGACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
42 8 0.10
43 66 0.85
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
CGCTAAAGGTCATTATCTTTAGCGGTTCCTTTATAGAAAATGC
Found at i:57405641 original size:86 final size:85
Alignment explanation
Indices: 57405469--57405679 Score: 209
Period size: 86 Copynumber: 2.4 Consensus size: 85
57405459 TTCACAAACG
* * * ** *
57405469 CGCTAAAGGTCATATTCTTTAGCGGTGTTTTTATAGAAAACGCCGCTAAAGGTCATGATCTTTAG
1 CGCTAAAAGTCATA-TCTTTAGCGGTGTCTTTATAAAAAACGCCGCTAAAGAACATGACCTTTAG
*
57405534 CGGCGCTGTTATAGCAAATGC
65 CGGCACTGTTATAGCAAATGC
*
57405555 CGCTAAAAGTCATTATCTTTAGCGGT-TCCTTTATAAAAAATG-CGCTAAAGAACATGACCTTTA
1 CGCTAAAAGTCA-TATCTTTAGCGGTGT-CTTTATAAAAAACGCCGCTAAAGAACATGACCTTTA
*
57405618 GCGGCACT-TTATTTTA-CACATGC
64 GCGGCACTGTTA---TAGCAAATGC
*
57405641 CGCTAAAAGTACCAT-TCTTTAGCGGTAT-TTTACTAAAAA
1 CGCTAAAAGT--CATATCTTTAGCGGTGTCTTTA-TAAAAA
57405680 TGCCACTAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
84 3 0.03
85 30 0.28
86 66 0.62
87 6 0.06
88 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (85 bp):
CGCTAAAAGTCATATCTTTAGCGGTGTCTTTATAAAAAACGCCGCTAAAGAACATGACCTTTAGC
GGCACTGTTATAGCAAATGC
Found at i:57405853 original size:15 final size:15
Alignment explanation
Indices: 57405833--57405866 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
57405823 GTATAATTCA
57405833 AATTATTCTTACAAT
1 AATTATTCTTACAAT
*
57405848 AATTATTCTTACAGT
1 AATTATTCTTACAAT
57405863 AATT
1 AATT
57405867 TCTATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTATTCTTACAAT
Found at i:57405905 original size:12 final size:12
Alignment explanation
Indices: 57405888--57405915 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57405878 TAACACAAAA
57405888 TAACATTTTGAT
1 TAACATTTTGAT
57405900 TAACATTTTGAT
1 TAACATTTTGAT
57405912 TAAC
1 TAAC
57405916 GACAGTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (12 bp):
TAACATTTTGAT
Found at i:57406718 original size:7 final size:7
Alignment explanation
Indices: 57406708--57406907 Score: 143
Period size: 7 Copynumber: 28.3 Consensus size: 7
57406698 CCAAAACCCA
57406708 AAACCAT
1 AAACCAT
57406715 AAACCAT
1 AAACCAT
*
57406722 AAACCCCT
1 AAA-CCAT
*
57406730 AAACCTT
1 AAACCAT
*
57406737 AAA-CACC
1 AAACCA-T
* *
57406744 AACCCCT
1 AAACCAT
57406751 AAACCAT
1 AAACCAT
*
57406758 AAACCAC
1 AAACCAT
* *
57406765 AACCCTT
1 AAACCAT
*
57406772 AAACCCT
1 AAACCAT
*
57406779 AAACCGT
1 AAACCAT
57406786 AAACCAT
1 AAACCAT
* *
57406793 AATCCCT
1 AAACCAT
57406800 AAACCCAT
1 AAA-CCAT
*
57406808 AATCCAT
1 AAACCAT
*
57406815 AAACCTT
1 AAACCAT
57406822 AAACCAT
1 AAACCAT
57406829 AAACCAT
1 AAACCAT
*
57406836 AAACTAT
1 AAACCAT
* *
57406843 AATCCCT
1 AAACCAT
*
57406850 AAACCCT
1 AAACCAT
*
57406857 AAA-TATT
1 AAACCA-T
57406864 AAACCAT
1 AAACCAT
57406871 AAACCAT
1 AAACCAT
* *
57406878 ATACCCT
1 AAACCAT
57406885 AAACCAT
1 AAACCAT
*
57406892 AAACCCT
1 AAACCAT
*
57406899 AAACTAT
1 AAACCAT
57406906 AA
1 AA
57406908 TGATAATTAA
Statistics
Matches: 147, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
6 1 0.01
7 133 0.90
8 13 0.09
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCAT
Found at i:57406718 original size:14 final size:14
Alignment explanation
Indices: 57406691--57406833 Score: 55
Period size: 14 Copynumber: 10.1 Consensus size: 14
57406681 CCCTAAATCC
*
57406691 CCCAAACCCA-AAA
1 CCCAAAACCATAAA
57406704 CCCAAAACCATAAA
1 CCCAAAACCATAAA
*
57406718 -CCATAAACCCCTAAA
1 CCCA-AAA-CCATAAA
* *
57406733 CCTTAAACACC--AAC
1 CC-CAAA-ACCATAAA
*
57406747 CCCTAAACCATAAA
1 CCCAAAACCATAAA
* *
57406761 -CCACAACCCTTAAA
1 CCCA-AAACCATAAA
* *
57406775 CCCTAAACCGTAAA
1 CCCAAAACCATAAA
* *
57406789 -CCATAATCCCTAAA
1 CCCA-AAACCATAAA
*
57406803 CCCATAATCCATAAA
1 CCCA-AAACCATAAA
**
57406818 CCTTAAACCATAAA
1 CCCAAAACCATAAA
57406832 CC
1 CC
57406834 ATAAACTATA
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
12 3 0.03
13 18 0.18
14 47 0.48
15 23 0.23
16 5 0.05
17 2 0.02
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (14 bp):
CCCAAAACCATAAA
Found at i:57407330 original size:40 final size:40
Alignment explanation
Indices: 57407268--57407363 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
57407258 ATTTTTTGCA
* *
57407268 GCGTTTTTCAAAGAATGC--CGCTAATGCTCGACCTATAATG
1 GCGTTTTTCAAA-AA-GCGTCGCTAATGATCGACCTATAACG
* *
57407308 GCGTTTTTCAACAAGCGTCGCTAATGATCGACCTATAGCG
1 GCGTTTTTCAAAAAGCGTCGCTAATGATCGACCTATAACG
*
57407348 GCTTTTTTCAAAAAGC
1 GCGTTTTTCAAAAAGC
57407364 ACCGCAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 44 0.92
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGTCGCTAATGATCGACCTATAACG
Found at i:57407392 original size:154 final size:154
Alignment explanation
Indices: 57407197--57407477 Score: 420
Period size: 154 Copynumber: 1.8 Consensus size: 154
57407187 ATTTGCGGTG
** * *
57407197 TTTTTCAAAAAATGCCGCTAATGCCACTAAAGCTCAACATAAAATGA-TGACGTTGTGCTTAATT
1 TTTTTCAAAAAACACCGCAAATGCCACTAAAGCTCAACATAAAATGACTG-CCTTGTGCTTAATT
* * *
57407261 TTTTGCAGCGTTTTTCAAAGAATGCCGCTAATGCTCGACCTATAATGGCGTTTTTCAACAAGCGT
65 TTTTGCAGCGTTTTTCAAAGAACGCCGCTAATGCTCGACCTATAACGGCGTTTTTCAAAAAGCGT
57407326 CGCTAATGATCGACCTATAGCGGCT
130 CGCTAATGATCGACCTATAGCGGCT
*
57407351 TTTTTCAAAAAGCACCGCAAATGCCACTAAAGCTCAACATAAAATGACTGCCTTGTGCTTAATTT
1 TTTTTCAAAAAACACCGCAAATGCCACTAAAGCTCAACATAAAATGACTGCCTTGTGCTTAATTT
* ** * * *
57407416 TTTGCGGCGTTTTTGGAAGAGCGCTGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGC
66 TTTGCAGCGTTTTTCAAAGAACGCCGCTAATGCTCGACCTATAACGGCGTTTTTCAAAAAGC
57407478 TCCACAATTG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
154 110 0.98
155 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (154 bp):
TTTTTCAAAAAACACCGCAAATGCCACTAAAGCTCAACATAAAATGACTGCCTTGTGCTTAATTT
TTTGCAGCGTTTTTCAAAGAACGCCGCTAATGCTCGACCTATAACGGCGTTTTTCAAAAAGCGTC
GCTAATGATCGACCTATAGCGGCT
Found at i:57408460 original size:90 final size:90
Alignment explanation
Indices: 57408298--57408468 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 90
57408288 GTTGTAGATG
* * *
57408298 AACCACCAAATGTTGCAAGTTAATAGCTACTAGACGGTTGTGAATACACAACATAATTGCAAATA
1 AACCACCAAAGGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATTGCAAATA
57408363 AAAGCTGCCAGATAATGGGTGGGCA
66 AAAGCTGCCAGATAATGGGTGGGCA
* * * **
57408388 AACCACCAAAGGTTACAAGTTAATACGCTACCAGATGGTTGTGAATATACAACAT-TTTTTAAGA
1 AACCACCAAAGGTTACAAGTTAATA-GCTACCAGACGGTTGTGAATACACAACATAATTGCAA-A
57408452 T-AAAGCTGCCAGATAAT
64 TAAAAGCTGCCAGATAAT
57408469 ATGTAGATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
90 43 0.61
91 28 0.39
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (90 bp):
AACCACCAAAGGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAATTGCAAATA
AAAGCTGCCAGATAATGGGTGGGCA
Found at i:57408485 original size:90 final size:90
Alignment explanation
Indices: 57408290--57408485 Score: 218
Period size: 90 Copynumber: 2.2 Consensus size: 90
57408280 CACACTGGGT
* * *
57408290 TGTAGATGAACCACCAAATGTTGCAAGTTAATAGCTACTAGACGGTTGTGAATACACAACATAAT
1 TGTAGATGAACCACCAAAGGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAAT
*
57408355 TGCAAATAAAAGCTGCCAGATAATG
66 TGCAAATAAAAGCTGCCAGATAATA
* * *** * * *
57408380 GGTGGGCAAACCACCAAAGGTTACAAGTTAATACGCTACCAGATGGTTGTGAATATACAACAT-T
1 TGTAGATGAACCACCAAAGGTTACAAGTTAATA-GCTACCAGACGGTTGTGAATACACAACATAA
**
57408444 TTTTAAGAT-AAAGCTGCCAGATAATA
65 TTGCAA-ATAAAAGCTGCCAGATAATA
57408470 TGTAGATGTAA-CACCA
1 TGTAGATG-AACCACCA
57408486 GATTTGCAGA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
90 54 0.64
91 30 0.36
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (90 bp):
TGTAGATGAACCACCAAAGGTTACAAGTTAATAGCTACCAGACGGTTGTGAATACACAACATAAT
TGCAAATAAAAGCTGCCAGATAATA
Found at i:57422337 original size:19 final size:20
Alignment explanation
Indices: 57422299--57422337 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57422289 GAGGGGAAAA
*
57422299 TATATTTGTATTTTGTGTAAG
1 TATATTTG-ATTTTGAGTAAG
57422320 TATATTTG-TTTTGAGTAA
1 TATATTTGATTTTGAGTAA
57422338 TAAAAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (20 bp):
TATATTTGATTTTGAGTAAG
Found at i:57426380 original size:28 final size:28
Alignment explanation
Indices: 57426343--57426396 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
57426333 ACTTCCTTAA
*
57426343 TTAATTTTTA-TTGAATATTATATATATT
1 TTAATATTTACTTGAATA-TATATATATT
*
57426371 TTAATATTTACTTTAATATATATATA
1 TTAATATTTACTTGAATATATATATA
57426397 ACACTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTAATATTTACTTGAATATATATATATT
Found at i:57426569 original size:17 final size:15
Alignment explanation
Indices: 57426526--57426573 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
57426516 AAAATATTCA
57426526 AAAATATAAAAAAATT
1 AAAAT-TAAAAAAATT
*
57426542 GAAATTAAAAAAAATCAT
1 AAAATT-AAAAAAAT--T
57426560 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
57426574 ATAGCATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 8 0.30
18 6 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATTAAAAAAATT
Found at i:57426912 original size:9 final size:9
Alignment explanation
Indices: 57426899--57426939 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
57426889 ATTCATTTTG
*
57426899 AATTCTTCG
1 AATTCTTCA
57426908 AATTCTTCA
1 AATTCTTCA
57426917 AATTCTTCA
1 AATTCTTCA
*
57426926 AGTTCTTCA
1 AATTCTTCA
57426935 AATTC
1 AATTC
57426940 ACTAGAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (9 bp):
AATTCTTCA
Found at i:57430466 original size:44 final size:44
Alignment explanation
Indices: 57430417--57430513 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
57430407 ATGATCACAG
*
57430417 ACACAGATTTCAGAATATGGAAGCAAAAAAGGGAATGACCAGAA
1 ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
* **
57430461 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAA
1 ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
57430505 ACACAGATT
1 ACACAGATT
57430514 CGAGAATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.15
Consensus pattern (44 bp):
ACACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCAGAA
Found at i:57430534 original size:44 final size:44
Alignment explanation
Indices: 57430417--57430534 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
57430407 ATGATCACAG
* *
57430417 ACACAGATTTC-AGAATATGGAAGCAAAAAAGGGAATGACCAGAA
1 ACACAGA-TTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
* * **
57430461 ACACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAA
1 ACACAGATTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
*
57430505 ACACAGATTCGAGAAT-TAGAAAGCCAAAAA
1 ACACAGATTCGAGAATAT-GAAAGCAAAAAA
57430535 CAAAGAGTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.05
44 62 0.95
ACGTcount: A:0.52, C:0.12, G:0.22, T:0.14
Consensus pattern (44 bp):
ACACAGATTCGAGAATATGAAAGCAAAAAAGGAAATGACCAGAA
Found at i:57433158 original size:24 final size:23
Alignment explanation
Indices: 57433126--57433170 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
57433116 AATTTATAAG
57433126 ATTTTTAAAAATTAAAAATTATT
1 ATTTTTAAAAATTAAAAATTATT
* *
57433149 ATTTTATAAATATTGAAAATTA
1 ATTTT-TAAAAATTAAAAATTA
57433171 AATTCATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTTTAAAAATTAAAAATTATT
Found at i:57440468 original size:23 final size:24
Alignment explanation
Indices: 57440417--57440468 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
57440407 TATATTATTT
* *
57440417 ATTAAAGGTTATTTTAGTGTTATA
1 ATTAAAGGTTAATATAGTGTTATA
57440441 A-TAAATGGTTAATATA-TGTTA-A
1 ATTAAA-GGTTAATATAGTGTTATA
57440463 ATTAAA
1 ATTAAA
57440469 ACTTGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 13 0.54
24 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (24 bp):
ATTAAAGGTTAATATAGTGTTATA
Found at i:57442644 original size:15 final size:15
Alignment explanation
Indices: 57442624--57442657 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57442614 GATTTTTTTG
* *
57442624 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
57442639 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
57442654 TTAT
1 TTAT
57442658 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:57444657 original size:62 final size:62
Alignment explanation
Indices: 57444560--57444680 Score: 233
Period size: 62 Copynumber: 2.0 Consensus size: 62
57444550 TCTTTTTTTT
*
57444560 TGCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATA
1 TGCATTCATGCATCAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATA
57444622 TGCATTCATGCATCAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAA
1 TGCATTCATGCATCAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAA
57444681 GTACGTCGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.32
Consensus pattern (62 bp):
TGCATTCATGCATCAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATA
Found at i:57445994 original size:17 final size:17
Alignment explanation
Indices: 57445954--57445986 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57445944 AGTAGAGGCC
57445954 AAAAAAAAGAACAAAAA
1 AAAAAAAAGAACAAAAA
57445971 ACAAAAAAA-AACAAAA
1 A-AAAAAAAGAACAAAA
57445987 GTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAACAAAAA
Found at i:57446457 original size:7 final size:7
Alignment explanation
Indices: 57446437--57446508 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
57446427 TACTTCACTT
57446437 GAAAAAA
1 GAAAAAA
*
57446444 AACAAAAA
1 GA-AAAAA
57446452 GAAAAAGA
1 GAAAAA-A
57446460 GAAAAAA
1 GAAAAAA
*
57446467 -ATGAAAA
1 GA-AAAAA
*
57446474 GAGAAAA
1 GAAAAAA
57446481 GAAAAAAA
1 G-AAAAAA
* *
57446489 GAAGAAC
1 GAAAAAA
57446496 GAAAAAA
1 GAAAAAA
57446503 GAAAAA
1 GAAAAA
57446509 GGAGAGGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
6 1 0.02
7 31 0.60
8 20 0.38
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:57446466 original size:16 final size:16
Alignment explanation
Indices: 57446447--57446509 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
57446437 GAAAAAAAAC
57446447 AAAAAGAAAAAGAGAA
1 AAAAAGAAAAAGAGAA
57446463 AAAAATG-AAAAGAGAA
1 AAAAA-GAAAAAGAGAA
*
57446479 AAGAA-AAAAAGAAGAACGA
1 AAAAAGAAAAAG-AG-A--A
57446498 AAAAAGAAAAAG
1 AAAAAGAAAAAG
57446510 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 5 0.13
16 20 0.53
17 2 0.05
19 5 0.13
20 6 0.16
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAGAA
Found at i:57446466 original size:22 final size:21
Alignment explanation
Indices: 57446439--57446508 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
57446429 CTTCACTTGA
57446439 AAAAAAACAAAAAGAAAAAGAG
1 AAAAAAACAAAAAGAAAAA-AG
** *
57446461 AAAAAAATGAAAAGAGAAAAG
1 AAAAAAACAAAAAGAAAAAAG
* *
57446482 AAAAAAAGAAGAACGAAAAAAG
1 AAAAAAACAA-AAAGAAAAAAG
57446504 AAAAA
1 AAAAA
57446509 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.25
22 30 0.75
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAAACAAAAAGAAAAAAG
Found at i:57447521 original size:43 final size:45
Alignment explanation
Indices: 57447451--57447549 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
57447441 TGGCGTGAAG
* * *
57447451 TAGATCGTAGATAGCAGACCCTGTCTTCCTATATTGGTAG-GAAA
1 TAGATCGAAGATAGCAGACCCTGTCTTCCCATACTGGTAGCGAAA
* * * *
57447495 TGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTTGCGAAA
1 TAGATCGAAGATAGCAGACCCTGTCTTCCCATACTGGTAGCGAAA
57447539 TAGATCGAAGA
1 TAGATCGAAGA
57447550 AAACAGATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 22 0.48
44 24 0.52
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
TAGATCGAAGATAGCAGACCCTGTCTTCCCATACTGGTAGCGAAA
Found at i:57447779 original size:100 final size:100
Alignment explanation
Indices: 57447603--57448416 Score: 977
Period size: 100 Copynumber: 8.2 Consensus size: 100
57447593 TCAAACGTTT
* * * * * *
57447603 TTCTCTGGCAATGCAGTGGGA-CAGATTAAAGCTACGACAGCGAATCTTGCTTCCTCGACATTGC
1 TTCTCTGGCAGTACAGT-GGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
*
57447667 AATTAAAGAGATTGAAGCCACAACGGTGAATCTCAC
65 AATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * * * * *
57447703 TTCTCTGGCAGTACAGTGCAGCAGATTAAAGCTACGACGGTAAATCTTGCTTCCCTGATATTGCA
1 TTCTCTGGCAGTACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA
*** *
57447768 ATTTAAA-AGATTGAAGTTGCAACGGCGAATCTTAC
66 A-TTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * *
57447803 TT-TATTGGC-GATGCAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGATATTG
1 TTCT-CTGGCAG-TACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTG
* * *
57447866 CAAGTAAAGAGATTGAAGCCACAACAGTGAATCTCAC
64 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * * * * *
57447903 TTCTCTGGCAGTACAGTGCAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGATATTGCA
1 TTCTCTGGCAGTACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA
* ** * *
57447968 ATTTAAA-AGATTGAAGCCGCAACAACGACTCTTAC
66 A-TTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * *
57448003 TT-TCTTGGC-GATGCAGTGGATCAGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGGCATTG
1 TTCTC-TGGCAG-TACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTG
57448066 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
64 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * * * * *
57448103 TTCTCTGGCAGTATAGTGCAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCA
1 TTCTCTGGCAGTACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA
** * *
57448168 ATTTAAA-AGATTGAAGCTGCAACGGCAAATCTTAC
66 A-TTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
* * * *
57448203 TT-TCTTGGC-GATGCAGTGGATCAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTG
1 TTCTC-TGGCAG-TACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTG
57448266 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
64 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
*
57448303 TTCTCTGGCAGTACAGTGGATCAGATTGAAGCTACAACGGTGAATCTTG-TTCCCCGACATTGCA
1 TTCTCTGGCAGTACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA
57448367 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
66 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
*
57448402 TTCTCTAGCAG-ACAG
1 TTCTCTGGCAGTACAG
57448417 AACCACAGAT
Statistics
Matches: 609, Mismatches: 86, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
98 4 0.01
99 84 0.14
100 499 0.82
101 22 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
TTCTCTGGCAGTACAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA
ATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC
Found at i:57447956 original size:200 final size:200
Alignment explanation
Indices: 57447602--57448403 Score: 1250
Period size: 200 Copynumber: 4.0 Consensus size: 200
57447592 ATCAAACGTT
* * * *
57447602 TTTCTCTGGCAATGCAGTGGGA-CAGATTAAAGCTACGACAGCGAATCTTGCTTCCTCGACATTG
1 TTTCT-TGGCGATGCAGT-GGATCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
*
57447666 CAATTAAAGAGATTGAAGCCACAACGGTGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTA
64 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTA
* **
57447731 AAGCTACGACGGTAAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGTTGCAACGGCGA
129 AAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGA
57447796 ATCTTAC
194 ATCTTAC
* * *
57447803 TTTATTGGCGATGCAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGATATTGCA
1 TTTCTTGGCGATGCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
* * *
57447868 AGTAAAGAGATTGAAGCCACAACAGTGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTAAA
66 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTAAA
* ** *
57447933 GCTACGACGGCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACAACGACT
131 GCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAAT
57447998 CTTAC
196 CTTAC
* * *
57448003 TTTCTTGGCGATGCAGTGGATCAGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGGCATTGCA
1 TTTCTTGGCGATGCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
*
57448068 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTATAGTGCAGCAGATTAAA
66 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTAAA
* *
57448133 GCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCTGCAACGGCAAAT
131 GCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAAT
57448198 CTTAC
196 CTTAC
* *
57448203 TTTCTTGGCGATGCAGTGGATCAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCA
1 TTTCTTGGCGATGCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
* * *
57448268 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGGATCAGATTGAA
66 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTAAA
* * * *
57448333 GCTACAACGGTGAATCTTG-TTCCCCGACATTGCAA-TTAAAGAGATTGAAGCCACAACGGCGAA
131 GCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAA-AGATTGAAGCCGCAACGGCGAA
*
57448396 TCTCAC
195 TCTTAC
57448402 TT
1 TT
57448404 CTCTAGCAGA
Statistics
Matches: 555, Mismatches: 44, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
198 5 0.01
199 43 0.08
200 503 0.91
201 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (200 bp):
TTTCTTGGCGATGCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGCAGCAGATTAAA
GCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAAT
CTTAC
Found at i:57448663 original size:84 final size:84
Alignment explanation
Indices: 57448422--57449088 Score: 1031
Period size: 84 Copynumber: 7.9 Consensus size: 84
57448412 GACAGAACCA
*
57448422 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTTTCTCCCTAAGCAGT-G
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
57448486 TGGAGCAGACGAAATAAAC
66 TGGAGCAGACGAAAGAAAC
* * * *
57448505 CAG-TCTTATCTCCCTAAGCAGTAATGGAGCAGA-CGAAAGAAACAAGTTTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAGTCTTATCTCCCTAAGCA
*
57448568 GTAGTGGAGCAGACAAAAGAAAC
62 GTAGTGGAGCAGACGAAAGAAAC
* * *
57448591 TAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
57448656 TGGAGCAGACAAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
57448675 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
57448740 TGGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
57448759 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
57448824 T-GAGGCAGACGAAAGAAAC
66 TGGA-GCAGACGAAAGAAAC
57448843 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
57448908 T-GAGGCAGACGAAAGAAAC
66 TGGA-GCAGACGAAAGAAAC
57448927 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
57448992 TGGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * * *
57449011 CGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGC
57449075 AGTAGTGGAGCAGA
61 AGTAGTGGAGCAGA
57449089 TCACATCAAC
Statistics
Matches: 542, Mismatches: 28, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
81 1 0.00
82 29 0.05
83 6 0.01
84 398 0.73
85 25 0.05
86 21 0.04
87 32 0.06
88 30 0.06
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:57449103 original size:84 final size:82
Alignment explanation
Indices: 57448425--57449212 Score: 898
Period size: 84 Copynumber: 9.4 Consensus size: 82
57448415 AGAACCACAG
* *
57448425 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTTTCTCCCTAAGCAGT-GTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGTGG
*
57448489 AGCAGACGAAATAAACC
66 AGCAGACGAAAGAAACC
* * *
57448506 AGTCTTATCTCCCTAAGCAGTAATGGAGCAGA-CGAAAGAAACAAGTTTTATCTCCCTAAGCAGT
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CAACAAGTCTTATCTCCCTAAGCAGT
* *
57448570 AGTGGAGCAGACAAAAGAAACTAG
61 AGTGGAGCAGACGAAAGAAAC--C
* **
57448594 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGTGG
*
57448659 AGCAGACAAAAGAAACC
66 AGCAGACGAAAGAAACC
*
57448676 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGT
*
57448741 GGAGTAGACGAAAGAAACC
64 GGAGCAGACGAAAGAAACC
* *
57448760 AGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGT
57448825 -GAGGCAGACGAAAGAAACC
64 GGA-GCAGACGAAAGAAACC
*
57448844 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGT
57448909 -GAGGCAGACGAAAGAAACC
64 GGA-GCAGACGAAAGAAACC
*
57448928 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGT
*
57448993 GGAGTAGACGAAAGAAACC
64 GGAGCAGACGAAAGAAACC
* *
57449012 GGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCA
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CAACAAG-TCTTATCTCCCTAAGCA
* **
57449076 GTAGTGGAGCAGATC-ACATCAA-C
59 GTAGTGGAGCAGA-CGAAAGAAACC
** * * * *
57449099 -TCTTATCTCCCTAAAAAGTAGTGGAACAGA-CAAAAGAAACCAGATCTTATCTCCTTAAGCAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CAACAAG-TCTTATCTCCCTAAGCAGT
* * **
57449162 AGTAGAGCAGATCG-CACCAA--
61 AGTGGAGCAGA-CGAAAGAAACC
*
57449182 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
57449213 CGAAAAAAAC
Statistics
Matches: 645, Mismatches: 41, Indels: 39
0.89 0.06 0.05
Matches are distributed among these distances:
81 2 0.00
82 29 0.04
83 3 0.00
84 498 0.77
85 25 0.04
86 19 0.03
87 33 0.05
88 35 0.05
89 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (82 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACGAAAGAAACC
Found at i:57449105 original size:168 final size:168
Alignment explanation
Indices: 57448425--57449220 Score: 993
Period size: 168 Copynumber: 4.7 Consensus size: 168
57448415 AGAACCACAG
*
57448425 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTTTCTCCCTAAGCAGT-GTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
* * *
57448489 AGCAGACGAAATAAACCAG-TCTTATCTCCCTAAGCAGTAATGGAGCAGACGAAAGAAACAAGTT
66 AGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAA-AAACAAGTC
* *
57448553 TTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAG
130 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC--C
* *
57448594 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
* * *
57448659 AGCAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---ACATCAAGTC
66 AGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACAAGTC
*
57448721 TTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACC
130 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACC
*
57448760 AGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
* *
57448825 -GAGGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---ACATCAA
64 GGA-GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACAA
57448886 GTCTTATCTCCCTAAGCAGTAGT-GAGGCAGACGAAAGAAACC
127 GTCTTATCTCCCTAAGCAGTAGTGGA-GCAGACGAAAGAAACC
57448928 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
* * *
57448993 GGAGTAGACGAAAGAAACCGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAG
64 GGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAA-AAACAAG
* **
57449058 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA-C
128 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACC
** * * * * *
57449099 -TCTTATCTCCCTAAAAAGTAGTGGAACAGA-CAAAAGAAACCAGATCTTATCTCCTTAAGCAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGCAGT
* *
57449162 AGTAGAGCAGATC----G-CACCA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAA
61 AGTGGAGCAGA-CGAAAGAAACCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAA
57449221 ACCAATCTCA
Statistics
Matches: 568, Mismatches: 37, Indels: 46
0.87 0.06 0.07
Matches are distributed among these distances:
167 10 0.02
168 373 0.66
169 61 0.11
170 23 0.04
171 38 0.07
172 59 0.10
173 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (168 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACAAGTCT
TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACC
Found at i:57449105 original size:252 final size:252
Alignment explanation
Indices: 57448422--57449212 Score: 1067
Period size: 252 Copynumber: 3.1 Consensus size: 252
57448412 GACAGAACCA
*
57448422 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTTTCTCCCTAAGCAGT-G
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* * *
57448486 TGGAGCAGACGAAATAAACCAG-TCTTATCTCCCTAAGCAGTAATGGAGCAGACGAAAGAAACAA
66 TGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACAA
*
57448550 GTTTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGCAGTA
131 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAC---ATCTTATCTCCCTAAGCAGTA
* *
57448615 GTAGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAC
193 GTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAC
57448675 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* * *
57448740 TGGAGTAGACGAAAGAAACCAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATC---A-CATCA
66 TGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACA
*
57448801 AGTCTTATCTCCCTAAGCAGTAGT-GAGGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAG
130 AGTCTTATCTCCCTAAGCAGTAGTGGA-GCAGACAAAAGAAA-C--ATCTTATCTCCCTAAGCAG
*
57448865 TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT-GAGGCAGACGAAAGAAAC
191 TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA-GCAGACAAAAGAAAC
57448927 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
57448992 TGGAGTAGACGAAAGAAACCGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCA
66 TGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACAA
* ** **
57449057 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAC-TCTTATCTCCCTAAAAAGTAG
131 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACATCTTATCTCCCTAAGCAGTAG
* * * * * * *
57449120 TGGAACAGA-CAAAAGAAACCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATC----G-CAC
194 TGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAAC
57449179 CA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
57449213 CGAAAAAAAC
Statistics
Matches: 489, Mismatches: 28, Indels: 43
0.87 0.05 0.08
Matches are distributed among these distances:
251 7 0.01
252 293 0.60
253 65 0.13
254 23 0.05
255 37 0.08
256 58 0.12
257 6 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (252 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACAA
GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAC
Found at i:57450901 original size:22 final size:22
Alignment explanation
Indices: 57450854--57450923 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
57450844 ATATATTTTT
* *
57450854 TTATATTTCATATTCTCTACATA
1 TTATAATTCATATACT-TACATA
*
57450877 TATATATACTT-ATATATTTACATA
1 T-TATA-A-TTCATATACTTACATA
*
57450901 TTTTAATTCATATACTTACATA
1 TTATAATTCATATACTTACATA
57450923 T
1 T
57450924 GTATGTACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.05
22 14 0.37
23 4 0.11
24 11 0.29
25 5 0.13
26 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATAATTCATATACTTACATA
Found at i:57451331 original size:15 final size:15
Alignment explanation
Indices: 57451311--57451344 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57451301 TTTTTTTTTG
* *
57451311 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
57451326 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
57451341 TTAT
1 TTAT
57451345 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:57460935 original size:17 final size:17
Alignment explanation
Indices: 57460913--57460946 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57460903 ATCCACTAAT
*
57460913 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
57460930 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
57460947 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:57465573 original size:17 final size:17
Alignment explanation
Indices: 57465551--57465584 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57465541 ATCCACTAAT
*
57465551 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
57465568 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
57465585 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:57477182 original size:15 final size:15
Alignment explanation
Indices: 57477162--57477194 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
57477152 TTCACACTCT
57477162 TCCTTTTTCTTCTCG
1 TCCTTTTTCTTCTCG
57477177 TCCTTTTTCTTCTCG
1 TCCTTTTTCTTCTCG
57477192 TCC
1 TCC
57477195 ACACGCTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.06, T:0.58
Consensus pattern (15 bp):
TCCTTTTTCTTCTCG
Found at i:57479611 original size:58 final size:58
Alignment explanation
Indices: 57479521--57479636 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
57479511 CATGTTTGTC
*
57479521 CTCTCCTTGTGATGAGGACACCAATGTAAGTTGGATACCACTTATTGGAAGTATAGTA
1 CTCTCCTTGTGATGAGGACACCAATATAAGTTGGATACCACTTATTGGAAGTATAGTA
57479579 CTCTCCTTGTGATGAGGACACCAATATAAGTTGGATACCACTTATTGGAAGTATAGTA
1 CTCTCCTTGTGATGAGGACACCAATATAAGTTGGATACCACTTATTGGAAGTATAGTA
57479637 GTGGCTAAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (58 bp):
CTCTCCTTGTGATGAGGACACCAATATAAGTTGGATACCACTTATTGGAAGTATAGTA
Found at i:57485112 original size:31 final size:29
Alignment explanation
Indices: 57485074--57485150 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
57485064 TTAACGGCTC
* *
57485074 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
57485105 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
57485134 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
57485151 CTGAACCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:57486249 original size:9 final size:9
Alignment explanation
Indices: 57486225--57486256 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
57486215 AAAGGGTCTG
57486225 ATTCAATTT
1 ATTCAATTT
57486234 AATTCAATTT
1 -ATTCAATTT
57486244 ATTCAATTT
1 ATTCAATTT
57486253 ATTC
1 ATTC
57486257 TAGTAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (9 bp):
ATTCAATTT
Found at i:57486995 original size:41 final size:42
Alignment explanation
Indices: 57486945--57487023 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
57486935 ATGATTTTTA
* *
57486945 AAACACCGCTA-ATGCT-GGACTTTTTGTGGCGTTTTTCTCAT
1 AAACACCGCTATA-GCTCGAACCTTTTGTGGCGTTTTTCTCAT
* *
57486986 AAACGCCGCTATAGCTCTAACCTTTTGTGGCGTTTTTC
1 AAACACCGCTATAGCTCGAACCTTTTGTGGCGTTTTTC
57487024 AATTAGTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (42 bp):
AAACACCGCTATAGCTCGAACCTTTTGTGGCGTTTTTCTCAT
Found at i:57491179 original size:44 final size:44
Alignment explanation
Indices: 57491116--57491205 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
57491106 CCACTCTTTG
*
57491116 TTTTTTGCTTTCTAATTCTCAAACCTGTGTTTCTGGTCATTTCC
1 TTTTTTGCTTCCTAATTCTCAAACCTGTGTTTCTGGTCATTTCC
* *
57491160 TTTTTTGCTTCC-ATATTCTCACATCTGTGTTTCTGGTCATTTCC
1 TTTTTTGCTTCCTA-ATTCTCAAACCTGTGTTTCTGGTCATTTCC
57491204 TT
1 TT
57491206 GTATTGTCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.12, C:0.23, G:0.11, T:0.53
Consensus pattern (44 bp):
TTTTTTGCTTCCTAATTCTCAAACCTGTGTTTCTGGTCATTTCC
Found at i:57499419 original size:16 final size:16
Alignment explanation
Indices: 57499386--57499419 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57499376 GATTCTTGTT
* *
57499386 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
57499402 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
57499418 AA
1 AA
57499420 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:57502006 original size:21 final size:21
Alignment explanation
Indices: 57501980--57502020 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57501970 ATCTGCTCAA
* *
57501980 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57502001 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57502021 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57511807 original size:15 final size:15
Alignment explanation
Indices: 57511789--57511833 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
57511779 GTTATCGAAG
*
57511789 ATAAAATTATTTTAA
1 ATAAAAGTATTTTAA
*
57511804 ATAATAGTATTTTAA
1 ATAAAAGTATTTTAA
* *
57511819 ATCATAGTATTTTAA
1 ATAAAAGTATTTTAA
57511834 TTTTTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
ATAAAAGTATTTTAA
Found at i:57512148 original size:40 final size:40
Alignment explanation
Indices: 57512093--57512171 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
57512083 TAAAATGTTT
* *
57512093 TTTTTGCAGCGTTTTTATCAAAAATGCCGCTAATGCTTGC
1 TTTTTGCAGCATTTTTATCAAAAACGCCGCTAATGCTTGC
* * * *
57512133 TTTTTGCGGCATTTTTCTCATAAACGCCGCTACTGCTTG
1 TTTTTGCAGCATTTTTATCAAAAACGCCGCTAATGCTTG
57512172 ACCTTTTGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (40 bp):
TTTTTGCAGCATTTTTATCAAAAACGCCGCTAATGCTTGC
Found at i:57515372 original size:7 final size:7
Alignment explanation
Indices: 57515328--57515354 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57515318 AAATCTCTCT
57515328 ATTTTTA
1 ATTTTTA
57515335 ATTTTTA
1 ATTTTTA
57515342 ATTTTTA
1 ATTTTTA
57515349 ATTTTT
1 ATTTTT
57515355 TATGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Done.