Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 27
Found at i:2772900 original size:14 final size:14
Alignment explanation
Indices: 2772892--2772934 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
2772882 TATAAGATAT
2772892 ATATAATAAAAATA
1 ATATAATAAAAATA
2772906 ATATAATAAAAATA
1 ATATAATAAAAATA
2772920 A-ATAA-AAAATATA
1 ATATAATAAAA-ATA
2772933 AT
1 AT
2772935 TAAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.15
13 8 0.30
14 15 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:2772939 original size:12 final size:12
Alignment explanation
Indices: 2772905--2772944 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
2772895 TAATAAAAAT
2772905 AATATAA-TAAA
1 AATATAATTAAA
*
2772916 AATA-AATAAAA
1 AATATAATTAAA
2772927 AATATAATTAAA
1 AATATAATTAAA
2772939 AATATA
1 AATATA
2772945 TATATATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.08
11 11 0.44
12 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATATAATTAAA
Found at i:2772945 original size:14 final size:13
Alignment explanation
Indices: 2772890--2772946 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
2772880 GATATAAGAT
2772890 ATATATAATAAAA
1 ATATATAATAAAA
2772903 ATAATATAAT-AAA
1 AT-ATATAATAAAA
2772916 A-ATA-AATAAAA
1 ATATATAATAAAA
2772927 A-ATATAATTAAAA
1 ATATATAA-TAAAA
2772940 ATATATA
1 ATATATA
2772947 TATATGAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.08
11 10 0.26
12 2 0.05
13 12 0.31
14 12 0.31
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:2773722 original size:20 final size:21
Alignment explanation
Indices: 2773692--2773733 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
2773682 ATATCAAATC
2773692 GAAATTTAATAATATATAATT
1 GAAATTTAATAATATATAATT
2773713 GAAA-TTAATAATATATAATT
1 GAAATTTAATAATATATAATT
2773733 G
1 G
2773734 CATTTGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
GAAATTTAATAATATATAATT
Found at i:2775583 original size:12 final size:12
Alignment explanation
Indices: 2775566--2775604 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
2775556 ATTTACCTTT
2775566 AAAAATTATGAA
1 AAAAATTATGAA
2775578 AAAAA-TATGAA
1 AAAAATTATGAA
2775589 AAAAGATTAT-AA
1 AAAA-ATTATGAA
2775601 AAAA
1 AAAA
2775605 TAATGCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.40
12 12 0.48
13 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (12 bp):
AAAAATTATGAA
Found at i:2776914 original size:2 final size:2
Alignment explanation
Indices: 2776898--2776933 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2776888 ACATACATAC
2776898 AT AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2776934 TCATTCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2778348 original size:21 final size:21
Alignment explanation
Indices: 2778324--2778365 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2778314 TCATAAATAC
*
2778324 ATATGATCAAAA-ATTAAAAAA
1 ATATGAT-AAAAGAATAAAAAA
*
2778345 ATATTATAAAAGAATAAAAAA
1 ATATGATAAAAGAATAAAAAA
2778366 CAAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
ATATGATAAAAGAATAAAAAA
Found at i:2779391 original size:29 final size:28
Alignment explanation
Indices: 2779354--2779411 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2779344 GATGGATAAA
*
2779354 TTAAAAAAATATTAAATATTAAAATTTAT
1 TTAAAAAAAAATTAAA-ATTAAAATTTAT
* * *
2779383 TTAATAAAAAATTAAAATTTACATTTAT
1 TTAAAAAAAAATTAAAATTAAAATTTAT
2779411 T
1 T
2779412 CAATCTCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TTAAAAAAAAATTAAAATTAAAATTTAT
Found at i:2779964 original size:26 final size:26
Alignment explanation
Indices: 2779923--2779980 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
2779913 GTTCGACTAA
* *
2779923 ACTCGAAAACTCTGAAATAGAA-CTTG
1 ACTCGAAAACTATGAAAT-GAAGCTCG
*
2779949 ACTCGAAAATTATGAAATGAAGCTCG
1 ACTCGAAAACTATGAAATGAAGCTCG
2779975 ACTCGA
1 ACTCGA
2779981 CTCGAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (26 bp):
ACTCGAAAACTATGAAATGAAGCTCG
Found at i:2782207 original size:22 final size:22
Alignment explanation
Indices: 2782182--2782230 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
2782172 ACCATTAATT
2782182 ATAAAAATATAAAAAGTTTAAA
1 ATAAAAATATAAAAAGTTTAAA
2782204 ATAAAAATATAAAAAGTTTAAA
1 ATAAAAATATAAAAAGTTTAAA
2782226 ATAAA
1 ATAAA
2782231 TGTGATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAAAAATATAAAAAGTTTAAA
Found at i:2786150 original size:23 final size:23
Alignment explanation
Indices: 2786120--2786167 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2786110 CTAAAACTTT
2786120 AAAATTATTATATATTT-T-TTAAA
1 AAAATTA-TATAT-TTTGTATTAAA
2786143 AAAATTATATATTTTGTATTAAA
1 AAAATTATATATTTTGTATTAAA
2786166 AA
1 AA
2786168 TTTGTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 6 0.26
23 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAATTATATATTTTGTATTAAA
Found at i:2789809 original size:27 final size:28
Alignment explanation
Indices: 2789779--2789839 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
2789769 TTCAGCAAAA
*
2789779 AACTTCATTCAA-GTATGTTCTTCATTT
1 AACTTAATTCAATGTATGTTCTTCATTT
*
2789806 AACTTAATTCAATTGTATGTTTTTCATTT
1 AACTTAATTCAA-TGTATGTTCTTCATTT
2789835 AACTT
1 AACTT
2789840 TGGAACAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.37
29 19 0.63
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.51
Consensus pattern (28 bp):
AACTTAATTCAATGTATGTTCTTCATTT
Found at i:2791076 original size:179 final size:179
Alignment explanation
Indices: 2790776--2791135 Score: 720
Period size: 179 Copynumber: 2.0 Consensus size: 179
2790766 AGAGTGTAGG
2790776 AATCTGATGCGAGATTTAGAGATTAGTGAGATAACCTTTGTTTGGAGAGAAGTTAACAAATGTCT
1 AATCTGATGCGAGATTTAGAGATTAGTGAGATAACCTTTGTTTGGAGAGAAGTTAACAAATGTCT
2790841 GATTGCTTAGTGAAAATGGTGTTGAAGGAAGAAAGAGGCATGAGAATGTTAAAGGACCCGTCGCA
66 GATTGCTTAGTGAAAATGGTGTTGAAGGAAGAAAGAGGCATGAGAATGTTAAAGGACCCGTCGCA
2790906 ATAAATGAGGCATCTGCTAGAAACTGATAAGAGTGGAGAGGAAATCCTA
131 ATAAATGAGGCATCTGCTAGAAACTGATAAGAGTGGAGAGGAAATCCTA
2790955 AATCTGATGCGAGATTTAGAGATTAGTGAGATAACCTTTGTTTGGAGAGAAGTTAACAAATGTCT
1 AATCTGATGCGAGATTTAGAGATTAGTGAGATAACCTTTGTTTGGAGAGAAGTTAACAAATGTCT
2791020 GATTGCTTAGTGAAAATGGTGTTGAAGGAAGAAAGAGGCATGAGAATGTTAAAGGACCCGTCGCA
66 GATTGCTTAGTGAAAATGGTGTTGAAGGAAGAAAGAGGCATGAGAATGTTAAAGGACCCGTCGCA
2791085 ATAAATGAGGCATCTGCTAGAAACTGATAAGAGTGGAGAGGAAATCCTA
131 ATAAATGAGGCATCTGCTAGAAACTGATAAGAGTGGAGAGGAAATCCTA
2791134 AA
1 AA
2791136 ACAATAATAT
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 181 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (179 bp):
AATCTGATGCGAGATTTAGAGATTAGTGAGATAACCTTTGTTTGGAGAGAAGTTAACAAATGTCT
GATTGCTTAGTGAAAATGGTGTTGAAGGAAGAAAGAGGCATGAGAATGTTAAAGGACCCGTCGCA
ATAAATGAGGCATCTGCTAGAAACTGATAAGAGTGGAGAGGAAATCCTA
Found at i:2792671 original size:10 final size:10
Alignment explanation
Indices: 2792656--2792687 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2792646 GTGATTTGGA
2792656 GATTGATTTG
1 GATTGATTTG
2792666 GATTGATTTG
1 GATTGATTTG
*
2792676 GATTAATTTG
1 GATTGATTTG
2792686 GA
1 GA
2792688 ACCTTGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (10 bp):
GATTGATTTG
Found at i:2796291 original size:20 final size:20
Alignment explanation
Indices: 2796268--2796318 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2796258 TTAGCCCCTA
2796268 GAATTTTAGTTTGTCATTCG
1 GAATTTTAGTTTGTCATTCG
2796288 GAATTTTAGTTTGTCATTCG
1 GAATTTTAGTTTGTCATTCG
2796308 GAATTTTAGTT
1 GAATTTTAGTT
2796319 CATCACCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.51
Consensus pattern (20 bp):
GAATTTTAGTTTGTCATTCG
Found at i:2797122 original size:49 final size:50
Alignment explanation
Indices: 2797025--2797123 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
2797015 TACAAATATT
*
2797025 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
2797075 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
2797124 TTAATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:2797142 original size:28 final size:30
Alignment explanation
Indices: 2797093--2797169 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 30
2797083 AAATAATTTA
*
2797093 TTTATT-ATTAAATATT-ATTTTTATA-AT
1 TTTATTAATAAAATATTAATTTTTATATAT
*
2797120 TTTATTAATAAAATATTAATTTTTGTATAT
1 TTTATTAATAAAATATTAATTTTTATATAT
*
2797150 TTTAGTGAAATAAAATATTA
1 TTTA-T-TAATAAAATATTA
2797170 TAAATTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.14
28 9 0.21
29 8 0.19
30 6 0.14
31 1 0.02
32 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTATTAATAAAATATTAATTTTTATATAT
Found at i:2797297 original size:28 final size:28
Alignment explanation
Indices: 2797257--2797426 Score: 105
Period size: 30 Copynumber: 5.8 Consensus size: 28
2797247 CTTTATTAAA
2797257 ATATTATTTAAATATATAAATAATATTAT
1 ATATTA-TTAAATATATAAATAATATTAT
*
2797286 -TCATTATTAAATATATAAAAAAAATATTAT
1 AT-ATTATTAAATATAT--AAATAATATTAT
*
2797316 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATAT-ATAA-ATAATAT-TAT
** * *
2797345 ATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTA-AATAT-ATAAATAATATTAT
* * *
2797375 ATAATATTAAAAATATAATATTATATTATT
1 ATATTATTAAATATATAA-ATAATATTA-T
* *
2797405 ATAAATATT-AATAAATAAATAA
1 AT-ATTATTAAATATATAAATAA
2797427 ATAATATTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
28 15 0.13
29 38 0.34
30 48 0.43
31 11 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAATATATAAATAATATTAT
Found at i:2797301 original size:19 final size:20
Alignment explanation
Indices: 2797249--2797301 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
2797239 TTAAATATCT
2797249 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
2797268 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
2797289 TTATTAAATATAT
1 TTATTAAATATAT
2797302 AAAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:2797348 original size:29 final size:29
Alignment explanation
Indices: 2797257--2797361 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 29
2797247 CTTTATTAAA
* * *
2797257 ATATTATTTAAATATATAAATAATATTAT
1 ATATTATTAAAATATAAAAAAAATATTAT
2797286 -TCATTATTAAATATATAAAAAAAATATTAT
1 AT-ATTATTAAA-ATATAAAAAAAATATTAT
*
2797316 ATATTATTAAAATA-AAAATATAATATCT-T
1 ATATTATTAAAATATAAAA-AAAATAT-TAT
*
2797345 ATATTATTATAATATAA
1 ATATTATTAAAATATAA
2797362 TTGATTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
28 5 0.08
29 31 0.48
30 28 0.43
31 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAAAAATATTAT
Found at i:2797399 original size:22 final size:23
Alignment explanation
Indices: 2797374--2797417 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2797364 GATTATTTTA
2797374 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
2797396 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
2797418 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:2797658 original size:42 final size:42
Alignment explanation
Indices: 2797608--2797727 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 42
2797598 ATGAATTACA
* * * *
2797608 TTCCGGAAAACCAATTACGTGAAATAAATACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAATACGGAAAAACATT
* * *
2797650 TTTCGGAAAACGAATTACATGAAACAAACACGGAAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAATACGGAAAAACATT
* *
2797692 TTCCGAAAAACGAATTACGTGAAACAAATACAGAAA
1 TTCCGGAAAACGAATTACGTGAAACAAATACGGAAA
2797728 TTCAAGAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAATACGGAAAAACATT
Found at i:2804652 original size:320 final size:320
Alignment explanation
Indices: 2804065--2804694 Score: 1197
Period size: 320 Copynumber: 2.0 Consensus size: 320
2804055 GACTGTCTTG
*
2804065 TTGATGATGAGGATGCTTCACCTGTGACACAACCATTATTAAATGAGAATAACCTGGGCTGTGAT
1 TTGAGGATGAGGATGCTTCACCTGTGACACAACCATTATTAAATGAGAATAACCTGGGCTGTGAT
* *
2804130 GGGAATAAAGGCCAGAGCACTGAAGCATATAATCATGGTGAAAAATCTGCAGTTTCTTTTCTAGG
66 GGGAATAAAGGCCAGAACACTGAAGCATATAATCATGATGAAAAATCTGCAGTTTCTTTTCTAGG
*
2804195 GTGCAACGAAGTGACAAAGAAGAGGAAGGGGAAGGAGTATGTGGCACATGTTAATGGAAGGGAAA
131 GTGCAACAAAGTGACAAAGAAGAGGAAGGGGAAGGAGTATGTGGCACATGTTAATGGAAGGGAAA
2804260 CGAAAACTGGAGGTTGATGCTGGTACTCTTGATAACAAAGCTTCTGAAGCACATGGTGCAGAAGT
196 CGAAAACTGGAGGTTGATGCTGGTACTCTTGATAACAAAGCTTCTGAAGCACATGGTGCAGAAGT
*
2804325 AGGAGCCTTAGATGTGGATATGGAAGCCAAACAACAGAAAAAGCCATTTAGCCATTTACT
261 AGGAGCCTTAGATGTGGAGATGGAAGCCAAACAACAGAAAAAGCCATTTAGCCATTTACT
*
2804385 TTGAGGATGAGGATGCTTCACCTGTGATACAACCATTATTAAATGAGAATAACCTGGGCTGTGAT
1 TTGAGGATGAGGATGCTTCACCTGTGACACAACCATTATTAAATGAGAATAACCTGGGCTGTGAT
2804450 GGGAATAAAGGCCAGAACACTGAAGCATATAATCATGATGAAAAATCTGCAGTTTCTTTTCTAGG
66 GGGAATAAAGGCCAGAACACTGAAGCATATAATCATGATGAAAAATCTGCAGTTTCTTTTCTAGG
2804515 GTGCAACAAAGTGACAAAGAAGAGGAAGGGGAAGGAGTATGTGGCACATGTTAATGGAAGGGAAA
131 GTGCAACAAAGTGACAAAGAAGAGGAAGGGGAAGGAGTATGTGGCACATGTTAATGGAAGGGAAA
*
2804580 CGAAAACTGGAGGTTGATGCTGGTACTCTTGATAACAAAGCTTCTGAAGCACATGGTGTAGAAGT
196 CGAAAACTGGAGGTTGATGCTGGTACTCTTGATAACAAAGCTTCTGAAGCACATGGTGCAGAAGT
2804645 AGGAGCCTTAGATGTGGAGATGGAAGCCAAACAACAGAAAAAGCCATTTA
261 AGGAGCCTTAGATGTGGAGATGGAAGCCAAACAACAGAAAAAGCCATTTA
2804695 CTTTGATTAC
Statistics
Matches: 303, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 303 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (320 bp):
TTGAGGATGAGGATGCTTCACCTGTGACACAACCATTATTAAATGAGAATAACCTGGGCTGTGAT
GGGAATAAAGGCCAGAACACTGAAGCATATAATCATGATGAAAAATCTGCAGTTTCTTTTCTAGG
GTGCAACAAAGTGACAAAGAAGAGGAAGGGGAAGGAGTATGTGGCACATGTTAATGGAAGGGAAA
CGAAAACTGGAGGTTGATGCTGGTACTCTTGATAACAAAGCTTCTGAAGCACATGGTGCAGAAGT
AGGAGCCTTAGATGTGGAGATGGAAGCCAAACAACAGAAAAAGCCATTTAGCCATTTACT
Found at i:2816745 original size:61 final size:61
Alignment explanation
Indices: 2816675--2816798 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
2816665 TCAGTGTTTA
2816675 CAAGTATTGAAATAATTATGTTTAAGTAATGCATGGTGACGACATCACATTACAACATTTC
1 CAAGTATTGAAATAATTATGTTTAAGTAATGCATGGTGACGACATCACATTACAACATTTC
2816736 CAAGTATTGAAATAATTATGTTTAAGTAATGCATGGTGACGACATCACATTACAACATTTC
1 CAAGTATTGAAATAATTATGTTTAAGTAATGCATGGTGACGACATCACATTACAACATTTC
2816797 CA
1 CA
2816799 TCACCCATTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (61 bp):
CAAGTATTGAAATAATTATGTTTAAGTAATGCATGGTGACGACATCACATTACAACATTTC
Found at i:2819078 original size:24 final size:25
Alignment explanation
Indices: 2819029--2819086 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
2819019 ATAAATTGCA
2819029 CCGAAGTG-CCGCGTAGAAATTTGTC
1 CCGAAG-GACCGCGTAGAAATTTGTC
2819054 CCGAAGGACCGCGTAG-AATTTGTC
1 CCGAAGGACCGCGTAGAAATTTGTC
2819078 CCGAAGGAC
1 CCGAAGGAC
2819087 TACATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (25 bp):
CCGAAGGACCGCGTAGAAATTTGTC
Found at i:2820715 original size:28 final size:28
Alignment explanation
Indices: 2820682--2820738 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
2820672 TTGTATTTAG
2820682 ATTTTA-ACCTTTAAATTTAGGTTT-ATTT
1 ATTTTAGACC-TTAAATTT-GGTTTAATTT
*
2820710 ATTTTAGTCCTTAAATTTGGTTTAATTT
1 ATTTTAGACCTTAAATTTGGTTTAATTT
2820738 A
1 A
2820739 GGTGAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.19
28 19 0.73
29 2 0.08
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (28 bp):
ATTTTAGACCTTAAATTTGGTTTAATTT
Found at i:2821061 original size:138 final size:137
Alignment explanation
Indices: 2820743--2821108 Score: 332
Period size: 138 Copynumber: 2.7 Consensus size: 137
2820733 AATTTAGGTG
* * * * *** * * *
2820743 AATATTTAATTTTGTCATCGCTTTTGCTCGAGATTTTGATTTAATTATATGATTTAATAAATTAC
1 AATATTTAATCTTATCATCCCTTTTGCTCGAGCTTCCAAATTAATTATTTGATTAAATAAATTA-
* * *
2820808 TAAAATTGATTAGGTTTTAATATTAAAGCCTTCACCTTATGTTTAATTTCACCTTAGTCCTTTAA
65 TAAAATTGATTAGGTTTTAATATTAAAGCCTTCACCTTATGATTAATTTCACCTTAATACTTTAA
* * *
2820873 TTTAGGTT
130 TATAGATA
* * * *
2820881 AATTTTTAATCTTATCATCGCTTTTGCTTGATCTTCCAAATTAATTATTTGATTAAATAAATTGA
1 AATATTTAATCTTATCATCCCTTTTGCTCGAGCTTCCAAATTAATTATTTGATTAAATAAATT-A
* * ** ** *
2820946 TAAAATTGATTAGGTTTTAATATTAGAG-CTTTATTTTA-GATTAATTTCATTTTAATATTTTAA
65 TAAAATTGATTAGGTTTTAATATTAAAGCCTTCACCTTATGATTAATTTCACCTTAATACTTTAA
2821009 TATAGATA
130 TATAGATA
* * **
2821017 AATATTTAAT-TTCATCATCACCTTTATGCTCGAGGC-TCCGAATTAATTATTAGATTCGAT-AA
1 AATATTTAATCTT-ATCATC-CCTTT-TGCTCGA-GCTTCCAAATTAATTATTTGATTAAATAAA
*
2821079 TTCATAAAATTGATTA--TGTTAATATTAAAG
62 TT-ATAAAATTGATTAGGTTTTAATATTAAAG
2821109 TCTACATTTT
Statistics
Matches: 187, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
135 14 0.07
136 39 0.21
137 28 0.15
138 104 0.56
139 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (137 bp):
AATATTTAATCTTATCATCCCTTTTGCTCGAGCTTCCAAATTAATTATTTGATTAAATAAATTAT
AAAATTGATTAGGTTTTAATATTAAAGCCTTCACCTTATGATTAATTTCACCTTAATACTTTAAT
ATAGATA
Found at i:2823787 original size:35 final size:35
Alignment explanation
Indices: 2823763--2823841 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
2823753 TGTATTAGGT
*
2823763 TGTTTGATTTGTTTAGTATAAATATAAAATTACAG
1 TGTTTGATTTGTTCAGTATAAATATAAAATTACAG
* *
2823798 TGTTTGATTTGTTCAGTATGAATATAAAATTACGG
1 TGTTTGATTTGTTCAGTATAAATATAAAATTACAG
*
2823833 TGTTAGATT
1 TGTTTGATT
2823842 AGAAGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.46
Consensus pattern (35 bp):
TGTTTGATTTGTTCAGTATAAATATAAAATTACAG
Found at i:2827892 original size:2 final size:2
Alignment explanation
Indices: 2827885--2827910 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2827875 TAGTTTACCC
2827885 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
2827911 GCTGTTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2837876 original size:19 final size:20
Alignment explanation
Indices: 2837837--2837876 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2837827 TGGTTCACGG
*
2837837 AATGTAAGATTATCAGTGGA
1 AATGTAAGATTACCAGTGGA
2837857 AATGTAAGATTACCAG-GGA
1 AATGTAAGATTACCAGTGGA
2837876 A
1 A
2837877 TAGGATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.25
Consensus pattern (20 bp):
AATGTAAGATTACCAGTGGA
Found at i:2851193 original size:32 final size:32
Alignment explanation
Indices: 2851157--2851223 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
2851147 TTCTTCATTC
2851157 ATAAAAAGAAACACTATAGACTTCATTCATAT
1 ATAAAAAGAAACACTATAGACTTCATTCATAT
2851189 ATAAAAAGAAACACTATAGACTTCATTCATAT
1 ATAAAAAGAAACACTATAGACTTCATTCATAT
2851221 ATA
1 ATA
2851224 TAACTCAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (32 bp):
ATAAAAAGAAACACTATAGACTTCATTCATAT
Found at i:2851213 original size:28 final size:29
Alignment explanation
Indices: 2851148--2851219 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 29
2851138 CTAGATTGTT
2851148 TCTTCATTCATAAAAAGAAACACTATAGA
1 TCTTCATTCATAAAAAGAAACACTATAGA
2851177 -CTTCATTCATATATAAAAAGAAACACTATAGA
1 TCTTCATTC----ATAAAAAGAAACACTATAGA
2851209 -CTTCATTCATA
1 TCTTCATTCATA
2851220 TATATAACTC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
28 11 0.28
32 28 0.72
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.31
Consensus pattern (29 bp):
TCTTCATTCATAAAAAGAAACACTATAGA
Found at i:2851383 original size:28 final size:28
Alignment explanation
Indices: 2851351--2851438 Score: 176
Period size: 28 Copynumber: 3.1 Consensus size: 28
2851341 AAAGGAAAAA
2851351 CATAAAAAGAAACACTATAGACTTCATT
1 CATAAAAAGAAACACTATAGACTTCATT
2851379 CATAAAAAGAAACACTATAGACTTCATT
1 CATAAAAAGAAACACTATAGACTTCATT
2851407 CATAAAAAGAAACACTATAGACTTCATT
1 CATAAAAAGAAACACTATAGACTTCATT
2851435 CATA
1 CATA
2851439 TATATAACTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (28 bp):
CATAAAAAGAAACACTATAGACTTCATT
Found at i:2853037 original size:74 final size:76
Alignment explanation
Indices: 2852866--2853068 Score: 261
Period size: 75 Copynumber: 2.7 Consensus size: 76
2852856 CCGTTGTACA
* * * * *
2852866 AGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGC-TTACAGGAATTCTCGG
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATT-CTGGAAATCTCGG
**
2852929 AGCAAAACTGTTT
64 AGCAAAACCATTT
*
2852942 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
*
2853006 CCAAACCATTT
66 CAAAACCATTT
* *
2853017 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTG
2853069 TAATTTTTGG
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
74 21 0.19
75 70 0.62
76 21 0.19
77 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
CAAAACCATTT
Found at i:2853466 original size:17 final size:17
Alignment explanation
Indices: 2853444--2853487 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
2853434 TTCATAAATC
*
2853444 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
2853461 CAAAATCAAACAATCCA
1 CAAAATCAAACAATCCA
2853478 -AAATATCAAA
1 CAAA-ATCAAA
2853488 AGTGTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:2859272 original size:22 final size:21
Alignment explanation
Indices: 2859230--2859269 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2859220 GAGTTTGTTT
*
2859230 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2859251 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2859270 ACAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2861354 original size:75 final size:75
Alignment explanation
Indices: 2861195--2861389 Score: 268
Period size: 74 Copynumber: 2.6 Consensus size: 75
2861185 GTTGTACAAG
* * * *
2861195 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCA
***
2861259 AAATTGTTTA
66 AAACCATTTA
** *
2861269 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTTTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG-C
2861333 AAAACCATTTA
65 AAAACCATTTA
*
2861344 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
2861390 ATCTGTAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
74 53 0.50
75 31 0.29
76 23 0.21
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.25
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCA
AAACCATTTA
Found at i:2873484 original size:26 final size:27
Alignment explanation
Indices: 2873434--2873484 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2873424 TTAAAAATAT
2873434 TATGATATTCATAAAAAACTAAATTAA
1 TATGATATTCATAAAAAACTAAATTAA
*
2873461 TATGATATTTATAAAAAA-TAAATT
1 TATGATATTCATAAAAAACTAAATT
2873485 TTCTTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (27 bp):
TATGATATTCATAAAAAACTAAATTAA
Found at i:2877412 original size:25 final size:26
Alignment explanation
Indices: 2877384--2877432 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2877374 AAAAATTGGG
* *
2877384 TTTTTTT-ATAAAAATAAGAATTTTA
1 TTTTTTTAAAAAAAATAAAAATTTTA
2877409 TTTTTTTAAAAAAAATAAAAATTT
1 TTTTTTTAAAAAAAATAAAAATTT
2877433 GGGTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTTTTAAAAAAAATAAAAATTTTA
Found at i:2882452 original size:15 final size:15
Alignment explanation
Indices: 2882434--2882463 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2882424 ATGCGCATAT
2882434 TGATAATGCACATGG
1 TGATAATGCACATGG
2882449 TGATAATGCACATGG
1 TGATAATGCACATGG
2882464 GGCCGCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAATGCACATGG
Found at i:2889880 original size:16 final size:16
Alignment explanation
Indices: 2889850--2889879 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2889840 TAGTGATTAA
2889850 ATTTAAATTTAAAAAT
1 ATTTAAATTTAAAAAT
2889866 ATTT-AATTTAAAAA
1 ATTTAAATTTAAAAA
2889880 AGAGAAAGAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAAATTTAAAAAT
Found at i:2892489 original size:25 final size:26
Alignment explanation
Indices: 2892455--2892504 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
2892445 TTATGTTTCG
2892455 ACTAACCCATTTCCC-AA-GCCCCAAC
1 ACTAACCCA-TTCCCAAAGGCCCCAAC
2892480 ACTAACCCATTCCCAAAGGCCCCAA
1 ACTAACCCATTCCCAAAGGCCCCAA
2892505 GGCTTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.22
25 11 0.48
26 7 0.30
ACGTcount: A:0.34, C:0.46, G:0.06, T:0.14
Consensus pattern (26 bp):
ACTAACCCATTCCCAAAGGCCCCAAC
Found at i:2899079 original size:61 final size:60
Alignment explanation
Indices: 2898966--2899082 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
2898956 ATAATGAATC
* ** * * *** *
2898966 TATTTTTTAACTTTTAATAGTTGAGGGACTTAATAAAGCAATATTTTGTAGTCGGATGAT
1 TATTTTATAACTTTTAATAGTCAAGAGACTTAATAAAACAATACCCTATAGTCGGATGAT
2899026 TATTTTATAACTTTCTAATAGTCAAGAGACTTAATAAAACAATACCCTATAGTCGGA
1 TATTTTATAACTTT-TAATAGTCAAGAGACTTAATAAAACAATACCCTATAGTCGGA
2899083 GACCATTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
60 13 0.28
61 34 0.72
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (60 bp):
TATTTTATAACTTTTAATAGTCAAGAGACTTAATAAAACAATACCCTATAGTCGGATGAT
Found at i:2899153 original size:2 final size:2
Alignment explanation
Indices: 2899146--2899179 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2899136 TTAAAATTAA
2899146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2899180 TCAGAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2904922 original size:41 final size:42
Alignment explanation
Indices: 2904869--2904976 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 42
2904859 AATTCTCGTT
*
2904869 TTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTT-CCGTG
1 TTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCCATG
* * *
2904910 TTTGTTTTACGTAATTTGTTTTCCGGAAAATGTTTTCCCATG
1 TTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCCATG
*
2904952 TTTGTTTCACGTAATTGGTTTTCCG
1 TTTGTTTCACGTAATTCGTTTTCCG
2904977 AAATGTAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 33 0.55
42 27 0.45
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (42 bp):
TTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCCATG
Found at i:2905606 original size:22 final size:22
Alignment explanation
Indices: 2905551--2905606 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
2905541 ATGTTTTTTT
2905551 TAATAATATTAATAATAATAAA
1 TAATAATATTAATAATAATAAA
* **
2905573 TAA-ATTATTTAAT-ATTTTAAAA
1 TAATAATA-TTAATAATAAT-AAA
2905595 TAATAATATTAA
1 TAATAATATTAA
2905607 GTTTTATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
21 6 0.22
22 18 0.67
23 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATAATATTAATAATAATAAA
Found at i:2905698 original size:190 final size:182
Alignment explanation
Indices: 2905384--2905742 Score: 580
Period size: 190 Copynumber: 1.9 Consensus size: 182
2905374 AAAATAAGAT
2905384 ATAATAAATAAAAATGTTAATATTTTAAAAAAATATTAAGTTTTATGATAAATATATTATTATAT
1 ATAATAAATAAAAATGTTAATATTTTAAAAAAATATTAAGTTTTATGATAAATATATTATTATAT
2905449 TTAATATTTGTAATAAATATTTTTAAAAAACTCTTCAACTAGTAGAAAAATGTTTTAAATAACAT
66 TTAATATTTGTAATAAATATTTTTAAAAAACTCTTCAACTAGTAGAAAAATGTTTTAAATAACAT
*
2905514 CTTCCAAACATCATCAAACG-TTTCCAGATGTTTTTTTTAATAATATTAATA
131 CTTCCAAACATCATAAAACGTTTTCCAGATGTTTTTTTTAATAATATTAATA
*
2905565 ATAATAAATAAATTAT-TTAATATTTTAAAATAATAATATTAAGTTTTATGATAAATAATATTAT
1 ATAATAAATAAA-AATGTTAATATTTT-AAA-AA-AATATTAAGTTTTATGAT--A-AATA-TA-
2905629 TTATTATATTTAATATTTGTAATAAATAATTTTTAAAAAACTCTTCAACTAGTAGAAAAAATG-T
57 TTATTATATTTAATATTTGTAATAAAT-ATTTTTAAAAAACTCTTCAACTAGTAG-AAAAATGTT
2905693 TTAAATAACATCTTCCAAACATCATAAAACGTTTTCCAGATGTTTTTTTT
120 TTAAATAACATCTTCCAAACATCATAAAACGTTTTCCAGATGTTTTTTTT
2905743 TTCAGAAAAA
Statistics
Matches: 164, Mismatches: 2, Indels: 14
0.91 0.01 0.08
Matches are distributed among these distances:
181 22 0.13
182 5 0.03
183 2 0.01
184 18 0.11
186 1 0.01
187 4 0.02
188 2 0.01
189 27 0.16
190 58 0.35
191 25 0.15
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (182 bp):
ATAATAAATAAAAATGTTAATATTTTAAAAAAATATTAAGTTTTATGATAAATATATTATTATAT
TTAATATTTGTAATAAATATTTTTAAAAAACTCTTCAACTAGTAGAAAAATGTTTTAAATAACAT
CTTCCAAACATCATAAAACGTTTTCCAGATGTTTTTTTTAATAATATTAATA
Found at i:2905794 original size:14 final size:14
Alignment explanation
Indices: 2905760--2905794 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2905750 AAATGTAATT
*
2905760 CATTTTATGGAAAA
1 CATTTTCTGGAAAA
2905774 CATTTTCTGGAAAA
1 CATTTTCTGGAAAA
*
2905788 CGTTTTC
1 CATTTTC
2905795 CAGAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (14 bp):
CATTTTCTGGAAAA
Found at i:2905823 original size:14 final size:15
Alignment explanation
Indices: 2905802--2905909 Score: 85
Period size: 15 Copynumber: 6.9 Consensus size: 15
2905792 TTCCAGAAAT
2905802 ATAATTCATTTTCC-
1 ATAATTCATTTTCCA
* **
2905816 AGAATTCAAATTCCA
1 ATAATTCATTTTCCA
2905831 ATAATTCATTTTCCA
1 ATAATTCATTTTCCA
**
2905846 A-AATTCAAATTCCA
1 ATAATTCATTTTCCA
2905860 ATAATTCATTTTTCAGTTCCA
1 ATAATTCA---TT---TTCCA
**
2905881 ATAATTCAAATTCCA
1 ATAATTCATTTTCCA
2905896 ATAATTCATTTTCC
1 ATAATTCATTTTCC
2905910 GGAAAACCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
14 23 0.32
15 36 0.50
21 13 0.18
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (15 bp):
ATAATTCATTTTCCA
Found at i:2905844 original size:29 final size:29
Alignment explanation
Indices: 2905802--2905909 Score: 144
Period size: 29 Copynumber: 3.5 Consensus size: 29
2905792 TTCCAGAAAT
*
2905802 ATAATTCATTTTCCAGAATTCAAATTCCA
1 ATAATTCATTTTCCAAAATTCAAATTCCA
2905831 ATAATTCATTTTCCAAAATTCAAATTCCA
1 ATAATTCATTTTCCAAAATTCAAATTCCA
2905860 ATAATTCATTTTTCAGTTCCAATAATTCAAATTCCA
1 ATAATTCA---TT---TTCCAA-AATTCAAATTCCA
2905896 ATAATTCATTTTCC
1 ATAATTCATTTTCC
2905910 GGAAAACCAA
Statistics
Matches: 71, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
29 36 0.51
30 4 0.06
32 2 0.03
33 2 0.03
35 6 0.08
36 21 0.30
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (29 bp):
ATAATTCATTTTCCAAAATTCAAATTCCA
Found at i:2913925 original size:21 final size:22
Alignment explanation
Indices: 2913886--2913926 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2913876 GGAGTGGGGG
2913886 ATGTTTTTACTTAATAAAAAAT
1 ATGTTTTTACTTAATAAAAAAT
2913908 ATGTTTATTA-TT-ATAAAAA
1 ATGTTT-TTACTTAATAAAAA
2913927 TATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
ATGTTTTTACTTAATAAAAAAT
Found at i:2916459 original size:64 final size:64
Alignment explanation
Indices: 2916310--2916463 Score: 154
Period size: 64 Copynumber: 2.4 Consensus size: 64
2916300 TGAAGGTATG
** * * * *
2916310 CATCGATGCACTAGTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTATTATTAATGGGATG
1 CATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAGAGATA
* * * *
2916374 CATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATCTTTTTATT-TTAAA-AGA
1 CATCGATGCACTACC-TGTGCATCGATGCA-TAAAATGCATTCGAT-GTTTTATTATTAAAGAGA
2916435 GTA
63 -TA
2916438 CATCGATGCACTACCTGTGCATCGAT
1 CATCGATGCACTACCTGTGCATCGAT
2916464 ACACCTTCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
63 3 0.04
64 59 0.81
65 11 0.15
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (64 bp):
CATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAGAGATA
Found at i:2922692 original size:15 final size:15
Alignment explanation
Indices: 2922668--2922701 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2922658 CCGTAGGATC
*
2922668 ACTACATCCCGAAGG
1 ACTACATCCCGAACG
*
2922683 ACTACGTCCCGAACG
1 ACTACATCCCGAACG
2922698 ACTA
1 ACTA
2922702 TTATACCCTC
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:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAACG
Found at i:2922828 original size:29 final size:29
Alignment explanation
Indices: 2922786--2922860 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
2922776 TTTCATATGT
*
2922786 TCATGTA-CTCATGTCGTTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2922814 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2922843 TCATGTAGCTCATGTCAT
1 TCATGTAGCTCATGTCAT
2922861 GTTCATACCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:2924768 original size:49 final size:49
Alignment explanation
Indices: 2924711--2924808 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
2924701 TAAAAAAGAG
2924711 AGTACATCTTTAGTGAAAAAATAAAACTTGAAGTTACATAGGTATTCTA
1 AGTACATCTTTAGTGAAAAAATAAAACTTGAAGTTACATAGGTATTCTA
2924760 AGTACATCTTTAGTGAAAAAATAAAACTTGAAGTTACATAGGTATTCTA
1 AGTACATCTTTAGTGAAAAAATAAAACTTGAAGTTACATAGGTATTCTA
2924809 TTGTGGTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (49 bp):
AGTACATCTTTAGTGAAAAAATAAAACTTGAAGTTACATAGGTATTCTA
Found at i:2925063 original size:20 final size:20
Alignment explanation
Indices: 2925032--2925121 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
2925022 TTGAAAATTA
*
2925032 CGTTGTGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
*
2925052 CGTTGCGGTTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
2925072 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
2925093 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
2925113 CGTTGCGAT
1 CGTTGCGAT
2925122 AGTCTACAGT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 41 0.73
21 15 0.27
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:2925103 original size:61 final size:61
Alignment explanation
Indices: 2925004--2925119 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
2924994 ATTCGCATTG
* *
2925004 CATTTCGCGTTGCGATAGTTGAAAATTACGTTGTGATTTTCCATTTCGCGTTGCGGTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGGTTTTC
*
2925065 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCG
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCG
2925120 ATAGTCTACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (61 bp):
CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGGTTTTC
Found at i:2925286 original size:5 final size:5
Alignment explanation
Indices: 2925276--2925306 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2925266 GACCACGACC
2925276 CGAGA CGAGA CGAGA CGAGA CGAGA C-AGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
2925307 GCGGCGGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.23, G:0.39, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:2925933 original size:19 final size:19
Alignment explanation
Indices: 2925909--2926058 Score: 138
Period size: 19 Copynumber: 7.5 Consensus size: 19
2925899 CAACGACTTT
2925909 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
2925928 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
*
2925950 TCGCAACGAATTTGTAAACTA
1 TCGCAACGAATTTGGAAA--A
* * * **
2925971 TCGCAACAACAACTGTAGACTA
1 TCGCAAC--GAA-TTTGGAAAA
2925993 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
2926012 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
2926031 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
2926050 TCGCAACGA
1 TCGCAACGA
2926059 CAACTGTAGA
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
19 63 0.61
20 4 0.04
21 10 0.10
22 21 0.20
23 2 0.02
24 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:2925955 original size:22 final size:22
Alignment explanation
Indices: 2925927--2926001 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
2925917 AATTTGGAAA
2925927 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
** *
2925949 ATCGCAACGA-ATTTGTAAACT
1 ATCGCAACGACAACTGTAGACT
*
2925970 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2925992 ATCGCAACGA
1 ATCGCAACGA
2926002 ATTTGGAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 17 0.39
22 27 0.61
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2925984 original size:43 final size:41
Alignment explanation
Indices: 2925909--2926099 Score: 255
Period size: 43 Copynumber: 4.7 Consensus size: 41
2925899 CAACGACTTT
2925909 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* *
2925950 TCGCAACGAATTTGTAAACTATCGCAACAACAACTGTAGACTA
1 TCGCAACGAATTTGGAAA--ATCGCAACGACAACTGTAGACTA
* * **
2925993 TCGCAACGAATTTGGAAAATCGCAACG--AA-TTTGGAAAA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
2926031 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
*
2926072 TCGCAACGCGAA-ATGGAAAATCGCAACG
1 TCGCAA--CGAATTTGGAAAATCGCAACG
2926100 CGATTTTCAA
Statistics
Matches: 130, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
38 32 0.25
39 2 0.02
40 2 0.02
41 36 0.28
42 15 0.12
43 43 0.33
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:2926096 original size:20 final size:21
Alignment explanation
Indices: 2925992--2926102 Score: 103
Period size: 19 Copynumber: 5.6 Consensus size: 21
2925982 ACTGTAGACT
2925992 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAATTTGGAAA
2926011 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAATTTGGAAA
2926030 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAATTTGGAAA
* * **
2926049 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAA-TTTGGAAA
*
2926071 ATCGCAACGCGAA-ATGGAAA
1 ATCGCAACGCGAATTTGGAAA
2926091 ATCGCAACGCGA
1 ATCGCAACGCGA
2926103 TTTTCAACTA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
19 45 0.57
20 15 0.19
21 3 0.04
22 16 0.20
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAATTTGGAAA
Found at i:2926572 original size:158 final size:161
Alignment explanation
Indices: 2926269--2926580 Score: 360
Period size: 158 Copynumber: 1.9 Consensus size: 161
2926259 TTATTTTTTC
* *
2926269 TAAAATAAATCACAAATTGAAGGAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAAT
1 TAAAATAAATAACAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAAT
* * ** *
2926334 AAAAAAAAAACTATTATCAAAAAGAGGAATTGAAAGTACTCCTGTATTCTACTATGGTTTAGGAA
66 --AAAAAAAACTATTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTAAAATGATTTAGGAA
* *
2926399 AATATGGCTCAAATTTGGTAAAATAAACGAACT
129 AACATGGCTCAAATTTGGAAAAATAAACGAACT
** * *
2926432 TAAAATAAATAATGAATTGAAGAAATAAGGAGATTATG-AAAATTGAATGACTAAATTGAAAAAT
1 TAAAATAAATAACAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAAT
** * ** * * **
2926496 -AAAAAATTTGTTATC-AAAAGAGTTATTGAAATTGCACATGTATTCTAAAATGATTTAGGAGCA
66 AAAAAAAACTATTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTAAAATGATTTAGGAAAA
* * *
2926559 CGTGGTTCGAATTTGGAAAAAT
131 CATGGCTCAAATTTGGAAAAAT
2926581 TGGACTTAAA
Statistics
Matches: 124, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
158 54 0.44
159 12 0.10
162 24 0.19
163 34 0.27
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (161 bp):
TAAAATAAATAACAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAAT
AAAAAAAACTATTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTAAAATGATTTAGGAAAA
CATGGCTCAAATTTGGAAAAATAAACGAACT
Found at i:2927293 original size:25 final size:24
Alignment explanation
Indices: 2927248--2927294 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
2927238 CAATAATGTT
**
2927248 AGAACAAAGGAGCAGTTAATTATG
1 AGAACAAAGGAGCAGAGAATTATG
*
2927272 AGAACAAATGTAGCAGAGAATTA
1 AGAACAAA-GGAGCAGAGAATTA
2927295 CTGACCGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (24 bp):
AGAACAAAGGAGCAGAGAATTATG
Found at i:2928090 original size:6 final size:6
Alignment explanation
Indices: 2928081--2928107 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2928071 TATTCATCTT
2928081 CAAATA CAAATA CAAATA CAAATA CAA
1 CAAATA CAAATA CAAATA CAAATA CAA
2928108 GATCAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.15
Consensus pattern (6 bp):
CAAATA
Found at i:2932151 original size:30 final size:29
Alignment explanation
Indices: 2932103--2932178 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
2932093 TAGAGGCGAT
* * *
2932103 TTTCCCGATATATCACCGGTGA-ATAGTATA
1 TTTCCCGATCTAACACCGGTCAGAT--TATA
* *
2932133 TTTTCTGATCTAACACCGGTCAGATTATA
1 TTTCCCGATCTAACACCGGTCAGATTATA
2932162 TTTCCCGATCTAACACC
1 TTTCCCGATCTAACACC
2932179 CTTAGCAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 19 0.50
30 17 0.45
31 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (29 bp):
TTTCCCGATCTAACACCGGTCAGATTATA
Found at i:2932291 original size:51 final size:51
Alignment explanation
Indices: 2932191--2932318 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 51
2932181 TAGCAGTAAT
* * *
2932191 GTGCGCCCCCTGCACCGCGCTATACGATGATTTGACGTCATGTGTGGTATA
1 GTGCGCCCCCTGCACCGCGCTATACGATGATCTGACATCACGTGTGGTATA
* * *
2932242 GTGCGCCCCCTGCACCGCGTTATACGGTGATCTGGCATACACGTG-GGTATA
1 GTGCGCCCCCTGCACCGCGCTATACGATGATCTGACAT-CACGTGTGGTATA
* * * *
2932293 GCGCGACCCCTGCAGCGCGCTTTACG
1 GTGCGCCCCCTGCACCGCGCTATACG
2932319 CCACGTAGGG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 60 0.92
52 5 0.08
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.23
Consensus pattern (51 bp):
GTGCGCCCCCTGCACCGCGCTATACGATGATCTGACATCACGTGTGGTATA
Found at i:2936591 original size:69 final size:69
Alignment explanation
Indices: 2936480--2936617 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
2936470 ATGGCTGTGG
2936480 TGGCTGCTGGGAAGGTCCTACTTGTGCAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCAC
1 TGGCTGCTGGGAAGGTCCTACTTGTGCAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCAC
2936545 GAGT
66 GAGT
2936549 TGGCTGCTGGGAAGGTCCTACTTGTGCAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCAC
1 TGGCTGCTGGGAAGGTCCTACTTGTGCAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCAC
2936614 GAGT
66 GAGT
2936618 CGGGGGACGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (69 bp):
TGGCTGCTGGGAAGGTCCTACTTGTGCAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCAC
GAGT
Found at i:2938249 original size:110 final size:111
Alignment explanation
Indices: 2938055--2938275 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 111
2938045 ATTACAAAAA
* * *
2938055 TTAATTCTTAATCTAATAATCATGCATTAAATGAATAAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTAATAATAATTTAAATTA
*
2938120 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
2938166 TTAATTCTTAATCTAATAATCATGCATTAAATAAAT-AACTAAATATTAATAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTAATAATAATTTAAATTA
2938230 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
2938276 ATGATTTCCA
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.67
111 35 0.33
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:2948145 original size:3 final size:3
Alignment explanation
Indices: 2948137--2948161 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2948127 CTCGCTGTCA
2948137 TCG TCG TCG TCG TCG TCG TCG TCG T
1 TCG TCG TCG TCG TCG TCG TCG TCG T
2948162 TGTCCTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (3 bp):
TCG
Found at i:2948541 original size:18 final size:18
Alignment explanation
Indices: 2948504--2948541 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2948494 AAAGGCGATG
* *
2948504 GCGACATCATATATGGCT
1 GCGACATCATAAATGACT
2948522 GCGACATCATAAATGACT
1 GCGACATCATAAATGACT
2948540 GC
1 GC
2948542 TATGGCTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (18 bp):
GCGACATCATAAATGACT
Found at i:2950247 original size:17 final size:18
Alignment explanation
Indices: 2950204--2950244 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2950194 GAATTATATT
2950204 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
2950221 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
2950239 ATTAAA
1 AGTAAA
2950245 TACATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:2950305 original size:10 final size:10
Alignment explanation
Indices: 2950286--2950317 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2950276 CTTAAACAGA
*
2950286 GAGAGTATTT
1 GAGAGAATTT
2950296 GAGAGAATTT
1 GAGAGAATTT
2950306 GAGAGAATTT
1 GAGAGAATTT
2950316 GA
1 GA
2950318 TGTGATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2951510 original size:14 final size:14
Alignment explanation
Indices: 2951495--2951591 Score: 77
Period size: 14 Copynumber: 6.9 Consensus size: 14
2951485 TTCAACAAAT
*
2951495 GTAATTTATTTTAT
1 GTAATTTATTTTAA
** *
2951509 GTAAACTGTTTTAA
1 GTAATTTATTTTAA
* *
2951523 GTAATTCATTTTAC
1 GTAATTTATTTTAA
*
2951537 GTAAATTATTTTAA
1 GTAATTTATTTTAA
* * *
2951551 ATAATTCATTTTAC
1 GTAATTTATTTTAA
* *
2951565 GTAAATTGTTTTAA
1 GTAATTTATTTTAA
*
2951579 GTAATTCATTTTA
1 GTAATTTATTTTA
2951592 CATAAAATAA
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 59 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (14 bp):
GTAATTTATTTTAA
Found at i:2951575 original size:56 final size:57
Alignment explanation
Indices: 2951496--2951665 Score: 218
Period size: 56 Copynumber: 2.9 Consensus size: 57
2951486 TCAACAAATG
* * * *
2951496 TAATTTATTTTATGTAAACTGTTTTAAGTAATTCATTTTACGTAAATTATTTT-AAA
1 TAATTCATTTTACGTAAATTGTTTTAAGTAATTCATTTTACATAAATTATTTTCAAA
* *
2951552 TAATTCATTTTACGTAAATTGTTTTAAGTAATTCATTTTACATAAAATAATTTTCATA
1 TAATTCATTTTACGTAAATTGTTTTAAGTAATTCATTTTACAT-AAATTATTTTCAAA
* *
2951610 TAATTCATTTTACGTAAAATAAT-TTTTAAGTAATCCATTTTTCATAAATTATTTTC
1 TAATTCATTTTACGT-AAAT--TGTTTTAAGTAATTCATTTTACATAAATTATTTTC
2951666 TAAAAAAATC
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
56 39 0.39
57 9 0.09
58 17 0.17
59 14 0.14
60 20 0.20
61 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.50
Consensus pattern (57 bp):
TAATTCATTTTACGTAAATTGTTTTAAGTAATTCATTTTACATAAATTATTTTCAAA
Found at i:2951616 original size:30 final size:28
Alignment explanation
Indices: 2951495--2951664 Score: 180
Period size: 28 Copynumber: 5.9 Consensus size: 28
2951485 TTCAACAAAT
* * * *
2951495 GTAATTTATTTTATGTAAACTGTTTTAA
1 GTAATTCATTTTACGTAAATTATTTTAA
2951523 GTAATTCATTTTACGTAAATTATTTTAA
1 GTAATTCATTTTACGTAAATTATTTTAA
* *
2951551 ATAATTCATTTTACGTAAATTGTTTTAA
1 GTAATTCATTTTACGTAAATTATTTTAA
* *
2951579 GTAATTCATTTTACATAAAATAATTTTCATA
1 GTAATTCATTTTACGT-AAATTATTTT-A-A
*
2951610 -TAATTCATTTTACGTAAAATAATTTTTAA
1 GTAATTCATTTTACGT-AAATTA-TTTTAA
* * *
2951639 GTAATCCATTTTTCATAAATTATTTT
1 GTAATTCATTTTACGTAAATTATTTT
2951665 CTAAAAAAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 68 0.56
29 14 0.11
30 35 0.29
31 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (28 bp):
GTAATTCATTTTACGTAAATTATTTTAA
Found at i:2951619 original size:15 final size:16
Alignment explanation
Indices: 2951524--2951622 Score: 74
Period size: 14 Copynumber: 6.8 Consensus size: 16
2951514 CTGTTTTAAG
*
2951524 TAATTCATTTTACGTA
1 TAATTCATTTTACATA
2951540 -AATT-ATTTTA-A-A
1 TAATTCATTTTACATA
*
2951552 TAATTCATTTTACGTA
1 TAATTCATTTTACATA
* *
2951568 -AATT-GTTTTA-A-G
1 TAATTCATTTTACATA
2951580 TAATTCATTTTACATA
1 TAATTCATTTTACATA
* *
2951596 -AAATAATTTT-CATA
1 TAATTCATTTTACATA
2951610 TAATTCATTTTAC
1 TAATTCATTTTAC
2951623 GTAAAATAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 20
0.67 0.12 0.22
Matches are distributed among these distances:
12 1 0.02
13 8 0.13
14 26 0.42
15 25 0.40
16 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (16 bp):
TAATTCATTTTACATA
Found at i:2951634 original size:15 final size:15
Alignment explanation
Indices: 2951586--2951635 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
2951576 TAAGTAATTC
2951586 ATTTTACATAAAATA
1 ATTTTACATAAAATA
* *
2951601 ATTTT-CATATAATTC
1 ATTTTACATA-AAATA
*
2951616 ATTTTACGTAAAATA
1 ATTTTACATAAAATA
2951631 ATTTT
1 ATTTT
2951636 TAAGTAATCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 4 0.14
15 21 0.75
16 3 0.11
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (15 bp):
ATTTTACATAAAATA
Found at i:2954560 original size:19 final size:21
Alignment explanation
Indices: 2954522--2954560 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
2954512 CGCATGTATT
2954522 TCTTATTCATCATTTATTTTA
1 TCTTATTCATCATTTATTTTA
*
2954543 TCTTA-TCA-CATTTTTTTT
1 TCTTATTCATCATTTATTTT
2954561 CAGTTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (21 bp):
TCTTATTCATCATTTATTTTA
Found at i:2954630 original size:23 final size:21
Alignment explanation
Indices: 2954580--2954631 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
2954570 ATAATTTTGC
2954580 CTTTATATCATATTTTTCTTTA
1 CTTT-TATCATATTTTTCTTTA
*
2954602 -TATTTATGATATATTTTCTTATA
1 CT-TTTATCATAT-TTTTCTT-TA
2954625 CTTTTAT
1 CTTTTAT
2954632 AACATGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 7 0.28
24 1 0.04
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
CTTTTATCATATTTTTCTTTA
Found at i:2963600 original size:12 final size:15
Alignment explanation
Indices: 2963561--2963594 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2963551 TTTTATTATT
*
2963561 TTTTGTAATAAATTA
1 TTTTGTATTAAATTA
2963576 TTTTGTATTAAATTA
1 TTTTGTATTAAATTA
2963591 TTTT
1 TTTT
2963595 TTAAATGAAA
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:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTGTATTAAATTA
Found at i:2963606 original size:17 final size:15
Alignment explanation
Indices: 2963555--2963598 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
2963545 AATAGCTTTT
2963555 ATTATTTTTTGTAATAA
1 ATTA-TTTTT-TAATAA
* *
2963572 ATTATTTTGTATTAA
1 ATTATTTTTTAATAA
2963587 ATTATTTTTTAA
1 ATTATTTTTTAA
2963599 ATGAAATTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 15 0.65
16 4 0.17
17 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
ATTATTTTTTAATAA
Found at i:2969392 original size:25 final size:26
Alignment explanation
Indices: 2969364--2969422 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
2969354 ACATGATTTT
*
2969364 ATTTTAGGAA-GGATAAAC-TATTAAA
1 ATTTTAGGAATGGACAAACATA-TAAA
*
2969389 ATTTTAAGAATGGACAAACATATAAA
1 ATTTTAGGAATGGACAAACATATAAA
2969415 A-TTTAGGA
1 ATTTTAGGA
2969423 GATGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 15 0.52
26 12 0.41
27 2 0.07
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (26 bp):
ATTTTAGGAATGGACAAACATATAAA
Found at i:2969414 original size:26 final size:25
Alignment explanation
Indices: 2969364--2969418 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
2969354 ACATGATTTT
* *
2969364 ATTTTAGGAAGGATAAACTATTAAA
1 ATTTTAAGAAGGACAAACTATTAAA
2969389 ATTTTAAGAATGGACAAAC-ATATAAA
1 ATTTTAAGAA-GGACAAACTAT-TAAA
2969415 ATTT
1 ATTT
2969419 AGGAGATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (25 bp):
ATTTTAAGAAGGACAAACTATTAAA
Found at i:2973243 original size:15 final size:15
Alignment explanation
Indices: 2973223--2973252 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2973213 TTCATTAAAT
2973223 TTTATTAATCATTAA
1 TTTATTAATCATTAA
2973238 TTTATTAATCATTAA
1 TTTATTAATCATTAA
2973253 ATAGTTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTATTAATCATTAA
Found at i:2974277 original size:24 final size:25
Alignment explanation
Indices: 2974250--2974299 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
2974240 AAGATAGAGT
2974250 TGAATATAAACAAACAGATG-AAAA
1 TGAATATAAACAAACAGATGTAAAA
*
2974274 TGAATATAAATAAACAGATGTAAAA
1 TGAATATAAACAAACAGATGTAAAA
2974299 T
1 T
2974300 TAATTAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.22
Consensus pattern (25 bp):
TGAATATAAACAAACAGATGTAAAA
Found at i:2976841 original size:22 final size:21
Alignment explanation
Indices: 2976810--2976869 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
2976800 TTTATTTTGT
2976810 ATTATTAAAATATATTATTTA
1 ATTATTAAAATATATTATTTA
* **
2976831 ATTATTTAAAATATAATAAATA
1 ATTA-TTAAAATATATTATTTA
2976853 ATTA-T-AAATATATTATT
1 ATTATTAAAATATATTATT
2976870 ATAAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.28
20 1 0.03
21 4 0.12
22 18 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTATTAAAATATATTATTTA
Found at i:2976877 original size:22 final size:23
Alignment explanation
Indices: 2976813--2976877 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 23
2976803 ATTTTGTATT
*
2976813 ATTA-AAATATATTATT-TAATT
1 ATTATAAATATATTATTATAATA
*
2976834 ATT-TAAA-ATA-TAATA-AATA
1 ATTATAAATATATTATTATAATA
2976853 ATTATAAATATATTATTATAA-A
1 ATTATAAATATATTATTATAATA
2976875 ATT
1 ATT
2976878 TATTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
19 9 0.26
20 7 0.20
21 9 0.26
22 8 0.23
23 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTATAAATATATTATTATAATA
Found at i:2976881 original size:15 final size:14
Alignment explanation
Indices: 2976809--2976892 Score: 63
Period size: 13 Copynumber: 6.4 Consensus size: 14
2976799 TTTTATTTTG
2976809 TATTATTA-AAATA
1 TATTATTATAAATA
*
2976822 TATTATT-TAATTA
1 TATTATTATAAATA
**
2976835 T-TTAAAATATAATA
1 TATTATTATA-AATA
* *
2976849 AATAATTATAAATA
1 TATTATTATAAATA
2976863 TATTATTATAAA-A
1 TATTATTATAAATA
*
2976876 T-TTATTTTAAA-A
1 TATTATTATAAATA
2976888 TATTA
1 TATTA
2976893 ATTCATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
12 14 0.25
13 19 0.35
14 17 0.31
15 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATTATAAATA
Found at i:2982434 original size:19 final size:19
Alignment explanation
Indices: 2982406--2982444 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2982396 TGGATATATC
2982406 CATCTATTCTT-CAAAATTT
1 CATCTATTCTTGC-AAATTT
*
2982425 CATCTTTTCTTGCAAATTT
1 CATCTATTCTTGCAAATTT
2982444 C
1 C
2982445 TAGAGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (19 bp):
CATCTATTCTTGCAAATTT
Found at i:2985525 original size:25 final size:27
Alignment explanation
Indices: 2985485--2985571 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
2985475 TTAAATTCAC
*
2985485 AATATTATA-TATATATTAACTTTAAA
1 AATATTTTATTATATATTAACTTTAAA
2985511 AATATTTT-TTA-ATATTAACCTATTAAA
1 AATATTTTATTATATATTAA-CT-TTAAA
* *
2985538 TATATTTTATTATAAACTTAA-TTTAAA
1 AATATTTTATTATATA-TTAACTTTAAA
*
2985565 AGTATTT
1 AATATTT
2985572 CATTTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
25 7 0.14
26 11 0.22
27 22 0.44
28 4 0.08
29 2 0.04
30 4 0.08
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (27 bp):
AATATTTTATTATATATTAACTTTAAA
Found at i:2985735 original size:27 final size:27
Alignment explanation
Indices: 2985697--2985753 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2985687 GATAAAGTAT
*
2985697 ATATTTTGAAATAAAAATAAAAATAAA
1 ATATTTTAAAATAAAAATAAAAATAAA
* ** *
2985724 ATATTTTAAAATTAAGTTAATAATAAA
1 ATATTTTAAAATAAAAATAAAAATAAA
2985751 ATA
1 ATA
2985754 CATTTAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
ATATTTTAAAATAAAAATAAAAATAAA
Found at i:2991221 original size:31 final size:31
Alignment explanation
Indices: 2991183--2991288 Score: 194
Period size: 31 Copynumber: 3.4 Consensus size: 31
2991173 CTAGTATTGG
* *
2991183 ATAATGCTCATTCAACTAGTATTGAATGTTA
1 ATAATGCTCAATCAACTAGCATTGAATGTTA
2991214 ATAATGCTCAATCAACTAGCATTGAATGTTA
1 ATAATGCTCAATCAACTAGCATTGAATGTTA
2991245 ATAATGCTCAATCAACTAGCATTGAATGTTA
1 ATAATGCTCAATCAACTAGCATTGAATGTTA
2991276 ATAATGCTCAATC
1 ATAATGCTCAATC
2991289 TGTAACATCC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (31 bp):
ATAATGCTCAATCAACTAGCATTGAATGTTA
Found at i:2992091 original size:19 final size:19
Alignment explanation
Indices: 2992067--2992118 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
2992057 GAATGCAATT
2992067 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
2992086 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
2992105 AGTGCATCGATGCA
1 AGTGCATCGATGCA
2992119 CCCCCATAAA
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:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:2992999 original size:21 final size:18
Alignment explanation
Indices: 2992952--2993025 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
2992942 ATTCTTAAGG
*
2992952 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAT
*
2992970 AGTGATCCTTCGGGACAAAT
1 AGTGGTCCTTCGGGAC--AT
2992990 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
2993009 AGTGGTTCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2993026 AATATACAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 30 0.61
19 2 0.04
20 2 0.04
21 15 0.31
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2993008 original size:39 final size:39
Alignment explanation
Indices: 2992952--2993028 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2992942 ATTCTTAAGG
2992952 AGTGGTCCTTCGAGACATAGTGATCCTTCGGGACAAATC
1 AGTGGTCCTTCGAGACATAGTGATCCTTCGGGACAAATC
* * *
2992991 AGTGGTCCTTCGGGACATAGTGGTTCTTCGGGACAAAT
1 AGTGGTCCTTCGAGACATAGTGATCCTTCGGGACAAAT
2993029 ATACAGTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
AGTGGTCCTTCGAGACATAGTGATCCTTCGGGACAAATC
Found at i:2994387 original size:31 final size:31
Alignment explanation
Indices: 2994339--2994473 Score: 143
Period size: 31 Copynumber: 4.4 Consensus size: 31
2994329 GTTACACAAA
* *
2994339 CAACTAATATT-ACATGTTAATAATG-TTGATT
1 CAACTAGTATTGA-ATGTTAATAATGCTT-AAT
* *
2994370 CAACTAGTATTGAATGTTGATAATGCTCAAT
1 CAACTAGTATTGAATGTTAATAATGCTTAAT
*
2994401 -ACACTAGTATTGGATGTTAATAATGCTTAAT
1 CA-ACTAGTATTGAATGTTAATAATGCTTAAT
* *
2994432 CCACTAGTATTGAATGTTAATAATGCTCAATT
1 CAACTAGTATTGAATGTTAATAATGCTTAA-T
2994464 C-ACTAGTATT
1 CAACTAGTATT
2994474 AGAAATGGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.01
31 84 0.94
32 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (31 bp):
CAACTAGTATTGAATGTTAATAATGCTTAAT
Found at i:2994438 original size:62 final size:62
Alignment explanation
Indices: 2994352--2994473 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
2994342 CTAATATTAC
* *
2994352 ATGTTAATAATGTTGATTCAACTAGTATTGAATGTTGATAATGCTCAATACACTAGTATTGG
1 ATGTTAATAATGTTGAATCAACTAGTATTGAATGTTAATAATGCTCAATACACTAGTATTGG
* *
2994414 ATGTTAATAATGCTT-AATCCACTAGTATTGAATGTTAATAATGCTCAATTCACTAGTATT
1 ATGTTAATAATG-TTGAATCAACTAGTATTGAATGTTAATAATGCTCAATACACTAGTATT
2994474 AGAAATGGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 53 0.96
63 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (62 bp):
ATGTTAATAATGTTGAATCAACTAGTATTGAATGTTAATAATGCTCAATACACTAGTATTGG
Found at i:2999943 original size:23 final size:23
Alignment explanation
Indices: 2999896--2999944 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
2999886 CTAACTAACA
*
2999896 AACTAACAAATTAACAACAACCT
1 AACTAACAAATTAACAACAAACT
2999919 AACTAACTAAA-TAACTAA-AAACT
1 AACTAAC-AAATTAAC-AACAAACT
2999942 AAC
1 AAC
2999945 ACTCCCACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.18
Consensus pattern (23 bp):
AACTAACAAATTAACAACAAACT
Found at i:3013656 original size:24 final size:24
Alignment explanation
Indices: 3013624--3013678 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
3013614 CATTCGATTA
3013624 TATGTTCGTTCATTTATGCT-CATT
1 TATGTTCGTTCATTTATG-TACATT
3013648 TATGTTCGTTCATTTATGTACATT
1 TATGTTCGTTCATTTATGTACATT
3013672 TATGTTC
1 TATGTTC
3013679 AAACATAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.55
Consensus pattern (24 bp):
TATGTTCGTTCATTTATGTACATT
Found at i:3013660 original size:14 final size:14
Alignment explanation
Indices: 3013624--3013666 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
3013614 CATTCGATTA
3013624 TATGTTCGTTCATT
1 TATGTTCGTTCATT
3013638 TATG--C--TCATT
1 TATGTTCGTTCATT
3013648 TATGTTCGTTCATT
1 TATGTTCGTTCATT
3013662 TATGT
1 TATGT
3013667 ACATTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 9 0.36
12 2 0.08
14 14 0.56
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:3013945 original size:10 final size:10
Alignment explanation
Indices: 3013932--3013974 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
3013922 GTGTTTGTGT
3013932 TGTTCGTTTA
1 TGTTCGTTTA
*
3013942 TGTTCATTTA
1 TGTTCGTTTA
3013952 TTTGTTCGTTTA
1 --TGTTCGTTTA
3013964 TGTTCGTTTA
1 TGTTCGTTTA
3013974 T
1 T
3013975 CATTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.12, C:0.09, G:0.16, T:0.63
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:3013956 original size:22 final size:22
Alignment explanation
Indices: 3013931--3013974 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3013921 TGTGTTTGTG
3013931 TTGTTCGTTTATGTTCATTTAT
1 TTGTTCGTTTATGTTCATTTAT
*
3013953 TTGTTCGTTTATGTTCGTTTAT
1 TTGTTCGTTTATGTTCATTTAT
3013975 CATTTAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.16, T:0.64
Consensus pattern (22 bp):
TTGTTCGTTTATGTTCATTTAT
Found at i:3015095 original size:21 final size:21
Alignment explanation
Indices: 3015069--3015144 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
3015059 ATTACCTGTC
* *
3015069 ATCGTTCAAGAGGTCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
*
3015090 ATCGTTCAAGAGGCCCCTCCC
1 ATCGTTCAAGAGGCCCCTCCT
* *
3015111 ACCGTTCAAGAGGCCCCT-GT
1 ATCGTTCAAGAGGCCCCTCCT
3015131 CATCGTTCAAGAGG
1 -ATCGTTCAAGAGG
3015145 TATCTTCCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:3015118 original size:42 final size:42
Alignment explanation
Indices: 3015071--3015164 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
3015061 TACCTGTCAT
* * *
3015071 CGTTCAAGAGGTCTCTC-CTATCGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCTC-ATCGTTCAAGAGGCACCTCCCAC
* * * *
3015113 CGTTCAAGAGGCCCCTGTCATCGTTCAAGAGGTATCTTCCAC
1 CGTTCAAGAGGCCCCTCTCATCGTTCAAGAGGCACCTCCCAC
3015155 CGTTCAAGAG
1 CGTTCAAGAG
3015165 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTCTCATCGTTCAAGAGGCACCTCCCAC
Found at i:3015158 original size:21 final size:21
Alignment explanation
Indices: 3015092--3015164 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
3015082 TCTCTCCTAT
*
3015092 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTTCCAC
*
3015113 CGTTCAAGAGGCCCCTGT-CAT
1 CGTTCAAGAGGCCCCT-TCCAC
***
3015134 CGTTCAAGAGGTATCTTCCAC
1 CGTTCAAGAGGCCCCTTCCAC
3015155 CGTTCAAGAG
1 CGTTCAAGAG
3015165 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTTCCAC
Found at i:3016539 original size:14 final size:14
Alignment explanation
Indices: 3016520--3016555 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3016510 CTTGTTTAAT
*
3016520 TGATTTGTAACAGA
1 TGATTTGTAAAAGA
*
3016534 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3016548 TGATTTGT
1 TGATTTGT
3016556 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3016637 original size:64 final size:65
Alignment explanation
Indices: 3016534--3016685 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 65
3016524 TTGTAACAGA
3016534 TGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAAAATTA-TTTTTTGCTTGTTTAAT
1 TGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAAAATTATTTTTTTGCTTGTTTAAT
* * ***
3016598 TGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTTGCTTGTTTAAT
1 TGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAAAATTATTTTTTTGCTTGTTTAAT
3016663 TGATTTGTAAAAGTTGATTTGTT
1 TGATTTGTAAAAGTTGATTTGTT
3016686 GTTTTAAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 42 0.51
65 40 0.49
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (65 bp):
TGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAAAATTATTTTTTTGCTTGTTTAAT
Found at i:3016794 original size:33 final size:33
Alignment explanation
Indices: 3016752--3016843 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
3016742 CTTTCGCAAC
3016752 AATCGCAACGTGAATTCGACTTTCGCAACAAAA
1 AATCGCAACGTGAATTCGACTTTCGCAACAAAA
3016785 AATCGCAACGTGAATTCGACTTTCGCAACAAAA
1 AATCGCAACGTGAATTCGACTTTCGCAACAAAA
*
3016818 AATCGCAACGTGAATTTGACTTTCGC
1 AATCGCAACGTGAATTCGACTTTCGC
3016844 GCTGCGAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (33 bp):
AATCGCAACGTGAATTCGACTTTCGCAACAAAA
Found at i:3017069 original size:18 final size:18
Alignment explanation
Indices: 3017043--3017083 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3017033 AGGTGAAGCC
* *
3017043 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
3017061 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
3017079 GATTT
1 GATTT
3017084 CCTTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:3019371 original size:24 final size:24
Alignment explanation
Indices: 3019337--3019390 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3019327 CTGAAACATC
3019337 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCTGAGTATTGACCAAT
* *
3019361 ATCAAAGTCTGGGTATTGACCAAT
1 ATCAAAATCTGAGTATTGACCAAT
3019385 ATCAAA
1 ATCAAA
3019391 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAT
Found at i:3020181 original size:14 final size:15
Alignment explanation
Indices: 3020145--3020182 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3020135 GAAATCATTG
3020145 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
3020160 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
3020175 AAAAATTA
1 AAAAATTA
3020183 GAGATGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:3020364 original size:38 final size:39
Alignment explanation
Indices: 3020309--3020406 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 39
3020299 GTTATATACC
* * *
3020309 TAAAACATTTGTGTTGCGAAACTAAAACCTA-TTGCGAAA
1 TAAAA-ATTCGTGTTGCGAAACGAAAACCGAGTTGCGAAA
** *
3020348 TAAAAATTCGTGTTGCGATTTCGAAAATCGAGTTGCGAAA
1 TAAAAATTCGTGTTGCGA-AACGAAAACCGAGTTGCGAAA
3020388 -ATAAAATTCGTGTTGCGAA
1 TA-AAAATTCGTGTTGCGAA
3020407 TTAAGAAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
38 12 0.24
39 13 0.27
40 24 0.49
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (39 bp):
TAAAAATTCGTGTTGCGAAACGAAAACCGAGTTGCGAAA
Found at i:3020365 original size:20 final size:20
Alignment explanation
Indices: 3020340--3020449 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
3020330 CTAAAACCTA
*
3020340 TTGCGAAATAAAAATTCGTG
1 TTGCGAATTAAAAATTCGTG
* * *
3020360 TTGCGATTTCGAAAA-TCGAG
1 TTGCGAATT-AAAAATTCGTG
*
3020380 TTGCGAA-AATAAAATTCGTG
1 TTGCGAATTA-AAAATTCGTG
*
3020400 TTGCGAATTAAGAAA-TCGAG
1 TTGCGAATTAA-AAATTCGTG
* **
3020420 TTACGAATTTGAAATTCAGTG
1 TTGCGAATTAAAAATTC-GTG
3020441 TTGCGAATT
1 TTGCGAATT
3020450 TGGAAGCGAA
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
19 7 0.10
20 43 0.63
21 18 0.26
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (20 bp):
TTGCGAATTAAAAATTCGTG
Found at i:3020394 original size:40 final size:40
Alignment explanation
Indices: 3020340--3020449 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 40
3020330 CTAAAACCTA
**
3020340 TTGCG-AAATAAAAATTCGTGTTGCG-ATTTCGAAAATCGAG
1 TTGCGAAAAT-AAAATTCGTGTTGCGAATTAAG-AAATCGAG
3020380 TTGCGAAAATAAAATTCGTGTTGCGAATTAAGAAATCGAG
1 TTGCGAAAATAAAATTCGTGTTGCGAATTAAGAAATCGAG
* ** *
3020420 TTACGAATTTGAAATTCAGTGTTGCGAATT
1 TTGCGAAAATAAAATTC-GTGTTGCGAATT
3020450 TGGAAGCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 41 0.67
41 20 0.33
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (40 bp):
TTGCGAAAATAAAATTCGTGTTGCGAATTAAGAAATCGAG
Found at i:3026136 original size:21 final size:23
Alignment explanation
Indices: 3026110--3026153 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
3026100 AAGAAATTAT
*
3026110 TATTTTATATATTT-AA-AAAAA
1 TATTTTAAATATTTCAATAAAAA
3026131 TATTTTAAATATTTCAATAAAAA
1 TATTTTAAATATTTCAATAAAAA
3026154 CAACCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTTAAATATTTCAATAAAAA
Found at i:3039071 original size:40 final size:40
Alignment explanation
Indices: 3039006--3039087 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
3038996 ATATTTGTTA
* * * *
3039006 TAAAGAATATTAAGATTCAATAATTAAGATTGATTCAATT
1 TAAAAAATACTAAGATTCAACAATTAAAATTGATTCAATT
3039046 TAAAAAATACTAAGATTCAACAATTAAAATTGATTCAATT
1 TAAAAAATACTAAGATTCAACAATTAAAATTGATTCAATT
3039086 TA
1 TA
3039088 TAGATTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (40 bp):
TAAAAAATACTAAGATTCAACAATTAAAATTGATTCAATT
Found at i:3050978 original size:25 final size:26
Alignment explanation
Indices: 3050927--3050988 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
3050917 GATTTTTGTA
* * *
3050927 AAAAAAT-TATGAATTTAAATTTTAT
1 AAAAAATATATGAAATTAAAATTAAT
3050952 AAAAAATATAT-AAATTAAAATTAAT
1 AAAAAATATATGAAATTAAAATTAAT
3050977 AAAATAATATAT
1 AAAA-AATATAT
3050989 TTTTATGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAAATATATGAAATTAAAATTAAT
Found at i:3053341 original size:22 final size:24
Alignment explanation
Indices: 3053313--3053362 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3053303 AATTGTATCC
* *
3053313 TTAAAATAA-TT-TTTTATTTATT
1 TTAAAATAAGTTATTTTAATAATT
3053335 TTAAAATAAGTTATTTTAATAATT
1 TTAAAATAAGTTATTTTAATAATT
3053359 TTAA
1 TTAA
3053363 TGAGTCGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 2 0.08
24 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAAAATAAGTTATTTTAATAATT
Found at i:3060610 original size:6 final size:6
Alignment explanation
Indices: 3060599--3060627 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3060589 GAAGTAAAAA
3060599 AAAGGG AAAGGG AAAGGG AAAGGG AAAGG
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGG
3060628 TTAATATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AAAGGG
Done.