Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 95 of 135
Found at i:29597373 original size:49 final size:49
Alignment explanation
Indices: 29597141--29597365 Score: 188
Period size: 49 Copynumber: 4.6 Consensus size: 49
29597131 CTTCATCTTC
** * *
29597141 AAGGTATAAGATTCGTCGTTGTAGCCTCAATCTTTCCCTTCACATCTCT
1 AAGGTATAAGATTCGTCGTTGCGGCTTCAACCTTTCCCTTCACATCTCT
** * * * *
29597190 GGGGTATAAGGTTCGCCGTTGCGG-TATCGACCTTTCCCTTCACATCTTT
1 AAGGTATAAGATTCGTCGTTGCGGCT-TCAACCTTTCCCTTCACATCTCT
* * * * ** * ** *
29597239 AAGGT-TCAAGATTCGCCGTTACGTCTTCAATC-TGACTTTCTTATTTCT
1 AAGGTAT-AAGATTCGTCGTTGCGGCTTCAACCTTTCCCTTCACATCTCT
*
29597287 AAGGTATAAGGTTCGTCGTTGCGGAC-TCAACCTTTCCCTTCACATCTCT
1 AAGGTATAAGATTCGTCGTTGCGG-CTTCAACCTTTCCCTTCACATCTCT
* *
29597336 AGGGTATAAGATTCGTCGTCGCGGCTTCAA
1 AAGGTATAAGATTCGTCGTTGCGGCTTCAA
29597366 TTTTTCCCAT
Statistics
Matches: 131, Mismatches: 38, Indels: 14
0.72 0.21 0.08
Matches are distributed among these distances:
48 34 0.26
49 96 0.73
50 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (49 bp):
AAGGTATAAGATTCGTCGTTGCGGCTTCAACCTTTCCCTTCACATCTCT
Found at i:29598288 original size:21 final size:19
Alignment explanation
Indices: 29598231--29598290 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 19
29598221 GACCTCTCCT
*
29598231 TTTTCTTTTCTTCTTCTTC
1 TTTTCTTTTTTTCTTCTTC
29598250 TTTT-TTTTTTT-TT-TTC
1 TTTTCTTTTTTTCTTCTTC
29598266 TTTTCTTTTTTTCTCTCTCTC
1 TTTTCTTTTTTTCT-TCT-TC
29598287 TTTT
1 TTTT
29598291 TTTGGGGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 7 0.20
17 9 0.26
18 7 0.20
19 5 0.14
20 1 0.03
21 6 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTTTTTTCTTCTTC
Found at i:29599155 original size:5 final size:5
Alignment explanation
Indices: 29599145--29599182 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
29599135 TAACTTTTCC
*
29599145 TTCTT TTCTT TTCTT TT-TC TT-TT TTCTT TTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
29599183 GGGTTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTCTT
Found at i:29599171 original size:18 final size:19
Alignment explanation
Indices: 29599138--29599180 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
29599128 TTCATCTTAA
29599138 CTTTTCCTTCTTTTCTTTT
1 CTTTTCCTTCTTTTCTTTT
*
29599157 CTTTTTCTT-TTTTCTTTT
1 CTTTTCCTTCTTTTCTTTT
29599175 CTTTTC
1 CTTTTC
29599181 TTGGGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
CTTTTCCTTCTTTTCTTTT
Found at i:29599251 original size:10 final size:10
Alignment explanation
Indices: 29599238--29599288 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
29599228 TTTTCATTTC
29599238 TTTTTTTC-T
1 TTTTTTTCTT
29599247 TTTTTTTC--
1 TTTTTTTCTT
*
29599255 TTTCTTTCTT
1 TTTTTTTCTT
*
29599265 TTTCTTTCTTT
1 TTTTTTTC-TT
29599276 TTTTTTTCTT
1 TTTTTTTCTT
29599286 TTT
1 TTT
29599289 CCTCTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.19
9 8 0.22
10 13 0.35
11 9 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:29599251 original size:21 final size:20
Alignment explanation
Indices: 29599227--29599288 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 20
29599217 CATCTTAACC
29599227 TTTTTCATTTCTTTTTTTCTTT
1 TTTTTC-TTTCTTTTTTTC-TT
*
29599249 TTTTTCTTTC-TTTCTT-TT
1 TTTTTCTTTCTTTTTTTCTT
*
29599267 TCTTTCTTT-TTTTTTTCTT
1 TTTTTCTTTCTTTTTTTCTT
29599286 TTT
1 TTT
29599289 CCTCTTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 15 0.44
19 4 0.12
20 5 0.15
21 4 0.12
22 6 0.18
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTCTTTTTTTCTT
Found at i:29599258 original size:4 final size:4
Alignment explanation
Indices: 29599229--29599286 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
29599219 TCTTAACCTT
* *
29599229 TTTC ATTTC TTTT TTTC TTTTT TTTC TTTC TTTC -TT- TTTC TTTC TTT-
1 TTTC -TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
29599276 TTTT TTTC TTT
1 TTTC TTTC TTT
29599287 TTCCTCTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
3 7 0.16
4 30 0.68
5 7 0.16
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (4 bp):
TTTC
Found at i:29599282 original size:30 final size:30
Alignment explanation
Indices: 29599234--29599301 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
29599224 ACCTTTTTCA
*
29599234 TTTCTTTTTTTCTTTTTTTTCTTTCTT-TCTT
1 TTTC-TTTCTTCTTTTTTTTCTTT-TTCTCTT
29599265 TTTCTTTCTT-TTTTTTTTCTTTTTCCTCTT
1 TTTCTTTCTTCTTTTTTTTCTTTTT-CTCTT
29599295 TTTCTTT
1 TTTCTTT
29599302 TGACCTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 2 0.06
29 12 0.35
30 16 0.47
31 4 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (30 bp):
TTTCTTTCTTCTTTTTTTTCTTTTTCTCTT
Found at i:29599288 original size:35 final size:37
Alignment explanation
Indices: 29599226--29599302 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 37
29599216 TCATCTTAAC
29599226 CTTTTTCATTTCTTTTTTTCTTTTTTTT-CT-TTCTTT
1 CTTTTTCATTTCTTTTTTTCTTTTTTTTCCTCTT-TTT
29599262 CTTTTTC-TTTCTTTTTTT-TTTCTTTTTCCTCTTTTT
1 CTTTTTCATTTCTTTTTTTCTTT-TTTTTCCTCTTTTT
29599298 CTTTT
1 CTTTT
29599303 GACCTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
34 3 0.08
35 16 0.42
36 17 0.45
37 2 0.05
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (37 bp):
CTTTTTCATTTCTTTTTTTCTTTTTTTTCCTCTTTTT
Found at i:29599296 original size:16 final size:17
Alignment explanation
Indices: 29599277--29599313 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
29599267 TCTTTCTTTT
*
29599277 TTTTTTCTTTT-TCCTC
1 TTTTTTCTTTTGACCTC
29599293 -TTTTTCTTTTGACCTC
1 TTTTTTCTTTTGACCTC
29599309 TTTTT
1 TTTTT
29599314 GATAACATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTCTTTTGACCTC
Found at i:29603245 original size:29 final size:30
Alignment explanation
Indices: 29603169--29603321 Score: 154
Period size: 29 Copynumber: 5.2 Consensus size: 30
29603159 AAGGAAAAGA
* * *
29603169 TGAGGGTCAAAAATG-AAGTTTTGGAGAATTT
1 TGAGGGTC-AAAATGTAA-TTTTAGAAAAGTT
* * *
29603200 TGGGGGTTAAAATGTAATTTTAGAAAAATT
1 TGAGGGTCAAAATGTAATTTTAGAAAAGTT
* *
29603230 TGA-GGTCAAAAAGTAATTTTGGAAAAGTT
1 TGAGGGTCAAAATGTAATTTTAGAAAAGTT
**
29603259 TGAGGGTCAAAATGTAATTTT-TTAAAGTT
1 TGAGGGTCAAAATGTAATTTTAGAAAAGTT
*
29603288 T-AGGGTTAAAATGTAATTTTAGAAAAGTT
1 TGAGGGTCAAAATGTAATTTTAGAAAAGTT
29603317 T-AGGG
1 TGAGGG
29603322 ACTTCTTAGC
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.17
29 43 0.42
30 34 0.33
31 8 0.08
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
TGAGGGTCAAAATGTAATTTTAGAAAAGTT
Found at i:29603273 original size:59 final size:58
Alignment explanation
Indices: 29603171--29603321 Score: 155
Period size: 59 Copynumber: 2.6 Consensus size: 58
29603161 GGAAAAGATG
* * * *
29603171 AGGGTCAAAAA-TGAAGTTTTGGAGAATTTTGGGGGTTAAAATGTAATTTTAGAAAAATTT
1 AGGGTCAAAAAGT-AA-TTTTGGAAAAGTTTGAGGGTCAAAATGTAATTTT-GAAAAATTT
** *
29603231 -GAGGTCAAAAAGTAATTTTGGAAAAGTTTGAGGGTCAAAATGTAATTTTTTAAAGTTT
1 AG-GGTCAAAAAGTAATTTTGGAAAAGTTTGAGGGTCAAAATGTAATTTTGAAAAATTT
* * *
29603289 AGGGTTAAAATGTAATTTTAGAAAAGTTT-AGGG
1 AGGGTCAAAAAGTAATTTTGGAAAAGTTTGAGGG
29603322 ACTTCTTAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
57 4 0.05
58 30 0.38
59 32 0.41
60 11 0.14
61 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (58 bp):
AGGGTCAAAAAGTAATTTTGGAAAAGTTTGAGGGTCAAAATGTAATTTTGAAAAATTT
Found at i:29607066 original size:5 final size:5
Alignment explanation
Indices: 29607056--29607087 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
29607046 CTAGTATATA
29607056 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
29607088 AATTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:29607868 original size:235 final size:225
Alignment explanation
Indices: 29607427--29607886 Score: 625
Period size: 235 Copynumber: 2.0 Consensus size: 225
29607417 TTATAATGTC
* *
29607427 ATTAATTAGTTTAAATATTTTATTTCAATTAAAATGTTGATGTAAATTTTAAACTTAAGTTCGTT
1 ATTAATTAGTTTAAATATTTTATTTCAATTAAAATGCTGATGTAAATTTTAAACATAAGTTCGTT
*
29607492 ATAATGTCATATGACTATAAAATGATGATTCTTTTAATTTTATAATGTCAAACCCTCGAATATAA
66 ATAATGTCATATGACTATAAAATGAGGATTCTTTTAATTTTATAATGTCAAACCCTCGAATATAA
* * *
29607557 CAGAAGAAATATAACAACATTAACAATTGGACTTAAATTTTAAATTAAAAAACAGATGAATTAAA
131 CAAAAGAAATATAACAACATTAACAATTAGACTTAAATTTTAAATTAAAAAACAGAAGAATTAAA
* * *
29607622 TTTTTGAAAATAAAAGTATGAAGACTAAAT
196 TTCTTGAAAATAAAAATATGAAAACTAAAT
* * *
29607652 ATTAATTAGTTTAAATATTTTATTTTAATTAAAATGCTGATGTAAATTTTAAACATATGTTTGTT
1 ATTAATTAGTTTAAATATTTTATTTCAATTAAAATGCTGATGTAAATTTTAAACATAAGTTCGTT
* *
29607717 ATAATCTCCTTTTCTGTCATATGACTATCAAATGAGGATTTTTTTTAATTTTATAATGTCAAACC
66 ATAA----------TGTCATATGACTATAAAATGAGGA-TTCTTTTAATTTTATAATGTCAAACC
* * *** * *
29607782 CTTGAATATAACAAAAGAAAT-TTACTGTATTAACAATTAGACTTAAATTTTAAATTCAAAAACT
120 CTCGAATATAACAAAAGAAATATAACAACATTAACAATTAGACTTAAATTTTAAATTAAAAAACA
29607846 GAAGAATTAAATTCTTGAAAATAAAAATATGAAAACTAAAT
185 GAAGAATTAAATTCTTGAAAATAAAAATATGAAAACTAAAT
29607887 TTATTTATTT
Statistics
Matches: 203, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
225 64 0.32
235 95 0.47
236 44 0.22
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (225 bp):
ATTAATTAGTTTAAATATTTTATTTCAATTAAAATGCTGATGTAAATTTTAAACATAAGTTCGTT
ATAATGTCATATGACTATAAAATGAGGATTCTTTTAATTTTATAATGTCAAACCCTCGAATATAA
CAAAAGAAATATAACAACATTAACAATTAGACTTAAATTTTAAATTAAAAAACAGAAGAATTAAA
TTCTTGAAAATAAAAATATGAAAACTAAAT
Found at i:29622971 original size:29 final size:30
Alignment explanation
Indices: 29622938--29623000 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
29622928 TAAAATGGGG
29622938 TTTTAAGT-TCTTAAAAATTAG-AGAAAAAA
1 TTTTAAGTCTCTTAAAAATTAGTA-AAAAAA
* *
29622967 TTTTAAGTCTCTTAAAAGTTGGTAAAAAAA
1 TTTTAAGTCTCTTAAAAATTAGTAAAAAAA
29622997 TTTT
1 TTTT
29623001 GGACTCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 8 0.27
30 21 0.70
31 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTTAAGTCTCTTAAAAATTAGTAAAAAAA
Found at i:29624748 original size:17 final size:17
Alignment explanation
Indices: 29624726--29624782 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
29624716 TAAAAAAATT
29624726 AATTTTTTTAAATTAAA
1 AATTTTTTTAAATTAAA
**
29624743 AA-TTTTAAAAATATAAA
1 AATTTTTTTAAAT-TAAA
* * *
29624760 AATTATTTTAAAATAAT
1 AATTTTTTTAAATTAAA
29624777 AATTTT
1 AATTTT
29624783 AAAATTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 8 0.27
17 16 0.53
18 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTTTTAAATTAAA
Found at i:29628656 original size:21 final size:21
Alignment explanation
Indices: 29628632--29628688 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
29628622 TAGTGGGATT
*
29628632 AAGTCCATGAACAATGGAGTC
1 AAGTCAATGAACAATGGAGTC
* *
29628653 AAGTCTATGAACAGTGGAGTC
1 AAGTCAATGAACAATGGAGTC
29628674 AAGT-AATGAACAATG
1 AAGTCAATGAACAATG
29628689 ATAATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (21 bp):
AAGTCAATGAACAATGGAGTC
Found at i:29639021 original size:85 final size:85
Alignment explanation
Indices: 29638869--29639036 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
29638859 TTGTTTCATT
* * ** *
29638869 GATTTGGTCAACTTCTCTGTATCTCATTAAGAAGATGACTGCTTCATTGTTTTAATCCACTTTTC
1 GATTTGGTCAACTTCTCTATATCTCATCAAGAAGATGACTGCTTCATTACTTTAATCCACTTCTC
*
29638934 TATATCTCATCAGGAAGACA
66 TATATCTCATCAAGAAGACA
* * * * *
29638954 GATTTGGTCTACTTTTCTATATCTCATCAGGAAGATGACCT-CTTTATTACTTTGA-CCTACTTC
1 GATTTGGTCAACTTCTCTATATCTCATCAAGAAGATGA-CTGCTTCATTACTTTAATCC-ACTTC
*
29639017 TCTATATCTTATCAAGAAGA
64 TCTATATCTCATCAAGAAGA
29639037 TGGGGGTTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 65 0.94
86 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (85 bp):
GATTTGGTCAACTTCTCTATATCTCATCAAGAAGATGACTGCTTCATTACTTTAATCCACTTCTC
TATATCTCATCAAGAAGACA
Found at i:29639258 original size:209 final size:208
Alignment explanation
Indices: 29638861--29639577 Score: 1010
Period size: 209 Copynumber: 3.4 Consensus size: 208
29638851 ATCGATTTTT
** * * * * * * *
29638861 GTTTCATTGATTTGGTCAACTTCTCTGTATCTCATTAAGAAGATGACTGCTTCATTGTTTTAATC
1 GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATCGTTTTAATC
*
29638926 CACTT-TTCTATATCTCATCAGGAAGACAGATTTGG-TCTACTTTTCTATATCTCATCAGG-AAG
66 CACTTCTT-TATATCTCATCAGGAAGACAGATTTGGTTC-ACTTCTCTATATCTCATCAGGAAAG
* * * *
29638988 ATGACCTCTTTATTACTTTGACCTACTTCTCTATATCTTATCAAGAAGATGGGGGTTTGAAGTTT
129 -TGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAAGAAGAT-GGGGTTTGAAGTTT
*
29639053 CACTTACATTGAGCTTC
192 CACTCACATTGAGCTTC
* ***
29639070 GTTTCATTGATTTGGCCTACTTCTCAGTATCTCATCAGGAAGATGATTACCTCATCGTTTTAATC
1 GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATCGTTTTAATC
*
29639135 CACTTCTTTGTATCTCATCAGGAAGACAGATTTGGTTCACTTCTCTATATCTCATCAGGAAAGTG
66 CACTTCTTTATATCTCATCAGGAAGACAGATTTGGTTCACTTCTCTATATCTCATCAGGAAAGTG
* * * *
29639200 ACCACTTTATTGCTTTGACCCATTTCTCTGTATCTCATCTAGAAGAAGGGGATTTGAAGTTTCAC
131 ACCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAAGAAGATGGGG-TTTGAAGTTTCAC
*
29639265 TCACATTGAGCTTT
195 TCACATTGAGCTTC
*
29639279 GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATC
1 GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATCGTTTTAATC
* * * *
29639344 CACTTCTGTGTATCTCATCAGGAAGAC-GAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGT
66 CACTTCTTTATATCTCATCAGGAAGACAG-ATTTGGTTCACTTCTCTATATCTCATCAGGAAAGT
*
29639408 GATCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAAGAAGATGAGGGTTTGAAGTTTCA
130 GACCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAAGAAGATG-GGGTTTGAAGTTTCA
*
29639473 CTCACATTGAACTTC
194 CTCACATTGAGCTTC
* * * *
29639488 GTTTCATTAATTTGACCTACTTCTCAGTATCTTATCATGAAGATGACCGCCTCATCATTTTAATC
1 GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATCGTTTTAATC
*
29639553 CACTTCTCTATATCTCATCAGGAAG
66 CACTTCTTTATATCTCATCAGGAAG
29639578 GTGACCACTT
Statistics
Matches: 459, Mismatches: 43, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
208 5 0.01
209 444 0.97
210 10 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (208 bp):
GTTTCATTGATTTGACCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATCGTTTTAATC
CACTTCTTTATATCTCATCAGGAAGACAGATTTGGTTCACTTCTCTATATCTCATCAGGAAAGTG
ACCACTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAAGAAGATGGGGTTTGAAGTTTCACT
CACATTGAGCTTC
Found at i:29639432 original size:85 final size:85
Alignment explanation
Indices: 29639297--29639454 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 85
29639287 GATTTGACCT
* * * *
29639297 ACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTGTGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
*
29639362 CAGGAAGACGAATTTGGTTC
66 CAAGAAGACGAATTTGGTTC
* * * * * * *
29639382 ACTTCTCTGTATCTCATCAGGAAGGTGATCACTTTATTGCTTTGACCCACTTCTCTGTATCTTAT
1 ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
29639447 CAAGAAGA
66 CAAGAAGA
29639455 TGAGGGTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (85 bp):
ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
CAAGAAGACGAATTTGGTTC
Found at i:29639667 original size:172 final size:172
Alignment explanation
Indices: 29639381--29639749 Score: 630
Period size: 172 Copynumber: 2.1 Consensus size: 172
29639371 GAATTTGGTT
* *
29639381 CACTTCTCTGTATCTCATCAGGAAGGTGATCACTTTATTGCTTTGACCCACTTCTCTGTATCTTA
1 CACTTCTCTGTATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCA
29639446 TCAAGAAGATGAGGGTTTGAAGTTTCACTCACATTGAACTTCGTTTCATTAATTTGACCTACTTC
66 TCAAGAAGATGAGGGTTTGAAGTTTCACTCACATTGAACTTCGTTTCATTAATTTGACCTACTTC
* *
29639511 TCAGTATCTTATCATGAAGATGACCGCCTCATCATTTTAATC
131 TCAGTATCTCATCAGGAAGATGACCGCCTCATCATTTTAATC
*
29639553 CACTTCTCTATATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCA
1 CACTTCTCTGTATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCA
* * * *
29639618 TCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGTTTCATTGATTTGGCCTACTTC
66 TCAAGAAGATGAGGGTTTGAAGTTTCACTCACATTGAACTTCGTTTCATTAATTTGACCTACTTC
* **
29639683 TCAGTATCTCATCAGGAAGATGACCGCCTTATTGTTTTAATC
131 TCAGTATCTCATCAGGAAGATGACCGCCTCATCATTTTAATC
29639725 CACTTCTCTGTATCTCATCAGGAAG
1 CACTTCTCTGTATCTCATCAGGAAG
29639750 ATGAATTTTT
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 184 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (172 bp):
CACTTCTCTGTATCTCATCAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCA
TCAAGAAGATGAGGGTTTGAAGTTTCACTCACATTGAACTTCGTTTCATTAATTTGACCTACTTC
TCAGTATCTCATCAGGAAGATGACCGCCTCATCATTTTAATC
Found at i:29643962 original size:29 final size:29
Alignment explanation
Indices: 29643930--29644440 Score: 128
Period size: 29 Copynumber: 17.4 Consensus size: 29
29643920 ACCCGAGGGC
*
29643930 AAAATGGTAATTTTGGCGAAATCGAGGTTA
1 AAAATGG-AATTTTGGAGAAATCGAGGTTA
* * *** * *
29643960 AAAATAGAATTTTTGAGGCTTCGTGGGT-
1 AAAATGGAATTTTGGAGAAATCGAGGTTA
* *
29643988 AAAATGGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGG-AATTTTGGA-GAAATCGAGGTTA
* * *
29644019 AAAATGGAATTTT-GA-AAAGTTTGGGGGT-
1 AAAATGGAATTTTGGAGAAA--TCGAGGTTA
* * * *
29644047 AAAATAGTAATTTTTGGTGAAATCGGGGTTG
1 AAAAT-GGAA-TTTTGGAGAAATCGAGGTTA
* * ** **
29644078 AAAATGGGACTTTTGGA-TACCCGAGG-GC
1 AAAAT-GGAATTTTGGAGAAATCGAGGTTA
* * * * *
29644106 AAAATGATAATTTTGGTGAAATTGGGGATA
1 AAAATG-GAATTTTGGAGAAATCGAGGTTA
* * * *
29644136 AAAATGGAATTTTTGA-AGGATCGGGGGT-
1 AAAATGGAATTTTGGAGA-AATCGAGGTTA
* *
29644164 AAAATGATAATTTTTGGTGAAATCG-GGTTA
1 AAAATG-GAA-TTTTGGAGAAATCGAGGTTA
* *
29644194 AAAATGGAATTTTGGA-AAGTTCGAGGGTA
1 AAAATGGAATTTTGGAGAA-ATCGAGGTTA
* * *
29644223 AAATCAT--AATTTTTGGTGAAATTGGGGTTA
1 AAA--ATGGAA-TTTTGGAGAAATCGAGGTTA
* * * * * *
29644253 AAAAT-GAAATTT-CAAAAAGTTAGGGGGT-
1 AAAATGGAATTTTGGAGAAA--TCGAGGTTA
**
29644281 AAAATGGTAATTTTTGGA-AGTTTCG-GGTTA
1 AAAATGG-AA-TTTTGGAGA-AATCGAGGTTA
* * *
29644311 AAAATGGAATTTTGGA-AAGTTCAAGGGT-
1 AAAATGGAATTTTGGAGAA-ATCGAGGTTA
*
29644339 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AA-TTTTGGAGAAATCGAGGTTA
* * *
29644370 AAAATGGAATTTTGGA-AAGTTTGAGGGT-
1 AAAATGGAATTTTGGAGAA-ATCGAGGTTA
* *
29644398 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-AA-TTTTGGAGAAATCGAGGTTA
29644429 AAAATGGAATTT
1 AAAATGGAATTT
29644441 CAAAAAGTTA
Statistics
Matches: 349, Mismatches: 88, Indels: 89
0.66 0.17 0.17
Matches are distributed among these distances:
27 9 0.03
28 76 0.22
29 109 0.31
30 109 0.31
31 42 0.12
32 4 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTGGAGAAATCGAGGTTA
Found at i:29644020 original size:59 final size:59
Alignment explanation
Indices: 29643888--29644529 Score: 624
Period size: 59 Copynumber: 10.9 Consensus size: 59
29643878 TAAGAAACGA
** * * ** *
29643888 TGAAATCGGGGTTGAAAACGGGACTTTTGGATA-CCCGAGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * * * * * *
29643946 CGAAATCGAGGTTAAAAATAGAATTTTTG-AGGCTTCGTGGGTAAAATGGTAATTTTTGA
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGG
* * * *
29644005 TGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGTAAAATAGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * * ** * *
29644064 TGAAATCGGGGTTGAAAATGGGACTTTTGGATA-CCCGAGGGCAAAATGATAA-TTTTGG
1 TGAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * * * * * *
29644122 TGAAATTGGGGATAAAAATGGAATTTTTGAAGGATCGGGGGTAAAATGATAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
**
29644181 TGAAATC-GGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATCATAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * *** * *
29644239 TGAAATTGGGGTTAAAAATGAAATTTCAAAAAGTTAGGGGGTAAAATGGTAATTTTT-G
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* *
29644297 -GAAGTTTC-GGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAATGGTAATTTTTGG
1 TGAA--ATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* *
29644356 TGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
*** * * *
29644415 TGAAATCGGGGTTAAAAATGGAATTTCAAAAAGTTAGGGGGTAAAATGGTGATTTTT-G
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * * * *
29644473 -GAAGTTTCAGGGTTAAAAATGGAATTTT-AAAAGGTTTGGGGGTAAAATGGTAATTTT
1 TGAA--ATCGGGGTTAAAAATGGAATTTTGGAAA-GTTCGAGGGTAAAATGGTAATTTT
29644530 GGAAGTTTCG
Statistics
Matches: 481, Mismatches: 87, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
57 26 0.05
58 164 0.34
59 276 0.57
60 15 0.03
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
Found at i:29644058 original size:117 final size:116
Alignment explanation
Indices: 29643930--29644529 Score: 651
Period size: 117 Copynumber: 5.1 Consensus size: 116
29643920 ACCCGAGGGC
* * * * *
29643930 AAAATGGTAA-TTTTGGCGAAATCGAGGTTAAAAATAGAATTTTTGAGGCTTCGTGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCG-GGTTAAAAATGGAATTTTGGAAG-TTCGAGGGTAAAATG
*
29643994 GTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
64 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
* * * ** *
29644047 AAAATAGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGACTTTTGGATA-CCCGAGGGCAAAAT
1 AAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAAT-GGAATTTTGGA-AGTTCGAGGGTAAAAT
* * * * * *
29644111 GATAA-TTTTGGTGAAATTGGGGATAAAAATGGAATTTTTG-AAGGATCGGGGGT
63 GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTTGAAAAGTTTGGGGGT
* **
29644164 AAAATGATAATTTTTGGTGAAATCGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATCA
1 AAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGGAATTTTGG-AAGTTCGAGGGTAAAATGG
* * ** *
29644229 TAATTTTTGGTGAAATTGGGGTTAAAAATGAAATTTCAAAAAGTTAGGGGGT
65 TAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
* *
29644281 AAAATGGTAATTTTT-G-GAAGTTTCGGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAAT
1 AAAATGGTAATTTTTGGTGAA--ATCGGGTTAAAAATGGAATTTTGG-AAGTTCGAGGGTAAAAT
* * *
29644344 GGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
63 GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
*** * *
29644398 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTCAAAAAGTTAGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAATGGAATTT-TGGAAGTTCGAGGGTAAAATG
* * *
29644463 GTGATTTTT-G-GAAGTTTCAGGGTTAAAAATGGAATTTT-AAAAGGTTTGGGGGT
64 GTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGAAAA-GTTTGGGGGT
29644516 AAAATGGTAATTTT
1 AAAATGGTAATTTT
29644530 GGAAGTTTCG
Statistics
Matches: 406, Mismatches: 59, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
115 13 0.03
116 33 0.08
117 223 0.55
118 125 0.31
119 12 0.03
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (116 bp):
AAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAATGGT
AATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTGGGGGT
Found at i:29644187 original size:176 final size:175
Alignment explanation
Indices: 29643888--29644435 Score: 690
Period size: 176 Copynumber: 3.1 Consensus size: 175
29643878 TAAGAAACGA
* * *
29643888 TGAAATCGGGGTTGAAAACGGGACTTTTGGATACCCGAGGGCAAAATGGTAATTTTGGCGAAATC
1 TGAAATCGGGGTTAAAAATGGGACTTTTGGATACCCGAGGGCAAAATGGTAATTTTGG-GAAATT
* * * *
29643953 GAGGTTAAAAATAGAATTTTTG-AGGCTTCGTGGGTAAAATGGTAATTTTTGATGAAATCGGGGT
65 GGGGTTAAAAATGGAATTTTTGAAGG-TTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
* *
29644017 TAAAAATGGAATTTTGAAAAGTTTGGGGGTAAAATAGTAATTTTTGG
129 TAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATAGTAATTTTTGG
* *
29644064 TGAAATCGGGGTTGAAAATGGGACTTTTGGATACCCGAGGGCAAAATGATAATTTTGGTGAAATT
1 TGAAATCGGGGTTAAAAATGGGACTTTTGGATACCCGAGGGCAAAATGGTAATTTTGG-GAAATT
* * * *
29644129 GGGGATAAAAATGGAATTTTTGAAGGATCGGGGGTAAAATGATAATTTTTGGTGAAATC-GGGTT
65 GGGGTTAAAAATGGAATTTTTGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT
*
29644193 AAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATCA-TAATTTTTGG
130 AAAAATGGAATTTTGGAAAGTTTGAGGGTAAAAT-AGTAATTTTTGG
* * * *** * *** * * * *
29644239 TGAAATTGGGGTTAAAAAT-GAAATTTCAAAAAGTTAGGGGGTAAAATGGTAATTTTTGGAAGTT
1 TGAAATCGGGGTTAAAAATGGGACTTTTGGATA-CCCGAGGGCAAAATGGTAATTTTGGGAA-AT
* * * * *
29644303 TCGGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGT
64 TGGGGTTAAAAATGGAATTTTTGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
*
29644368 TAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGG
129 TAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATAGTAATTTTTGG
29644415 TGAAATCGGGGTTAAAAATGG
1 TGAAATCGGGGTTAAAAATGG
29644436 AATTTCAAAA
Statistics
Matches: 323, Mismatches: 42, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
174 10 0.03
175 134 0.41
176 175 0.54
177 4 0.01
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (175 bp):
TGAAATCGGGGTTAAAAATGGGACTTTTGGATACCCGAGGGCAAAATGGTAATTTTGGGAAATTG
GGGTTAAAAATGGAATTTTTGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
AAAATGGAATTTTGGAAAGTTTGAGGGTAAAATAGTAATTTTTGG
Found at i:29644542 original size:29 final size:29
Alignment explanation
Indices: 29644275--29644542 Score: 139
Period size: 29 Copynumber: 9.1 Consensus size: 29
29644265 CAAAAAGTTA
29644275 GGGGGTAAAATGGTAATTTTTGGAAGTTTC
1 GGGGGTAAAATGGTAA-TTTTGGAAGTTTC
*
29644305 -GGGTTAAAAATGG-AATTTTGGAAAG-TTC
1 GGGGGT-AAAATGGTAATTTTGG-AAGTTTC
** *
29644333 AAGGGTAAAATGGTAATTTTTGGTGAA--ATC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAGTTTC
* *
29644363 GAGGTTAAAAATGG-AATTTTGGAAAGTTT-
1 GGGGGT-AAAATGGTAATTTTGG-AAGTTTC
* *
29644392 GAGGGTAAAATGGTAATTTTTGGTGAA--ATC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAGTTTC
* *** *
29644422 GGGGTTAAAAATGG-AATTTCAAAAAG-TTA
1 GGGGGT-AAAATGGTAATTT-TGGAAGTTTC
*
29644451 GGGGGTAAAATGGTGATTTTTGGAAGTTTC
1 GGGGGTAAAATGGT-AATTTTGGAAGTTTC
* * **
29644481 AGGGTTAAAAATGG-AATTTTAAAAGGTTT-
1 GGGGGT-AAAATGGTAATTTTGGAA-GTTTC
29644510 GGGGGTAAAATGGTAATTTTGGAAGTTTC
1 GGGGGTAAAATGGTAATTTTGGAAGTTTC
29644539 GGGG
1 GGGG
29644543 ACCTATAAAC
Statistics
Matches: 181, Mismatches: 31, Indels: 53
0.68 0.12 0.20
Matches are distributed among these distances:
27 1 0.01
28 46 0.25
29 61 0.34
30 44 0.24
31 27 0.15
32 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.33
Consensus pattern (29 bp):
GGGGGTAAAATGGTAATTTTGGAAGTTTC
Found at i:29645451 original size:16 final size:16
Alignment explanation
Indices: 29645430--29645463 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
29645420 AAAAAAACCG
29645430 AACCCAGATCTGGAAA
1 AACCCAGATCTGGAAA
29645446 AACCCAGATCTGGAAA
1 AACCCAGATCTGGAAA
29645462 AA
1 AA
29645464 GATTCAAGAC
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:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (16 bp):
AACCCAGATCTGGAAA
Found at i:29645731 original size:15 final size:15
Alignment explanation
Indices: 29645711--29645746 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
29645701 AAACTGCCCT
29645711 TTATTATTAATACCA
1 TTATTATTAATACCA
* *
29645726 TTATTATTATTAGCA
1 TTATTATTAATACCA
29645741 TTATTA
1 TTATTA
29645747 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (15 bp):
TTATTATTAATACCA
Found at i:29646343 original size:17 final size:17
Alignment explanation
Indices: 29646323--29646387 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
29646313 TTAATATTAT
* *
29646323 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
29646340 TTTAAAATAAATTT-AA
1 TTTAAAATAAATTTAAA
* *
29646356 -CT-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
29646371 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
29646388 AATGAATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 9 0.24
15 3 0.08
16 3 0.08
17 23 0.61
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:29646754 original size:38 final size:39
Alignment explanation
Indices: 29646654--29647357 Score: 324
Period size: 38 Copynumber: 18.7 Consensus size: 39
29646644 GGCGAAGGCT
* *
29646654 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGATAAGGA-A
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** * * *
29646693 TG--ATCTTGCTCTTATTTCCATTTCAAAGATAAAGACT
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
* ** **
29646730 TGATATCCAGCT-TTACTTCAATTTCAAGAGGATATGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** * *
29646770 TG--ATCTTGCTCTTACTTCAATTTTAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
* **
29646807 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGAT-AGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
* *
29646846 TG--ATCTTA-CTCTTACTTCAATTTCAGAGATAAAGACG
1 TGTTATC-CAGCTCTTACTTCAATTTCAAAGATAAAGACG
* ** *
29646883 TGTTATCCA-CTCTT-CTTTAATTTC-AAGAGGATGAC-
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
** *
29646918 -G-T-T---GCTCTTACTTCAATTTCGGAGATAAAGAAG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
* **
29646951 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGAT-AGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** *
29646990 TG--ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
** **
29647027 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGATATGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** * *
29647067 TG--ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
* * * * **
29647104 TGTTATCCA-CTC-TACTCCAATTTCAAGCGGA-CAGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA--AGATAAAGACG
* ** * *
29647142 AG--ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
* * **
29647179 TGGTATCCAGCT-TTACTTCAATTTCAAGAGGAT-AGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** * *
29647218 TG--ATCTTGCTCTTACTTTAATTTCAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
** **
29647255 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGATATGGAAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA-A-GATAAAGACG
** * *
29647295 TG--ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACG
1 TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
*
29647332 TGTTATCCA-CTC-TACTCCAATTTCAA
1 TGTTATCCAGCTCTTACTTCAATTTCAA
29647358 GCGGACAGGA
Statistics
Matches: 485, Mismatches: 125, Indels: 112
0.67 0.17 0.16
Matches are distributed among these distances:
30 5 0.01
31 9 0.02
32 7 0.01
33 1 0.00
34 2 0.00
35 1 0.00
36 29 0.06
37 108 0.22
38 183 0.38
39 107 0.22
40 33 0.07
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
TGTTATCCAGCTCTTACTTCAATTTCAAAGATAAAGACG
Found at i:29646882 original size:76 final size:76
Alignment explanation
Indices: 29646654--29647379 Score: 1089
Period size: 76 Copynumber: 9.6 Consensus size: 76
29646644 GGCGAAGGCT
* *
29646654 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAAGG-AATGATCTTGCTCTTATTTCCATTTCA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGAT-AGGAAATGATCTTGCTCTTACTTCAATTTCA
* *
29646718 AAGATAAAGACT
65 GAGATAAAGACG
* *
29646730 TGATATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCTTACTTCAATTTTA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATA-GGAAATGATCTTGCTCTTACTTCAATTTCA
29646795 GAGATAAAGACG
65 GAGATAAAGACG
*
29646807 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAG
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
29646872 AGATAAAGACG
66 AGATAAAGACG
* * *
29646883 TGTTATCCA-CTCTT-CTTTAATTTCAAGAGGAT--G--ACG---TTGCTCTTACTTCAATTTCG
1 TGTTATCCAGCT-TTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCA
*
29646939 GAGATAAAGAAG
65 GAGATAAAGACG
29646951 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
29647016 AGATAAAGACG
66 AGATAAAGACG
*
29647027 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTACTTCAATTTCA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATA-GGAAATGATCTTGCTCTTACTTCAATTTCA
29647092 GAGATAAAGACG
65 GAGATAAAGACG
* * * * * *
29647104 TGTTATCCA-CTCTACTCCAATTTCAAGCGGACAGGAAAAGATCTTGCTCCTACTTCAATTTCAG
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
29647168 AGATAAAGACG
66 AGATAAAGACG
* *
29647179 TGGTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTTAATTTCAG
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
29647244 AGATAAAGACG
66 AGATAAAGACG
*
29647255 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTACTTCAATTTCA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATA-GGAAATGATCTTGCTCTTACTTCAATTTCA
29647320 GAGATAAAGACG
65 GAGATAAAGACG
* * * * *
29647332 TGTTATCCA-CTCTACTCCAATTTCAAGCGGACAGGAAAAGATCTTGCT
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
29647380 GTGGTCTGAT
Statistics
Matches: 595, Mismatches: 40, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
68 40 0.07
69 19 0.03
71 3 0.01
73 3 0.01
75 83 0.14
76 281 0.47
77 166 0.28
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (76 bp):
TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
AGATAAAGACG
Found at i:29647204 original size:297 final size:300
Alignment explanation
Indices: 29646654--29647379 Score: 1090
Period size: 297 Copynumber: 2.4 Consensus size: 300
29646644 GGCGAAGGCT
* *
29646654 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAAGG-AATGATCTTGCTCTTATTTCCATTTCA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGAT-AGGAAATGATCTTGCTCTTACTTCAATTTCA
* * * *
29646718 AAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCTT
65 GAGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCT
* * * * *
29646783 ACTTCAATTTTAGAGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
130 ACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTCCAATTTCAAGAGGACAGGAAAAG
* * *
29646848 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTTCTTTAATTTCAAGAGG
195 ATCTTACTCCTACTTCAATTTCAGAGATAAAGACGTGGTATCCACTCTTCTTCAATTTCAAGAGG
*
29646913 AT-G-ACG-TTGCTCTTACTTCAATTTCGGAGATAAAGAAG
260 ATAGAACGATTGCTCTTACTTCAATTTCAGAGATAAAGAAG
29646951 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
29647016 AGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTA
66 AGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTA
*
29647081 CTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTCCAATTTCAAGCGGACAGGAAAAGA
131 CTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTCCAATTTCAAGAGGACAGGAAAAGA
*
29647145 TCTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGGTATCCAGCT-TTACTTCAATTTCAAGAG
196 TCTTACTCCTACTTCAATTTCAGAGATAAAGACGTGGTATCCA-CTCTT-CTTCAATTTCAAGAG
* * *
29647209 GATAGGAAATGATCTTGCTCTTACTTTAATTTCAGAGATAAAGACG
259 GATA-G-AACGA--TTGCTCTTACTTCAATTTCAGAGATAAAGAAG
*
29647255 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTACTTCAATTTCA
1 TGTTATCCAGCTTTACTTCAATTTCAAGAGGATA-GGAAATGATCTTGCTCTTACTTCAATTTCA
* * * * *
29647320 GAGATAAAGACGTGTTATCCA-CTCTACTCCAATTTCAAGCGGACA-GGAAAAGATCTTGCT
65 GAGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCT
29647380 GTGGTCTGAT
Statistics
Matches: 392, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
296 72 0.18
297 170 0.43
299 1 0.00
301 2 0.01
303 14 0.04
304 83 0.21
305 50 0.13
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (300 bp):
TGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAG
AGATAAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGATATGGAAATGATCTTGCTCCTA
CTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTCCAATTTCAAGAGGACAGGAAAAGA
TCTTACTCCTACTTCAATTTCAGAGATAAAGACGTGGTATCCACTCTTCTTCAATTTCAAGAGGA
TAGAACGATTGCTCTTACTTCAATTTCAGAGATAAAGAAG
Found at i:29659561 original size:58 final size:58
Alignment explanation
Indices: 29659473--29659823 Score: 307
Period size: 59 Copynumber: 6.0 Consensus size: 58
29659463 AATAAGAAAC
* ** * * * *
29659473 GATGAAATCGGGGTTGAAAACGGGACTTTTGGATGCGC-GAGGGCAAAATGGTAA-TTTT
1 GATGAAATCGAGGTT-AAAAATGGAATTTTGGAAGTGCAG-GGGTAAAATGGTAATTTTT
* * * *
29659531 GATGAAATCGAGGTTAAAAATGGAATTTTTGAGGGTTCAGGGGTAAAATGATAATTTTT
1 GATGAAATCGAGGTTAAAAATGGAATTTTGGA-AGTGCAGGGGTAAAATGGTAATTTTT
* * *
29659590 GGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTT
1 GATGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTGCAGGGGTAAAATGGTAATTTTT
* * * * *
29659649 GCTGAAATCG-GGTTAAAAATGGAATTTTGAAAAGTTCGGGGGTAAAATGGTAAGTTTT
1 GATGAAATCGAGGTTAAAAATGGAATTTTG-GAAGTGCAGGGGTAAAATGGTAATTTTT
* * **
29659707 GGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTAAGGGGTAAAATGGTAATTTTT
1 GATGAAATCGAGGTTAAAAATGGAATTTTG-GAAGTGCAGGGGTAAAATGGTAATTTTT
* * * ** ***
29659766 G--GAAGTTTTGGGGTTAAAAATGGAATTTTAAAAGGTTTGGGGGTAAAATGGTAATTTT
1 GATGAA--ATCGAGGTTAAAAATGGAATTTTGGAA-GTGCAGGGGTAAAATGGTAATTTT
29659824 GGAAGTTTCG
Statistics
Matches: 254, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
57 16 0.06
58 84 0.33
59 153 0.60
60 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (58 bp):
GATGAAATCGAGGTTAAAAATGGAATTTTGGAAGTGCAGGGGTAAAATGGTAATTTTT
Found at i:29659606 original size:59 final size:59
Alignment explanation
Indices: 29659517--29659823 Score: 376
Period size: 59 Copynumber: 5.2 Consensus size: 59
29659507 GCGCGAGGGC
* **
29659517 AAAATGGTAA-TTTTGATGAAATCGAGGTTAAAAATGGAATTTTTGAGGGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTCAGGGGT
* * *
29659575 AAAATGATAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTCAGGGGT
* *
29659634 AAAATGGTAATTTTTGCTGAAATCG-GGTTAAAAATGGAA-TTTTGAAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTG-AAAGTTCAGGGGT
* *
29659692 AAAATGGTAAGTTTTGGTGAAATCGAGGTTAAAAATGGAA-TTTTGAAAAGTTAAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTG-AAAGTTCAGGGGT
* * * * **
29659751 AAAATGGTAATTTTT-G-GAAGTTTTGGGGTTAAAAATGGAA-TTTTAAAAGGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAA--ATCGAGGTTAAAAATGGAATTTTTGAAA-GTTCAGGGGT
29659810 AAAATGGTAATTTT
1 AAAATGGTAATTTT
29659824 GGAAGTTTCG
Statistics
Matches: 221, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
57 7 0.03
58 62 0.28
59 152 0.69
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTCAGGGGT
Found at i:29659691 original size:117 final size:116
Alignment explanation
Indices: 29659517--29659823 Score: 415
Period size: 117 Copynumber: 2.6 Consensus size: 116
29659507 GCGCGAGGGC
** *
29659517 AAAATGGTAA-TTTTGATGAAATCGAGGTTAAAAATGGAATTTTTG-AGGGTTCAGGGGTAAAAT
1 AAAATGGTAATTTTTG-TGAAATCG-GGTTAAAAATGGAA-TTTTGAAAAGTTCGGGGGTAAAAT
* * *
29659580 GATAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
63 GGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTAAGGGGT
29659634 AAAATGGTAATTTTTGCTGAAATCGGGTTAAAAATGGAATTTTGAAAAGTTCGGGGGTAAAATGG
1 AAAATGGTAATTTTTG-TGAAATCGGGTTAAAAATGGAATTTTGAAAAGTTCGGGGGTAAAATGG
* *
29659699 TAAGTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTAAGGGGT
65 TAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTAAGGGGT
* * *
29659751 AAAATGGTAATTTTTG-GAAGTTTTGGGGTTAAAAATGGAATTTT-AAAAGGTTTGGGGGTAAAA
1 AAAATGGTAATTTTTGTGAA---ATCGGGTTAAAAATGGAATTTTGAAAA-GTTCGGGGGTAAAA
29659814 TGGTAATTTT
62 TGGTAATTTT
29659824 GGAAGTTTCG
Statistics
Matches: 171, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
115 3 0.02
116 5 0.03
117 108 0.63
118 55 0.32
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (116 bp):
AAAATGGTAATTTTTGTGAAATCGGGTTAAAAATGGAATTTTGAAAAGTTCGGGGGTAAAATGGT
AATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTAAGGGGT
Found at i:29659753 original size:29 final size:29
Alignment explanation
Indices: 29659606--29659824 Score: 129
Period size: 29 Copynumber: 7.5 Consensus size: 29
29659596 ATCGAGGTTA
*
29659606 AAAATGG-AATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTGAAAAGTTCAGGGGT
* *
29659634 AAAATGGTAATTTTTGCTGAAA--TC-GGGTT
1 AAAATGGTAA-TTTTG--AAAAGTTCAGGGGT
*
29659663 AAAAATGG-AATTTTGAAAAGTTCGGGGGT
1 -AAAATGGTAATTTTGAAAAGTTCAGGGGT
* *
29659692 AAAATGGTAAGTTTTGGTGAAA--TC-GAGGTT
1 AAAATGGTAA-TTTT-G-AAAAGTTCAG-GGGT
*
29659722 AAAAATGG-AATTTTGAAAAGTTAAGGGGT
1 -AAAATGGTAATTTTGAAAAGTTCAGGGGT
* **
29659751 AAAATGGTAATTTTTG-GAAGTTTTGGGGTT
1 AAAATGGTAA-TTTTGAAAAGTTCAGGGG-T
**
29659781 AAAAATGG-AATTTT-AAAAGGTTTGGGGGT
1 -AAAATGGTAATTTTGAAAA-GTTCAGGGGT
29659810 AAAATGGTAATTTTG
1 AAAATGGTAATTTTG
29659825 GAAGTTTCGG
Statistics
Matches: 153, Mismatches: 13, Indels: 48
0.71 0.06 0.22
Matches are distributed among these distances:
26 3 0.02
27 3 0.02
28 36 0.24
29 47 0.31
30 42 0.27
31 15 0.10
32 7 0.05
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGAAAAGTTCAGGGGT
Found at i:29659784 original size:30 final size:28
Alignment explanation
Indices: 29659723--29659836 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
29659713 ATCGAGGTTA
* **
29659723 AAAATGG-AATTTTGAAAAGTTAAGGGGT
1 AAAATGGTAATTTTG-GAAGTTTTGGGGT
29659751 AAAATGGTAATTTTTGGAAGTTTTGGGGTT
1 AAAATGGTAA-TTTTGGAAGTTTTGGGG-T
** *
29659781 AAAAATGG-AATTTTAAAAGGTTTGGGGGT
1 -AAAATGGTAATTTTGGAA-GTTTTGGGGT
*
29659810 AAAATGGTAATTTTGGAAGTTTCGGGG
1 AAAATGGTAATTTTGGAAGTTTTGGGG
29659837 ACCTATAAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
28 22 0.31
29 26 0.37
30 16 0.23
31 7 0.10
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.34
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAAGTTTTGGGGT
Found at i:29661597 original size:17 final size:17
Alignment explanation
Indices: 29661577--29661641 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
29661567 TTAATATTAT
* *
29661577 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
29661594 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* *
29661611 --T-AAGTAAATTTTAA
1 TTTAAAATAAATTTAAA
*
29661625 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
29661642 AATGAATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 11 0.29
15 1 0.03
16 1 0.03
17 25 0.66
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:29671492 original size:52 final size:52
Alignment explanation
Indices: 29671307--29671488 Score: 292
Period size: 52 Copynumber: 3.5 Consensus size: 52
29671297 ATTTCATTTA
* ** *
29671307 ATACTCACGATGACACATAGTCACCGAACCTCATAATTTGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
* *
29671359 ATACTCACGATGACACATAGTCATCAAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
*
29671411 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
*
29671463 ATACTCACGATGACACATAGCCATCG
1 ATACTCACGATGACACATAGTCATCG
29671489 GACCCTTTTC
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
Found at i:29678067 original size:57 final size:59
Alignment explanation
Indices: 29677991--29678123 Score: 164
Period size: 61 Copynumber: 2.3 Consensus size: 59
29677981 CCCTTTCCAA
* * *
29677991 CTTTGAACATTAAA-AAATATTT-C-TTTATTTATTTTTTCCATATAATATGTTTTAAC
1 CTTTTAACTTTAAATAAATATTTCCTTTTATTTATTTTTTCCATATAATATATTTTAAC
* * *
29678047 TTTTTAACTTTAAATAAATATTTCCTTTTTTATTTCTTTTTTCCATATCATATATTTTAAC
1 CTTTTAACTTTAAATAAATATTTCC--TTTTATTTATTTTTTCCATATAATATATTTTAAC
*
29678108 CTTTTAATTTTAAATA
1 CTTTTAACTTTAAATA
29678124 TTTATATAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
56 11 0.17
57 8 0.12
58 1 0.02
61 44 0.69
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.56
Consensus pattern (59 bp):
CTTTTAACTTTAAATAAATATTTCCTTTTATTTATTTTTTCCATATAATATATTTTAAC
Found at i:29686563 original size:40 final size:39
Alignment explanation
Indices: 29686475--29686564 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 39
29686465 GGGATTACTA
* *
29686475 TTACTGAACTGGCAGTGATACTGTAAACACTGTCGTATT
1 TTACTGAACTGGAAGTGACACTGTAAACACTGTCGTATT
* * *
29686514 TCTATTGAACTGGAAGTGACACTTTAAACACTG-CATTATT
1 T-TACTGAACTGGAAGTGACACTGTAAACACTGTC-GTATT
29686554 GTTACTGAACT
1 -TTACTGAACT
29686565 AGCCATGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 2 0.05
40 39 0.93
41 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (39 bp):
TTACTGAACTGGAAGTGACACTGTAAACACTGTCGTATT
Found at i:29688350 original size:29 final size:28
Alignment explanation
Indices: 29688316--29688378 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
29688306 AAAATGAGAC
* *
29688316 TTTGGATGCTCGGGGGGTAAAATGGTAAT
1 TTTGGATGCTC-GGAGGCAAAATGGTAAT
**
29688345 TTTGGATTTTCGGAGGCAAAATGGTAAT
1 TTTGGATGCTCGGAGGCAAAATGGTAAT
29688373 TTTGGA
1 TTTGGA
29688379 AAAAATTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.35
Consensus pattern (28 bp):
TTTGGATGCTCGGAGGCAAAATGGTAAT
Found at i:29688631 original size:29 final size:29
Alignment explanation
Indices: 29688567--29688649 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
29688557 TTTTAGGGGT
*
29688567 AAAAATATAATTTTTGGAAGTTTCGAGGCC
1 AAAAATATAATTTTTTGAAGTTT-GAGGCC
*
29688597 AAAAATATAATTTTTTGAAGTTTGATGGTC
1 AAAAATATAATTTTTTGAAGTTTGA-GGCC
** *
29688627 -AAAATGGAATTTTTTAAAGTTTG
1 AAAAATATAATTTTTTGAAGTTTG
29688650 GAGGTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (29 bp):
AAAAATATAATTTTTTGAAGTTTGAGGCC
Found at i:29688659 original size:29 final size:28
Alignment explanation
Indices: 29688461--29688757 Score: 168
Period size: 29 Copynumber: 10.5 Consensus size: 28
29688451 AAAACAGAAT
29688461 TTTTTGGACA-TTTGAGGGT-AAAATGGTAA
1 TTTTTGGA-AGTTTG-GGGTAAAAATGG-AA
*
29688490 -TTTTGGAAAGTTTTGGGGTTAAAAT-GAA
1 TTTTTGG-AAG-TTTGGGGTAAAAATGGAA
*
29688518 TTTTTTGGAATTTTAGGGGTAAAAATGGAA
1 -TTTTTGGAAGTTT-GGGGTAAAAATGGAA
* **
29688548 TTTTTGGAATTTTAGGGGTAAAAATATAA
1 TTTTTGGAAGTTT-GGGGTAAAAATGGAA
** **
29688577 TTTTTGGAAGTTTCGAGGCCAAAAATATAA
1 TTTTTGGAAGTTT-G-GGGTAAAAATGGAA
* * *
29688607 TTTTTTGAAGTTTGATGGTCAAAATGGAA
1 TTTTTGGAAGTTTG-GGGTAAAAATGGAA
**
29688636 TTTTTTAAAGTTTGGAGGTAAAAATGGAA
1 TTTTTGGAAGTTTGG-GGTAAAAATGGAA
* *
29688665 TTTTCGG-AG--T----CAAAAATGGAA
1 TTTTTGGAAGTTTGGGGTAAAAATGGAA
*
29688686 TTTTTGGAAGTTCGAGGGTAAAAATGTG-A
1 TTTTTGGAAGTTTG-GGGTAAAAATG-GAA
* ** **
29688715 TTTTTGAAAGTTTTGGGGCCAAAATATAA
1 TTTTTGGAAG-TTTGGGGTAAAAATGGAA
29688744 TTTTTGGATAGTTT
1 TTTTTGGA-AGTTT
29688758 AGGGACTTTT
Statistics
Matches: 214, Mismatches: 32, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
21 16 0.07
22 2 0.01
26 1 0.00
28 14 0.07
29 133 0.62
30 48 0.22
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (28 bp):
TTTTTGGAAGTTTGGGGTAAAAATGGAA
Found at i:29688670 original size:79 final size:79
Alignment explanation
Indices: 29688581--29688727 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
29688571 ATATAATTTT
* * * * * *
29688581 TGGAAGTTTC-GAGGCCAAAAATATAATTTTTTGAAGTTTGATGGTCAAAATG-GAATTTTTTAA
1 TGGAAGTTTCGGA-GCCAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGTG-ATTTTTGAA
29688644 AGTTTGGAGGTAAAAA
64 AGTTTGGAGGTAAAAA
* * *
29688660 TGGAATTTTCGGAGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTTGAAAG
1 TGGAAGTTTCGGAGCCAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTTGAAAG
29688725 TTT
66 TTT
29688728 TGGGGCCAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
79 54 0.95
80 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (79 bp):
TGGAAGTTTCGGAGCCAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTTGAAAG
TTTGGAGGTAAAAA
Found at i:29688746 original size:79 final size:79
Alignment explanation
Indices: 29688596--29688747 Score: 173
Period size: 79 Copynumber: 1.9 Consensus size: 79
29688586 GTTTCGAGGC
* * * * * * *
29688596 CAAAAATATAATTTTTTGAAGTTTGATGGTCAAAATGGAATTTTTTAAAGTTTGGAGGTAAAAAT
1 CAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGAAAGTTTGGAGGCAAAAAT
*
29688661 GGAATTTTCGGAGT
66 AGAATTTTCGGAGT
* *
29688675 CAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTG-ATTTTTGAAAGTTTTGG-GGCCAAA
1 CAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATG-GAATTTTTGAAAG-TTTGGAGGCAAAA
*
29688738 ATATAATTTT
64 ATAGAATTTT
29688748 TGGATAGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
79 54 0.90
80 6 0.10
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (79 bp):
CAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGAAAGTTTGGAGGCAAAAAT
AGAATTTTCGGAGT
Found at i:29689815 original size:3 final size:3
Alignment explanation
Indices: 29689809--29689847 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
29689799 ATTTTTTTAA
* *
29689809 TAT TAT TAA TAT TAT TAT TAT TATT TAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA
29689848 ATCATTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:29689819 original size:9 final size:9
Alignment explanation
Indices: 29689805--29689844 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
29689795 CTTTATTTTT
29689805 TTAATATTA
1 TTAATATTA
29689814 TTAATATTA
1 TTAATATTA
*
29689823 TTATTATTA
1 TTAATATTA
29689832 TTTAATATTA
1 -TTAATATTA
29689842 TTA
1 TTA
29689845 TTAATCATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTAATATTA
Found at i:29689838 original size:19 final size:18
Alignment explanation
Indices: 29689809--29689847 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
29689799 ATTTTTTTAA
29689809 TATTATTAATATTATTAT
1 TATTATTAATATTATTAT
29689827 TATTATTTAATATTATTAT
1 TATTA-TTAATATTATTAT
29689846 TA
1 TA
29689848 ATCATTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATTAATATTATTAT
Found at i:29689862 original size:19 final size:20
Alignment explanation
Indices: 29689816--29689868 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
29689806 TAATATTATT
* *
29689816 AATATTATTATT-ATTATTT
1 AATATTATTATTAATCATTC
29689835 AATATTATTATTAATCATTC
1 AATATTATTATTAATCATTC
*
29689855 AATA-TATTTTTAAT
1 AATATTATTATTAAT
29689869 AACTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTATTATTAATCATTC
Found at i:29690735 original size:23 final size:22
Alignment explanation
Indices: 29690709--29690767 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
29690699 TGGACTTTTT
*
29690709 AATTAAATTTAAATTTAAATTCA
1 AATTAAATTTAAACTT-AATTCA
*
29690732 AATTAAATTTAAACTTAATTTA
1 AATTAAATTTAAACTTAATTCA
*
29690754 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
29690768 AGAAAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTAAATTTAAACTTAATTCA
Found at i:29690737 original size:17 final size:17
Alignment explanation
Indices: 29690711--29690793 Score: 87
Period size: 17 Copynumber: 4.7 Consensus size: 17
29690701 GACTTTTTAA
29690711 TTAAATTTAAATTTAAA-
1 TTAAA-TTAAATTTAAAC
29690728 TTCAAATTAAATTTAAAC
1 TT-AAATTAAATTTAAAC
*
29690746 TTAATTTAAATTTAAAC
1 TTAAATTAAATTTAAAC
**
29690763 TTAAAAGAAAAGTTTAAAC
1 TT-AAATTAAA-TTTAAAC
*
29690782 TTAAACTAAATT
1 TTAAATTAAATT
29690794 AAAATTCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
17 31 0.55
18 16 0.29
19 9 0.16
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:29690751 original size:11 final size:12
Alignment explanation
Indices: 29690711--29690767 Score: 73
Period size: 11 Copynumber: 4.9 Consensus size: 12
29690701 GACTTTTTAA
29690711 TTAAATTTAAAT
1 TTAAATTTAAAT
*
29690723 TTAAATTCAAA-
1 TTAAATTTAAAT
*
29690734 TTAAATTTAAAC
1 TTAAATTTAAAT
29690746 TT-AATTTAAAT
1 TTAAATTTAAAT
*
29690757 TTAAACTTAAA
1 TTAAATTTAAA
29690768 AGAAAAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 20 0.51
12 19 0.49
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:29690787 original size:6 final size:6
Alignment explanation
Indices: 29690711--29690767 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
29690701 GACTTTTTAA
* *
29690711 TTAAAT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
29690757 TTAAAC TTAAA
1 TTAAAT TTAAA
29690768 AGAAAAGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 8 0.18
6 36 0.82
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:29690828 original size:15 final size:15
Alignment explanation
Indices: 29690808--29690837 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29690798 TTCAATCATG
*
29690808 AATTAAAATTTAAAA
1 AATTAAAAGTTAAAA
29690823 AATTAAAAGTTAAAA
1 AATTAAAAGTTAAAA
29690838 TTGGATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AATTAAAAGTTAAAA
Found at i:29692237 original size:17 final size:17
Alignment explanation
Indices: 29692191--29692238 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
29692181 ATTTTTATTT
29692191 ATTAAGTTATTATTTTTA
1 ATTAA-TTATTATTTTTA
*
29692209 ATTAATTTTTATTTTTAA
1 ATTAATTATTATTTTT-A
29692227 ATT-ATTATTATT
1 ATTAATTATTATT
29692239 GTTCATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTAATTATTATTTTTA
Found at i:29695208 original size:3 final size:3
Alignment explanation
Indices: 29695200--29695226 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29695190 TAGAGCTGTA
29695200 TGC TGC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC
29695227 AAACCAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
TGC
Found at i:29697373 original size:2 final size:2
Alignment explanation
Indices: 29697368--29697401 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
29697358 TATATTTTCT
*
29697368 GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
29697402 TGCATGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:29704413 original size:18 final size:19
Alignment explanation
Indices: 29704387--29704430 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
29704377 TAACTAAATT
29704387 TCAA-ATATAAAATATTCA
1 TCAATATATAAAATATTCA
*
29704405 TCAATTATATAAAATGTTCA
1 TCAA-TATATAAAATATTCA
29704425 TCAATA
1 TCAATA
29704431 AACTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 2 0.09
20 17 0.74
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAATATATAAAATATTCA
Found at i:29704416 original size:20 final size:20
Alignment explanation
Indices: 29704391--29704429 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
29704381 TAAATTTCAA
29704391 ATATAAAATATTCATCAATT
1 ATATAAAATATTCATCAATT
*
29704411 ATATAAAATGTTCATCAAT
1 ATATAAAATATTCATCAAT
29704430 AAACTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATAAAATATTCATCAATT
Found at i:29707811 original size:24 final size:24
Alignment explanation
Indices: 29707784--29707832 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
29707774 AAGTTTACCG
* * *
29707784 ACTAGGTTACTACACTTTTAGTAA
1 ACTAGGTAACTAAACTTTTAATAA
*
29707808 ACTAGGTAATTAAACTTTTAATAA
1 ACTAGGTAACTAAACTTTTAATAA
29707832 A
1 A
29707833 TTTACATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (24 bp):
ACTAGGTAACTAAACTTTTAATAA
Found at i:29716925 original size:2 final size:2
Alignment explanation
Indices: 29716918--29716949 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29716908 CCATATAGGG
29716918 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29716950 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:29719516 original size:18 final size:18
Alignment explanation
Indices: 29719483--29719542 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
29719473 ATGCCTCTAA
29719483 AATAATAACAAA-ATTAAC
1 AATAA-AACAAACATTAAC
29719501 AATAAAACAAACATTATAC
1 AATAAAACAAACATTA-AC
**
29719520 AAT-ATCCAAACATTAAC
1 AATAAAACAAACATTAAC
29719537 AA-AAAA
1 AATAAAA
29719543 ATAGGGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 11 0.31
18 19 0.54
19 5 0.14
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAAAACAAACATTAAC
Found at i:29720442 original size:25 final size:26
Alignment explanation
Indices: 29720385--29720455 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
29720375 ACTTTCAAAA
*
29720385 AATATAATAATAAATATAAATTTTATATT
1 AATATAA-AATAAATAT-AA-TTTATATC
*
29720414 AATATTAAATAAATATAA-TTATATC
1 AATATAAAATAAATATAATTTATATC
29720439 AATATAAAATAAA-ATAA
1 AATATAAAATAAATATAA
29720456 ATATCTTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
27 2 0.05
28 9 0.23
29 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (26 bp):
AATATAAAATAAATATAATTTATATC
Found at i:29720491 original size:6 final size:6
Alignment explanation
Indices: 29720480--29720525 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
29720470 CACCATCGTA
29720480 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTC
29720526 CCCCCCACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTCTC
Found at i:29722824 original size:136 final size:137
Alignment explanation
Indices: 29722673--29722934 Score: 490
Period size: 138 Copynumber: 1.9 Consensus size: 137
29722663 ATGTTAATTT
29722673 TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTG-GTGTGGAGTTCCAAGCTTAAT
1 TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGAGTGTGGAGTTCCAAGCTTAAT
*
29722737 TGATGGTGGATTGGTGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCATCAAGGTAGGTTT
66 TGATGGTGGATTGATGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCATCAAGGTAGGTTT
29722802 ATGTTAA
131 ATGTTAA
*
29722809 TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGATTTGTGGAGTTCCAAGCTTAA
1 TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGA-GTGTGGAGTTCCAAGCTTAA
29722874 TTGATGGTGGATTGATGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCATCAAGGTA
65 TTGATGGTGGATTGATGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCATCAAGGTA
29722935 AGTATCATGG
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
136 43 0.35
138 79 0.65
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (137 bp):
TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGAGTGTGGAGTTCCAAGCTTAAT
TGATGGTGGATTGATGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCATCAAGGTAGGTTT
ATGTTAA
Found at i:29726736 original size:13 final size:13
Alignment explanation
Indices: 29726718--29726754 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
29726708 ACATTAATAT
29726718 ATTTATTACTATC
1 ATTTATTACTATC
* *
29726731 ATTTATTGCTATT
1 ATTTATTACTATC
29726744 ATTTATTACTA
1 ATTTATTACTA
29726755 AACGTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTTATTACTATC
Found at i:29727830 original size:30 final size:30
Alignment explanation
Indices: 29727788--29727983 Score: 150
Period size: 30 Copynumber: 6.6 Consensus size: 30
29727778 TGATTTTCCA
* **
29727788 AAAATTATATTTTAACCATTTAACTTTTTT
1 AAAATTACATTTTAACCCCTTAACTTTTTT
* * *
29727818 AAAATTTCATTTTGACCCCCTAACTTTTTT
1 AAAATTACATTTTAACCCCTTAACTTTTTT
* *
29727848 AAAATCACATTTTAA-CCCTTAATCTTTTTC
1 AAAATTACATTTTAACCCCTTAA-CTTTTTT
**
29727878 AAAATTACATTTTAA-CCCTTAAACTTTCCT
1 AAAATTACATTTTAACCCCTT-AACTTTTTT
* * * **
29727908 AAAATCACA-TTTAACCCC-AAAGTTTTCC
1 AAAATTACATTTTAACCCCTTAACTTTTTT
* ***
29727936 AAAATCACATTTTAA-CCCTTAAACTTTCCC
1 AAAATTACATTTTAACCCCTT-AACTTTTTT
*
29727966 AAAATTGCATTTTAACCC
1 AAAATTACATTTTAACCC
29727984 TCAAACTTCC
Statistics
Matches: 134, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
28 18 0.13
29 16 0.12
30 96 0.72
31 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTTAACTTTTTT
Found at i:29727864 original size:60 final size:60
Alignment explanation
Indices: 29727782--29728136 Score: 247
Period size: 59 Copynumber: 6.0 Consensus size: 60
29727772 GGTCCCTGAT
* * * * * * *
29727782 TTTCCAAAAATTATATTTTAACCATTTAA-CTTTTTTAAAATTTCATTTTGACCCCCT-AAC
1 TTTCCTAAAATCACATTTTAACC-CTTAATCTTTTTCAAAATTACATTTT-AACCCCTAAAC
** *
29727842 TTTTTTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCTTAAAC
1 TTTCCTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCCTAAAC
* ** * * *
29727902 TTTCCTAAAATCACA-TTTAACCC-CAAAGTTTTCCAAAATCACATTTTAACCCTTAAAC
1 TTTCCTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCCTAAAC
* ** * * ** *
29727960 TTTCCCAAAATTGCATTTTAACCCTCAAAC-TTCCCAAAATCACATTTTAACCCCTAAAC
1 TTTCCTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCCTAAAC
* * * * * * * * * * * *
29728019 TCTCCCAAAATCATAGTTTCACCCTTAAACCTTTTCAAAATCATATTTTAGCGCC-AAAA
1 TTTCCTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCCTAAAC
* * * ** * *
29728078 TTTCTTAAAATTACATTATAACCCTTAAAT-TTTGCCAAAATTACATTTTGACCCTTAAA
1 TTTCCTAAAATCACATTTTAACCCTT-AATCTTTTTCAAAATTACATTTTAACCCCTAAA
29728137 TTCTCCAAAA
Statistics
Matches: 234, Mismatches: 54, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
58 42 0.18
59 112 0.48
60 80 0.34
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (60 bp):
TTTCCTAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCCTAAAC
Found at i:29727984 original size:30 final size:30
Alignment explanation
Indices: 29727848--29728136 Score: 248
Period size: 30 Copynumber: 9.8 Consensus size: 30
29727838 TAACTTTTTT
* * **
29727848 AAAATCACATTTTAACCCTTAATCTTTTTC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
*
29727878 AAAATTACATTTTAACCCTTAAACTTTCCT
1 AAAATTACATTTTAACCCTTAAACTTTCCC
* * * *
29727908 AAAATCACA-TTTAACCC-CAAAGTTTTCC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
*
29727936 AAAATCACATTTTAACCCTTAAACTTTCCC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
* *
29727966 AAAATTGCATTTTAACCCTCAAAC-TTCCC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
* * *
29727995 AAAATCACATTTTAACCCCTAAACTCTCCC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
* * * * *
29728025 AAAATCATAGTTTCACCCTTAAACCTTT-TC
1 AAAATTACATTTTAACCCTTAAA-CTTTCCC
* * * * **
29728055 AAAATCATATTTTAGCGCC--AAAATTTCTT
1 AAAATTACATTTTAAC-CCTTAAACTTTCCC
* * *
29728084 AAAATTACATTATAACCCTTAAATTTTGCC
1 AAAATTACATTTTAACCCTTAAACTTTCCC
*
29728114 AAAATTACATTTTGACCCTTAAA
1 AAAATTACATTTTAACCCTTAAA
29728137 TTCTCCAAAA
Statistics
Matches: 209, Mismatches: 42, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
28 21 0.10
29 57 0.27
30 126 0.60
31 5 0.02
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTTAAACTTTCCC
Found at i:29728138 original size:59 final size:58
Alignment explanation
Indices: 29727847--29728136 Score: 264
Period size: 59 Copynumber: 4.9 Consensus size: 58
29727837 CTAACTTTTT
* * *
29727847 TAAAATCACATTTTAACCCTTAATCTTTTTCAAAATTACATTTTAACCCTTAAACTTTCC
1 TAAAATCACA-TTTAACCCTTAA-ATTTTCCAAAATCACATTTTAACCCTTAAACTTTCC
*
29727907 TAAAATCACATTTAACCC-CAAAGTTTTCCAAAATCACATTTTAACCCTTAAACTTTCC
1 TAAAATCACATTTAACCCTTAAA-TTTTCCAAAATCACATTTTAACCCTTAAACTTTCC
* ** * * * * *
29727965 CAAAATTGCATTTTAACCCTCAAACTTCCCAAAATCACATTTTAACCCCTAAACTCTCC
1 TAAAATCACA-TTTAACCCTTAAATTTTCCAAAATCACATTTTAACCCTTAAACTTTCC
* * * * * * *
29728024 CAAAATCATAGTTTCACCCTTAAACCTTTT-CAAAATCATATTTTAGCGCC--AAAATTTCT
1 TAAAATCACA-TTTAACCCTTAAA--TTTTCCAAAATCACATTTTAAC-CCTTAAACTTTCC
* * *
29728083 TAAAATTACATTATAACCCTTAAATTTTGCCAAAATTACATTTTGACCCTTAAA
1 TAAAATCACATT-TAACCCTTAAATTTT-CCAAAATCACATTTTAACCCTTAAA
29728137 TTCTCCAAAA
Statistics
Matches: 187, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
57 4 0.02
58 46 0.25
59 101 0.54
60 32 0.17
61 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (58 bp):
TAAAATCACATTTAACCCTTAAATTTTCCAAAATCACATTTTAACCCTTAAACTTTCC
Found at i:29740237 original size:85 final size:85
Alignment explanation
Indices: 29740087--29740253 Score: 217
Period size: 85 Copynumber: 2.0 Consensus size: 85
29740077 TAAACCCCCA
* * *
29740087 TCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTACCTAATGAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATCTACCTAATGAGATAC
*
29740152 AGAGAAGTAGATCAAATTCG
66 AGAGAAGTAGACCAAATTCG
* * * * * * * * *
29740172 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAGGTGGTTATCTTCTTGATGAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATCTACCTAATGAGATAC
29740237 AGAGAAGTAGACCAAAT
66 AGAGAAGTAGACCAAAT
29740254 CAATGAAGCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCATCTACCTAATGAGATAC
AGAGAAGTAGACCAAATTCG
Found at i:29740478 original size:208 final size:207
Alignment explanation
Indices: 29740071--29740868 Score: 1064
Period size: 208 Copynumber: 3.8 Consensus size: 207
29740061 GGAAAAGTGA
* * *
29740071 AAACTTTAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
1 AAACTTCAAA-CCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
* * * * *
29740136 CTACCTAATGAGATACAGAGAAGT-AGATCAAATTCGTCTTCCTGATGAGATACAAAGAAGTGGA
65 CTTCCTGACGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGA
* * * * * *
29740200 TTAAATCAATG-AGGTGGTTATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCA
129 TTAAAACAATGAAGCT-GTCATCTTCCTGATGAGATAAAGAGAAGTAGACC-AATTAATGAAGCA
** *
29740264 AAGCTCAATGTGAGTG
192 AAGCTCAATACGAATG
*
29740280 AAACTTTAAA-CCCATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
1 AAACTTCAAACCCCATCTTCCTGATGAGAT-ACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
* * * *
29740344 CTTCCTGATGAGATACAGAGAGGTGGACCAAATCTGTCTTCCTGATGAGATACAAAGAAGTGGAT
65 CTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGAT
* * * * * *
29740409 TGAAACAATGAGGCTGTCATCTTTCTGATGAGATAAAGAGGAGTAGACCTAATTAATGAGGCTAA
130 TAAAACAATGAAGCTGTCATCTTCCTGATGAGATAAAGAGAAGTAGACC-AATTAATGAAGCAAA
29740474 GCTCAATACGAATG
194 GCTCAATACGAATG
* * * *
29740488 AGACTTCAAACCCCATCTTTCTTATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATC
1 AAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATC
* * * * *
29740553 TTCCTGACAAGATGCAGAGAAGTGAACCAAATCCATCTTCCTGATGAAATACAGAGAAGTGGATT
66 TTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGATT
* * *
29740618 AAAACAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCGATTCAATGAAGCAAAG
131 AAAACAATGAAGCTGTCATCTTCCTGATGAGATAAAGAGAAGTAGACCAATT-AATGAAGCAAAG
29740683 CTCAATACGAATG
195 CTCAATACGAATG
* *
29740696 AGACTTCAAACCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATC
1 AAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATC
** * *
29740761 TTCCTGACGAGATGTAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACACAGAAGTAGATT
66 TTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGATT
* *
29740826 AAAATAATGAAGCAGTCATCTTCCTGATGAGATACAA-AGAAGT
131 AAAACAATGAAGCTGTCATCTTCCTGATGAGATA-AAGAGAAGT
29740869 GGGTCGAAGT
Statistics
Matches: 522, Mismatches: 61, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
207 21 0.04
208 471 0.90
209 30 0.06
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (207 bp):
AAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATC
TTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGTGGATT
AAAACAATGAAGCTGTCATCTTCCTGATGAGATAAAGAGAAGTAGACCAATTAATGAAGCAAAGC
TCAATACGAATG
Found at i:29740657 original size:85 final size:85
Alignment explanation
Indices: 29740500--29740660 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
29740490 ACTTCAAACC
* * * * * *
29740500 CCATCTTTCTTATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGACAAGA
1 CCATCTTCCTGATGAAATACAAAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGACAAGA
*
29740565 TGCAGAGAAGTGAACCAAAT
66 TACAGAGAAGTGAACCAAAT
* * * **
29740585 CCATCTTCCTGATGAAATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCCTGATGAGA
1 CCATCTTCCTGATGAAATACAAAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGACAAGA
*
29740650 TATAGAGAAGT
66 TACAGAGAAGT
29740661 AGACCGATTC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (85 bp):
CCATCTTCCTGATGAAATACAAAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGACAAGA
TACAGAGAAGTGAACCAAAT
Found at i:29740852 original size:48 final size:48
Alignment explanation
Indices: 29740796--29740916 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 48
29740786 ACCAAATCCG
* * *
29740796 TCTTCCTGATGAGATACACAGAAGTAGATTAAAATAATGAAGCAGTCA
1 TCTTCCTGATGAGATACAAAGAAGTAGATCAAAATAATAAAGCAGTCA
* * * *
29740844 TCTTCCTGATGAGATACAAAGAAGTGGGTCGAAGTAATAAAGCAGTCA
1 TCTTCCTGATGAGATACAAAGAAGTAGATCAAAATAATAAAGCAGTCA
* * * *
29740892 TCTTCTTGATAAGATATAGAGAAGT
1 TCTTCCTGATGAGATACAAAGAAGT
29740917 GGACCGAAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAGAAGTAGATCAAAATAATAAAGCAGTCA
Found at i:29740855 original size:416 final size:417
Alignment explanation
Indices: 29740073--29740859 Score: 1175
Period size: 416 Copynumber: 1.9 Consensus size: 417
29740063 AAAAGTGAAA
* *
29740073 ACTTTAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCT
1 ACTTCAAACCCCCATCTTTCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCT
** * * * *
29740138 ACCTAATGAGATACAGAGAAGTAGATCAAATTCGTCTTCCTGATGAGATACAAAGAAGTGGATTA
66 ACCTAACAAGATACAGAGAAGTAGACCAAATCCATCTTCCTGATGAAATACAAAGAAGTGGATTA
* * * * *
29740203 AATCAATGAGGTGGTTATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGC
131 AAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGC
** * *
29740268 TCAATGTGAGTGAAACTTTAAACCCATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCAAT
196 TCAATACGAATGAAACTTCAAACCCATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCAAT
* * * *
29740333 AAAGTGGTCATCTTCCTGATGAGATACAGAGAGGTGGACCAAATCTGTCTTCCTGATGAGATACA
261 AAAGTGGTCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
* * * * *
29740398 AAGAAGTGGATTGAAACAATGAGGCTGTCATCTTTCTGATGAGATAAAGAGGAGTAGACCTAATT
326 AAGAAGTAGATTAAAACAATGAAGCAGTCATCTTCCTGATGAGATAAAGAGGAGTAGACCTAATT
29740463 AATGAGGCTAAGCTCAATACGAATGAG
391 AATGAGGCTAAGCTCAATACGAATGAG
* *
29740490 ACTTCAAA-CCCCATCTTTCTTATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCT
1 ACTTCAAACCCCCATCTTTCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCT
* * * *
29740554 TCCTGACAAGATGCAGAGAAGT-GAACCAAATCCATCTTCCTGATGAAATACAGAGAAGTGGATT
66 ACCTAACAAGATACAGAGAAGTAG-ACCAAATCCATCTTCCTGATGAAATACAAAGAAGTGGATT
* * *
29740618 AAAACAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCGATTCAATGAAGCAAAG
130 AAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
*
29740683 CTCAATACGAATGAGACTTCAAACCCTATCTTCCTGATGAGAT-ACAGAGAAGTGGGTCAAAGCA
195 CTCAATACGAATGAAACTTCAAACCC-ATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCA
**
29740747 ATAAAGTGGTCATCTTCCTGACGAGATGTAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATA
259 ATAAAGTGGTCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATA
* *
29740812 CACAGAAGTAGATTAAAATAATGAAGCAGTCATCTTCCTGATGAGATA
324 CAAAGAAGTAGATTAAAACAATGAAGCAGTCATCTTCCTGATGAGATA
29740860 CAAAGAAGTG
Statistics
Matches: 328, Mismatches: 40, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
415 1 0.00
416 304 0.93
417 23 0.07
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (417 bp):
ACTTCAAACCCCCATCTTTCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCT
ACCTAACAAGATACAGAGAAGTAGACCAAATCCATCTTCCTGATGAAATACAAAGAAGTGGATTA
AAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGC
TCAATACGAATGAAACTTCAAACCCATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCAAT
AAAGTGGTCATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
AAGAAGTAGATTAAAACAATGAAGCAGTCATCTTCCTGATGAGATAAAGAGGAGTAGACCTAATT
AATGAGGCTAAGCTCAATACGAATGAG
Found at i:29740867 original size:85 final size:85
Alignment explanation
Indices: 29740711--29740869 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
29740701 TCAAACCCTA
* * * * ** **
29740711 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGACGAGATGT
1 TCTTCCTGATGAGATACACAGAAGTAGATCAAAACAATAAAGCAGTCATCTTCCTGACGAGATAC
*
29740776 AGAGAAGTGAACCAAATCCG
66 AAAGAAGTGAACCAAATCCG
* * * *
29740796 TCTTCCTGATGAGATACACAGAAGTAGATTAAAATAATGAAGCAGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACACAGAAGTAGATCAAAACAATAAAGCAGTCATCTTCCTGACGAGATAC
29740861 AAAGAAGTG
66 AAAGAAGTG
29740870 GGTCGAAGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (85 bp):
TCTTCCTGATGAGATACACAGAAGTAGATCAAAACAATAAAGCAGTCATCTTCCTGACGAGATAC
AAAGAAGTGAACCAAATCCG
Found at i:29741908 original size:13 final size:13
Alignment explanation
Indices: 29741887--29741920 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29741877 ATAATATATG
29741887 TATTACTATCATT
1 TATTACTATCATT
* *
29741900 TATTGCTATTATT
1 TATTACTATCATT
29741913 TATTACTA
1 TATTACTA
29741921 AACATTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (13 bp):
TATTACTATCATT
Found at i:29742979 original size:30 final size:31
Alignment explanation
Indices: 29742942--29743293 Score: 274
Period size: 30 Copynumber: 11.8 Consensus size: 31
29742932 CAAGAGGTCC
* * *
29742942 CTAAACTTTTCAAAAATTATATTTTGACCCT
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
** * *
29742973 CT-AACTTTTCCAAAATTTTATTTTGACTCT
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
*
29743003 CT-AACTTTTCCAAAATCACATTTTAACCCT
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
* *
29743033 -TAAAATTTTCTAAAATTACATTTTAACCC-
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
* * *
29743062 CCAAACTTTCCCAAAATCACATTTTAACCC-
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
*
29743092 CTAAACTTTTCCAAAATCACATTTTAACCCT
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
* *
29743123 -TAAAC-TCTCTCAAAATTATATTTTAACCCT
1 CTAAACTTTTC-CAAAATTACATTTTAACCCT
* * *
29743153 C-AAAC-CTTCCTAAAATCACATTTTAA-CAT
1 CTAAACTTTTCC-AAAATTACATTTTAACCCT
* * *
29743182 TTAAAC-TTCCCAAAATCACATTTTAACCCT
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
* * * * *
29743212 -AAAACCTTTCTAAAATCACATTTT-AGCC-
1 CTAAACTTTTCCAAAATTACATTTTAACCCT
*
29743240 CTAAAC-TTTCTTAAAATT--ATTTATAACCC-
1 CTAAACTTTTC-CAAAATTACATTT-TAACCCT
29743269 CTAAA-TTTTGCCAAAATTACATTTT
1 CTAAACTTTT-CCAAAATTACATTTT
29743294 GACTCCAAAA
Statistics
Matches: 266, Mismatches: 38, Indels: 35
0.78 0.11 0.10
Matches are distributed among these distances:
27 4 0.02
28 5 0.02
29 56 0.21
30 195 0.73
31 6 0.02
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (31 bp):
CTAAACTTTTCCAAAATTACATTTTAACCCT
Found at i:29743101 original size:90 final size:90
Alignment explanation
Indices: 29743005--29743293 Score: 340
Period size: 90 Copynumber: 3.2 Consensus size: 90
29742995 TTGACTCTCT
*
29743005 AACTTTTCCAAAATCACATTTTAACCCTTAAAATTTTCTAAAATTACATTTTAACCCCCAAACTT
1 AACTTTTCCAAAATCACATTTTAACCCTTAAAACTTTCTAAAATTACATTTTAACCCCCAAACTT
29743070 TCCCAAAATCACATTTTAACCCCTA
66 TCCCAAAATCACATTTTAACCCCTA
* * * *
29743095 AACTTTTCCAAAATCACATTTTAACCCTT-AAACTCTCTCAAAATTATATTTTAACCCTCAAACC
1 AACTTTTCCAAAATCACATTTTAACCCTTAAAACTTTCT-AAAATTACATTTTAACCCCCAAACT
* ***
29743159 TTCCTAAAATCACATTTTAACATTTA
65 TTCCCAAAATCACATTTTAACCCCTA
* * * *
29743185 AAC-TTCCCAAAATCACATTTTAACCC-TAAAACCTTTCTAAAATCACATTTT-AGCCCTAAACT
1 AACTTTTCCAAAATCACATTTTAACCCTTAAAA-CTTTCTAAAATTACATTTTAACCCCCAAACT
** *
29743247 TTCTTAAAAT--TATTTATAACCCCTA
65 TTCCCAAAATCACATTT-TAACCCCTA
*
29743272 AA-TTTTGCCAAAATTACATTTT
1 AACTTTT-CCAAAATCACATTTT
29743294 GACTCCAAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
86 4 0.02
87 10 0.06
88 31 0.18
89 43 0.25
90 81 0.48
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.36
Consensus pattern (90 bp):
AACTTTTCCAAAATCACATTTTAACCCTTAAAACTTTCTAAAATTACATTTTAACCCCCAAACTT
TCCCAAAATCACATTTTAACCCCTA
Found at i:29745527 original size:4 final size:4
Alignment explanation
Indices: 29745518--29745543 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
29745508 CAACCCAATA
29745518 TTCC TTCC TTCC TTCC TTCC TTCC TT
1 TTCC TTCC TTCC TTCC TTCC TTCC TT
29745544 GATTCGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (4 bp):
TTCC
Found at i:29747848 original size:40 final size:40
Alignment explanation
Indices: 29747789--29747869 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
29747779 GACTAGTTTG
* *
29747789 TCACTAAGCTCATGAGGGAGCTTCGCTGATACATAACTTA
1 TCACTAAGCTCACGAGGGAGCTTCGCTGATACACAACTTA
*
29747829 TCACTAAGCTCACGGGGGAGCTTCGCTGATACACAACTTA
1 TCACTAAGCTCACGAGGGAGCTTCGCTGATACACAACTTA
29747869 T
1 T
29747870 AAAATTGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
TCACTAAGCTCACGAGGGAGCTTCGCTGATACACAACTTA
Found at i:29751861 original size:6 final size:6
Alignment explanation
Indices: 29751829--29751882 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
29751819 AATATGCAAG
*
29751829 AAAATA AAAA-A ATAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
29751874 AAAATA AAA
1 AAAATA AAA
29751883 TTGGGTTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 13 0.30
6 31 0.70
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:29760882 original size:159 final size:159
Alignment explanation
Indices: 29760593--29760908 Score: 605
Period size: 159 Copynumber: 2.0 Consensus size: 159
29760583 AGATAATTAA
* *
29760593 AATTAAATCTAAATAATAATTTCCTAGTTGGTTCCAAATTAAACTCTAAATTGTAATGCTTTAAA
1 AATTAAATCTAAACAATAATTTCCTAGTTGGATCCAAATTAAACTCTAAATTGTAATGCTTTAAA
*
29760658 GATAATTTAAAATTAAATCTAAACAATATTATAATAATAATCTTAAAAATAGAATTTAAATTTAA
66 GATAATTTAAAATTAAATCTAAACAATATTATAATAATAATCCTAAAAATAGAATTTAAATTTAA
29760723 ACAAAATCTTTTCCTTGCAATTTTGCCTC
131 ACAAAATCTTTTCCTTGCAATTTTGCCTC
29760752 AATTAAATCTAAACAATAATTTCCTAGTTGGATCCAAATTAAACTCTAAATTGTAATGCTTTAAA
1 AATTAAATCTAAACAATAATTTCCTAGTTGGATCCAAATTAAACTCTAAATTGTAATGCTTTAAA
29760817 GATAATTTAAAATTAAATCTAAACAATATTATAATAATAATCCTAAAAATAGAATTTAAATTTAA
66 GATAATTTAAAATTAAATCTAAACAATATTATAATAATAATCCTAAAAATAGAATTTAAATTTAA
29760882 ACAAAATCTTTTCCTTGCAATTTTGCC
131 ACAAAATCTTTTCCTTGCAATTTTGCC
29760909 CCAAGTCTTC
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (159 bp):
AATTAAATCTAAACAATAATTTCCTAGTTGGATCCAAATTAAACTCTAAATTGTAATGCTTTAAA
GATAATTTAAAATTAAATCTAAACAATATTATAATAATAATCCTAAAAATAGAATTTAAATTTAA
ACAAAATCTTTTCCTTGCAATTTTGCCTC
Found at i:29761089 original size:2 final size:2
Alignment explanation
Indices: 29761084--29761124 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
29761074 ACTAATATAT
29761084 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
29761125 AAAGTATGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29762191 original size:49 final size:49
Alignment explanation
Indices: 29762134--29762228 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
29762124 GAGATCAAGG
29762134 TAAATTCGACTGGTATGGGTTTAAAGGGAAATGGGTATTTTGCATGTAT
1 TAAATTCGACTGGTATGGGTTTAAAGGGAAATGGGTATTTTGCATGTAT
*
29762183 TAAATTCGATTGGTATGGGTTTAAAGGGAAATGGGTATTTTGCATG
1 TAAATTCGACTGGTATGGGTTTAAAGGGAAATGGGTATTTTGCATG
29762229 CTTTATGTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.28, C:0.05, G:0.29, T:0.37
Consensus pattern (49 bp):
TAAATTCGACTGGTATGGGTTTAAAGGGAAATGGGTATTTTGCATGTAT
Found at i:29762879 original size:24 final size:24
Alignment explanation
Indices: 29762852--29762898 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
29762842 GTATACTGGT
*
29762852 TAACCTTTCTGGGCTCGTCAGAGA
1 TAACCTTTCTGGGCTCGTAAGAGA
*
29762876 TAACCTTTCTTGGCTCGTAAGAG
1 TAACCTTTCTGGGCTCGTAAGAG
29762899 CTGATTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (24 bp):
TAACCTTTCTGGGCTCGTAAGAGA
Found at i:29763407 original size:21 final size:21
Alignment explanation
Indices: 29763381--29763457 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
29763371 TAGTAGTAGA
29763381 TTTCTACCGATACTTGTAATG
1 TTTCTACCGATACTTGTAATG
*
29763402 TTTCTACCGATACAAGTGTAA--
1 TTTCTACCGATAC--TTGTAATG
*
29763423 CTTCTACCGATACTTG-ACATG
1 TTTCTACCGATACTTGTA-ATG
29763444 CTTT-TACCGATACT
1 -TTTCTACCGATACT
29763458 AAAAACTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
21 35 0.76
22 2 0.04
23 5 0.11
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTCTACCGATACTTGTAATG
Found at i:29767319 original size:21 final size:21
Alignment explanation
Indices: 29767295--29767353 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
29767285 TAGAAGTAAG
29767295 ACTTGT-TTGGGTAGAAGAGTC
1 ACTTGTATT-GGTAGAAGAGTC
**
29767316 ACTTGTATTGGTAGAATTGTC
1 ACTTGTATTGGTAGAAGAGTC
* *
29767337 ACTTGTATCGATAGAAG
1 ACTTGTATTGGTAGAAG
29767354 TTTGCACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (21 bp):
ACTTGTATTGGTAGAAGAGTC
Found at i:29769519 original size:30 final size:30
Alignment explanation
Indices: 29769483--29769590 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
29769473 AACATCCGTG
* *
29769483 AACATTAGATAGCTAGAAAGGAGTCCACAT
1 AACATTAGATAGCCACAAAGGAGTCCACAT
* *
29769513 AACATTAGATCA-CCACAAAGGTGTCCTCAT
1 AACATTAGAT-AGCCACAAAGGAGTCCACAT
* * *
29769543 AATATTAGATAGCCACAAAGGCGCCCACAT
1 AACATTAGATAGCCACAAAGGAGTCCACAT
*
29769573 AACATTAGATAGTCACAA
1 AACATTAGATAGCCACAA
29769591 CAACATCCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 64 0.97
31 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (30 bp):
AACATTAGATAGCCACAAAGGAGTCCACAT
Found at i:29769828 original size:30 final size:30
Alignment explanation
Indices: 29769794--29769852 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
29769784 GAGAACAACC
*
29769794 ACAAAGGCTTCCACTTTTCGGTAAGTTGAA
1 ACAAAGGCTTCCACTTTTCGGTAAATTGAA
29769824 ACAAAGGCTTCCACTTTTCGGTAAATTGA
1 ACAAAGGCTTCCACTTTTCGGTAAATTGA
29769853 TGTTTTCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (30 bp):
ACAAAGGCTTCCACTTTTCGGTAAATTGAA
Found at i:29770047 original size:56 final size:56
Alignment explanation
Indices: 29769986--29770104 Score: 166
Period size: 56 Copynumber: 2.1 Consensus size: 56
29769976 TTTTACTATG
* * * **
29769986 TGGTCTTCATTTCTCCATACGATGTCATAGCCATCTAGATTAGATCTTACATGATA
1 TGGTCTTCATTTCCCCATACGATGCCATAGCCATCTAGACTAGATCTTACACAATA
* * *
29770042 TGGTCTTCATTTCCCCATATGATGCCATAGCCATCTGGACTAGGTCTTACACAATA
1 TGGTCTTCATTTCCCCATACGATGCCATAGCCATCTAGACTAGATCTTACACAATA
29770098 TGGTCTT
1 TGGTCTT
29770105 TGATCTTCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (56 bp):
TGGTCTTCATTTCCCCATACGATGCCATAGCCATCTAGACTAGATCTTACACAATA
Found at i:29772632 original size:3 final size:3
Alignment explanation
Indices: 29772624--29772650 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29772614 GTAAAGATAG
29772624 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
29772651 GCATAAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:29772822 original size:38 final size:39
Alignment explanation
Indices: 29772758--29772836 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
29772748 GAAGTTAGTA
29772758 AAAAAATGAATCACAAATAAATAATT-AATAAATAAAAAT
1 AAAAAATGAATCACAAATAAATAATTAAAT-AATAAAAAT
* *
29772797 AAAAAAT-AATTAGCAAATAAA-AATTAAATAATGAAAAT
1 AAAAAATGAATCA-CAAATAAATAATTAAATAATAAAAAT
29772835 AA
1 AA
29772837 TATGAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 18 0.50
39 18 0.50
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (39 bp):
AAAAAATGAATCACAAATAAATAATTAAATAATAAAAAT
Found at i:29774013 original size:16 final size:17
Alignment explanation
Indices: 29773992--29774025 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
29773982 GTAATTTTAT
29773992 TTGGG-TTGTAAACAAA
1 TTGGGTTTGTAAACAAA
29774008 TTGGGTTTGTAAACAAA
1 TTGGGTTTGTAAACAAA
29774025 T
1 T
29774026 AAATGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
TTGGGTTTGTAAACAAA
Found at i:29774478 original size:81 final size:81
Alignment explanation
Indices: 29774315--29774561 Score: 287
Period size: 81 Copynumber: 3.0 Consensus size: 81
29774305 AGTGTTGTAT
* * *
29774315 CTTCAATCTGCCTATCTGGATTAAGGGTAAGAGATTGGATGATGACTTCAATCTACCCTCTAGAT
1 CTTCAATCTGCC-CTCTGG-TT-AGGGTAAAAGATTGGATG--G-CTTCAATCTACCCTATAG-T
* *
29774380 TATGGTAAAAGATTGGATGGTGG
59 CAGGGTAAAAGATTGGATGGTGG
* * * * * *
29774403 CTTCAATCTGTCCTCTTGTTAGGGTAAAAGATTGGGTGGCTTCAATTTACCCTATGGTCGGGGTA
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTATAGTCAGGGTA
* *
29774468 AATGATTGGATGGTGT
66 AAAGATTGGATGGTGG
* * *
29774484 CTTCAATCTGCCCTCTGGTTAGGGTAACAGATTGGATGGCTTCAATCTACCCTCTAGTTAGGGTA
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTATAGTCAGGGTA
29774549 AAAGATTGGATGG
66 AAAGATTGGATGG
29774562 CTTCAATCTA
Statistics
Matches: 136, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
81 87 0.64
82 15 0.11
83 1 0.01
85 16 0.12
86 2 0.01
87 4 0.03
88 11 0.08
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (81 bp):
CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTATAGTCAGGGTA
AAAGATTGGATGGTGG
Found at i:29774509 original size:42 final size:42
Alignment explanation
Indices: 29774315--29774573 Score: 248
Period size: 39 Copynumber: 6.3 Consensus size: 42
29774305 AGTGTTGTAT
* * * * *
29774315 CTTCAATCTGCCTATCTGGATTAAGGGTAAGAGATTGGATGATGA
1 CTTCAATCTACC-CTCTGG-TT-AGGGTAAAAGATTGGATGGTGG
* *
29774360 CTTCAATCTACCCTCTAGATTATGGTAAAAGATTGGATGGTGG
1 CTTCAATCTACCCTCT-GGTTAGGGTAAAAGATTGGATGGTGG
** *
29774403 CTTCAATCTGTCCTCTTGTTAGGGTAAAAGATT-G--GGTGG
1 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTGG
* * ** * *
29774442 CTTCAATTTACCCTATGGTCGGGGTAAATGATTGGATGGTGT
1 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTGG
* *
29774484 CTTCAATCTGCCCTCTGGTTAGGGTAACAGATTGGA---TGG
1 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTGG
*
29774523 CTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGA---TGG
1 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTGG
29774562 CTTCAATCTACC
1 CTTCAATCTACC
29774574 GTACAGTCGG
Statistics
Matches: 178, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
39 80 0.45
40 1 0.01
41 1 0.01
42 47 0.26
43 32 0.18
44 5 0.03
45 12 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTGG
Found at i:29774556 original size:120 final size:122
Alignment explanation
Indices: 29774339--29774598 Score: 346
Period size: 120 Copynumber: 2.1 Consensus size: 122
29774329 TCTGGATTAA
*
29774339 GGGTAAGAGATTGGATGATGACTTCAATCTACCCTCTAGATTATGGTAAAAGATTGGATGGTGGC
1 GGGTAAGAGATTGGATGATGACTTCAATCTACCCTCTAGATTAGGGTAAAAGATTGGA--GTGGC
** * * * **
29774404 TTCAATCTGTCCTCTTGTTAGGGTAAAAGATTGGGTGGCTTCAATTTACCCTATGGTCG
64 TTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTACAGTCG
* * * * *
29774463 GGGTAA-ATGATTGGATGGTGTCTTCAATCTGCCCTCT-GGTTAGGGTAACAGATTGGA-TGGCT
1 GGGTAAGA-GATTGGATGATGACTTCAATCTACCCTCTAGATTAGGGTAAAAGATTGGAGTGGCT
*
29774525 TCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCGTACAGTCG
65 TCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTACAGTCG
29774583 GGGTAAGAGATTGGAT
1 GGGTAAGAGATTGGAT
29774599 AACTTTAATC
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
120 69 0.57
121 1 0.01
123 18 0.15
124 32 0.27
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (122 bp):
GGGTAAGAGATTGGATGATGACTTCAATCTACCCTCTAGATTAGGGTAAAAGATTGGAGTGGCTT
CAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTACCCTACAGTCG
Found at i:29774609 original size:39 final size:38
Alignment explanation
Indices: 29774505--29774638 Score: 110
Period size: 39 Copynumber: 3.4 Consensus size: 38
29774495 CCTCTGGTTA
* ** **
29774505 GGGTAACAGATTGGATGGCTTCAATCTACCCTCTA-GTTA
1 GGGTAAGAGATTGGATAACTTCAATCTA-CCTC-AGGTCG
* **
29774544 GGGTAAAAGATTGGATGGCTTCAATCTACCGTACA-GTCG
1 GGGTAAGAGATTGGATAACTTCAATCTACC-T-CAGGTCG
* * *
29774583 GGGTAAGAGATTGGATAACTTTAATCTGCCTCATGGTTG
1 GGGTAAGAGATTGGATAACTTCAATCTACCTCA-GGTCG
29774622 GGGTAAGAGATTGGATA
1 GGGTAAGAGATTGGATA
29774639 GGATGAAGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.04
39 76 0.93
40 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (38 bp):
GGGTAAGAGATTGGATAACTTCAATCTACCTCAGGTCG
Found at i:29785518 original size:15 final size:13
Alignment explanation
Indices: 29785498--29785538 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
29785488 ACATACATAC
29785498 AATAAAATACAAA
1 AATAAAATACAAA
*
29785511 GTAATAAAATTCAAA
1 --AATAAAATACAAA
29785526 AATAAAATACAAA
1 AATAAAATACAAA
29785539 TGATCACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (13 bp):
AATAAAATACAAA
Found at i:29787817 original size:17 final size:16
Alignment explanation
Indices: 29787790--29787823 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
29787780 GCAATTTTAC
29787790 TTGGGTTGTAAACAAA
1 TTGGGTTGTAAACAAA
29787806 TTGGGCTTGTAAACAAA
1 TTGGG-TTGTAAACAAA
29787823 T
1 T
29787824 AAATGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
TTGGGTTGTAAACAAA
Found at i:29789291 original size:23 final size:23
Alignment explanation
Indices: 29789265--29789308 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
29789255 CTGACTAGAC
*
29789265 CTTCTGGAAGCTGCTGACTGGGT
1 CTTCTAGAAGCTGCTGACTGGGT
29789288 CTTCTAGAAGCTGCTGACTGG
1 CTTCTAGAAGCTGCTGACTGG
29789309 ATGCCACGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.30
Consensus pattern (23 bp):
CTTCTAGAAGCTGCTGACTGGGT
Found at i:29792878 original size:16 final size:16
Alignment explanation
Indices: 29792832--29792880 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
29792822 CGTATTATAT
*
29792832 TATTA-ATTTAATAATA
1 TATTATATTT-ATAAAA
29792848 TATT-TATTT-TCAAAA
1 TATTATATTTAT-AAAA
29792863 TATTATATTTATAAAA
1 TATTATATTTATAAAA
29792879 TA
1 TA
29792881 ATTTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 1 0.04
15 7 0.25
16 19 0.68
17 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTATATTTATAAAA
Found at i:29793818 original size:90 final size:89
Alignment explanation
Indices: 29793702--29793880 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 89
29793692 ATTTGGTATT
* *
29793702 GAAATTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTGGGTCCAATTT-GATACTCAAACT
1 GAAATTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTAG-TACTCAAACT
29793766 TGACACTTTTT-TCTAATATGGTACC
65 TGACACTTTTTCT-TAATATGGTACC
* ** * **
29793791 GAAACTTGGCACTTTTTTTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTAGTACTTGAACT
1 GAAA-TTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTAGTACTCAAACT
* *
29793856 TGACTCTTTTTCTTAATTTGGTACC
65 TGACACTTTTTCTTAATATGGTACC
29793881 TAATCTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 4 0.05
90 71 0.92
91 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (89 bp):
GAAATTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTAGTACTCAAACTT
GACACTTTTTCTTAATATGGTACC
Found at i:29793827 original size:31 final size:31
Alignment explanation
Indices: 29793756--29793828 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
29793746 TCCAATTTGA
29793756 TACTCAAACTTGACACTTTTTTCTAATATGG
1 TACTCAAACTTGACACTTTTTTCTAATATGG
* *
29793787 TAC-CGAAACTTGGCACTTTTTTTTAAGT-TGG
1 TACTC-AAACTTGACACTTTTTTCTAA-TATGG
*
29793818 TACTTAAACTT
1 TACTCAAACTT
29793829 TTTGGGGTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.03
31 34 0.94
32 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (31 bp):
TACTCAAACTTGACACTTTTTTCTAATATGG
Found at i:29794134 original size:31 final size:29
Alignment explanation
Indices: 29794064--29794136 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
29794054 AAAAAAGCTT
29794064 AGGTACCAAATTAAAAAAATACCAAGTTC
1 AGGTACCAAATTAAAAAAATACCAAGTTC
** * *
29794093 AAATACCAAATTAGGAAAAATTATCAAGTTC
1 AGGTACCAAATTA--AAAAAATACCAAGTTC
*
29794124 AGGTATCAAATTA
1 AGGTACCAAATTA
29794137 TGTCAAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 11 0.31
31 24 0.69
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
AGGTACCAAATTAAAAAAATACCAAGTTC
Found at i:29798311 original size:30 final size:30
Alignment explanation
Indices: 29798275--29798336 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
29798265 GGTGCATGCG
29798275 TTTATATTAAGGATTGATGAACGAATGAAT
1 TTTATATTAAGGATTGATGAACGAATGAAT
*
29798305 TTTATATTAAGGATTGATGAATGAATGAAT
1 TTTATATTAAGGATTGATGAACGAATGAAT
29798335 TT
1 TT
29798337 CTATTGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (30 bp):
TTTATATTAAGGATTGATGAACGAATGAAT
Found at i:29801732 original size:13 final size:13
Alignment explanation
Indices: 29801705--29801740 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
29801695 TAAAAGTCAA
29801705 AATATATAATAAAT
1 AATA-ATAATAAAT
*
29801719 AATAATAATTAAT
1 AATAATAATAAAT
29801732 AATAATAAT
1 AATAATAAT
29801741 GGGAGGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:29812966 original size:21 final size:20
Alignment explanation
Indices: 29812923--29812967 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29812913 ATAGTGAGAA
*
29812923 TTTATTTTCTAATTATAAAT
1 TTTATTTTCTAATAATAAAT
29812943 TTTATTTTCTGAAATAAT-AAT
1 TTTATTTTCT--AATAATAAAT
29812964 TTTA
1 TTTA
29812968 CCAATTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTATTTTCTAATAATAAAT
Found at i:29815099 original size:25 final size:25
Alignment explanation
Indices: 29815045--29815099 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
29815035 AAATATTTAA
*
29815045 TTTAATTTAATATTAAGATAATCAT
1 TTTAATTTAATATTAAGAAAATCAT
*
29815070 TTTAATATTAA-ATTAATAAAAT-AT
1 TTTAAT-TTAATATTAAGAAAATCAT
29815094 TATTAA
1 T-TTAA
29815100 GATCAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAT
Found at i:29817834 original size:15 final size:15
Alignment explanation
Indices: 29817814--29817846 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
29817804 TCTAAAACAT
29817814 AAATTGACTCGACCC
1 AAATTGACTCGACCC
*
29817829 AAATTGACTTGACCC
1 AAATTGACTCGACCC
29817844 AAA
1 AAA
29817847 ATCAATCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (15 bp):
AAATTGACTCGACCC
Found at i:29825766 original size:14 final size:14
Alignment explanation
Indices: 29825747--29825782 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
29825737 TTGTTTGATT
*
29825747 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
29825761 GAAAATGATTTCTG
1 GAAAATGATTTCCG
29825775 GAAAATGA
1 GAAAATGA
29825783 ATTACTTTTC
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:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:29836683 original size:158 final size:158
Alignment explanation
Indices: 29836358--29836674 Score: 485
Period size: 158 Copynumber: 2.0 Consensus size: 158
29836348 TACGGGTTAT
* * * * *
29836358 TTACAGGATATATGGGTGCTGGTCTTAGATGTCCTACCGGTGGCTGAGGTCATGCATTTGTTGCA
1 TTACAGGTTATGTGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCACGCATTTATTGCA
* * *
29836423 GATTCTCTACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCAACCCACAGCTCGTGTGAG
66 GATTCTCCACAGCTCGTGTGAGCAACATCGCGTAGCCTAACATCTCAACCCACAACTCGTGTGAG
29836488 CAGACCCATTTCACAGCTCGTGTGAGCA
131 CAGACCCATTTCACAGCTCGTGTGAGCA
*
29836516 TTACAGGTTATGTGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGGTC-CGACATTTATTGC
1 TTACAGGTTATGTGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCACG-CATTTATTGC
* *
29836580 AGATTCTCCACAGCTCGTGTGAGCAACATCGTGTAGCCCT-ACATCTCGACCCACAACTCGTGTG
65 AGATTCTCCACAGCTCGTGTGAGCAACATCGCGTAG-CCTAACATCTCAACCCACAACTCGTGTG
* *
29836644 AGTAGACCCATTTCATAGCTCGTGTGAGCA
129 AGCAGACCCATTTCACAGCTCGTGTGAGCA
29836674 T
1 T
29836675 ATATGGTTAC
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
157 1 0.01
158 140 0.97
159 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.28
Consensus pattern (158 bp):
TTACAGGTTATGTGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCACGCATTTATTGCA
GATTCTCCACAGCTCGTGTGAGCAACATCGCGTAGCCTAACATCTCAACCCACAACTCGTGTGAG
CAGACCCATTTCACAGCTCGTGTGAGCA
Found at i:29842945 original size:60 final size:60
Alignment explanation
Indices: 29842801--29843011 Score: 246
Period size: 60 Copynumber: 3.5 Consensus size: 60
29842791 CATTAAAACC
* * * *** *
29842801 GGGTCAAATTTGAATTTTTGGAAACTTCAACGGTCAAATCAAATTTTTTGGAAAATTTG-
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGTCAAATTTGATTTTTTGGAAAGTTTGA
29842860 GTGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGTCAAATTTGATTTTTTGGAAAGTTTGA
1 G-GGTCAAATTTGAATTTTTGGAAAGTTTAAGGGTCAAATTTGATTTTTTGGAAAGTTTGA
** * * * * *
29842921 GGGTCAAATTCAAATTTTTGGAAAGTTTAGGGGTTAAATTTGAATTATTGGAAAG-TTCA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGTCAAATTTGATTTTTTGGAAAGTTTGA
** *
29842980 GGGTTGAATTTGAATTTTTGGAAAATTTAAGG
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAAGG
29843012 TTAAAACATA
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
59 30 0.23
60 99 0.76
61 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.39
Consensus pattern (60 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTTAAGGGTCAAATTTGATTTTTTGGAAAGTTTGA
Found at i:29842960 original size:90 final size:86
Alignment explanation
Indices: 29842801--29843046 Score: 285
Period size: 90 Copynumber: 2.8 Consensus size: 86
29842791 CATTAAAACC
* * * *
29842801 GGGTCAAATTTGAATTTTTGGAAACTTCAACGGTCAAATCAAATTTTTTGGAAAATTTGGTGGTC
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA-GGTCAAATCAAA-TTTTTGGAAAGTTTGG-GGTT
*
29842866 AAATTTGAATTTTTGGAAAGTTTAA
63 AAATTTGAATTATTGGAAAG-TTAA
* * *
29842891 GGGTCAAATTTGATTTTTTGGAAAGTTTGAGGGTCAAATTCAAATTTTTGGAAAGTTTAGGGGTT
1 GGGTCAAATTTGAATTTTTGGAAAATTT-AAGGTCAAA-TCAAATTTTTGGAAAGTTT-GGGGTT
*
29842956 AAATTTGAATTATTGGAAAGTTCA
63 AAATTTGAATTATTGGAAAGTTAA
** * * *
29842980 GGGTTGAATTTGAATTTTTGGAAAATTTAAGGTTAAAACATAATTTTTAGAAAGTTTGGGGGTTA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAAGGTCAAATCA-AATTTTTGGAAAGTTT-GGGGTTA
29843045 AA
64 AA
29843047 ACATGATTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
87 2 0.01
88 31 0.23
89 27 0.20
90 67 0.50
91 8 0.06
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (86 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAAGGTCAAATCAAATTTTTGGAAAGTTTGGGGTTAAA
TTTGAATTATTGGAAAGTTAA
Found at i:29842990 original size:29 final size:30
Alignment explanation
Indices: 29842801--29843011 Score: 221
Period size: 30 Copynumber: 7.1 Consensus size: 30
29842791 CATTAAAACC
* *
29842801 GGGTCAAATTTGAATTTTTGGAAACTTCAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
* ** * *
29842831 CGGTCAAA-TCAAATTTTTTGGAAAATTT-G
1 GGGTCAAATTTGAA-TTTTTGGAAAGTTTAA
29842860 GTGGTCAAATTTGAATTTTTGGAAAGTTTAA
1 G-GGTCAAATTTGAATTTTTGGAAAGTTTAA
* *
29842891 GGGTCAAATTTGATTTTTTGGAAAGTTTGA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
** *
29842921 GGGTCAAATTCAAATTTTTGGAAAGTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
* * *
29842951 GGGTTAAATTTGAATTATTGGAAAG-TTCA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
** *
29842980 GGGTTGAATTTGAATTTTTGGAAAATTTAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAA
29843010 GG
1 GG
29843012 TTAAAACATA
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
29 27 0.18
30 117 0.79
31 4 0.03
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.39
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTTAA
Found at i:29843024 original size:29 final size:30
Alignment explanation
Indices: 29842992--29843056 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
29842982 GTTGAATTTG
*
29842992 AATTTTTGGAAAATTT-AAGGTTAAAACAT
1 AATTTTTAGAAAATTTGAAGGTTAAAACAT
* **
29843021 AATTTTTAGAAAGTTTGGGGGTTAAAACAT
1 AATTTTTAGAAAATTTGAAGGTTAAAACAT
*
29843051 GATTTT
1 AATTTT
29843057 CGAATAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.40
Consensus pattern (30 bp):
AATTTTTAGAAAATTTGAAGGTTAAAACAT
Found at i:29843046 original size:30 final size:31
Alignment explanation
Indices: 29843010--29843085 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
29843000 GAAAATTTAA
29843010 GGTTAAAACATAATTTTTAGAA-AGTTTGGG
1 GGTTAAAACATAATTTTTAGAATAGTTTGGG
* *
29843040 GGTTAAAACATGA-TTTTCGAATAGTTTGGG
1 GGTTAAAACATAATTTTTAGAATAGTTTGGG
* *
29843070 GGTCAAAAAATAATTT
1 GGTTAAAACATAATTT
29843086 CAAAATAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.18
30 30 0.77
31 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (31 bp):
GGTTAAAACATAATTTTTAGAATAGTTTGGG
Found at i:29844771 original size:40 final size:39
Alignment explanation
Indices: 29844723--29844829 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
29844713 ATTGGATTGT
*
29844723 TTCAATTTGCCACATGGTCGGGGTAAAAGA-TCAAATGGTC
1 TTCAATTTGCCACATGGTCGGGGTAAAAGACT-AAATGG-A
* * * * *
29844763 TTCAATTTGCCATATGGTTGGGGTAAAATACTATATTGA
1 TTCAATTTGCCACATGGTCGGGGTAAAAGACTAAATGGA
* *
29844802 TTCAATCTGCCCCATGGTCGGGGTAAAA
1 TTCAATTTGCCACATGGTCGGGGTAAAA
29844830 AATTGGATGG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
39 24 0.43
40 31 0.55
41 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (39 bp):
TTCAATTTGCCACATGGTCGGGGTAAAAGACTAAATGGA
Found at i:29844866 original size:40 final size:40
Alignment explanation
Indices: 29844822--29844964 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
29844812 CCCATGGTCG
* *
29844822 GGGTAAAAAATTGGATGGTCTTCAAGCTGCCCTCT-AGTTA
1 GGGTAAAAGATTGGATGGTCTTCAACCTGCCCTCTGA-TTA
*
29844862 GGGTAAAAGATTGGATGGTCTTTAACCTGCCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAACCTGCCCTCTGATTA
* *
29844902 GGGTAAAAGATTGGATGGTTTTCAACCTGTCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAACCTGCCCTCTGATTA
*
29844942 GGCTAAAAGATTGGATGGTCTTC
1 GGGTAAAAGATTGGATGGTCTTC
29844965 TCTCCATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 93 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAACCTGCCCTCTGATTA
Done.