Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168013.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_268, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 40984
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Found at i:156 original size:27 final size:27
Alignment explanation
Indices: 122--187 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
112 TTTATTCTAT
*
122 TTAATAAT-ATAAATTAAT-TTAAATAA
1 TTAATAATAAT-AATTAATATTAAAAAA
148 TTAATTAATAATAATTAATATTAAAAAA
1 TTAA-TAATAATAATTAATATTAAAAAA
*
176 TTATGTAATAAT
1 TTA-ATAATAAT
188 TATAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 4 0.12
27 11 0.32
28 19 0.56
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
TTAATAATAATAATTAATATTAAAAAA
Found at i:160 original size:14 final size:13
Alignment explanation
Indices: 133--166 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
123 TAATAATATA
*
133 AATTAATTTAAAT
1 AATTAATTAAAAT
146 AATTAATTAATAAT
1 AATTAATTAA-AAT
160 AATTAAT
1 AATTAAT
167 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAATTAAAAT
Found at i:172 original size:28 final size:27
Alignment explanation
Indices: 133--187 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
123 TAATAATATA
*
133 AATTAATTTAAATAATTAAT-TAATAAT
1 AATTAATTTAAAAAATT-ATGTAATAAT
160 AATTAATATTAAAAAATTATGTAATAAT
1 AATTAAT-TTAAAAAATTATGTAATAAT
188 TATAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTAATTTAAAAAATTATGTAATAAT
Found at i:219 original size:14 final size:16
Alignment explanation
Indices: 174--222 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
164 AATATTAAAA
*
174 AATTATGTAATAATTAT
1 AATTAT-TAATGATTAT
191 AATTATTAATGATTAT
1 AATTATTAATGATTAT
*
207 AA-TATT-TTGATTAT
1 AATTATTAATGATTAT
221 AA
1 AA
223 AATACTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 4 0.13
16 11 0.37
17 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (16 bp):
AATTATTAATGATTAT
Found at i:302 original size:109 final size:109
Alignment explanation
Indices: 189--431 Score: 436
Period size: 109 Copynumber: 2.2 Consensus size: 109
179 TGTAATAATT
*
189 ATAATTATTAATGATTA-TAATATTTTGATTAT-AAAATACTTATATTTAATATTAGTTAAATTA
1 ATAATT-TTAATTATTATTAATATTTTGATTATAAAAATACTTATATTT-ATATTAGTTAAATTA
252 ATATTAATTATAATCATAAATAGTAGTCAAAATATAACTAATAGTA
64 ATATTAATTATAATCATAAATAGTAGTCAAAATATAACTAATAGTA
298 ATAATTTTAATTATTATTAATATTTTGATTATAAAAATACTTATATTTATATTAGTTAAATTAAT
1 ATAATTTTAATTATTATTAATATTTTGATTATAAAAATACTTATATTTATATTAGTTAAATTAAT
363 ATTAATTATAATCATAAATAGTAGTCAAAATATAACTAATAGTA
66 ATTAATTATAATCATAAATAGTAGTCAAAATATAACTAATAGTA
*
407 ATAATTTAAATTATTATTAATATTT
1 ATAATTTTAATTATTATTAATATTT
432 CAATATAATC
Statistics
Matches: 130, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
108 9 0.07
109 106 0.82
110 15 0.12
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (109 bp):
ATAATTTTAATTATTATTAATATTTTGATTATAAAAATACTTATATTTATATTAGTTAAATTAAT
ATTAATTATAATCATAAATAGTAGTCAAAATATAACTAATAGTA
Found at i:514 original size:28 final size:30
Alignment explanation
Indices: 446--513 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
436 ATAATCATAT
*
446 TTAATTAATTATAACTTAATTATAAAATAGA
1 TTAATTAATAATAACTTAATTAT-AAATAGA
*
477 TTAAATAATAATATACTTAATTATTATAATA-A
1 TTAATTAATAATA-ACTTAATTA-TA-AATAGA
509 TTAAT
1 TTAAT
514 AAACACTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
31 11 0.35
32 15 0.48
33 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
TTAATTAATAATAACTTAATTATAAATAGA
Found at i:682 original size:18 final size:18
Alignment explanation
Indices: 661--710 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
651 CAATATAAAA
661 AATAAATTTAATATGAAT
1 AATAAATTTAATATGAAT
* *
679 AATAATATTTATATTTGTAT
1 AATAA-ATTTA-ATATGAAT
699 -ATAAATTTAATA
1 AATAAATTTAATA
711 ATAAGTTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 9 0.33
20 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATATGAAT
Found at i:2076 original size:13 final size:13
Alignment explanation
Indices: 2056--2085 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2046 TATAATATTA
2056 TATT-ATTAAAAT
1 TATTAATTAAAAT
2068 TATTAATTAAAAT
1 TATTAATTAAAAT
2081 TATTA
1 TATTA
2086 TATTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAATTAAAAT
Found at i:2109 original size:10 final size:10
Alignment explanation
Indices: 2081--2165 Score: 54
Period size: 10 Copynumber: 8.5 Consensus size: 10
2071 TAATTAAAAT
* *
2081 TATTATATTT
1 TATTATAATA
2091 TATTAATAATA
1 TATT-ATAATA
2102 TATTATAATA
1 TATTATAATA
*
2112 -ATATATCA-A
1 TAT-TATAATA
*
2121 TACTATAATA
1 TATTATAATA
2131 -ATTATAATGA
1 TATTATAAT-A
2141 TA-TATAATAA
1 TATTATAAT-A
2151 TATT-TAATAA
1 TATTATAAT-A
2161 TATTA
1 TATTA
2166 ATTTAATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
9 14 0.23
10 36 0.60
11 10 0.17
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (10 bp):
TATTATAATA
Found at i:2129 original size:19 final size:20
Alignment explanation
Indices: 2096--2167 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 20
2086 TATTTTATTA
2096 ATAAT-ATATTATAATAATAT
1 ATAATGATA-TATAATAATAT
*
2116 ATCAAT-A-CTATAATAAT-T
1 AT-AATGATATATAATAATAT
2134 ATAATGATATATAATAATAT
1 ATAATGATATATAATAATAT
* *
2154 TTAATAATAT-TAAT
1 ATAATGATATATAAT
2168 TTAATTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 22 0.50
20 11 0.25
21 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
ATAATGATATATAATAATAT
Found at i:2174 original size:19 final size:19
Alignment explanation
Indices: 2152--2191 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2142 ATATAATAAT
*
2152 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
2171 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
2190 AT
1 AT
2192 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:3015 original size:17 final size:17
Alignment explanation
Indices: 2988--3053 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
2978 TATTAAATCG
2988 ATTTAAATAAT-TGATATT
1 ATTT-AATAATAT-ATATT
3006 ATTTAATAATATATATT
1 ATTTAATAATATATATT
* *
3023 ATATTAATAATCTAATATC
1 AT-TTAATAATAT-ATATT
*
3042 AATTAATAATAT
1 ATTTAATAATAT
3054 TTTATATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 13 0.32
18 23 0.56
19 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTAATAATATATATT
Found at i:3086 original size:27 final size:27
Alignment explanation
Indices: 3047--3109 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
3037 ATATCAATTA
* *
3047 ATAATATTTTATATAA-ATTAATTTATAT
1 ATAATA-TCTATATAATATAAATTTA-AT
*
3075 ATTATATCTATATAATATAAATTTAAT
1 ATAATATCTATATAATATAAATTTAAT
3102 ATAATATC
1 ATAATATC
3110 ATTATGAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
ATAATATCTATATAATATAAATTTAAT
Found at i:3497 original size:38 final size:36
Alignment explanation
Indices: 3409--3504 Score: 92
Period size: 38 Copynumber: 2.6 Consensus size: 36
3399 TTTTATTAAT
*
3409 AAGT-TAACTTTAAATATTATAATATTATTGAATTTA
1 AAGTATAA-TTTATATATTATAATATTATTGAATTTA
*
3445 AAGTATAATCTTATATATTATTAATATTATTTAATAATTA
1 AAGTATAAT-TTATATATTA-TAATATTATTGAAT--TTA
*
3485 AA-TATCATTTATA-ATT-TAAT
1 AAGTATAATTTATATATTATAAT
3505 TAATAGTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
35 4 0.08
36 5 0.10
37 15 0.29
38 18 0.35
39 5 0.10
40 5 0.10
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (36 bp):
AAGTATAATTTATATATTATAATATTATTGAATTTA
Found at i:3498 original size:17 final size:18
Alignment explanation
Indices: 3467--3500 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3457 ATATATTATT
*
3467 AATATTATTTAATAATTA
1 AATATCATTTAATAATTA
3485 AATATCATTT-ATAATT
1 AATATCATTTAATAATT
3501 TAATTAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATCATTTAATAATTA
Found at i:3503 original size:18 final size:18
Alignment explanation
Indices: 3439--3503 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
3429 AATATTATTG
3439 AATTTAAAGTATAATCTTAT
1 AATTTAAA-TATAAT-TTAT
* *
3459 ATATTATTAATATTATTTAAT
1 A-ATT-TAAATATAATTT-AT
*
3480 AA-TTAAATATCATTTAT
1 AATTTAAATATAATTTAT
3497 AATTTAA
1 AATTTAA
3504 TTAATAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 4 0.11
18 14 0.38
19 1 0.03
20 4 0.11
21 11 0.30
22 3 0.08
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTTAAATATAATTTAT
Found at i:3684 original size:31 final size:30
Alignment explanation
Indices: 3631--3691 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
3621 ATCAACATTA
*
3631 TATTATTAAATATTAATATAATAATTAATAT
1 TATTATTAAATAGTAATATAATAA-TAATAT
* * *
3662 TATTATTAATTAGTAGTTTAATAATAATAT
1 TATTATTAAATAGTAATATAATAATAATAT
3692 AATAATACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TATTATTAAATAGTAATATAATAATAATAT
Found at i:3754 original size:10 final size:10
Alignment explanation
Indices: 3721--3763 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
3711 TTAAATGATA
3721 ATAATTAAAT
1 ATAATTAAAT
* *
3731 ATAGTT-TAT
1 ATAATTAAAT
*
3740 ATAATTAATT
1 ATAATTAAAT
3750 ATAATTAAAT
1 ATAATTAAAT
3760 ATAA
1 ATAA
3764 AACTAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
ATAATTAAAT
Found at i:4491 original size:179 final size:180
Alignment explanation
Indices: 4076--5080 Score: 730
Period size: 179 Copynumber: 5.6 Consensus size: 180
4066 TATTAATATA
* * * * ** * * *
4076 AGTTATGACTATTTGAACAATTATCTATCTCAAATTATAATG-ATCTTTATTTTGTTATACAACA
1 AGTTATGACTATTTAAACAATTATCTATTTAAAATCATTTTGAAT-TTTGTTTTGTCATAAAACA
*** * * * * *
4140 ATTGTTTCCTTTCATACAAGCTTATTT-AGATTAAAATGATACTAATTTAATAATATTTAAAAAA
65 ATTGTTTTAGTTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTATTAACA-TTCAAAAA
* * * *
4204 TTAAT----AAGAGATTTAAAAAA-TAAATATG-TTAGTTGAACTAGTTCAAAT
128 TTAATAAGCAAGAGATTTAAAAAACTAAATCTGTTTA-CTGAACAATTTCAAAT
* * * * ** *
4252 AGTTAAGACTA-TCAGAATAATTATCTATTTCAAATCATTCTAT-CCTTTTGTTTAGTCATAAAA
1 AGTTATGACTATTTA-AACAATTATCTATTTAAAATCATT-T-TGAATTTTGTTTTGTCATAAAA
* * *
4315 CAATTATTTTAGTTCATACAAGCTTATTTGCAATAAAATAATACTAATTTATTAACATTCGAAAG
63 CAATTGTTTTAGTTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAACATTC-AAAA
*
4380 GTT-A-AAGCAAGAGATTTAAAAAAAC-AAATCTGTTTACTGAACAATTTCAAAT
127 ATTAATAAGCAAGAGATTT-AAAAAACTAAATCTGTTTACTGAACAATTTCAAAT
* * * *
4432 -GATATGACTATTTAAACAATTATCTGTTTAAAATTATTTTGACATTTTGTTTTGTCATAAAAAA
1 AGTTATGACTATTTAAACAATTATCTATTTAAAATCATTTTGA-ATTTTGTTTTGTCATAAAACA
* * * * * * * * *
4496 ATTGTTTCAATTAATAAAAACTTATTTGAAATAAAATAATTCCACTTTATTAATATTTCAAAAAT
65 ATTGTTTTAGTTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAACA-TTCAAAAAT
* * * * **
4561 TATTAAGCAAGAGATTT-AAAAACTAAAGCTGTTT--TTAAAAATAGTTTTAAT
129 TAATAAGCAAGAGATTTAAAAAACTAAATCTGTTTACTGAACAAT--TTCAAAT
* * * * * *
4612 AGTTATGACTATTTGAACAAATAT-TAATCTCAAATCATTATG-ATCTTTGTTTTGTCATTAAAC
1 AGTTATGACTATTTAAACAATTATCT-ATTTAAAATCATTTTGAAT-TTTGTTTTGTCATAAAAC
* * * * * *
4675 AATTGTTTT--TATCATAGAAGCTGATTT-AGATAAAAATAATACTAATTTAATAATATTTTAAA
64 AATTGTTTTAGT-TCATACAAGCTTATTTGAAAT-AAAATAATACTAATTTATTAACA-TTCAAA
* * * * * *
4737 AATTAATAAGTAAGAGATTTAAAAAA-TAAATGTGTTTGC-CATTCAGTTT-AAAT
126 AATTAATAAGCAAGAGATTTAAAAAACTAAATCTGTTTACTGA-ACAATTTCAAAT
* * * * * * ** *
4790 AGTTAAG-GTAATTAGAATAATTATCTATTTCAAATCATTTTGACCTTTTGTTTAATCATAAAAT
1 AGTTATGACTATTTA-AACAATTATCTATTTAAAATCATTTTGA-ATTTTGTTTTGTCATAAAAC
* * * * *
4854 AATTATTTCAGTTCATACAAGCTTATTTGAAAGAAAATAATACTAATTTATTAACTTTTAAAAGA
64 AATTGTTTTAGTTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAACATTCAAAA-A
* * * * * *
4919 TTAATAAGCAGGACATTTGAAAAACTAGATTTGTTTACTGAACAAGTTCAAAT
128 TTAATAAGCAAGAGATTTAAAAAACTAAATCTGTTTACTGAACAATTTCAAAT
* * * *
4972 AGTTATGCCTATTTGAACAATTATCTATTTAAAATCGTTGTGAATTTTTGTTTTGTCATAAAACA
1 AGTTATGACTATTTAAACAATTATCTATTTAAAATCATTTTGAA-TTTTGTTTTGTCATAAAACA
* * * ***
5037 ATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTA
65 ATTGTTTTAGTTCATACAAGCTTATTTGAAATAAAATAATACTA
5081 TTTTTCTTAA
Statistics
Matches: 642, Mismatches: 143, Indels: 82
0.74 0.16 0.09
Matches are distributed among these distances:
175 1 0.00
176 33 0.05
177 70 0.11
178 43 0.07
179 207 0.32
180 131 0.20
181 66 0.10
182 87 0.14
183 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
AGTTATGACTATTTAAACAATTATCTATTTAAAATCATTTTGAATTTTGTTTTGTCATAAAACAA
TTGTTTTAGTTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAACATTCAAAAATTA
ATAAGCAAGAGATTTAAAAAACTAAATCTGTTTACTGAACAATTTCAAAT
Found at i:4754 original size:360 final size:359
Alignment explanation
Indices: 4243--5044 Score: 793
Period size: 359 Copynumber: 2.2 Consensus size: 359
4233 TAGTTGAACT
* ** * * * * *
4243 AGTTCAAATAGTTAAGACTATCAGAATAATTATCTATTTCAAATCATTCT-ATCCTTTTGTTTAG
1 AGTTCAAATAGTTATGACTATTTGAACAAATATCTATCTCAAATCATTATGAT-C-TTTGTTTTG
* * *
4307 TCATAAAACAATT-ATTTTAGTTCATACAAGCTTATTTGCAATAAAATAATACTAATTTATTAAC
64 TCATAAAACAATTGTTTTTAG-TCATACAAGCTGATTTGCAATAAAATAATACTAATTTAATAAC
** *
4371 ATTCGAAAGGTTAAAGCAAGAGATTTAAAAAAACAAATCTGTTTACTGA-ACAATTTCAAAT-GA
128 ATTCGAAAAATTAAAGCAAGAGATTT-AAAAAACAAATCTGTTTAC-CATACAATTT-AAATAGA
* * * * **
4434 TATGACTATTTA-AACAATTATCTGTTTAAAATTATTTTGACATTTTGTTTTGTCATAAAAAAAT
190 TAAG-CTAATTAGAACAATTATCTATTTAAAATCATTTTGACATTTTGTTTAATCATAAAAAAAT
* * * *
4498 TGTTTCAATTAATAAAAACTTATTTGAAATAAAATAATTCCACTTTATTAA-TATTTCAAAA-AT
254 TATTTCAATTAATAAAAACTTATTTGAAAGAAAATAATACCAATTTATTAACT-TTT-AAAAGAT
* * *
4561 TATTAAGCAAGAGATTT-AAAAACTAAAGCTGTTT-TTAAAAA
317 TAATAAGCAAGACATTTGAAAAACTAAAGCTGTTTACTAAAAA
**
4602 TAGTTTTAATAGTTATGACTATTTGAACAAATAT-TAATCTCAAATCATTATGATCTTTGTTTTG
1 -AGTTCAAATAGTTATGACTATTTGAACAAATATCT-ATCTCAAATCATTATGATCTTTGTTTTG
* *
4666 TCATTAAACAATTGTTTTTA-TCATAGAAGCTGATTT--AGATAAAAATAATACTAATTTAATAA
64 TCATAAAACAATTGTTTTTAGTCATACAAGCTGATTTGCA-AT-AAAATAATACTAATTTAATAA
* ** * * * * * * *
4728 TATTTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCCATTCAGTTTAAATAGT
127 CATTCGAAAAATT-A-AAGCAAGAGATTTAAAAAACAAATCTGTTTACCATACAATTTAAATAGA
* * * * *
4793 TAAGGTAATTAGAATAATTATCTATTTCAAATCATTTTGACCTTTTGTTTAATCATAAAATAATT
190 TAAGCTAATTAGAACAATTATCTATTTAAAATCATTTTGACATTTTGTTTAATCATAAAAAAATT
* * * * *
4858 ATTTCAGTTCATACAAGCTTATTTGAAAGAAAATAATACTAATTTATTAACTTTTAAAAGATTAA
255 ATTTCAATTAATAAAAACTTATTTGAAAGAAAATAATACCAATTTATTAACTTTTAAAAGATTAA
* * ** * *
4923 TAAGCAGGACATTTGAAAAACTAGATTTGTTTACTGAACA
320 TAAGCAAGACATTTGAAAAACTAAAGCTGTTTACTAAAAA
* * * * * * *
4963 AGTTCAAATAGTTATGCCTATTTGAACAATTATCTATTTAAAATCGTTGTGAATTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAAATATCTATCTCAAATCATTATG-ATCTTTGTTTTGT
5028 CATAAAACAATTGTTTT
65 CATAAAACAATTGTTTT
5045 AGTTCACAAA
Statistics
Matches: 359, Mismatches: 67, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
356 1 0.00
357 2 0.01
358 56 0.16
359 152 0.42
360 113 0.31
361 35 0.10
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (359 bp):
AGTTCAAATAGTTATGACTATTTGAACAAATATCTATCTCAAATCATTATGATCTTTGTTTTGTC
ATAAAACAATTGTTTTTAGTCATACAAGCTGATTTGCAATAAAATAATACTAATTTAATAACATT
CGAAAAATTAAAGCAAGAGATTTAAAAAACAAATCTGTTTACCATACAATTTAAATAGATAAGCT
AATTAGAACAATTATCTATTTAAAATCATTTTGACATTTTGTTTAATCATAAAAAAATTATTTCA
ATTAATAAAAACTTATTTGAAAGAAAATAATACCAATTTATTAACTTTTAAAAGATTAATAAGCA
AGACATTTGAAAAACTAAAGCTGTTTACTAAAAA
Found at i:5410 original size:21 final size:22
Alignment explanation
Indices: 5376--5422 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
5366 TATTTAATTT
* *
5376 TATTATATATAATTTTTTAAAG
1 TATTATATATAATTCTTTAAAA
*
5398 TATTA-ATTTAATTCTTTAAAA
1 TATTATATATAATTCTTTAAAA
5419 TATT
1 TATT
5423 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATATAATTCTTTAAAA
Found at i:5975 original size:21 final size:20
Alignment explanation
Indices: 5945--5998 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
5935 TTATTATTTA
5945 ATAA-AGATTAAAATATTAATT
1 ATAATAGATTAAAATA--AATT
*
5966 ATAAT-TATT-AAATAAATT
1 ATAATAGATTAAAATAAATT
5984 ATAATAGATTAAAAT
1 ATAATAGATTAAAAT
5999 TAGTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 9 0.32
21 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATAGATTAAAATAAATT
Found at i:6199 original size:23 final size:23
Alignment explanation
Indices: 6128--6207 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
6118 TATTTTATAA
*
6128 TAATATAATTATTTAGTTTTATATT
1 TAAT-TAATTATTTATTTTTA-ATT
* * *
6153 TAATTAATTAATGATTATCT-ATT
1 TAATTAATTATTTATT-TTTAATT
*
6176 TACTTAATTATTTATTTTTAATT
1 TAATTAATTATTTATTTTTAATT
*
6199 TAAATAATT
1 TAATTAATT
6208 GCAATAGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.05
23 26 0.60
24 9 0.21
25 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (23 bp):
TAATTAATTATTTATTTTTAATT
Found at i:6372 original size:16 final size:16
Alignment explanation
Indices: 6309--6376 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
6299 ATTATTAAAA
* *
6309 TTAAATAAAATAATAT
1 TTAAATAAATTATTAT
*
6325 TTAAAATAAATAATT-T
1 TT-AAATAAATTATTAT
*
6341 ATTAATCATGAATTATTAT
1 -TTAA--ATAAATTATTAT
6360 TTAAATAAATTATTAT
1 TTAAATAAATTATTAT
6376 T
1 T
6377 ATCTTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 17 0.41
17 11 0.27
18 12 0.29
19 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAATAAATTATTAT
Found at i:7970 original size:13 final size:13
Alignment explanation
Indices: 7951--7997 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
7941 TCATATTAAT
7951 TATTATAATATGTA
1 TATTATAAT-TGTA
7965 -ATTATAATTGTA
1 TATTATAATTGTA
* *
7977 TATTATATGTTATA
1 TATTATA-ATTGTA
7991 TATTATA
1 TATTATA
7998 TAATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TATTATAATTGTA
Found at i:7991 original size:7 final size:7
Alignment explanation
Indices: 7965--8017 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
7955 ATAATATGTA
7965 ATTATA-
1 ATTATAT
*
7971 ATTGTAT
1 ATTATAT
7978 ATTATAT
1 ATTATAT
*
7985 GTTATAT
1 ATTATAT
7992 ATTATAT
1 ATTATAT
7999 A--ATA-
1 ATTATAT
*
8003 ATTATTT
1 ATTATAT
8010 ATTATAT
1 ATTATAT
8017 A
1 A
8018 ATTTAATTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
4 1 0.03
5 3 0.08
6 7 0.19
7 26 0.70
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (7 bp):
ATTATAT
Found at i:8411 original size:24 final size:21
Alignment explanation
Indices: 8365--8431 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 21
8355 AAATTACTAA
*
8365 ATAATAATTAAGT-ATATAATTT
1 ATAATAA-TAAATAATAT-ATTT
8387 ATTAATATACTAAATAATATATTT
1 A-TAATA-A-TAAATAATATATTT
*
8411 ATAATAATAATTAATA-ATTT
1 ATAATAATAAATAATATATTT
8431 A
1 A
8432 ATGACTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 5 0.13
21 8 0.21
22 2 0.05
23 10 0.26
24 10 0.26
25 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (21 bp):
ATAATAATAAATAATATATTT
Found at i:9046 original size:178 final size:179
Alignment explanation
Indices: 8683--9058 Score: 433
Period size: 178 Copynumber: 2.1 Consensus size: 179
8673 ATTTGAAATT
* * *
8683 AAATAGTCATAACTATTTGATCTAGTTTGGTAAAACATATTTATTTTTTAAATTTTTTACTTATT
1 AAATAGTCATAACTATTTGATCTAGTTTGATAAAACAGATTTATTTTTTAAA--TTCTACTTATT
* * * * *
8748 AATTGTCAAAATATTAATAAATTAGTATTATTTTAATCTGAATAAGCTTGTATGAATAGAAACTA
64 AATTGTCAAAATATTAATAAATTAATATTATTTTAATCTCAACAAACTTATATGAATAGAAACTA
*
8813 TTGTTTATAATAGAACAAAAAGTAATAACGATTTGAAATAAATAATTGCTC
129 TTGTTTATAATAAAACAAAAAGTAATAACGATTTGAAATAAATAATTGCTC
*
8864 AAATAGTCATAACTATTTGAAT-TGGTTTGATAAAA-AGATTTATTTTTTAAA-TCT-CTTATTA
1 AAATAGTCATAACTATTTG-ATCTAGTTTGATAAAACAGATTTATTTTTTAAATTCTACTTATTA
* ** * *
8925 ATTTTTGAAATATTAATAGATTAATATTATTTT-ATTTCCAAGCAAACTTATATGAACTA-AAAC
65 ATTGTCAAAATATTAATAAATTAATATTATTTTAATCT-CAA-CAAACTTATATGAA-TAGAAAC
* * * * * *
8988 -ATTTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTC
127 TA-TTG-TTTATAATAAAACAAAAAGTAATAACGATTTGAAATAAATAATTGCTC
*
9042 AAATAGTCATAATTATT
1 AAATAGTCATAACTATT
9059 AGAACTGGCA
Statistics
Matches: 167, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
175 3 0.02
176 38 0.23
177 20 0.12
178 59 0.35
180 15 0.09
181 30 0.18
182 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (179 bp):
AAATAGTCATAACTATTTGATCTAGTTTGATAAAACAGATTTATTTTTTAAATTCTACTTATTAA
TTGTCAAAATATTAATAAATTAATATTATTTTAATCTCAACAAACTTATATGAATAGAAACTATT
GTTTATAATAAAACAAAAAGTAATAACGATTTGAAATAAATAATTGCTC
Found at i:9105 original size:14 final size:13
Alignment explanation
Indices: 9080--9115 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
9070 GAATATAAAC
9080 AATTTATAATATTT
1 AATTT-TAATATTT
9094 AATATTTAATATTT
1 AAT-TTTAATATTT
9108 AATTTTAA
1 AATTTTAA
9116 AAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTAATATTT
Found at i:9127 original size:7 final size:7
Alignment explanation
Indices: 9086--9115 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9076 AAACAATTTA
9086 TAATATT
1 TAATATT
9093 TAATATT
1 TAATATT
9100 TAATATT
1 TAATATT
9107 TAAT-TT
1 TAATATT
9113 TAA
1 TAA
9116 AAATAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAATATT
Found at i:9192 original size:23 final size:23
Alignment explanation
Indices: 9166--9210 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9156 CTATAACATA
9166 AATTAATTTTAAAT-ATTAAATCT
1 AATTAA-TTTAAATAATTAAATCT
* *
9189 AATTTATTTATATAATTAAATC
1 AATTAATTTAAATAATTAAATC
9211 AAATAGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTAATTTAAATAATTAAATCT
Found at i:9401 original size:12 final size:12
Alignment explanation
Indices: 9384--9408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9374 ATATTTGGAT
9384 AATATTATTATA
1 AATATTATTATA
9396 AATATTATTATA
1 AATATTATTATA
9408 A
1 A
9409 TAAATTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATTATTATA
Found at i:9984 original size:178 final size:178
Alignment explanation
Indices: 9590--10082 Score: 491
Period size: 178 Copynumber: 2.7 Consensus size: 178
9580 AAAATAAATA
*** * * * * *
9590 TTTTTAAATCTCTTTCATATTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATTCTGAATA
1 TTTTTAAATCTCTTAGTTATTAA-GTTTCAAATATTATTAAATTAGTATTATTTTATTCTAAATA
* * * *
9655 AGCTTGTATGAACTGAAACAATTGTTTTATGACT-AAACAAAAGATCAAAATGATATGAAATAGA
65 AGCTTGTATGAAC-AAAACAATTGTTTTATGA-TAAAAAAAAAGATCATAATGATTTGAAATAGA
* *
9719 TAATTATTCTAATAATTTTAACCATTTGAATTGATTTAGTAAACAAATTTAT
128 TAATCATTC-AATAATTTTAACCATTTGAATAGATTTAGTAAACAAATTTAT
* *
9771 TTTTTAAATCTCTTAGTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATCTAAATA
1 TTTTTAAATCTCTTAGTTATTAAGTTTC-AAATATTATTAAATTAGTATTATTTTATTCTAAATA
*
9836 AGCTTGTATGAACAAAACAATTGTTTTA-CATTAAAAGAAAAAG-TCATAATGATTTGAAATAGA
65 AGCTTGTATGAACAAAACAATTGTTTTATGA-TAAAA-AAAAAGATCATAATGATTTGAAATAGA
* * * *
9899 TAATCATTC-ATAGTCTTT-ACTATTTGAACTAG-TTT-G-ACAATTAGATTTAT
128 TAATCATTCAATAAT-TTTAACCATTTGAA-TAGATTTAGTA-AA-CAAATTTAT
* * *
9949 TTTTT-AATTTCCTTGGTTATTAAGTTTCGAAATATTATTAAATTAGTATTATTTTATTTTAAAT
1 TTTTTAAATCT-CTTAGTTATTAAGTTTC-AAATATTATTAAATTAGTATTATTTTATTCTAAAT
** * ** * * * *
10013 AAAATAGTACAAACATAATCAATTGTTTGATGATAAAATAAAAAGATTATAATGATTTGAAATAA
64 AAGCTTGTATGAACA-AAACAATTGTTTTATGATAAAA-AAAAAGATCATAATGATTTGAAATAG
10078 ATAAT
127 ATAAT
10083 TATTAAAATA
Statistics
Matches: 264, Mismatches: 37, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
176 1 0.00
177 7 0.03
178 86 0.33
179 30 0.11
180 71 0.27
181 69 0.26
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (178 bp):
TTTTTAAATCTCTTAGTTATTAAGTTTCAAATATTATTAAATTAGTATTATTTTATTCTAAATAA
GCTTGTATGAACAAAACAATTGTTTTATGATAAAAAAAAAGATCATAATGATTTGAAATAGATAA
TCATTCAATAATTTTAACCATTTGAATAGATTTAGTAAACAAATTTAT
Found at i:11007 original size:14 final size:14
Alignment explanation
Indices: 10988--11022 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
10978 AAAAGTTCAT
10988 AATAATTTGAAATA
1 AATAATTTGAAATA
11002 AATAATTTGAAATA
1 AATAATTTGAAATA
11016 AATAATT
1 AATAATT
11023 GTTTAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (14 bp):
AATAATTTGAAATA
Found at i:11557 original size:11 final size:11
Alignment explanation
Indices: 11541--11566 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11531 ACTATATAGT
11541 TAATTAAAATA
1 TAATTAAAATA
11552 TAATTAAAATA
1 TAATTAAAATA
11563 TAAT
1 TAAT
11567 CAATCTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATTAAAATA
Found at i:12089 original size:31 final size:31
Alignment explanation
Indices: 12054--12117 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
12044 AAAAATTATT
*
12054 TAATA-TTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-TAAATA-GTTAATAATA
12085 TAATATTTAATAATATAAATAGTTAATAATA
1 TAATATTTAATAATATAAATAGTTAATAATA
12116 TA
1 TA
12118 TTAAATTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 16 0.53
32 10 0.33
33 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (31 bp):
TAATATTTAATAATATAAATAGTTAATAATA
Found at i:12105 original size:16 final size:16
Alignment explanation
Indices: 12055--12117 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
12045 AAAATTATTT
12055 AATA-TTAA-AATATTA
1 AATATTTAATAATA-TA
*
12070 AATATGTTATTAATAT-
1 AATAT-TTAATAATATA
12086 AATATTTAATAATATA
1 AATATTTAATAATATA
*
12102 AATAGTTAATAATATA
1 AATATTTAATAATATA
12118 TTAAATTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 13 0.32
16 20 0.49
17 4 0.10
18 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATTTAATAATATA
Found at i:13738 original size:181 final size:183
Alignment explanation
Indices: 13480--13860 Score: 484
Period size: 181 Copynumber: 2.1 Consensus size: 183
13470 AATTATTGAC
* * *
13480 ATTCAAAAAATTAATAAGCAAAAGATAAGAAAAAATAAATCTGTTTACCGATCAAGTTCAAATAG
1 ATTCCAAAAATTAATAAGCAAAAGATAAGAAAAAATAAATCTATTTACCGATCAAATTCAAATAG
* *
13545 TTATGACTATTTGAACAATTATTTATTTAAAATCATTATG-ACATTTTGTTTTGACAAAAAACAA
66 CTATGACTATTTGAACAATTATCTATTTAAAATCATTATGAAC-TTTTGTTTTGACAAAAAACAA
* *
13609 TTG-TTTCAGTTCATAAAAAG-TTATCCAAAATAAAATAATACTAATTTCTTAAA
130 TTGTTTTCAGTT-ATAAAAAGCTTATCCAAAATAAAATAAAACTAATTTATTAAA
* * * * * * *
13662 ATTTCAAAAATTAATAAGCAAAAGTTTA-AAAAAATTAATTTATTTACTGGA-CAAATTTAAATA
1 ATTCCAAAAATTAATAAGCAAAAGATAAGAAAAAATAAATCTATTTAC-CGATCAAATTCAAATA
* * * *
13725 GCTATGACTATTTGAACAATTGTCTATTTAAAATCGTTATGAACTTTTGTTTTGTCATAAAACAA
65 GCTATGACTATTTGAACAATTATCTATTTAAAATCATTATGAACTTTTGTTTTGACAAAAAACAA
* * * * * *
13790 TTGTTTTTAGTTTTTACAAGCTTATTCAAAATAAAATAAAACTAATTTATTAAT
130 TTGTTTTCAGTTATAAAAAGCTTATCCAAAATAAAATAAAACTAATTTATTAAA
13844 ATTCCAAAAATTAATAA
1 ATTCCAAAAATTAATAA
13861 CTAAGTGATT
Statistics
Matches: 170, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
181 90 0.53
182 80 0.47
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (183 bp):
ATTCCAAAAATTAATAAGCAAAAGATAAGAAAAAATAAATCTATTTACCGATCAAATTCAAATAG
CTATGACTATTTGAACAATTATCTATTTAAAATCATTATGAACTTTTGTTTTGACAAAAAACAAT
TGTTTTCAGTTATAAAAAGCTTATCCAAAATAAAATAAAACTAATTTATTAAA
Found at i:14909 original size:34 final size:33
Alignment explanation
Indices: 14853--14916 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
14843 ATTAATGATA
*
14853 AATAATTATATAATTTAAAATTAATATTTATAGC
1 AATAATTATAAAATTTAAAATTAAT-TTTATAGC
*
14887 AATAATT-TAAAATTATATAATTAATTTTAT
1 AATAATTATAAAATT-TAAAATTAATTTTAT
14917 TACTATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
AATAATTATAAAATTTAAAATTAATTTTATAGC
Found at i:15027 original size:17 final size:18
Alignment explanation
Indices: 14995--15077 Score: 61
Period size: 17 Copynumber: 4.8 Consensus size: 18
14985 TATCAATAGT
*
14995 TATAATATTAATTTATTA
1 TATAATATTAAATTATTA
15013 TATAAT-TTAAATTATTA
1 TATAATATTAAATTATTA
*
15030 GT-TAATATAGAAATTA-TA
1 -TATAATAT-TAAATTATTA
* * *
15048 -ATATTAATAATTTA-TA
1 TATAATATTAAATTATTA
15064 T-TAATATTAAATTA
1 TATAATATTAAATTA
15078 ATATTAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
16 17 0.33
17 18 0.35
18 10 0.20
19 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAATATTAAATTATTA
Found at i:15028 original size:25 final size:24
Alignment explanation
Indices: 15000--15077 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
14990 ATAGTTATAA
15000 TATTAATTTATTATATAATTTAAAT
1 TATTAATTTA-TATATAATTTAAAT
* * *
15025 TATTAGTTAATATAGAAATTATAATAT
1 TATTAATTTATATA-TAATT-TAA-AT
*
15052 TAATAATTTATAT-TAATATTAAAT
1 TATTAATTTATATATAAT-TTAAAT
15076 TA
1 TA
15078 ATATTAACCT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
24 8 0.19
25 18 0.43
26 4 0.10
27 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
TATTAATTTATATATAATTTAAAT
Found at i:15052 original size:24 final size:24
Alignment explanation
Indices: 14994--15053 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
14984 ATATCAATAG
* * * *
14994 TTATAATATTAATTTATTATATAAT
1 TTATAATATT-AGTTAATATAGAAA
15019 TTA-AATTATTAGTTAATATAGAAA
1 TTATAA-TATTAGTTAATATAGAAA
15043 TTATAATATTA
1 TTATAATATTA
15054 ATAATTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
TTATAATATTAGTTAATATAGAAA
Found at i:15070 original size:6 final size:6
Alignment explanation
Indices: 15046--15099 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
15036 ATAGAAATTA
* **
15046 TAATAT TAATAAT TTATAT TAATAT TAA-AT TAATAT TAACCT TAACTAT
1 TAATAT TAAT-AT TAATAT TAATAT TAATAT TAATAT TAATAT TAA-TAT
15095 TAATA
1 TAATA
15100 CCTTATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.13
6 25 0.64
7 9 0.23
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
TAATAT
Found at i:16484 original size:23 final size:22
Alignment explanation
Indices: 16458--16527 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
16448 ATTTATATCA
16458 ATTAATTCAATAAATATATATTT
1 ATTAATT-AATAAATATATATTT
*
16481 ATTACTATTAATAAATTAAATATTT
1 ATTA--ATTAATAAA-TATATATTT
* *
16506 AATAATTAATAATTTATATATT
1 ATTAATTAATAA-ATATATATT
16528 GAAATTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 19 0.49
24 6 0.15
25 14 0.36
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTAATTAATAAATATATATTT
Found at i:16707 original size:20 final size:19
Alignment explanation
Indices: 16666--16718 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
16656 ATCTATACAA
16666 TTATTAAATTAATTAAATAT
1 TTATTAAA-TAATTAAATAT
* *
16686 TTATTAAATATTTAATTAAT
1 TTATTAAATAATTAAAT-AT
16706 TTA-TAAATAATTA
1 TTATTAAATAATTA
16719 TTAAAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTAAATAATTAAATAT
Found at i:16720 original size:30 final size:31
Alignment explanation
Indices: 16679--16740 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
16669 TTAAATTAAT
*
16679 TAAATATTTATTAAATATT-TAATTA-ATTTA
1 TAAATAATTATTAAA-ATTATAATTATATTTA
16709 TAAATAATTATTAAAATTACTAATTATATTTA
1 TAAATAATTATTAAAATTA-TAATTATATTTA
16741 ATGCTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 14 0.50
31 6 0.21
32 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
TAAATAATTATTAAAATTATAATTATATTTA
Found at i:17204 original size:17 final size:17
Alignment explanation
Indices: 17184--17276 Score: 53
Period size: 17 Copynumber: 5.0 Consensus size: 17
17174 AAATTAATTC
17184 AATTATTAATATTTATA
1 AATTATTAATATTTATA
17201 AATTAATATAATATTTAATTA
1 AATT-AT-TAATATTT-A-TA
* *
17222 ATAATATTAAAATTAATAATA
1 A-ATTATTAATATT--T-ATA
*
17243 AATTATTATTA-TTATAA
1 AATTATTAATATTTAT-A
* *
17260 AATTAGTATTATTTATA
1 AATTATTAATATTTATA
17277 TTAGTATAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 2 0.03
17 17 0.28
18 6 0.10
19 9 0.15
20 14 0.23
21 8 0.13
22 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
AATTATTAATATTTATA
Found at i:17226 original size:19 final size:19
Alignment explanation
Indices: 17177--17228 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
17167 AACAATTAAA
*
17177 TTAATTCAATTAT-TAATAT
1 TTAATT-AATAATATAATAT
*
17196 TT-ATAAATTAATATAATAT
1 TTAATTAA-TAATATAATAT
17215 TTAATTAATAATAT
1 TTAATTAATAATAT
17229 TAAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.07
18 5 0.19
19 16 0.59
20 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATTAATAATATAATAT
Found at i:17502 original size:39 final size:39
Alignment explanation
Indices: 17455--17536 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
17445 ACAAGCTTAT
17455 TCAA-AATAAAATAGTTCAAAAAT-AATCTGTTTACAAAA
1 TCAATAAT-AAATAGTTCAAAAATAAATCTGTTTACAAAA
**
17493 TCAATAATAAATCTTTCAAAAATAAATCTGTTTACAAAA
1 TCAATAATAAATAGTTCAAAAATAAATCTGTTTACAAAA
17532 TCAAT
1 TCAAT
17537 TCAAATAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
38 17 0.43
39 23 0.57
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (39 bp):
TCAATAATAAATAGTTCAAAAATAAATCTGTTTACAAAA
Found at i:17675 original size:22 final size:22
Alignment explanation
Indices: 17649--17695 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
17639 TATTCATATT
17649 AATTAATAAATAATA-ATTTATA
1 AATT-ATAAATAATATATTTATA
*
17671 AATTATATATAATATATTTATA
1 AATTATAAATAATATATTTATA
17693 AAT
1 AAT
17696 ATATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTATAAATAATATATTTATA
Found at i:17731 original size:14 final size:14
Alignment explanation
Indices: 17691--17725 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17681 AATATATTTA
17691 TAAATATATTATTAAT
1 TAAATATA-TA-TAAT
17707 TAAATATATATAAT
1 TAAATATATATAAT
17721 TAAAT
1 TAAAT
17726 TAATATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 2 0.11
16 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAATATATATAAT
Found at i:17731 original size:18 final size:18
Alignment explanation
Indices: 17646--17728 Score: 64
Period size: 18 Copynumber: 4.5 Consensus size: 18
17636 ATATATTCAT
*
17646 ATTAATT-AATAAATAATA
1 ATTAATTAAATATAT-ATA
*
17664 ATTTA-TAAATTATATATA
1 ATTAATTAAA-TATATATA
* *
17682 ATATATTTATAA-ATATATT
1 AT-TAATTA-AATATATATA
17701 ATTAATTAAATATATATA
1 ATTAATTAAATATATATA
17719 ATTAAATTAA
1 ATT-AATTAA
17729 TATGTCAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.06
18 25 0.49
19 19 0.37
20 2 0.04
21 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATTAAATATATATA
Found at i:18478 original size:180 final size:177
Alignment explanation
Indices: 18069--18508 Score: 481
Period size: 177 Copynumber: 2.4 Consensus size: 177
18059 ATTACCAATT
* *
18069 ATTTTTGAAATATTAATCAATTAGTATTATTTTATT-TCGAATAAGCTTGTATGATAAAAAAACA
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCT-GAATAAGCTTGTAT--TAATAAAACA
* * * ** *
18133 ATTGTATTATGACAAAATAAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATGGCCATA
63 ATTGTTTTATGACAAAATAAAAAGGTCATAACGATTTAAAATAGATAATTATTCAAATAACAATA
* * * * * *
18198 ATTATTTTAACTGATTTAGTAAATAGATTTATTTTTTAAATTTCTTATTA
128 ACTATTTGAACTGATTCAGCAAATAGATATATTTTTAAAATTTCTTATTA
** * * *
18248 ATTTAGGAAATATTAATAAATTAGTATTATTTTTTTC-CATCTAAGCTTGTATTAACTAAAACAA
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTGA-ATAAGCTTGTATTAA-TAAAACAA
* * * * *
18312 TTGTTTTATGAC-AAATTAAAAGGTTATAACGTTTTAAAATAGATAATTGTTCAAATAATAATAA
64 TTGTTTTATGACAAAATAAAAAGGTCATAACGATTTAAAATAGATAATTATTCAAATAACAATAA
* *
18376 CTATTTGAACTTATTCGGCAAATAGATATATTTTTAAAATTTTTTCTTATTA
129 CTATTTGAACTGATTCAGCAAATAGATATATTTTTAAAA---TTTCTTATTA
* * * * * *
18428 ATTTTTTAAATGTTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGAATTGAAATAAT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATTAA-TAAAACAAT
18493 TGTTTTATGACTAAAA
65 TGTTTTATGAC-AAAA
18509 AATGGTCAAA
Statistics
Matches: 214, Mismatches: 38, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
177 76 0.36
178 19 0.09
179 43 0.20
180 72 0.34
181 1 0.00
182 3 0.01
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (177 bp):
ATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATTAATAAAACAATT
GTTTTATGACAAAATAAAAAGGTCATAACGATTTAAAATAGATAATTATTCAAATAACAATAACT
ATTTGAACTGATTCAGCAAATAGATATATTTTTAAAATTTCTTATTA
Found at i:18738 original size:13 final size:13
Alignment explanation
Indices: 18720--18744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18710 AGTAAAATAT
18720 TAATAATTTTATC
1 TAATAATTTTATC
18733 TAATAATTTTAT
1 TAATAATTTTAT
18745 AATAAATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATAATTTTATC
Found at i:18918 original size:17 final size:17
Alignment explanation
Indices: 18879--18921 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18869 CATAAATAAT
*
18879 AAATAATTATTATTCAAT
1 AAAT-ATTATTATTCAAC
* *
18897 TAATATTATTATTTAAC
1 AAATATTATTATTCAAC
18914 AAATATTA
1 AAATATTA
18922 CTAGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTATTATTCAAC
Found at i:19105 original size:17 final size:16
Alignment explanation
Indices: 19082--19125 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
19072 TTAAATTGTT
19082 AATATTAATAATAG-AA
1 AATATTAATAAT-GTAA
19098 ATATATTAAT-ATGTAA
1 A-ATATTAATAATGTAA
19114 AATATTAATAAT
1 AATATTAATAAT
19126 TAAGATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATTAATAATGTAA
Found at i:19123 original size:23 final size:22
Alignment explanation
Indices: 19080--19128 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
19070 TTTTAAATTG
19080 TTAATATTAATAATAGAAATATA
1 TTAATATTAATAATAGAAATA-A
**
19103 TTAATATGTAA-AATATTAATAA
1 TTAATAT-TAATAATAGAAATAA
19125 TTAA
1 TTAA
19129 GATTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATATTAATAATAGAAATAA
Found at i:19404 original size:26 final size:25
Alignment explanation
Indices: 19375--19442 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
19365 ACTAAATAAA
19375 TATTTTATTAATTATTCAAACAAAAT
1 TATTTTATTAATTATTCAAA-AAAAT
* * *
19401 TATTTTATCAA-TAATCTAAAAAAT
1 TATTTTATTAATTATTCAAAAAAAT
*
19425 TAATCATTATTAATTATT
1 T-AT-TTTATTAATTATT
19443 AATAATGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 6 0.18
25 8 0.24
26 16 0.48
27 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTTTATTAATTATTCAAAAAAAT
Found at i:19812 original size:22 final size:22
Alignment explanation
Indices: 19779--19821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19769 CTTTTAGTTA
*
19779 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
19801 TATT-AAATTAATACAATAATA
1 TATTCAAA-TAATACAATAATA
19822 ATTGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:20221 original size:24 final size:24
Alignment explanation
Indices: 20194--20242 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
20184 TCATATGACC
* *
20194 TTTTGTTAAT-TTAATTATTACATA
1 TTTTATTAATATTAATAATTA-ATA
20218 TTTTATTAATATTAATAATTAATA
1 TTTTATTAATATTAATAATTAATA
20242 T
1 T
20243 CATTTACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTATTAATATTAATAATTAATA
Found at i:20273 original size:19 final size:19
Alignment explanation
Indices: 20251--20288 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20241 ATCATTTACA
20251 ATATAATATATTAAATAAT
1 ATATAATATATTAAATAAT
* *
20270 ATATATTATATTAATTAAT
1 ATATAATATATTAAATAAT
20289 TAATTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATAATATATTAAATAAT
Found at i:20762 original size:179 final size:179
Alignment explanation
Indices: 20388--20772 Score: 445
Period size: 180 Copynumber: 2.1 Consensus size: 179
20378 TATGATAAAA
* * ** *
20388 AAACAATTGTTTTATGACAAAACAAAGATCATAATAATTTGAGATTAATATTTGTTTAAATAGTC
1 AAACAATTGTTTTATGACAAAACAAAGATCAAAATAATTTGAAACAAATAATTGTTTAAATAGTC
* * * *
20453 ATAACTATTAGAACTGCTTTGAAAAATAGCTTTAGTTTTTAAATCTCTTGCTTAATAATTTTTAG
66 ATAACTATTAGAACTGCTTTGAAAAACAGATTTAGTTTTTAAATCCCTAGCTT-ATAATTTTTAG
* * * * * *
20518 AATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTATTAATTG
130 AATATTAATAAAGTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTG
* *
20568 AAACAATTATTTTATGACAAAACAAATG-TCAAAATAATTTTAAACAAATAATTGTTTAAATAGT
1 AAACAATTGTTTTATGACAAAACAAA-GATCAAAATAATTTGAAACAAATAATTGTTTAAATAGT
* * * * * *
20632 TATATCTATTTGAAATTG-TTT-AGTAAACAGATTTATTTTTTTAAATCCCTAGCTT-TAATTTT
65 CATAACTATTAG-AACTGCTTTGA-AAAACAGATTTA-GTTTTTAAATCCCTAGCTTATAATTTT
* * *
20694 TTGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTG
127 TAGAATATTAATAAAGTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTG
* *
20747 AAATAATTGTTTTATGACTAAACAAA
1 AAACAATTGTTTTATGACAAAACAAA
20773 ATGATAGAAT
Statistics
Matches: 172, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
179 75 0.44
180 76 0.44
181 21 0.12
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (179 bp):
AAACAATTGTTTTATGACAAAACAAAGATCAAAATAATTTGAAACAAATAATTGTTTAAATAGTC
ATAACTATTAGAACTGCTTTGAAAAACAGATTTAGTTTTTAAATCCCTAGCTTATAATTTTTAGA
ATATTAATAAAGTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTG
Found at i:20894 original size:157 final size:156
Alignment explanation
Indices: 20686--20983 Score: 372
Period size: 157 Copynumber: 1.9 Consensus size: 156
20676 ATCCCTAGCT
* * ** *
20686 TTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGAACTGAAAT
1 TTAATTTTTTGAATATTAATAAATTAGTATCATTTTATTCCAAATAAGCTTGTATGAAAGGAAAC
* **
20751 AATTGTTTTATGACTAAACA-AAATGAT-AGAATGATTTGAA-ATAGATAATTACTCTGATAGTC
66 AATTGTTGTATGAC-AAA-ATAAA-GATCAGAATGATTT-AAGATAGATAATTACTCAAATAGTC
*
20813 TTAACTATTTGAACTAGTTCGGCTAACATA
127 ATAACTATTTGAACTAGTTCGGCTAACATA
* *
20843 TTAA-TTTTTGAAATATTATTAAATTAGTATCATTTTAATT-CGAATAAGCTTGTATGAAAGGAA
1 TTAATTTTTTG-AATATTAATAAATTAGTATCATTTT-ATTCCAAATAAGCTTGTATGAAAGGAA
** **
20906 ACAATTGTTGTATGACAAAATAAAGATCATTATGATTTAAGATAGATAATTGTTCAAATAGTCAT
64 ACAATTGTTGTATGACAAAATAAAGATCAGAATGATTTAAGATAGATAATTACTCAAATAGTCAT
20971 AACTATTTGAACT
129 AACTATTTGAACT
20984 GGTTTAGTAA
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
155 6 0.05
156 52 0.43
157 60 0.50
158 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (156 bp):
TTAATTTTTTGAATATTAATAAATTAGTATCATTTTATTCCAAATAAGCTTGTATGAAAGGAAAC
AATTGTTGTATGACAAAATAAAGATCAGAATGATTTAAGATAGATAATTACTCAAATAGTCATAA
CTATTTGAACTAGTTCGGCTAACATA
Found at i:21258 original size:181 final size:177
Alignment explanation
Indices: 20853--21341 Score: 495
Period size: 181 Copynumber: 2.7 Consensus size: 177
20843 TTAATTTTTG
* * * * * * *
20853 AAATATTATTAAATTAGTATCATTTTAATTCGAATAAGCTTGTATGAA-AGGAAACAATTGTTGT
1 AAATATTAATAAAATAGTATTATTTTATTTTGAATAAACTTGTATGAATA-GAAACAATTGTTTT
* * ** *
20917 ATGACAAAA-TAAAGATCATTATGATTT-AAGATAGATAATTGTTCAAATAGTCATAACTATTTG
65 ATGACAAAACAAAAGATCATAACAATTTGAA-ATAGATAATTGTTCAAATAGACATAACTATTTG
* * * **
20980 AACTGGTTTAGTAAATAGAATTAGTTTTTAAATCACTTATTAATTTTTA
129 AACTGGTTGAGTAAACAGAATTAGTTTTTAAATCACCTATTAATTTGCA
** * *
21029 AAATATTAA-AAAATAAAAATTATTTTATTTTGAAT-AATTCTATATGAATAGAAACAATTGTTT
1 AAATATTAATAAAAT-AGTATTATTTTATTTTGAATAAACT-TGTATGAATAGAAACAATTGTTT
* * * * *
21092 TATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCTAATGGACATGATTATTTG
64 TATGACAAAACAAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGACATAACTATTTG
* * *
21157 AACTTGTTCGA-TAAACAGATTTATTTTTTAAATCTCCTACCTATTAATTTGCA
129 AACTGGTT-GAGTAAACAGAATTAGTTTTTAAA--T-C-ACCTATTAATTTGCA
* * *
21210 AAATATTAATAAAGTAGTATTATTTTATTTTTAATAAACTTGTATGAATAGAAACAATTATTTTA
1 AAATATTAATAAAATAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTGTTTTA
* * * * * ** *
21275 TGACAAAACAAAAGATCATAACTATTAGAAATAAAAAATTGTTCAAACAGTTATAACTATTTAAA
66 TGACAAAACAAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGACATAACTATTTGAA
21340 CT
131 CT
21342 TACTCGATAA
Statistics
Matches: 252, Mismatches: 49, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
175 6 0.02
176 52 0.21
177 67 0.27
178 3 0.01
179 1 0.00
180 1 0.00
181 115 0.46
182 7 0.03
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (177 bp):
AAATATTAATAAAATAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTGTTTTA
TGACAAAACAAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGACATAACTATTTGAA
CTGGTTGAGTAAACAGAATTAGTTTTTAAATCACCTATTAATTTGCA
Found at i:21848 original size:22 final size:21
Alignment explanation
Indices: 21803--21869 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
21793 CTAATAATAT
* *
21803 TATTAATATTATTATAACTAAA
1 TATTAATATTATTATTA-TTAA
21825 TATTAATATTATTTATTATTAA
1 TATTAATATTA-TTATTATTAA
*
21847 TATCAATATTAATTATTATTAA
1 TATTAATATT-ATTATTATTAA
21869 T
1 T
21870 TAATTCTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 34 0.85
23 6 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAATATTATTATTATTAA
Found at i:21868 original size:10 final size:10
Alignment explanation
Indices: 21826--21905 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 10
21816 ATAACTAAAT
21826 ATTAATATTA
1 ATTAATATTA
* *
21836 TTTATTATTA
1 ATTAATATTA
21846 ATATCAATATTA
1 AT-T-AATATTA
*
21858 ATTATTATTA
1 ATTAATATTA
21868 ATTAAT-TCTA
1 ATTAATAT-TA
21878 TATTAATAATTTA
1 -ATTAAT-A-TTA
*
21891 ATTAAAATT-
1 ATTAATATTA
21900 ATTAAT
1 ATTAAT
21906 TGTTTAGTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
9 6 0.11
10 24 0.44
11 9 0.16
12 13 0.24
13 2 0.04
14 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTAATATTA
Found at i:21880 original size:25 final size:26
Alignment explanation
Indices: 21823--21890 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 26
21813 ATTATAACTA
21823 AATATTAATATTATTTATTATTAATATC
1 AATATT-A-ATTATTTATTATTAATATC
21851 AATATTAATTA-TTATTAATTAAT-TC
1 AATATTAATTATTTATT-ATTAATATC
* *
21876 TATATTAATAATTTA
1 AATATTAATTATTTA
21891 ATTAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 16 0.44
26 13 0.36
27 1 0.03
28 6 0.17
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATTAATTATTTATTATTAATATC
Found at i:22417 original size:180 final size:176
Alignment explanation
Indices: 21919--22427 Score: 447
Period size: 180 Copynumber: 2.8 Consensus size: 176
21909 TTAGTTGTCT
* * * * *
21919 AAATAGTCATAACTATTTAAATTTGTTCAATAAATGAATTTATTTTTTCAAATCTTTTGCTTATT
1 AAATAGTCATAACTATTTGAATTAGTTCAATAAA-AAATTTATTTTTTTAAATCTCTT-C-TATT
** * ** * *
21984 AATTTTTTGAATGTTAATAAATTTAG-ATTATTTTATTCCAAATAAGCATGTAAGATATAAAACA
63 AA-TTTTTGAAAATTAA-AAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGATA-AAAACA
*
22048 AATATTTTATGACTAAAAACATAAGATTGGAACGATTTGAAATAGATAATTATTC
125 AATATTTTATGAC--AAAACA-AAGATTGGAACGATTTCAAATAGATAATTATTC
* ** * * *
22103 TAATAGTTTTAACTATTTGAATTGGTTCGGCA-AAAAAATTT-CTTTTTTAAATCTC-T-TATTA
1 AAATAGTCATAACTATTTGAATTAGTTC--AATAAAAAATTTATTTTTTTAAATCTCTTCTATTA
* ** * * * *
22164 AATTTTGAAATATTATTAAATTAGTATTATTTT-TAACTGAATAAGTTTCTATGATAAGAAATAA
64 ATTTTTGAAA-ATTAAAAAATTAGTATTATTTTAT-TCTGAATAAGCTTGTATGATAA-AAACAA
* * * * * * *
22228 TTGTTTTATGACAAAACAAAGATCT-TAATGATTTCAGATTGATAATTGTTC
126 ATATTTTATGACAAAACAAAGAT-TGGAACGATTTCAAATAGATAATTATTC
* *
22279 AAATAGTCATAACTATTTGAACTAGTTCAATAAACATATTTATTTTTTTAAATCTCTTACATATT
1 AAATAGTCATAACTATTTGAATTAGTTCAATAAA-AAATTTATTTTTTTAAATCTCTT-C-TATT
* * *
22344 AATTTTTGAAAATTAAAAAATTAGTAATATTTTATTTTGAATAACCTTGTATGATCAAAAACAAA
63 AATTTTTGAAAATTAAAAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAT-AAAAACAAA
*
22409 TATTTTATGACAAATCAAA
127 TATTTTATGACAAAACAAA
22428 AGGTTATAAT
Statistics
Matches: 256, Mismatches: 53, Indels: 36
0.74 0.15 0.10
Matches are distributed among these distances:
174 1 0.00
175 3 0.01
176 53 0.21
177 20 0.08
178 16 0.06
179 46 0.18
180 56 0.22
181 17 0.07
182 1 0.00
183 11 0.04
184 28 0.11
185 3 0.01
186 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (176 bp):
AAATAGTCATAACTATTTGAATTAGTTCAATAAAAAATTTATTTTTTTAAATCTCTTCTATTAAT
TTTTGAAAATTAAAAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGATAAAAACAAATATT
TTATGACAAAACAAAGATTGGAACGATTTCAAATAGATAATTATTC
Found at i:22940 original size:180 final size:181
Alignment explanation
Indices: 22732--23073 Score: 427
Period size: 180 Copynumber: 1.9 Consensus size: 181
22722 TTGTAAACAA
* * * *
22732 ATTTATTTTTTAAATTTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTATTTTAATC
1 ATTTATTTTTTAAATTTCTCACTTATTAAGTTTTAAAATATTATTAAATTAATATAATTTTAATC
* * * * * **
22797 AAAATA-AGCTTGTACGAACA-AAACAATTATTTTACGACAAAAGAAAAGGTTATAATGATTTAA
66 AAAATAGA-ATAGCACGAACAGAAACAATTAGTTAACGACAAAAGAAAAGGTTATAACAATTTAA
* *
22860 AATAGATAATCATTCATATCGTCATAACTATTTTAACTGGTTCAACAATTTG
130 AATAGATAATCATTCATATAGTCAAAACTATTTTAACTGGTTCAACAATTTG
* ** * *
22912 ATTTATTTTTTAATTTTCTCGGTTATTAAGTTTTGAAATATTATTAAATTAATATAATTTTATTC
1 ATTTATTTTTTAAATTTCTCACTTATTAAGTTTTAAAATATTATTAAATTAATATAATTTTAATC
* * * * * * *
22977 TAAATAGAATAGCATGAACAGAACCAATTGGTTAATGACAAAATAAAAGGTTATAACAATTTGAA
66 AAAATAGAATAGCACGAACAGAAACAATTAGTTAACGACAAAAGAAAAGGTTATAACAATTTAAA
*
23042 ATAGATAATTATTCATATAGTCAAAACTATTT
131 ATAGATAATCATTCATATAGTCAAAACTATTT
23074 GGAATGGTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
180 69 0.51
181 65 0.49
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (181 bp):
ATTTATTTTTTAAATTTCTCACTTATTAAGTTTTAAAATATTATTAAATTAATATAATTTTAATC
AAAATAGAATAGCACGAACAGAAACAATTAGTTAACGACAAAAGAAAAGGTTATAACAATTTAAA
ATAGATAATCATTCATATAGTCAAAACTATTTTAACTGGTTCAACAATTTG
Found at i:23105 original size:181 final size:178
Alignment explanation
Indices: 22596--23294 Score: 598
Period size: 181 Copynumber: 3.9 Consensus size: 178
22586 TGAATGCTAA
* ** * * * * *
22596 TAAATTATTATTAACTTATTCTAAATAAGCTTGTATGAACTAAAACAATTGTTTTATAACTAAAC
1 TAAATTAATATTATTTTATTCTAAATAA-ATAGCATGAAC-AAAACAATTGTTTTATGACAAAAC
* * * * * * * *
22661 AAAAGGTTAGAATGATTTTAAATAGATAATTGTT-TTAATAGTCTTAACCATTTGAACTGATTT-
64 AAAAGGTTATAATGATTTGAAATAGATAATTATTCAT-ATAGTCATAACTATTTAAACTGGTTTG
22724 GTAAACAAATTTATTTTTTAAATTTCTTACTTATTAATTTTTAAAATATTAT
128 GTAAACAAATTTATTTTTTAAATTTCTTACTTATTAA-TTTTAAAATATTAT
* * * * * * * * * *
22776 TAAATTAGTATTATTTTAATCAAAATAAGCTTGTACGAACAAAACAATTATTTTACGACAAAAGA
1 TAAATTAATATTATTTTATTCTAAATAA-ATAGCATGAACAAAACAATTGTTTTATGACAAAACA
* * * * ****
22841 AAAGGTTATAATGATTTAAAATAGATAATCATTCATATCGTCATAACTATTTTAACTGGTTCAAC
65 AAAGGTTATAATGATTTGAAATAGATAATTATTCATATAGTCATAACTATTTAAACTGGTTTGGT
**** * *** *
22906 AATTTGATTTATTTTTTAATTTTCTCGGTTATTAAGTTTTGAAATATTAT
130 AAACAAATTTATTTTTTAAATTTCTTACTTATTAA-TTTTAAAATATTAT
* * * * *
22956 TAAATTAATATAATTTTATTCTAAATAGAATAGCATGAACAGAACCAATTGGTTAATGACAAAAT
1 TAAATTAATATTATTTTATTCTAAATA-AATAGCATGAACA-AAACAATTGTTTTATGACAAAAC
** * *
23021 AAAAGGTTATAACAATTTGAAATAGATAATTATTCATATAGTCAAAACTATTTGGAA-TGGTTTG
64 AAAAGGTTATAATGATTTGAAATAGATAATTATTCATATAGTCATAACTATTT-AAACTGGTTTG
* * * * *
23085 GTAAACAAATTTACTTTTTAAATCTCTTACTAATTAATTTTCTAAATATTAA
128 GTAAACAAATTTATTTTTTAAATTTCTTACTTATTAATTTT-AAAATATTAT
* * * *
23137 TAAATTAATATTATTTTATTTTGAATAAACTTATC-TTAACAAAAACAATTGTTTTATGACAAAA
1 TAAATTAATATTATTTTATTCTAAATAAA--TAGCATGAAC-AAAACAATTGTTTTATGACAAAA
* * * * * * *
23201 CAAAAAGTAATAATGATTTGAAATAAATAATTCTTCAAATAGTTATAATTATTTAAACTGGTTTG
63 CAAAAGGTTATAATGATTTGAAATAGATAATTATTCATATAGTCATAACTATTTAAACTGGTTTG
* * *
23266 GTAAATAGAA-TTATTTTCTAAATCTCTTA
128 GTAAACA-AATTTATTTTTTAAATTTCTTA
23295 TAATTTTTTT
Statistics
Matches: 413, Mismatches: 95, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
179 69 0.17
180 114 0.28
181 222 0.54
182 8 0.02
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (178 bp):
TAAATTAATATTATTTTATTCTAAATAAATAGCATGAACAAAACAATTGTTTTATGACAAAACAA
AAGGTTATAATGATTTGAAATAGATAATTATTCATATAGTCATAACTATTTAAACTGGTTTGGTA
AACAAATTTATTTTTTAAATTTCTTACTTATTAATTTTAAAATATTAT
Found at i:23569 original size:20 final size:20
Alignment explanation
Indices: 23540--23582 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23530 ATATTTTAAA
*
23540 TTATTATTAAATATTAAATAT
1 TTATTATTAAACATTAAAT-T
23561 TTATT-TTAAACATTAAATT
1 TTATTATTAAACATTAAATT
23580 TTA
1 TTA
23583 ATAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATTAAACATTAAATT
Found at i:23580 original size:18 final size:19
Alignment explanation
Indices: 23535--23580 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
23525 AATTAATATT
*
23535 TTAAA-TTATTATTAAATA
1 TTAAATTTATTATTAAACA
23553 TTAAATATTTATT-TTAAACA
1 TT-AA-ATTTATTATTAAACA
23573 TTAAATTT
1 TTAAATTT
23581 TAATAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 9 0.38
21 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATTTATTATTAAACA
Found at i:23621 original size:13 final size:13
Alignment explanation
Indices: 23580--23622 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23570 ACATTAAATT
*
23580 TTAATAATTATAA
1 TTAATAATTATTA
23593 TTAATAATTATCTTA
1 TTAATAATTA--TTA
*
23608 TTAATAGTTATTA
1 TTAATAATTATTA
23621 TT
1 TT
23623 TAAAGTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (13 bp):
TTAATAATTATTA
Found at i:24893 original size:65 final size:67
Alignment explanation
Indices: 24760--24894 Score: 147
Period size: 65 Copynumber: 2.0 Consensus size: 67
24750 TAATTGTTTA
* * *
24760 ATAATATATAATTTTAATTTTAATTAATATAAGAAATTGATATTATAATAAATATCAATTTTTAA
1 ATAATATATAATTTTAATTTTAATTAATATAAGAAATTAATATTATAATAAATATAAATTTATAA
24825 TT
66 TT
* *
24827 ATAATA-ATAA-TTT-ATTTTAACTTAATTTAAGTTAATTAATA-TATAAT-AATAATAAATATT
1 ATAATATATAATTTTAATTTTAA-TTAATATAAG-AAATTAATATTATAATAAAT-ATAAAT-TT
24887 AT-ATT
62 ATAATT
24892 ATA
1 ATA
24895 TATTATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
64 10 0.17
65 29 0.49
66 14 0.24
67 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (67 bp):
ATAATATATAATTTTAATTTTAATTAATATAAGAAATTAATATTATAATAAATATAAATTTATAA
TT
Found at i:25505 original size:33 final size:33
Alignment explanation
Indices: 25468--25536 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
25458 AAATTGAATA
25468 ATTTTCATAA-TTATTAAGTAATAATTATTAA-CT
1 ATTTT-ATAATTTATTAAGTAATAATTA-TAATCT
* *
25501 ATTTTATAATTTATTAATTAATGATTATAATCT
1 ATTTTATAATTTATTAAGTAATAATTATAATCT
25534 ATT
1 ATT
25537 CATATTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (33 bp):
ATTTTATAATTTATTAAGTAATAATTATAATCT
Found at i:25551 original size:21 final size:18
Alignment explanation
Indices: 25527--25578 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 18
25517 ATTAATGATT
*
25527 ATAATCTATTCATATTTATCA
1 ATAATATATT-ATATTT-T-A
25548 ATAAATATATTATATTTTA
1 AT-AATATATTATATTTTA
25567 ATAATA-ATTATA
1 ATAATATATTATA
25579 ATAAAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 3 0.10
20 1 0.03
21 8 0.28
22 7 0.24
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAATATATTATATTTTA
Found at i:25701 original size:29 final size:29
Alignment explanation
Indices: 25648--25703 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
25638 TAATTAATAA
* *
25648 TAAATTTAATAATAATTGTTATATATTTT
1 TAAATTTAATAATAAATATTATATATTTT
25677 TAAATTT-ATAATAAATATTATTATATT
1 TAAATTTAATAATAAATATTA-TATATT
25704 AGCAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TAAATTTAATAATAAATATTATATATTTT
Found at i:26767 original size:21 final size:20
Alignment explanation
Indices: 26733--26800 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
26723 GCTATTTAAA
26733 TTAAATA-TTATTTAATTAT
1 TTAAATATTTATTTAATTAT
*
26752 TTAAATATTCTATTTATTTAT
1 TTAAATATT-TATTTAATTAT
* *
26773 TTTAATATTTAATATTAATTAA
1 TTAAATATTT-AT-TTAATTAT
26795 TTAAAT
1 TTAAAT
26801 TGATTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
21 20 0.50
22 11 0.28
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAATATTTATTTAATTAT
Found at i:26809 original size:22 final size:21
Alignment explanation
Indices: 26784--26844 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
26774 TTAATATTTA
26784 ATATTAATTAAT-TAAATTGATT
1 ATATTAATTAATAT-AATT-ATT
26806 ATATTAATTAATATAATTATT
1 ATATTAATTAATATAATTATT
26827 A-ATTAAGTTTAATATAAT
1 ATATTAA--TTAATATAAT
26845 AAAGGATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.14
21 4 0.11
22 26 0.72
23 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATTAATTAATATAATTATT
Found at i:26811 original size:5 final size:4
Alignment explanation
Indices: 26786--26832 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
26776 AATATTTAAT
*
26786 ATTA ATTA ATTAA ATTG ATTA TATTA ATTA ATATA ATT- ATTA ATTA A
1 ATTA ATTA ATT-A ATTA ATTA -ATTA ATTA AT-TA ATTA ATTA ATTA A
26833 GTTTAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 22 0.59
5 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:26978 original size:17 final size:18
Alignment explanation
Indices: 26947--26999 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
26937 TAAATAATTG
26947 TAATTAATTATTTA-TAA
1 TAATTAATTATTTATTAA
26964 TAATTAATCTA-TTATTAA
1 TAATTAAT-TATTTATTAA
*
26982 T-ATTATATTATATATTAA
1 TAATTA-ATTATTTATTAA
27000 AAAAGTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTATTTATTAA
Found at i:27149 original size:15 final size:15
Alignment explanation
Indices: 27131--27160 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27121 TTAATCTATA
27131 TATTATTATAATATT
1 TATTATTATAATATT
27146 TATTATTATAATATT
1 TATTATTATAATATT
27161 AAGGATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATAATATT
Found at i:27200 original size:19 final size:20
Alignment explanation
Indices: 27178--27218 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
27168 TTCTTATTCT
27178 TATTAA-ATTAAATTA-TTAA
1 TATTAATATT-AATTATTTAA
27197 TATTAATATTAATTATTTAA
1 TATTAATATTAATTATTTAA
27217 TA
1 TA
27219 AATATAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAATATTAATTATTTAA
Found at i:27232 original size:14 final size:14
Alignment explanation
Indices: 27215--27241 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27205 TTAATTATTT
27215 AATAAATATAATAC
1 AATAAATATAATAC
27229 AATAAATATAATA
1 AATAAATATAATA
27242 TATAAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAATATAATAC
Found at i:27715 original size:28 final size:29
Alignment explanation
Indices: 27666--27744 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
27656 TATAATTATT
* *
27666 TTATT-ATAATTAAGTTAATAATTGCT-TG
1 TTATTAATAATTAA-ATATTAATTGCTATG
* *
27694 TTATTAATAATTAAATATTAA-TGTTATT
1 TTATTAATAATTAAATATTAATTGCTATG
27722 TTATTAA-AATTAAAATATTAATT
1 TTATTAATAATT-AAATATTAATT
27745 AAAATATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 7 0.16
28 27 0.63
29 9 0.21
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (29 bp):
TTATTAATAATTAAATATTAATTGCTATG
Found at i:27746 original size:12 final size:12
Alignment explanation
Indices: 27729--27757 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27719 ATTTTATTAA
27729 AATTAAAATATT
1 AATTAAAATATT
27741 AATTAAAATATT
1 AATTAAAATATT
27753 AATTA
1 AATTA
27758 TTAATATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATTAAAATATT
Found at i:28113 original size:25 final size:27
Alignment explanation
Indices: 28084--28184 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 27
28074 TAAATTACTA
28084 ATATTATA-AAAATATTATAATTA-TT
1 ATATTATATAAAATATTATAATTAGTT
* * *
28109 ATATTATA-ATAATATTAATTATTAGTA
1 ATATTATATAAAATATT-ATAATTAGTT
*
28136 ATATTATATAAATTACTATTTTAATTAGTT
1 ATATTATATAAA--A-TATTATAATTAGTT
* *
28166 ATATCATATATAATATTAT
1 ATATTATATAAAATATTAT
28185 TTATATATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
25 15 0.25
26 6 0.10
27 14 0.23
28 3 0.05
30 18 0.30
31 4 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
ATATTATATAAAATATTATAATTAGTT
Found at i:28125 original size:11 final size:11
Alignment explanation
Indices: 28082--28125 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
28072 ACTAAATTAC
28082 TAATATTATAA
1 TAATATTATAA
*
28093 AAATATTATAA
1 TAATATTATAA
28104 TTATTATATTATAA
1 -TA--ATATTATAA
28118 TAATATTA
1 TAATATTA
28126 ATTATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 2 0.07
14 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATTATAA
Found at i:28137 original size:16 final size:16
Alignment explanation
Indices: 28096--28144 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
28086 ATTATAAAAA
28096 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
28113 TATAATAATATTA-AT
1 TATTATAATATTATAT
28128 TATTAGTAATATTATAT
1 TATTA-TAATATTATAT
28145 AAATTACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.21
16 13 0.46
17 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:28186 original size:30 final size:30
Alignment explanation
Indices: 28096--28186 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
28086 ATTATAAAAA
*
28096 TATTATAATTA-TTATATTATA-ATAATAT
1 TATTTTAATTAGTTATATTATATATAATAT
* * *
28124 TA-ATT-ATTAGTAATATTATATA-AATTAC
1 TATTTTAATTAGTTATATTATATATAA-TAT
*
28152 TATTTTAATTAGTTATATCATATATAATAT
1 TATTTTAATTAGTTATATTATATATAATAT
28182 TATTT
1 TATTT
28187 ATATATTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
26 4 0.08
27 12 0.24
28 7 0.14
29 2 0.04
30 22 0.45
31 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TATTTTAATTAGTTATATTATATATAATAT
Found at i:28402 original size:14 final size:14
Alignment explanation
Indices: 28383--28429 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
28373 TAACAAAAAA
28383 TAATTAATTCTAAT
1 TAATTAATTCTAAT
28397 TAATTAATTCTAAT
1 TAATTAATTCTAAT
*
28411 TAATTATAATCT-AT
1 TAATTA-ATTCTAAT
28425 TAATT
1 TAATT
28430 GTAATACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTAATTCTAAT
Found at i:28412 original size:24 final size:24
Alignment explanation
Indices: 28383--28434 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
28373 TAACAAAAAA
*
28383 TAATTAATTCTAAT-TAATTAATTC
1 TAATTAATTATAATCT-ATTAATTC
*
28407 TAATTAATTATAATCTATTAATTG
1 TAATTAATTATAATCTATTAATTC
28431 TAAT
1 TAAT
28435 ACATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTAATTATAATCTATTAATTC
Found at i:29334 original size:18 final size:19
Alignment explanation
Indices: 29311--29371 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
29301 TAATAGTTAA
29311 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
29329 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
29346 TAAATTATAATAATTAATAAG-
1 TAAATTA-AAT-A-TAATAAGT
29367 TAAAT
1 TAAAT
29372 GTTTATCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
20 2 0.05
21 6 0.16
22 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:29418 original size:13 final size:13
Alignment explanation
Indices: 29402--29501 Score: 53
Period size: 14 Copynumber: 7.3 Consensus size: 13
29392 AACTTATTTA
29402 ATTATATAATATT
1 ATTATATAATATT
29415 ATTATATTAAATACTT
1 ATTATA-T-AATA-TT
* *
29431 AAATTAAATATTTATT
1 --ATTATATA-ATATT
* *
29447 ATAATATAATAAAT
1 ATTATATAAT-ATT
29461 ATTATATAAT-TAT
1 ATTATATAATAT-T
29474 ATTAT-TAAT-TT
1 ATTATATAATATT
* *
29485 AATATATAATAAT
1 ATTATATAATATT
29498 ATTA
1 ATTA
29502 ATTTTATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
11 5 0.08
12 9 0.14
13 17 0.26
14 18 0.27
15 4 0.06
16 5 0.08
17 3 0.05
18 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATATAATATT
Found at i:30141 original size:13 final size:14
Alignment explanation
Indices: 30122--30157 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
30112 TTAAAATAAC
30122 TATATATAAATATAA
1 TATATATAAATAT-A
30137 TATATATAACATATA
1 TATATATAA-ATATA
30152 TATATA
1 TATATA
30158 AATTAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATATAAATATA
Found at i:30158 original size:13 final size:13
Alignment explanation
Indices: 30117--30158 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30107 AAGTATTAAA
30117 ATAAC-TATATAT
1 ATAACATATATAT
*
30129 A-AATATAATATAT
1 ATAACAT-ATATAT
30142 ATAACATATATAT
1 ATAACATATATAT
30155 ATAA
1 ATAA
30159 ATTAAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 2 0.08
12 2 0.08
13 17 0.68
14 4 0.16
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAACATATATAT
Found at i:30201 original size:20 final size:19
Alignment explanation
Indices: 30178--30217 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
30168 TTTAAATAAT
*
30178 TATTATTTATAATTATATTA
1 TATTATTAATAATT-TATTA
30198 TATTATTAATAATTTATTA
1 TATTATTAATAATTTATTA
30217 T
1 T
30218 TGTTAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTAATAATTTATTA
Found at i:30223 original size:17 final size:16
Alignment explanation
Indices: 30166--30225 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
30156 TAAATTAAGA
*
30166 TATTTAAATAA-TTAT
1 TATTTTAATAATTTAT
*
30181 TATTTATAATTATATTA-
1 TATTT-TAATAAT-TTAT
30198 TATTATTAATAATTTAT
1 TATT-TTAATAATTTAT
30215 TATTGTTAATA
1 TATT-TTAATA
30226 GTCTTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
17 20 0.56
18 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTTTAATAATTTAT
Found at i:31367 original size:16 final size:16
Alignment explanation
Indices: 31346--31408 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
31336 TGCATATTAT
31346 TAATTAATATTAATAA
1 TAATTAATATTAATAA
* *
31362 TAATTAATTACTAA-AT
1 TAATTAA-TATTAATAA
31378 TAATT-ATA-TAATAA
1 TAATTAATATTAATAA
* *
31392 GAATTTATATTTAATAA
1 TAATTAATA-TTAATAA
31409 ATTATTATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
13 3 0.08
14 7 0.18
15 4 0.11
16 13 0.34
17 11 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTAATATTAATAA
Found at i:31423 original size:14 final size:14
Alignment explanation
Indices: 31406--31438 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
31396 TTATATTTAA
*
31406 TAAATTATTATAGT
1 TAAATTATTATACT
31420 TAAA-TATTATACT
1 TAAATTATTATACT
31433 TAAATT
1 TAAATT
31439 TAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATTATTATACT
Found at i:32005 original size:16 final size:15
Alignment explanation
Indices: 31978--32013 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
31968 TTAAATGAAC
*
31978 ATTTAAATATTAGTT
1 ATTTAAATATTAGAT
31993 ATTTAAGATATTAGAT
1 ATTTAA-ATATTAGAT
32009 ATTTA
1 ATTTA
32014 TTATAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (15 bp):
ATTTAAATATTAGAT
Found at i:33149 original size:21 final size:20
Alignment explanation
Indices: 33117--33184 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
33107 GCAATTTAAA
33117 TTAAATA-TTATTTAATTAT
1 TTAAATATTTATTTAATTAT
*
33136 TTAAATATTCTATTTATTTAT
1 TTAAATATT-TATTTAATTAT
* *
33157 TTTAATATTTAATATTAATTAA
1 TTAAATATTT-AT-TTAATTAT
33179 TTAAAT
1 TTAAAT
33185 TGATTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
21 20 0.50
22 11 0.28
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAATATTTATTTAATTAT
Found at i:33207 original size:22 final size:21
Alignment explanation
Indices: 33115--33211 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 21
33105 TTGCAATTTA
33115 AATTAAA-TATTAT-TTAATT
1 AATTAAATTATTATATTAATT
* * *
33134 ATTTAAA-TATTCTATTTATTT
1 AATTAAATTATTATA-TTAATT
* *
33155 ATTTTAATATT-TAATATTAATT
1 A-ATTAA-ATTATTATATTAATT
33177 AATTAAATTGATTATATTAATT
1 AATTAAATT-ATTATATTAATT
33199 AA-TATAATTATTA
1 AATTA-AATTATTA
33212 ATAAGATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
19 11 0.18
20 3 0.05
21 16 0.26
22 27 0.44
23 4 0.06
24 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
AATTAAATTATTATATTAATT
Found at i:33295 original size:10 final size:10
Alignment explanation
Indices: 33280--33314 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33270 AAATAATAAT
33280 TAATTATTAA
1 TAATTATTAA
33290 TAATTATTAAA
1 TAATTATT-AA
*
33301 TAATTAATAA
1 TAATTATTAA
33311 TAAT
1 TAAT
33315 AATAATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAATTATTAA
Found at i:33402 original size:18 final size:17
Alignment explanation
Indices: 33367--33422 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
33357 TAAATAATTG
33367 TAATTAATTATT-TATAA
1 TAATTAATTATTAT-TAA
33384 TAATTAATCTATTATTAA
1 TAATTAAT-TATTATTAA
33402 T-ATTATATTATATATTAA
1 TAATTA-ATTAT-TATTAA
33420 TAA
1 TAA
33423 AGTAATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 15 0.44
18 17 0.50
19 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAATTATTATTAA
Found at i:33544 original size:35 final size:37
Alignment explanation
Indices: 33473--33555 Score: 111
Period size: 35 Copynumber: 2.3 Consensus size: 37
33463 ATTAATAAAT
*
33473 ATAATT-AAATATTTATATTTTAATTAATTATGAATA
1 ATAATTAAAATATTTATATATTAATTAATTATGAATA
33509 ATAATTAAAATATTTATA-ATT-ATCT-ATTATGAATA
1 ATAATTAAAATATTTATATATTAAT-TAATTATGAATA
33544 ATAATTTAAAAT
1 ATAA-TTAAAAT
33556 TAATCTATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
35 16 0.37
36 16 0.37
37 11 0.26
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (37 bp):
ATAATTAAAATATTTATATATTAATTAATTATGAATA
Found at i:33661 original size:14 final size:14
Alignment explanation
Indices: 33644--33679 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
33634 TTCTTTTTAT
33644 TATTTTATTATTTG
1 TATTTTATTATTTG
33658 TATTTTA-TATTTG
1 TATTTTATTATTTG
33671 TATTTTATT
1 TATTTTATT
33680 TTTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (14 bp):
TATTTTATTATTTG
Found at i:33670 original size:13 final size:13
Alignment explanation
Indices: 33644--33690 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
33634 TTCTTTTTAT
33644 TATTTTATTATTTG
1 TATTTTA-TATTTG
33658 TATTTTATATTTG
1 TATTTTATATTTG
33671 TATTTTAT-TTT-
1 TATTTTATATTTG
33682 TATTATTAT
1 TATT-TTAT
33691 TTTTTTATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.12
12 7 0.22
13 14 0.44
14 7 0.22
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATTTTATATTTG
Found at i:33694 original size:13 final size:12
Alignment explanation
Indices: 33638--33695 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 12
33628 CCCATTTTCT
33638 TTTTATTATTTTA
1 TTTT-TTATTTTA
33651 TTATTTGTATTTTA
1 TT-TTT-TATTTTA
*
33665 TATTTGTATTTTA
1 T-TTTTTATTTTA
33678 -TTTTTATTATTA
1 TTTTTTATT-TTA
33690 TTTTTT
1 TTTTTT
33696 TATACATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 7 0.18
12 3 0.08
13 15 0.39
14 12 0.32
15 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:33735 original size:19 final size:19
Alignment explanation
Indices: 33704--33756 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
33694 TTTATACATA
*
33704 TATTTTTCT-TTTATT-TT
1 TATTTATCTATTTATTATT
*
33721 TATCTTATGTATTTATTATT
1 TAT-TTATCTATTTATTATT
33741 TATTTATCTA-TTATTA
1 TATTTATCTATTTATTA
33757 CTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.10
18 10 0.33
19 12 0.40
20 5 0.17
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTATCTATTTATTATT
Found at i:33877 original size:21 final size:22
Alignment explanation
Indices: 33839--33920 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 22
33829 TTAATATTTA
33839 TATATATTTATCTGATTATATAT
1 TATA-ATTTATCTGATTATATAT
*
33862 TATAATTTATCT-ATTATTTAT
1 TATAATTTATCTGATTATATAT
* * *
33883 TTTTAGTTATCTG-TTA-ATAT
1 TATAATTTATCTGATTATATAT
*
33903 TATTATTTATCTGATTAT
1 TATAATTTATCTGATTAT
33921 TTTCCTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.29
21 23 0.47
22 8 0.16
23 4 0.08
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TATAATTTATCTGATTATATAT
Found at i:34858 original size:10 final size:10
Alignment explanation
Indices: 34843--34881 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
34833 TATTTTAATA
34843 TTTATTTATT
1 TTTATTTATT
34853 TTTATTTATCTT
1 TTTATTTA--TT
34865 TTTATTTATT
1 TTTATTTATT
*
34875 TTCATTT
1 TTTATTT
34882 TTACTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 16 0.62
12 10 0.38
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTATT
Found at i:34868 original size:22 final size:25
Alignment explanation
Indices: 34843--34904 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 25
34833 TATTTTAATA
34843 TTTATTTATTTTTATTTAT-C-TT-
1 TTTATTTATTTTTATTTATACTTTG
* *
34865 TTTATTTATTTTCATTTTTACTTTG
1 TTTATTTATTTTTATTTATACTTTG
34890 TTTATTTTATTTTTA
1 TTTA-TTTATTTTTA
34905 AAAAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 17 0.52
23 1 0.03
24 2 0.06
25 4 0.12
26 9 0.27
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTATTTATTTTTATTTATACTTTG
Done.