Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167975.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_233, 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: 46123
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Found at i:1043 original size:16 final size:17
Alignment explanation
Indices: 1018--1050 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1008 AATCAATATT
1018 AAAAGAAAATTT-TTAA
1 AAAAGAAAATTTCTTAA
*
1034 AAAAGTAAATTTCTTAA
1 AAAAGAAAATTTCTTAA
1051 TTTAGCGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAAGAAAATTTCTTAA
Found at i:1301 original size:65 final size:65
Alignment explanation
Indices: 1221--1348 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 65
1211 TACAAACACC
* ** * *
1221 ACTAAATAGCGACATTTTCAGATGTAAACACTACTAAATTAG-GATGTTTTTCCTTACAAATGCT
1 ACTAAATAGCAACATTTTCAGATACAAACACTACTAAATTAGTGACGTTTTTCCTCACAAATGCT
* ** *
1285 ACTAAATTAGCAACATTTTCATATACAAATGCTACTAAATTAGTGGCGTTTTTCCTCACAAATG
1 ACTAAA-TAGCAACATTTTCAGATACAAACACTACTAAATTAGTGACGTTTTTCCTCACAAATG
1349 TCATGAAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 6 0.11
65 30 0.57
66 17 0.32
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (65 bp):
ACTAAATAGCAACATTTTCAGATACAAACACTACTAAATTAGTGACGTTTTTCCTCACAAATGCT
Found at i:1317 original size:33 final size:33
Alignment explanation
Indices: 1188--1327 Score: 113
Period size: 32 Copynumber: 4.3 Consensus size: 33
1178 TCGAAACGTC
* * * *
1188 ACTAAATTAGCAGCGTTTTCAAATACAAACACC
1 ACTAAATTAGCAACATTTTCATATACAAACACT
* * **
1221 ACTAAA-TAGCGACATTTTCAGATGTAAACACT
1 ACTAAATTAGCAACATTTTCATATACAAACACT
* *** * **
1253 ACTAAATTAGGATGTTTTTCCT-TACAAATGCT
1 ACTAAATTAGCAACATTTTCATATACAAACACT
**
1285 ACTAAATTAGCAACATTTTCATATACAAATGCT
1 ACTAAATTAGCAACATTTTCATATACAAACACT
1318 ACTAAATTAG
1 ACTAAATTAG
1328 TGGCGTTTTT
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
32 48 0.59
33 34 0.41
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (33 bp):
ACTAAATTAGCAACATTTTCATATACAAACACT
Found at i:1346 original size:33 final size:32
Alignment explanation
Indices: 1251--1348 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 32
1241 GATGTAAACA
*
1251 CTACTAAATTAGGATGTTTTTCCTTACAAATG
1 CTACTAAATTAGGACGTTTTTCCTTACAAATG
* * *
1283 CTACTAAATTAGCAAC-ATTTTCATATACAAATG
1 CTACTAAATTAG-GACGTTTTTCCT-TACAAATG
* *
1316 CTACTAAATTAGTGGCGTTTTTCCTCACAAATG
1 CTACTAAATTAG-GACGTTTTTCCTTACAAATG
1349 TCATGAAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
32 18 0.34
33 29 0.55
34 6 0.11
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (32 bp):
CTACTAAATTAGGACGTTTTTCCTTACAAATG
Found at i:1627 original size:10 final size:10
Alignment explanation
Indices: 1571--1668 Score: 79
Period size: 10 Copynumber: 9.4 Consensus size: 10
1561 TTTGAAAATG
*
1571 AATTTTTGAA
1 AATTTTTAAA
*
1581 AATTCTTAAA
1 AATTTTTAAA
*
1591 AGTTTTCGTAAA
1 AATTTT--TAAA
* *
1603 TAGATGTTCAAA
1 -A-ATTTTTAAA
1615 AATTTTTAAA
1 AATTTTTAAA
*
1625 AATTTATAAA
1 AATTTTTAAA
*
1635 AATTTATAAA
1 AATTTTTAAA
*
1645 ATTTTTTAAA
1 AATTTTTAAA
*
1655 AATTTATAAA
1 AATTTTTAAA
1665 AATT
1 AATT
1669 CAAGATTTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
10 58 0.83
11 1 0.01
12 7 0.10
13 1 0.01
14 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:1637 original size:20 final size:20
Alignment explanation
Indices: 1612--1668 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1602 ATAGATGTTC
*
1612 AAAAATTTTTAAAAATTTAT
1 AAAAATTTATAAAAATTTAT
* *
1632 AAAAATTTATAAAATTTTTT
1 AAAAATTTATAAAAATTTAT
1652 AAAAATTTATAAAAATT
1 AAAAATTTATAAAAATT
1669 CAAGATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATTTATAAAAATTTAT
Found at i:1653 original size:30 final size:30
Alignment explanation
Indices: 1612--1668 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1602 ATAGATGTTC
1612 AAAAATTTTTAAAAATTTATAAAAATTTAT
1 AAAAATTTTTAAAAATTTATAAAAATTTAT
*
1642 AAAATTTTTTAAAAATTTATAAAAATT
1 AAAAATTTTTAAAAATTTATAAAAATT
1669 CAAGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAAATTTTTAAAAATTTATAAAAATTTAT
Found at i:1908 original size:15 final size:16
Alignment explanation
Indices: 1886--1923 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1876 TTCTTTATAT
1886 TTATTTTTAAAAAAAA
1 TTATTTTTAAAAAAAA
* *
1902 TTATTTTTAGATAAAA
1 TTATTTTTAAAAAAAA
1918 TTATTT
1 TTATTT
1924 AATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTATTTTTAAAAAAAA
Found at i:8498 original size:22 final size:23
Alignment explanation
Indices: 8458--8510 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
8448 AGTATAGAAG
*
8458 ATATAATAAGATAAGATTAAATA
1 ATATAATAAGATAAAATTAAATA
*
8481 ATATTATAA-ATAAAATTAAATA
1 ATATAATAAGATAAAATTAAATA
*
8503 AAATAATA
1 ATATAATA
8511 TCATCCTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATATAATAAGATAAAATTAAATA
Found at i:9404 original size:16 final size:16
Alignment explanation
Indices: 9364--9405 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
9354 ATCATAAATA
9364 TATTTTTA-TCT-ATT
1 TATTTTTACTCTCATT
9378 TATTTTT-CTCTCATT
1 TATTTTTACTCTCATT
*
9393 TTTTTTTACTCTC
1 TATTTTTACTCTC
9406 CCTCTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTACTCTCATT
Found at i:9740 original size:35 final size:35
Alignment explanation
Indices: 9688--9754 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
9678 GGGAAAAGTG
*
9688 AAAAAGAAAAAATAAAGAAAGAAAATGAGAGAAAGAC
1 AAAAAGAAAAAATAAAG-AAGAAAAAG-GAGAAAGAC
9725 AAAAA-AAAAAA-AAAGAAGAAAAAGGAGAAA
1 AAAAAGAAAAAATAAAGAAGAAAAAGGAGAAA
9755 AATAGTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
34 8 0.28
35 4 0.14
36 6 0.21
37 5 0.17
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (35 bp):
AAAAAGAAAAAATAAAGAAGAAAAAGGAGAAAGAC
Found at i:11258 original size:18 final size:17
Alignment explanation
Indices: 11237--11287 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
11227 TGTCTCATTT
11237 TTTATTAATTATTCTTAA
1 TTTATTAATTATT-TTAA
*
11255 TTTATTAATTAGTTTTTA
1 TTTATTAATTA-TTTTAA
11273 TTTATT-ATTATTTTA
1 TTTATTAATTATTTTA
11288 TAAGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 20 0.67
19 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTAATTATTTTAA
Found at i:23483 original size:49 final size:49
Alignment explanation
Indices: 23430--23872 Score: 487
Period size: 49 Copynumber: 9.0 Consensus size: 49
23420 TTTTGAGAAT
* *
23430 AGATGAGATTTTTAAAATTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
23479 AGATGAG-GTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
*
23527 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** * *
23576 AGATAAGATTTCAAAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * *
23626 AGATGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTCTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** ** * **
23675 AGATAAGATTTCAAAAAATGTTAAGCCTCTATTGAGAGGAGCTTTTTC-
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * * *
23723 AGATAAAATTTTTAAAGTCGTTGAGCCTCTGCTAAGAGAAGCCCTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * * ** *
23773 AAAAGAGATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAAAGCCATTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * *
23823 AGATGAAATTTTTTAAA-TTGTTGAACCTCTGTTGAGAGGAGTCTTTTTCA
1 AGATGAGA-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
23873 GATTTTAAAT
Statistics
Matches: 326, Mismatches: 63, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
48 73 0.22
49 131 0.40
50 114 0.35
51 8 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (49 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:23677 original size:148 final size:146
Alignment explanation
Indices: 23443--23872 Score: 524
Period size: 148 Copynumber: 2.9 Consensus size: 146
23433 TGAGATTTTT
*
23443 AAAATTGTTAAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAG-GTTTTAAAGTTGTTGAGCCT
1 AAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCT
* *
23506 CTACTGAGAGGAGCTTTTCCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTT
66 CTACTGAGAGGAGCTTTT-CAAGATGAGATTTTTAAA-TTGTTGAGCCTCTGTTGAGAGGAGCTT
*
23571 TTTCAAGATAAGATTTCA
129 TTTCAAGATAAAATTTCA
23589 AAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCT
1 AAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCT
* ** * * *
23654 CTACTGAGAGGAGCTTTCTCAAGATAAGATTTCAAAAAATGTTAAGCCTCTATTGAGAGGAGCTT
66 CTACTGAGAGGAGCTTT-TCAAGATGAGATTT-TTAAATTGTTGAGCCTCTGTTGAGAGGAGCTT
**
23719 TTTC-AGATAAAATTTTT
129 TTTCAAGATAAAATTTCA
* * * * * * * * * *
23736 AAAGTCGTTGAGCCTCTGCTAAGAGAAGCCCTTTTCAAAAAGAGATTTTTAAAGTTGTTGAGCTT
1 AAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCT
* ** * *
23801 CTGCTGAGAAAAGCCATTTTCAAGATGAAATTTTTTAAATTGTTGAACCTCTGTTGAGAGGAGTC
66 CTACTGAGAGGAG-C-TTTTCAAGATGAGA-TTTTTAAATTGTTGAGCCTCTGTTGAGAGGAG-C
23866 TTTTTCA
127 TTTTTCA
23873 GATTTTAAAT
Statistics
Matches: 242, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
146 28 0.12
147 90 0.37
148 107 0.44
149 17 0.07
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (146 bp):
AAAATTGTTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCT
CTACTGAGAGGAGCTTTTCAAGATGAGATTTTTAAATTGTTGAGCCTCTGTTGAGAGGAGCTTTT
TCAAGATAAAATTTCA
Found at i:24136 original size:7 final size:7
Alignment explanation
Indices: 24126--24152 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24116 AAAATATAAA
24126 AAAATAT
1 AAAATAT
24133 AAAATAT
1 AAAATAT
24140 AAAATAT
1 AAAATAT
24147 AAAATA
1 AAAATA
24153 CCAAACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:24136 original size:17 final size:17
Alignment explanation
Indices: 24110--24143 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24100 AATTATTATT
24110 AAATACAAAATATAAAA
1 AAATACAAAATATAAAA
*
24127 AAATATAAAATATAAAA
1 AAATACAAAATATAAAA
24144 TATAAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATACAAAATATAAAA
Found at i:24414 original size:12 final size:12
Alignment explanation
Indices: 24399--24429 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24389 AAAAAATGAA
24399 AAAAAAAGCTGT
1 AAAAAAAGCTGT
*
24411 AAAAAAGGCTGT
1 AAAAAAAGCTGT
24423 AAAAAAA
1 AAAAAAA
24430 AGGGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (12 bp):
AAAAAAAGCTGT
Found at i:25222 original size:13 final size:13
Alignment explanation
Indices: 25204--25228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25194 TATAATTTTT
25204 TTAAAAAATAAAC
1 TTAAAAAATAAAC
25217 TTAAAAAATAAA
1 TTAAAAAATAAA
25229 ATAAAATAAA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAAATAAAC
Found at i:25263 original size:29 final size:29
Alignment explanation
Indices: 25207--25266 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
25197 AATTTTTTTA
*
25207 AAAAATAAACTTAAAAAATAAAATAAAAT
1 AAAAATAAACTTAAAAAATAAAACAAAAT
* *
25236 AAAAATAAACTT-AATAATAATACCAAAAT
1 AAAAATAAACTTAAAAAATAA-AACAAAAT
25265 AA
1 AA
25267 TAAAAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (29 bp):
AAAAATAAACTTAAAAAATAAAACAAAAT
Found at i:25481 original size:18 final size:16
Alignment explanation
Indices: 25435--25484 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
25425 TTTTTCTTAT
25435 AAAATAATAATAAATA
1 AAAATAATAATAAATA
25451 AAAAGTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
25470 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
25485 AAATGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:26489 original size:25 final size:24
Alignment explanation
Indices: 26456--26580 Score: 96
Period size: 25 Copynumber: 5.1 Consensus size: 24
26446 TCAATGCAAC
26456 TATTAAAATATTAAATATTATATAT
1 TATTAAAATATT-AATATTATATAT
*
26481 TATTGAAATATATTAA-ATTATTTAT
1 TATT-AAA-ATATTAATATTATATAT
* * *
26506 TTTTAAAATTATTAATATTAAAAAAT
1 TATTAAAA-TATTAATATT-ATATAT
* * *
26532 TATT-AAATTTTAATAATAATATTAA
1 TATTAAAATATTAAT-ATTATA-TAT
26557 TATTAAAATATT-ATATTA-ATAT
1 TATTAAAATATTAATATTATATAT
26579 TA
1 TA
26581 ACATTTAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
22 4 0.05
23 2 0.03
24 20 0.26
25 30 0.38
26 17 0.22
27 5 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTAAAATATTAATATTATATAT
Found at i:26494 original size:10 final size:8
Alignment explanation
Indices: 26456--26544 Score: 58
Period size: 8 Copynumber: 10.8 Consensus size: 8
26446 TCAATGCAAC
*
26456 TATTAAAA
1 TATTAAAT
26464 TATTAAA-
1 TATTAAAT
26471 TATTATATAT
1 TATTA-A-AT
26481 TATTGAAAT
1 TATT-AAAT
26490 ATATTAAAT
1 -TATTAAAT
*
26499 TATT-TAT
1 TATTAAAT
*
26506 TTTTAAAAT
1 TATT-AAAT
26515 TATTAATAT
1 TATTAA-AT
**
26524 TAAAAAAT
1 TATTAAAT
26532 TATTAAAT
1 TATTAAAT
26540 T-TTAA
1 TATTAA
26545 TAATAATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
7 14 0.22
8 23 0.35
9 18 0.28
10 9 0.14
11 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (8 bp):
TATTAAAT
Found at i:26500 original size:18 final size:17
Alignment explanation
Indices: 26456--26502 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
26446 TCAATGCAAC
*
26456 TATTAAAATATTAAATA
1 TATTAAATTATTAAATA
*
26473 T-TATATATTATTGAAATA
1 TAT-TAAATTATT-AAATA
26491 TATTAAATTATT
1 TATTAAATTATT
26503 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 14 0.58
19 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTAAATTATTAAATA
Found at i:26524 original size:6 final size:6
Alignment explanation
Indices: 26515--26581 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
26505 TTTTTAAAAT
* * *
26515 TATTAA TATTAA -A-AAA TTATTAAA TTTTAA TAATAA TATTAA TATTAAAA
1 TATTAA TATTAA TATTAA -TATT-AA TATTAA TATTAA TATTAA TATT--AA
26565 TATT-A TATTAA TATTAA
1 TATTAA TATTAA TATTAA
26582 CATTTAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 29 0.60
7 3 0.06
8 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TATTAA
Found at i:26535 original size:33 final size:35
Alignment explanation
Indices: 26495--26570 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
26485 GAAATATATT
* *
26495 AAATTATTTATTTTTAA-AAT-TATTAATATTAAA
1 AAATTATTAAATTTTAATAATATATTAATATTAAA
26528 AAATTATTAAATTTTAATAATAATATTAATATTAAA
1 AAATTATTAAATTTTAATAAT-ATATTAATATTAAA
*
26564 ATATTAT
1 AAATTAT
26571 ATTAATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 15 0.41
34 3 0.08
36 19 0.51
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
AAATTATTAAATTTTAATAATATATTAATATTAAA
Found at i:26572 original size:19 final size:19
Alignment explanation
Indices: 26515--26581 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
26505 TTTTTAAAAT
*
26515 TATTAATATTAAAAAATTA
1 TATTAATATTAAAATATTA
* *
26534 T-TAAATTTTAATAATA--A
1 TATTAATATTAA-AATATTA
26551 TATTAATATTAAAATATTA
1 TATTAATATTAAAATATTA
26570 TATTAATATTAA
1 TATTAATATTAA
26582 CATTTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 6 0.15
18 16 0.41
19 17 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAATATTAAAATATTA
Found at i:26628 original size:28 final size:29
Alignment explanation
Indices: 26597--26671 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
26587 AAAATAAAGC
26597 TATTTATTATTATATTAATATT-TTAAAA
1 TATTTATTATTATATTAATATTCTTAAAA
** * *
26625 TATTTAGAATAATATTACTATTCTTAAAA
1 TATTTATTATTATATTAATATTCTTAAAA
26654 TA-TTATT-TT-TATTAATAT
1 TATTTATTATTATATTAATAT
26672 AATAATGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.21
27 1 0.03
28 21 0.55
29 8 0.21
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
TATTTATTATTATATTAATATTCTTAAAA
Found at i:26926 original size:18 final size:18
Alignment explanation
Indices: 26899--26941 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26889 TTATTAAAAT
*
26899 AATAATATTA-TTATATTA
1 AATAAAATTATTTAT-TTA
26917 AATAAAATTATTTATTTA
1 AATAAAATTATTTATTTA
26935 AATAAAA
1 AATAAAA
26942 AATATCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAAATTATTTATTTA
Found at i:26931 original size:22 final size:22
Alignment explanation
Indices: 26877--26932 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
26867 GAAATGATTA
* *
26877 AAAATATTTGTTTTATTAAAAT
1 AAAATATTTATTATATTAAAAT
26899 AATAATA-TTATTATATT-AAAT
1 AA-AATATTTATTATATTAAAAT
26920 AAAATTATTTATT
1 AAAA-TATTTATT
26933 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 15 0.52
23 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATATTTATTATATTAAAAT
Found at i:27229 original size:24 final size:23
Alignment explanation
Indices: 27197--27260 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
27187 GCTTGAGTAG
27197 AATTATAAAAATATTTAAAATTAA
1 AATT-TAAAAATATTTAAAATTAA
*
27221 AATATTAAAAA-ATTTTAATATTAA
1 AAT-TTAAAAATA-TTTAAAATTAA
*
27245 TATTTAAAAAT-TTTAA
1 AATTTAAAAATATTTAA
27261 TTACAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 5 0.14
23 8 0.23
24 21 0.60
25 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTAAAAATATTTAAAATTAA
Found at i:27253 original size:22 final size:23
Alignment explanation
Indices: 27202--27261 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
27192 AGTAGAATTA
*
27202 TAAAAATATTTAAAATTAAAATATT
1 TAAAAAT-TTTAATATT-AAATATT
*
27227 AAAAAATTTTAATATT-AATATT
1 TAAAAATTTTAATATTAAATATT
27249 TAAAAATTTTAAT
1 TAAAAATTTTAAT
27262 TACAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.56
24 8 0.25
25 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAATTTTAATATTAAATATT
Found at i:28890 original size:2 final size:2
Alignment explanation
Indices: 28883--28912 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28873 CTTCATGTCC
28883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28913 GAAAAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30313 original size:19 final size:17
Alignment explanation
Indices: 30283--30319 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
30273 GATTATTAAA
30283 GATATTAAATTAAAATT
1 GATATTAAATTAAAATT
30300 GATATATAATATTAAAATT
1 GATAT-TAA-ATTAAAATT
30319 G
1 G
30320 GTAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
GATATTAAATTAAAATT
Found at i:30626 original size:16 final size:16
Alignment explanation
Indices: 30605--30635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30595 ATAATGTTTA
30605 GGATTAAGATATTATG
1 GGATTAAGATATTATG
*
30621 GGATTACGATATTAT
1 GGATTAAGATATTAT
30636 TAATATTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (16 bp):
GGATTAAGATATTATG
Found at i:32772 original size:6 final size:6
Alignment explanation
Indices: 32763--32790 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32753 GCCCATTTGC
32763 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
32791 ATTTTTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:32801 original size:18 final size:18
Alignment explanation
Indices: 32763--32801 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32753 GCCCATTTGC
*
32763 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATTTCT
32781 ATTTTTATTTATT-TTTCT
1 ATTTTTATTT-TTATTTCT
32799 ATT
1 ATT
32802 ATTACTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTATTTTTATTTCT
Found at i:32830 original size:15 final size:14
Alignment explanation
Indices: 32800--32870 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 14
32790 TATTTTTCTA
*
32800 TTATTACTATTATGAT
1 TTATTAATA-TAT-AT
32816 TTATTAATATATGAT
1 TTATTAATATAT-AT
*
32831 TT-TT--TATTTAT
1 TTATTAATATATAT
*
32842 CTATTAATATAT-T
1 TTATTAATATATAT
32855 TTATTAATATATAT
1 TTATTAATATATAT
32869 TT
1 TT
32871 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
11 3 0.07
12 6 0.13
13 12 0.26
14 9 0.20
15 8 0.17
16 8 0.17
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATTAATATATAT
Found at i:32834 original size:38 final size:37
Alignment explanation
Indices: 32790--32876 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 37
32780 TATTTTTATT
*
32790 TATTTTTCTATTAT-TACTATTATGA-TTTATTAATATA
1 TATTTTT-TATTATCTACTAATAT-ATTTTATTAATATA
*
32827 TGATTTTTTATTTATCTATTAATATATTTTATTAATATA
1 T-ATTTTTTA-TTATCTACTAATATATTTTATTAATATA
32866 TATTTTTTATT
1 TATTTTTTATT
32877 TTTTTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
37 5 0.11
38 19 0.43
39 20 0.45
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (37 bp):
TATTTTTTATTATCTACTAATATATTTTATTAATATA
Found at i:32969 original size:22 final size:22
Alignment explanation
Indices: 32789--32996 Score: 121
Period size: 22 Copynumber: 9.4 Consensus size: 22
32779 TTATTTTTAT
* *
32789 TTATTTTTCTATTATTACTATTA
1 TTATTTATCTATTAATA-TATTA
* * *
32812 TGATTTAT-TAAT-ATATGATTTT
1 TTATTTATCTATTAATAT-A-TTA
32834 TTATTTATCTATTAATATATT-
1 TTATTTATCTATTAATATATTA
* ** * *
32855 TTATTAATATATATTTTTTATTTTT
1 TTATT--TATCTA-TTAATATATTA
*
32880 TTATTTGTCTATTAACATATATTA
1 TTATTTATCTATT-A-ATATATTA
32904 TT-TTTATCTATTAATATATATA
1 TTATTTATCTATTAATATAT-TA
*
32926 TGTATGTT-T-T-TTTAT-TATTA
1 T-TAT-TTATCTATTAATATATTA
32946 TTATTTATCTA-TACATATATTA
1 TTATTTATCTATTA-ATATATTA
32968 TTATTTATCTATTAATATA-TA
1 TTATTTATCTATTAATATATTA
*
32989 TTTTTTAT
1 TTATTTAT
32997 TTTTATCTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
18 2 0.01
19 4 0.03
20 6 0.04
21 28 0.19
22 45 0.31
23 32 0.22
24 20 0.14
25 7 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATTTATCTATTAATATATTA
Found at i:32979 original size:65 final size:69
Alignment explanation
Indices: 32834--32989 Score: 207
Period size: 65 Copynumber: 2.3 Consensus size: 69
32824 ATATGATTTT
* * *
32834 TTATTTATCTATTAATATATTTTATTAATATATATTTTTTATTTTTTTATTTGTCTATTAACATA
1 TTATTTATCTATTAATATA-TATATTAATATATATTTTTTATTTTATTATTTATCTATTAACATA
32899 TATTA
65 TATTA
* *
32904 TT-TTTATCTATTAATATATATA-T-GTATGT-TTTTTTATTATTATTATTTATCTA-T-ACATA
1 TTATTTATCTATTAATATATATATTAATATATATTTTTTATT-TTATTATTTATCTATTAACATA
32963 TATTA
65 TATTA
32968 TTATTTATCTATTAATATATAT
1 TTATTTATCTATTAATATATAT
32990 TTTTTATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
64 12 0.15
65 29 0.37
66 16 0.20
67 1 0.01
68 3 0.04
69 16 0.20
70 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (69 bp):
TTATTTATCTATTAATATATATATTAATATATATTTTTTATTTTATTATTTATCTATTAACATAT
ATTA
Found at i:32981 original size:39 final size:42
Alignment explanation
Indices: 32899--32991 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 42
32889 TATTAACATA
* *
32899 TATTATT-TTTATCTATTAATATATATATGTATGTTTTTTTAT
1 TATTATTATTTATCTATTAATATATATATGTA-GTTTATCTAT
32941 TATTATTATTTATCTA-TACATATAT-TAT-TA-TTTATCTAT
1 TATTATTATTTATCTATTA-ATATATATATGTAGTTTATCTAT
*
32980 TAATATATATTT
1 TATTAT-TATTT
32992 TTTATTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
39 12 0.27
40 5 0.11
41 2 0.04
42 12 0.27
43 14 0.31
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (42 bp):
TATTATTATTTATCTATTAATATATATATGTAGTTTATCTAT
Found at i:33834 original size:17 final size:17
Alignment explanation
Indices: 33801--33834 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33791 TTTTCCTTAT
33801 TTATTCATTTATTATTA
1 TTATTCATTTATTATTA
33818 TTATT-ATTTATTGATTA
1 TTATTCATTTATT-ATTA
33835 AATTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTCATTTATTATTA
Found at i:33876 original size:17 final size:16
Alignment explanation
Indices: 33854--33891 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33844 TATTTAGTAT
*
33854 TTTTTATTTTATTTTTA
1 TTTTTATCTTA-TTTTA
33871 TTTTTATCTTATTTTA
1 TTTTTATCTTATTTTA
33887 TTTTT
1 TTTTT
33892 TTGATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATCTTATTTTA
Found at i:33892 original size:17 final size:17
Alignment explanation
Indices: 33851--33892 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33841 AATTATTTAG
*
33851 TATTTTTTATTTTATTT
1 TATTTTTTATCTTATTT
33868 T-TATTTTTATCTTATTT
1 TAT-TTTTTATCTTATTT
33885 TATTTTTT
1 TATTTTTT
33893 TGATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (17 bp):
TATTTTTTATCTTATTT
Found at i:33902 original size:22 final size:22
Alignment explanation
Indices: 33846--33902 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
33836 ATTAGAATTA
*
33846 TTTAGTATTTT-TTATTTTATT
1 TTTATTATTTTCTTATTTTATT
33867 TTTATT-TTTATCTTATTTTATT
1 TTTATTATTT-TCTTATTTTATT
33889 TTT-TTGATTTTCTT
1 TTTATT-ATTTTCTT
33903 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.10
21 8 0.26
22 17 0.55
23 3 0.10
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTATTATTTTCTTATTTTATT
Found at i:37296 original size:15 final size:15
Alignment explanation
Indices: 37278--37308 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37268 TTTGCATACA
*
37278 TGCATTTTCATTCAT
1 TGCATTTTCACTCAT
37293 TGCATTTTCACTCAT
1 TGCATTTTCACTCAT
37308 T
1 T
37309 ACACTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
TGCATTTTCACTCAT
Found at i:44412 original size:9 final size:9
Alignment explanation
Indices: 44398--44440 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
44388 CTATGCTTGA
44398 AAAAAAATG
1 AAAAAAATG
44407 AAAAAAA--
1 AAAAAAATG
44414 AAATGAAAATG
1 AAA--AAAATG
44425 AAAAAAATG
1 AAAAAAATG
44434 AAAAAAA
1 AAAAAAA
44441 AAAAAAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.10
9 24 0.80
11 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:44414 original size:12 final size:12
Alignment explanation
Indices: 44397--44443 Score: 67
Period size: 12 Copynumber: 3.7 Consensus size: 12
44387 ACTATGCTTG
44397 AAAAAAAATGAA
1 AAAAAAAATGAA
44409 AAAAAAAATGAAA
1 AAAAAAAATG-AA
44422 ATGAAAAAAATGAA
1 A--AAAAAAATGAA
44436 AAAAAAAA
1 AAAAAAAA
44444 AAAGAAGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 17 0.53
13 3 0.09
14 3 0.09
15 9 0.28
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAAAATGAA
Found at i:44443 original size:15 final size:15
Alignment explanation
Indices: 44407--44446 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
44397 AAAAAAAATG
44407 AAAAAAAAAATGAAA
1 AAAAAAAAAATGAAA
**
44422 ATGAAAAAAATGAAA
1 AAAAAAAAAATGAAA
44437 AAAAAAAAAA
1 AAAAAAAAAA
44447 GAAGTGAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAATGAAA
Found at i:45641 original size:42 final size:41
Alignment explanation
Indices: 45587--45815 Score: 215
Period size: 40 Copynumber: 5.6 Consensus size: 41
45577 ATATTTTTTG
*
45587 TGTTGAGCCTCTGATTAGAGGAGCTTTTTTTATTTTTCAAAGT
1 TGTTGAGCCTCTGATTAGAGGAGC--TATTTATTTTTCAAAGT
*
45630 TGTTG-GCCTCTGATTAGAGGAGC-ATTTAATTTTCCAAAG-
1 TGTTGAGCCTCTGATTAGAGGAGCTATTT-ATTTTTCAAAGT
* *
45669 T-TTGAG-CT-TTATTAGAGGAGCCATTTA--TTTCAAAAGT
1 TGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTC-AAAGT
* * *
45706 CGTTGAGCCTCTGATTAGAGAAGCCATTTATTTTT-AAAGT
1 TGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGT
* *
45746 TGTTGAGCCTCTGATTAGAAGAGCTTTGTTTATGTTTCTCAAAGT
1 TGTTGAGCCTCTGATTAGAGGAGC--TATTTAT-TTT-TCAAAGT
* * *
45791 CGTTGAACCTCTGCTTAGAGGAGCT
1 TGTTGAGCCTCTGATTAGAGGAGCT
45816 TTGATCAAAA
Statistics
Matches: 155, Mismatches: 16, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
35 3 0.02
36 4 0.03
37 13 0.08
38 14 0.09
39 7 0.05
40 53 0.34
42 26 0.17
43 9 0.06
44 1 0.01
45 25 0.16
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (41 bp):
TGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGT
Found at i:46070 original size:18 final size:18
Alignment explanation
Indices: 46049--46101 Score: 83
Period size: 17 Copynumber: 3.1 Consensus size: 18
46039 TATTACTGTC
46049 TATTAATATATTATTTTT
1 TATTAATATATTATTTTT
*
46067 TATTAATATA-TATATTT
1 TATTAATATATTATTTTT
46084 TATTAATAT-TTATTTTT
1 TATTAATATATTATTTTT
46101 T
1 T
46102 TTATCTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTAATATATTATTTTT
Found at i:46117 original size:37 final size:35
Alignment explanation
Indices: 46049--46119 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
46039 TATTACTGTC
*
46049 TATTAATATATTATTTTTTATTAATATATATATTT
1 TATTAATATATTATTTTTTATTAATAAATATATTT
*
46084 TATTAATAT-TTATTTTTTTTATCTATTAAATATATT
1 TATTAATATATTA--TTTTTTAT-TAATAAATATATT
46120 ATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 3 0.10
35 9 0.29
36 8 0.26
37 11 0.35
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (35 bp):
TATTAATATATTATTTTTTATTAATAAATATATTT
Found at i:46122 original size:35 final size:35
Alignment explanation
Indices: 46049--46122 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
46039 TATTACTGTC
* *
46049 TATTAATATATTATTTTTTATTAATATATATATTT
1 TATTAATATATTATTTTTTATTAATATAAATATAT
*
46084 TATTAATAT-TTATTTTTT-TTATCTATTAAATATAT
1 TATTAATATATTATTTTTTATTA-ATA-TAAATATAT
46119 TATT
1 TATT
46123 T
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.09
34 11 0.32
35 20 0.59
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (35 bp):
TATTAATATATTATTTTTTATTAATATAAATATAT
Done.