Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168353.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_574, 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: 22650
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:605 original size:181 final size:179
Alignment explanation
Indices: 418--851 Score: 457
Period size: 181 Copynumber: 2.4 Consensus size: 179
408 ACAAAAACAT
*
418 TTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAATT
1 TTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAA-C
* ** * * *
483 TTTTTGTATTGGTTAGATAAACATAA-TTATTTTTTAAATATCTTATTTATTAA-TTTTTGAAAT
65 TATTTAAATTGGTTAGACAAACA-AATTTATTTTTTAAATACCTTAGTTATTAATTTTTTG-AAT
* *
546 ATTAAGAAATTCATTTTATTTTATTTCGAATAAGCTAGTATGAATTGAGAA-AA
128 ATTAAGAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAA--CAGAATAA
* * * * * * * *
599 TTGTTTTATGACAAGAC-AAAGGTCATAACT-ATTTGAATTAGATAATTGTTCATATAATCTTTA
1 TTGTTTTATGACAAAACAAAAAGTAATAA-TGATTTGAAATATATAATTGTTCAAAT-A-GTATA
* *
662 ACTATTTAAATTGGTTCGACAAACAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTTGAAT
63 ACTATTTAAATTGGTTAGACAAACAAATTTATTTTTTAAATACCTTAGTTATTAATTTTTTGAAT
** * ** * * *
727 ATTATTAGATTTGTATTGTTTTATTTTGAATAAGCTTGTATGAACAGAATAA
128 ATTAAGAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAACAGAATAA
* * * *
779 TTGTTTTATGACAAAACAAAAAGTTATAATGATAT-AAAGTATAGAATTCTTCAAATAGTCATAA
1 TTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAA-TATATAATTGTTCAAATAGT-ATAA
843 CTATTTAAA
64 CTATTTAAA
852 CTAGTTCGGT
Statistics
Matches: 205, Mismatches: 38, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
179 5 0.02
180 67 0.33
181 123 0.60
182 10 0.05
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (179 bp):
TTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAACT
ATTTAAATTGGTTAGACAAACAAATTTATTTTTTAAATACCTTAGTTATTAATTTTTTGAATATT
AAGAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAACAGAATAA
Found at i:1126 original size:17 final size:17
Alignment explanation
Indices: 1101--1162 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
1091 ACAAACAACT
*
1101 ATTTGAATATTATTCTA
1 ATTTAAATATTATTCTA
1118 ATTTAAATAATTATT-T-
1 ATTTAAAT-ATTATTCTA
1134 -TTTATAATTATTATTCTA
1 ATTTA-AA-TATTATTCTA
*
1152 TTTTAAATATT
1 ATTTAAATATT
1163 TATGTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
15 4 0.11
16 8 0.21
17 14 0.37
18 8 0.21
19 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTAAATATTATTCTA
Found at i:1174 original size:31 final size:34
Alignment explanation
Indices: 1108--1179 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
1098 ACTATTTGAA
* *
1108 TATTATTCTAATTTAAATAATTATTTTTTATAAT
1 TATTATTCTAATTTAAATAATTATATGTTATAAT
*
1142 TATTATTCTATTTTAAAT-ATT-TATGTTA-AAT
1 TATTATTCTAATTTAAATAATTATATGTTATAAT
*
1173 TAGTATT
1 TATTATT
1180 TATAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.26
32 5 0.15
33 3 0.09
34 17 0.50
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (34 bp):
TATTATTCTAATTTAAATAATTATATGTTATAAT
Found at i:1399 original size:15 final size:14
Alignment explanation
Indices: 1371--1416 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1361 TTATTTATAT
*
1371 TTAATTCTTAAATA
1 TTAATTATTAAATA
*
1385 TTAATTAATTTAATA
1 TTAATT-ATTAAATA
*
1400 TGAATTATTAAATA
1 TTAATTATTAAATA
1414 TTA
1 TTA
1417 TCATTATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTATTAAATA
Found at i:1771 original size:22 final size:21
Alignment explanation
Indices: 1727--1772 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1717 AATAATTCTA
* *
1727 AATATTTTATTATATTAACAT
1 AATATTTGATTATAATAACAT
*
1748 AATATTTGATATATAATAATAT
1 AATATTTGAT-TATAATAACAT
1770 AAT
1 AAT
1773 TATATAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATATTTGATTATAATAACAT
Found at i:2433 original size:19 final size:22
Alignment explanation
Indices: 2395--2440 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 22
2385 TTAATATTCT
2395 ATTATATAAGAGCAAATTATAA
1 ATTATATAAGAGCAAATTATAA
2417 ATTATATAA-A-C-AATTATAA
1 ATTATATAAGAGCAAATTATAA
*
2436 TTTAT
1 ATTAT
2441 CTAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 1 0.04
22 9 0.39
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTATATAAGAGCAAATTATAA
Found at i:2533 original size:22 final size:22
Alignment explanation
Indices: 2498--2539 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2488 ATATATAACA
*
2498 ATAATAAATAAATTATTAATGT
1 ATAATAAATAAATTAATAATGT
* *
2520 ATAATAATTTAATTAATAAT
1 ATAATAAATAAATTAATAAT
2540 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATAAATAAATTAATAATGT
Found at i:2701 original size:31 final size:31
Alignment explanation
Indices: 2651--2729 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
2641 TACTATTTAT
* * * *
2651 ATAATTATATTATAAAATTATGATACATA-TA
1 ATAATAATAATATATAATTAAGATA-ATATTA
* *
2682 ATAATAATACTATATAATTAAGTTAATATTA
1 ATAATAATAATATATAATTAAGATAATATTA
2713 ATAATAATTAATATATA
1 ATAATAA-TAATATATA
2730 TATAATTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.08
31 29 0.73
32 8 0.20
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
ATAATAATAATATATAATTAAGATAATATTA
Found at i:3591 original size:180 final size:180
Alignment explanation
Indices: 3019--4007 Score: 739
Period size: 180 Copynumber: 5.4 Consensus size: 180
3009 TATTAAATCT
* * * *
3019 TTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAA
1 TTATTAATTTTTCAAATATTAATAAATTAATATTATTTTATTT-GAATAAGCTTGTATGAACAAA
* * * * *
3084 AATATTTGTTTTACGACAAAACAAAATGTCATAATGATTT-AAATAGATAATTATTCATATAGCC
65 AATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATAGCC
* * * *
3148 TTAACTATTTGAATTGGTTC-AGTAAA-TAAATTTATTTTTTAAATCTATCAA-
130 ATAACTATTTGAACTGATTCGA-TAAACT-AATTTATTTTTTAAATCTCT-AAC
* * * * * *
3199 TTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAT
1 TTATTAATTTTTCA-AATATTAATAAATTAATATTATTTTA-TTTGAATAAGCTTGTATGAACAA
* * *
3263 AAATAATTGTTTTATGACAAAACAAATGGTC---A--A-TTGAAGATATATAATTGTTCAAATAG
64 AAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAA-ATAAATAATTATTCAAATAG
* *
3322 TCATAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCTCCT-AC
128 CCATAACTATTTGAACTGATTCGATAAACTAATTTATTTTTTAAATCT-CTAAC
* * **
3375 TTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTCTGAATAGGCTTGTATGATGAAA
1 TTATTAATTTTTCAAATATTAATAAATTAATATTATTTTATT-TGAATAAGCTTGTATGAACAAA
* * *
3440 AACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGAAATAAATAATTATTTAAAT-GCC
65 AATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATAGCC
* * * * *
3504 ATAATTATTTAAACTGATTCGATAAACTGATATATGTTTTAAATCTCTAAC
130 ATAACTATTTGAACTGATTCGATAAACTAATTTATTTTTTAAATCTCTAAC
* * * * *
3555 TTATCAATTTTT-ATAATATTAATAAAGTAATATTATTTTATTTTAGATAAGCTTTTATGAACTA
1 TTATTAATTTTTCA-AATATTAATAAATTAATATTATTTTATTTGA-ATAAGCTTGTATGAACAA
* * * * * *
3619 AAATAATTGTTTTATGATAAAATATAAGGTCATAACGATTTTAAATAAATAATTGTTCAAATAGT
64 AAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATAG-
* *
3684 CCAAAATATTTGAACTTAAAATATTTGAACTTG-TTC-AGTAAA-TAGATTT-TTTTTCT-AGTT
128 CC-----A--T-AAC------TATTTGAAC-TGATTCGA-TAAACTA-ATTTATTTTT-TAAATC
*
3744 TCTTAC
175 TCTAAC
* ** * * * ****
3750 TTAATAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTCGAATAAGCATGTATGAGTTGA
1 TTATTAATTTTTCAAATATTAATAAATTAATATTATTTTATTT-GAATAAGCTTGTATGAACAAA
** * * * * * * * * *
3815 AGCAATTATTTTATGACTAAACAAAAGGTCAAAACGATTTGAACTAGATAATTGTTCTAATAGTC
65 AATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATAGCC
* * * *
3880 TTAACTATTTGAACTAATTC-AGCAAAC-ACATTTATTTTTTAAATC-CTTAC
130 ATAACTATTTGAACTGATTCGA-TAAACTA-ATTTATTTTTTAAATCTCTAAC
* * * ** * *
3930 TTATTAATGTTT-AGAATATTATTAATTTAGCAATATTTTACTCTGAATAAGCTTGT-TGAACAA
1 TTATTAATTTTTCA-AATATTAATAAATTAATATTATTTTA-TTTGAATAAGCTTGTATGAACAA
*
3993 AAATTAAATGTTTTA
64 AAA-TAATTGTTTTA
4008 GGAATATTAT
Statistics
Matches: 644, Mismatches: 117, Indels: 96
0.75 0.14 0.11
Matches are distributed among these distances:
174 2 0.00
175 6 0.01
176 134 0.21
177 8 0.01
179 16 0.02
180 297 0.46
181 29 0.05
182 7 0.01
186 3 0.00
187 2 0.00
189 1 0.00
190 2 0.00
194 1 0.00
195 114 0.18
196 20 0.03
197 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
TTATTAATTTTTCAAATATTAATAAATTAATATTATTTTATTTGAATAAGCTTGTATGAACAAAA
ATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATAGCCA
TAACTATTTGAACTGATTCGATAAACTAATTTATTTTTTAAATCTCTAAC
Found at i:3706 original size:15 final size:15
Alignment explanation
Indices: 3686--3715 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3676 CAAATAGTCC
3686 AAAATATTTGAACTT
1 AAAATATTTGAACTT
3701 AAAATATTTGAACTT
1 AAAATATTTGAACTT
3716 GTTCAGTAAA
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:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
AAAATATTTGAACTT
Found at i:5724 original size:181 final size:178
Alignment explanation
Indices: 5218--5724 Score: 580
Period size: 181 Copynumber: 2.8 Consensus size: 178
5208 TATGGCAAAT
* * *
5218 AGATTTATTTATTAAA-TCT-CTT-TTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
1 AGATTTATTTTTTAAACTCTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTT
* * * * * * ** *
5280 CAAACAAACTTATATGAACAAAAACATTTGTTTTACAACAAAACAAAAGGTCATAACGATTTGAA
66 -GAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAA
* * * * *
5345 ATAGATAATTATTCATATAGTCTTAACTGTTTGAATTGGTTCAGTAAAC
130 ATAGATAATTATTTAAATAGTCATAACTATTTGAACTGGTTCAGTAAAC
* * * *
5394 AAATTTATTTTTTAAA-TCTATCAGTTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTT
1 AGATTTATTTTTTAAACTCTA-C--TTATTAATTTTTCA-AATATTAATAAATTAGTATTATTTT
* *
5457 ATTTTGAATAAGCTTGTATGAAGAAAAATAATTGTTTTATGACAAAACCAAAGGTT-ATAACGA-
62 A-TTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAA-CAAAAGTTCATAACGAT
* * *
5520 TTGAAAATATATAATTATTTAAATAGTCATAACTATTTGAACTGATT-TGATAAAC
125 TTG-AAATAGATAATTATTTAAATAGTCATAACTATTTGAACTGGTTCAG-TAAAC
5575 AGATTTATTTTTTAAAGCTCCTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTAT
1 AGATTTATTTTTTAAA-CT-CTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTAT
* * *
5640 TATGAATAGGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTG
64 T-TGAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTG
*
5705 AAATAGATAATTGTTTAAAT
128 AAATAGATAATTATTTAAAT
5725 GGAATTATTA
Statistics
Matches: 277, Mismatches: 37, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
176 17 0.06
178 1 0.00
180 19 0.07
181 218 0.79
182 17 0.06
183 2 0.01
184 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (178 bp):
AGATTTATTTTTTAAACTCTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTT
GAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAA
TAGATAATTATTTAAATAGTCATAACTATTTGAACTGGTTCAGTAAAC
Found at i:5968 original size:28 final size:29
Alignment explanation
Indices: 5929--5994 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
5919 AAGAATTATT
*
5929 AATAAT-TTATTAA-ATAAAT-TTATGAAA
1 AATAATATTATTAATATAAATAATAT-AAA
*
5956 AATAATATTATTAATATATATAATATAAA
1 AATAATATTATTAATATAAATAATATAAA
5985 AAT-ATATTAT
1 AATAATATTAT
5995 ATATTCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 6 0.18
28 14 0.41
29 11 0.32
30 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
AATAATATTATTAATATAAATAATATAAA
Found at i:6088 original size:16 final size:17
Alignment explanation
Indices: 6056--6089 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6046 ATTTTATTAA
6056 TTATAAGTAATACTATT
1 TTATAAGTAATACTATT
*
6073 TTATAA-TAATATTATT
1 TTATAAGTAATACTATT
6089 T
1 T
6090 GAATAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATAAGTAATACTATT
Found at i:6148 original size:16 final size:17
Alignment explanation
Indices: 6107--6152 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
6097 ATCTTATACA
*
6107 TTATATTTAATAA-TAT
1 TTATAGTTAATAATTAT
**
6123 AAATAGTTAATAATTAT
1 TTATAGTTAATAATTAT
6140 TTATA-TTAATAAT
1 TTATAGTTAATAAT
6153 AATAATTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTATAGTTAATAATTAT
Found at i:6158 original size:22 final size:22
Alignment explanation
Indices: 6130--6171 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6120 TATAAATAGT
*
6130 TAATAATTATTTATATTAATAA
1 TAATAATTATCTATATTAATAA
*
6152 TAATAATTATCTATTTTAAT
1 TAATAATTATCTATATTAAT
6172 TATCGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATAATTATCTATATTAATAA
Found at i:6683 original size:181 final size:180
Alignment explanation
Indices: 6333--6947 Score: 674
Period size: 181 Copynumber: 3.4 Consensus size: 180
6323 AAAATTTTAA
* * * * * *
6333 TTATTAACA-TTCAAAAATTAATAAGCAAAAGATATGAAAAAATAAATTTGTTTACCGATCAAGT
1 TTATTAATATTTC-AAAATTAATAAGCAAGAGAT-TTAAAAAATAAATTTATTTATCGAACAAGT
* * ** * *
6397 TCAAATAGTTATGACTATTTGAATAATTATTTATTTTAAATTGTTATGACCTTTTGTTTTGACAA
64 TCAAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCAT
* * * *
6462 AAAATAATTGTTTTAGTTCATA-AACGCTTATCCAAAATAAAATAATACCAAT
129 AAAATAATTGTTTTAATTCATACAA-GCTTATTCGAAATAAAATAATACTAAT
* * * *
6514 TTCTTAATATTTCAAAATTCAATAAGCAAGAG-TTTAAAAAAATTAATTTGTTT-TCTGAACAAA
1 TTATTAATATTTCAAAATT-AATAAGCAAGAGATTT-AAAAAATAAATTTATTTATC-GAACAAG
6577 TTCAAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCA
63 TTCAAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCA
* *
6642 TAAAATAATTGTTTCAATTCATACAAGCTTATTCGAAATAAAATAATAGTAAT
128 TAAAATAATTGTTTTAATTCATACAAGCTTATTCGAAATAAAATAATACTAAT
* * * **
6695 TTATTAATATTCTAAAAATTAATAAGTAAGTGATTTAAAAAAT-AATTCTATTTATCGAATTAGT
1 TTATTAATATT-TCAAAATTAATAAGCAAGAGATTTAAAAAATAAATT-TATTTATCGAACAAGT
* * * * * * * * *
6759 TC-AATAATTATGGCTATTTCAATAATTATCTTTTTGAAATCAATATTAACTTTTGTTTGGTCAT
64 TCAAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCAT
* * *
6823 ATAACAATTGTTTTTAA-TCATACAAGC-T-TTAG-AATAAAATAATACTAAT
129 AAAATAATTG-TTTTAATTCATACAAGCTTATTCGAAATAAAATAATACTAAT
* * * **
6872 TTATTAATCTTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATCGAACCCGTT
1 TTATTAATATTTCAAAA-TTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTT
6937 CAAATAGTTAT
65 CAAATAGTTAT
6948 TTAAAAAATA
Statistics
Matches: 371, Mismatches: 50, Indels: 29
0.82 0.11 0.06
Matches are distributed among these distances:
176 5 0.01
177 64 0.17
178 15 0.04
179 1 0.00
180 77 0.21
181 181 0.49
182 28 0.08
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (180 bp):
TTATTAATATTTCAAAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTC
AAATAGTTATGACTATTTGAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAA
AATAATTGTTTTAATTCATACAAGCTTATTCGAAATAAAATAATACTAAT
Found at i:7456 original size:23 final size:25
Alignment explanation
Indices: 7426--7475 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
7416 TTCATATAAT
*
7426 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
7449 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
7474 TA
1 TA
7476 TTTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:7602 original size:17 final size:17
Alignment explanation
Indices: 7577--7615 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
7567 TTTAATTATT
*
7577 TTATTATAAATATATAA
1 TTATAATAAATATATAA
7594 TTATAATAAATATATAA
1 TTATAATAAATATATAA
7611 -TATAA
1 TTATAA
7616 CCACTATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAATAAATATATAA
Found at i:8440 original size:13 final size:13
Alignment explanation
Indices: 8392--8437 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
8382 TATCTATTAC
*
8392 TTAT-TAATATTA
1 TTATATAATATAA
*
8404 TTATAATTATATAA
1 TTAT-ATAATATAA
8418 TTATATAATATAA
1 TTATATAATATAA
8431 TTA-ATAA
1 TTATATAA
8438 ATACTAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 8 0.28
13 11 0.38
14 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATAATATAA
Found at i:9305 original size:23 final size:22
Alignment explanation
Indices: 9260--9314 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
9250 AAATATTTAA
*
9260 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
9282 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
9305 TATAA-TAATA
1 TATAATTAATA
9315 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:9408 original size:27 final size:26
Alignment explanation
Indices: 9358--9420 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
9348 ATCGTATATT
* * *
9358 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
9385 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
9411 TATAATAATT
1 T-TAATAATT
9421 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:9416 original size:16 final size:15
Alignment explanation
Indices: 9395--9429 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9385 TTAATAATTT
9395 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
9411 TATAATAATTAAATG
1 TATAATAATCAAATG
9426 TATA
1 TATA
9430 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:9596 original size:23 final size:24
Alignment explanation
Indices: 9561--9605 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
9551 AATAATATAA
*
9561 TTTAAATATTTAAAATTTAAAATT
1 TTTAAATATTTAAAATTCAAAATT
* *
9585 TTTAATTA-TTAACATTCAAAA
1 TTTAAATATTTAAAATTCAAAA
9606 ATTAATAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAATATTTAAAATTCAAAATT
Found at i:9741 original size:15 final size:14
Alignment explanation
Indices: 9720--9805 Score: 67
Period size: 13 Copynumber: 6.4 Consensus size: 14
9710 GTCAAAAACT
9720 TATAATTATAATTA
1 TATAATTATAATTA
9734 TCATAATTATAATT-
1 T-ATAATTATAATTA
9748 TATAATTAT-ATTA
1 TATAATTATAATTA
* * * *
9761 TGTAGTT-TTATAA
1 TATAATTATAATTA
9774 TATAATTTATAA-TA
1 TATAA-TTATAATTA
9788 TAATAA-TA-AATTA
1 T-ATAATTATAATTA
9801 TATAA
1 TATAA
9806 AATGATTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
12 10 0.17
13 24 0.41
14 6 0.10
15 18 0.31
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (14 bp):
TATAATTATAATTA
Found at i:9784 original size:12 final size:12
Alignment explanation
Indices: 9767--9791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9757 ATTATGTAGT
9767 TTTATAATATAA
1 TTTATAATATAA
9779 TTTATAATATAA
1 TTTATAATATAA
9791 T
1 T
9792 AATAAATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTATAATATAA
Found at i:10807 original size:17 final size:18
Alignment explanation
Indices: 10778--10818 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
10768 TCAAAGATAA
10778 AATATTAATTAATTAAT-T
1 AATATTAATTAATT-ATCT
10796 AATATT-ATTAATTATCT
1 AATATTAATTAATTATCT
10813 AATATT
1 AATATT
10819 TCATAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 14 0.64
18 6 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATTAATTAATTATCT
Found at i:11472 original size:16 final size:17
Alignment explanation
Indices: 11451--11485 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11441 ATTTAATAAC
11451 TATATTAAT-TTTAAAT
1 TATATTAATATTTAAAT
11467 TATATTAATAATTTAAAT
1 TATATTAAT-ATTTAAAT
11485 T
1 T
11486 TAAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTAATATTTAAAT
Found at i:11498 original size:25 final size:23
Alignment explanation
Indices: 11455--11505 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
11445 AATAACTATA
* *
11455 TTAATTTTAAATTATATTAATAAT
1 TTAAATTTAAATTAAATTAAT-AT
11479 TTAAATTTAAATATAAATTAATAT
1 TTAAATTTAAAT-TAAATTAATAT
11503 TTA
1 TTA
11506 TATAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAATTTAAATTAAATTAATAT
Found at i:12111 original size:11 final size:11
Alignment explanation
Indices: 12097--12168 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 11
12087 TATAACCTTG
12097 TTATAAATTAA
1 TTATAAATTAA
12108 TTATAAAATTAA
1 TTAT-AAATTAA
*
12120 -TATAAAATAA
1 TTATAAATTAA
*
12130 TTAT-AATTAT
1 TTATAAATTAA
12140 TTATTAAA-T-A
1 TTA-TAAATTAA
*
12150 TTATATATTTAA
1 TTATA-AATTAA
12162 TTATAAA
1 TTATAAA
12169 ATTATTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
9 2 0.04
10 17 0.35
11 14 0.29
12 15 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATAAATTAA
Found at i:12156 original size:22 final size:20
Alignment explanation
Indices: 12106--12173 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 20
12096 GTTATAAATT
*
12106 AATTATAAAATTAA-TATAA
1 AATTATATAATTAATTATAA
* *
12125 AATAATTATAATTATTTATTAA
1 AATTA-TATAATTAATTA-TAA
*
12147 ATATTATATATTTAATTATAA
1 A-ATTATATAATTAATTATAA
12168 AATTAT
1 AATTAT
12174 TTGTTTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 4 0.10
20 12 0.31
21 6 0.15
22 14 0.36
23 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTATATAATTAATTATAA
Found at i:12552 original size:17 final size:17
Alignment explanation
Indices: 12513--12559 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
12503 CAATATTACT
12513 ATTAATTTA-TT-AATA
1 ATTAATTTATTTAAATA
12528 ATCATAATTTATTTAAATA
1 AT--TAATTTATTTAAATA
*
12547 ATTAATTAATTTA
1 ATTAATTTATTTA
12560 TAATTCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
17 17 0.63
18 2 0.07
19 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATTTATTTAAATA
Found at i:12556 original size:21 final size:19
Alignment explanation
Indices: 12513--12560 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
12503 CAATATTACT
*
12513 ATTAATTTA-TTAATAATC
1 ATTAATTTATTTAATAATA
12531 A-TAATTTATTTAAATAATTA
1 ATTAATTTATTT-AATAA-TA
12551 ATTAATTTAT
1 ATTAATTTAT
12561 AATTCAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 5 0.20
20 2 0.08
21 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTAATTTATTTAATAATA
Found at i:13736 original size:29 final size:31
Alignment explanation
Indices: 13686--13745 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
13676 GTTAAATAAT
13686 AATTATGATTATTTGATTAATAATCAATTTA
1 AATTATGATTATTTGATTAATAATCAATTTA
* * *
13717 AATTATTA-TATTTG-TTAATATTTAATTTA
1 AATTATGATTATTTGATTAATAATCAATTTA
13746 TTACTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 6 0.23
31 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
AATTATGATTATTTGATTAATAATCAATTTA
Found at i:13847 original size:17 final size:17
Alignment explanation
Indices: 13825--13858 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13815 TTATATTATA
13825 TAATTATA-ATATTAATT
1 TAATTATACAT-TTAATT
13842 TAATTATACATTTAATT
1 TAATTATACATTTAATT
13859 AGTATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTATACATTTAATT
Found at i:14042 original size:12 final size:12
Alignment explanation
Indices: 13989--14049 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
13979 ATTATAATTA
13989 TTATAATATT-AT
1 TTATAA-ATTAAT
*
14001 CTATAATATTAAT
1 TTATAA-ATTAAT
*
14014 TTATATTAATTATT
1 TTATA--AATTAAT
14028 TTATAAATTAAT
1 TTATAAATTAAT
14040 TTAATAAATT
1 TT-ATAAATT
14050 TGTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 17 0.41
13 13 0.32
14 10 0.24
15 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATAAATTAAT
Found at i:14046 original size:13 final size:13
Alignment explanation
Indices: 14003--14049 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
13993 AATATTATCT
14003 ATAATATTAATTTA
1 ATAA-ATTAATTTA
* *
14017 TATTAATT-ATTTT
1 -ATAAATTAATTTA
14030 ATAAATTAATTTA
1 ATAAATTAATTTA
14043 ATAAATT
1 ATAAATT
14050 TGTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 3 0.11
15 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATTAATTTA
Found at i:14255 original size:17 final size:17
Alignment explanation
Indices: 14227--14271 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
14217 TTCAACTGTT
* *
14227 TAATAAAATTAATATTAC
1 TAATATAATTAA-ATTAA
14245 T-ATATAATTAAATTAA
1 TAATATAATTAAATTAA
14261 TAATATAATTA
1 TAATATAATTA
14272 TATAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 18 0.75
18 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:14312 original size:13 final size:13
Alignment explanation
Indices: 14294--14318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14284 TATATTAGAA
14294 TAAATATTTAATT
1 TAAATATTTAATT
14307 TAAATATTTAAT
1 TAAATATTTAAT
14319 ATATAATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTAATT
Found at i:14518 original size:16 final size:16
Alignment explanation
Indices: 14472--14518 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
14462 ATTGAATTAT
*
14472 CAATAAAATTAATAAA
1 CAATAATATTAATAAA
* *
14488 CTATAAT-TAATATAAA
1 CAATAATATTA-ATAAA
14504 CAATAATATTAATAA
1 CAATAATATTAATAA
14519 TAAATTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
CAATAATATTAATAAA
Found at i:14869 original size:181 final size:182
Alignment explanation
Indices: 14563--14897 Score: 403
Period size: 181 Copynumber: 1.8 Consensus size: 182
14553 TAAGTAAGAG
* * ** * * * *
14563 ATTTGAACAGTTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTA
1 ATTTGAACAATTATATATTTCAAATCATTATAACCATTTGTTTTGCCATAAAACAATTATTTATA
* *
14628 TTCATACAAGCTTATTTCAAATAAAATAAGATAAATTTACTAATATTCCAAAGATTAATAAGT-A
66 TTCATACAAGCTTATTTCAAATAAAATAAGATAAATCTACTAATATTCCAAAGATTAATAACTGA
*
14692 -AAATTATATAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
131 TAAATT-TAAAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
*
14744 ATTTGAACAATTATATATTTTC-AATCATTATAACCATTTGTTTTGTCATAAAACAATTATTTAT
1 ATTTGAACAATTATATA-TTTCAAATCATTATAACCATTTGTTTTGCCATAAAACAATTATTTAT
* * * * ** *
14808 CTTCATATAAGCTTA-TTCAAAATAAAATAATACT-AATCTAGTAATATTATGAAA-TTTAATAA
65 ATTCATACAAGCTTATTTC-AAATAAAATAAGA-TAAATCTACTAATATT-CCAAAGATTAATAA
*
14870 CTGATAGATTTAAAAAATAAATTTATTT
127 CTGATAAATTTAAAAAATAAATTTATTT
14898 ATCAAACCAA
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
180 3 0.02
181 95 0.74
182 26 0.20
183 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.41
Consensus pattern (182 bp):
ATTTGAACAATTATATATTTCAAATCATTATAACCATTTGTTTTGCCATAAAACAATTATTTATA
TTCATACAAGCTTATTTCAAATAAAATAAGATAAATCTACTAATATTCCAAAGATTAATAACTGA
TAAATTTAAAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
Found at i:15353 original size:21 final size:21
Alignment explanation
Indices: 15327--15391 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 21
15317 ATAAGTAATA
15327 AATTATATAATAATTTAATTT
1 AATTATATAATAATTTAATTT
* **
15348 AATTATTATATTAATTATTAAAAT
1 AATTA-TATAATAA-T-TTAATTT
15372 AATTGATATAATAA-TTAATT
1 AATT-ATATAATAATTTAATT
15392 ATTCATAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 9 0.26
22 7 0.21
23 1 0.03
24 16 0.47
25 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTATATAATAATTTAATTT
Found at i:16060 original size:17 final size:18
Alignment explanation
Indices: 16019--16063 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
16009 AAATTAAAAA
16019 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
16035 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
16052 TACTTAATATTA
1 TACTTAATATTA
16064 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:16079 original size:21 final size:21
Alignment explanation
Indices: 16055--16109 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
16045 TAATAATTAC
16055 TTAATATTATTAACATAATGA
1 TTAATATTATTAACATAATGA
** *
16076 TTAATATTATTAGGATAATTA
1 TTAATATTATTAACATAATGA
16097 TATAATATTATTA
1 T-TAATATTATTA
16110 TATATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
TTAATATTATTAACATAATGA
Found at i:16171 original size:33 final size:30
Alignment explanation
Indices: 16092--16172 Score: 72
Period size: 33 Copynumber: 2.4 Consensus size: 30
16082 TTATTAGGAT
* *
16092 AATTATATAATATTATTATATATTAAAATTTA
1 AATTATAT--TATTATAATATACTAAAATTTA
16124 AATTAAATATTTATTATAATATACTAAATATTATAA
1 AATT--ATA-TTATTATAATATACTAAA-ATT-T-A
16160 AATTATATTATTA
1 AATTATATTATTA
16173 ATTTAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
32 4 0.10
33 21 0.51
34 9 0.22
35 2 0.05
36 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTATATTATTATAATATACTAAAATTTA
Found at i:16299 original size:16 final size:16
Alignment explanation
Indices: 16278--16311 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16268 AATTCTATTA
16278 TATTAATA-ATATAAAT
1 TATTAATATA-ATAAAT
16294 TATTAATATAATAAAT
1 TATTAATATAATAAAT
16310 TA
1 TA
16312 AGTATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTAATATAATAAAT
Found at i:16323 original size:24 final size:25
Alignment explanation
Indices: 16277--16352 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 25
16267 AAATTCTATT
16277 ATATTAAT-AATATAA--ATTA-TTA
1 ATATTAATAAAT-TAAGTATTATTTA
16299 ATA-TAATAAATTAAGTATTATTTAA
1 ATATTAATAAATTAAGTATTATTT-A
16324 TATATTAATAAATTAAGTATTTATTTA
1 -ATATTAATAAATTAAGTA-TTATTTA
16351 AT
1 AT
16353 TAAATATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
21 7 0.15
22 6 0.13
23 4 0.09
24 2 0.04
25 1 0.02
26 5 0.11
27 15 0.33
28 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
ATATTAATAAATTAAGTATTATTTA
Found at i:16353 original size:16 final size:15
Alignment explanation
Indices: 16307--16362 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 15
16297 TAATATAATA
16307 AATTAAGTATTATTT
1 AATTAAGTATTATTT
* *
16322 AA-T-A-TATTAATA
1 AATTAAGTATTATTT
16334 AATTAAGTATTTATTT
1 AATTAAGTA-TTATTT
*
16350 AATTAAATATTAT
1 AATTAAGTATTAT
16363 AATTAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
12 8 0.25
13 2 0.06
14 2 0.06
15 8 0.25
16 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
AATTAAGTATTATTT
Found at i:17116 original size:26 final size:24
Alignment explanation
Indices: 17043--17117 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 24
17033 AATATTAAAG
17043 TTAATTAT-AAATATAATTATAA-A
1 TTAATT-TCAAATATAATTATAATA
* *
17066 -TAATTTCAAATTTTAATTATTATA
1 TTAATTTCAAA-TATAATTATAATA
*
17090 TTCATTGTCAAATATAATTAATAATA
1 TTAATT-TCAAATATAATT-ATAATA
17116 TT
1 TT
17118 TATAATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 8 0.20
23 9 0.22
24 1 0.02
25 10 0.24
26 12 0.29
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (24 bp):
TTAATTTCAAATATAATTATAATA
Found at i:17657 original size:8 final size:8
Alignment explanation
Indices: 17644--17668 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17634 TGTTTGTTTA
17644 TTAATTAT
1 TTAATTAT
17652 TTAATTAT
1 TTAATTAT
17660 TTAATTAT
1 TTAATTAT
17668 T
1 T
17669 ATTGATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTAATTAT
Found at i:17812 original size:16 final size:16
Alignment explanation
Indices: 17787--17823 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17777 ATTAAACTAC
17787 TAAT-TAATATTATTA
1 TAATATAATATTATTA
*
17802 TAATATAATATTTTTA
1 TAATATAATATTATTA
17818 TAATAT
1 TAATAT
17824 TAAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATATAATATTATTA
Found at i:18250 original size:13 final size:13
Alignment explanation
Indices: 18232--18256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18222 AAACTATATT
18232 TTCAAAATAATAA
1 TTCAAAATAATAA
18245 TTCAAAATAATA
1 TTCAAAATAATA
18257 TCATTATAAT
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCAAAATAATAA
Found at i:20441 original size:6 final size:6
Alignment explanation
Indices: 20430--20472 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
20420 AATTCATTGT
* * *
20430 TTATAA TTATAA TTAATCA TTATAA TTATAA TTTTAA ATATAA
1 TTATAA TTATAA TT-ATAA TTATAA TTATAA TTATAA TTATAA
20473 CATTTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
TTATAA
Found at i:21870 original size:21 final size:22
Alignment explanation
Indices: 21830--21870 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21820 GTAATAAGTA
* *
21830 AAAATCATTTATATTAATTATT
1 AAAATCATTAATAATAATTATT
21852 AAAAT-ATTAATAATAATTA
1 AAAATCATTAATAATAATTA
21871 ATACTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATCATTAATAATAATTATT
Found at i:21952 original size:24 final size:23
Alignment explanation
Indices: 21916--21973 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
21906 TAATTAATAG
*
21916 TTATTAAAT-TATAGTATATATTTAA
1 TTATAAAATATATAGTA-A-ATTT-A
21941 TTATAAAATATATAGTAAATTTA
1 TTATAAAATATATAGTAAATTTA
*
21964 TTATTAAATA
1 TTATAAAATA
21974 AATAATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.33
24 4 0.13
25 9 0.30
26 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
TTATAAAATATATAGTAAATTTA
Found at i:22014 original size:15 final size:16
Alignment explanation
Indices: 21987--22054 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 16
21977 AATTTATTTC
21987 AATTAGTTATTATAAT
1 AATTAGTTATTATAAT
*
22003 AATTAG-TATTATTAT
1 AATTAGTTATTATAAT
22018 AACTTA-TTA--ACTAAT
1 AA-TTAGTTATTA-TAAT
*
22033 AATTA-TTAATA-AAT
1 AATTAGTTATTATAAT
22047 AATT-GTTA
1 AATTAGTTA
22055 ATAGATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
14 17 0.39
15 15 0.34
16 12 0.27
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTAGTTATTATAAT
Found at i:22417 original size:27 final size:27
Alignment explanation
Indices: 22369--22437 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
22359 CATTATAAAC
*
22369 ATATTTTTTTATAACTAAAAAT-ATAAT
1 ATATTTTATTATAACTAAAAATAAT-AT
*
22396 ATATTTTAATTATAA-TTAAAATAATAT
1 ATATTTT-ATTATAACTAAAAATAATAT
*
22423 ATATTATTACTATAA
1 ATATT-TTATTATAA
22438 TTGTTTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
ATATTTTATTATAACTAAAAATAATAT
Found at i:22533 original size:15 final size:14
Alignment explanation
Indices: 22510--22606 Score: 55
Period size: 12 Copynumber: 7.4 Consensus size: 14
22500 ATTATAATTC
22510 ATATATTATATAATA
1 ATATATTAT-TAATA
*
22525 ATATGTTATTAAT-
1 ATATATTATTAATA
* *
22538 -TGTATTATTAATT
1 ATATATTATTAATA
* *
22551 ATA-ATTA-TATTT
1 ATATATTATTAATA
* *
22563 ATAAACTATTAAT-
1 ATATATTATTAATA
*
22576 -TATATTATCAATA
1 ATATATTATTAATA
22589 AT-TATTATTAATA
1 ATATATTATTAATA
*
22602 CTATA
1 ATATA
22607 ATATATTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
12 26 0.41
13 18 0.29
14 11 0.17
15 8 0.13
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (14 bp):
ATATATTATTAATA
Done.