Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168086.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_333, 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: 34188
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Found at i:337 original size:19 final size:20
Alignment explanation
Indices: 309--358 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
299 TAGTACTTAA
* *
309 ATTAAATATTAT-TAATATT
1 ATTAATTATTATATAATAGT
*
328 ATTAATTATTATATAGTAGT
1 ATTAATTATTATATAATAGT
348 -TTAATTATTAT
1 ATTAATTATTAT
359 CTTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTAATTATTATATAATAGT
Found at i:859 original size:181 final size:180
Alignment explanation
Indices: 517--847 Score: 407
Period size: 181 Copynumber: 1.8 Consensus size: 180
507 AATTCAATTC
* * * ** *
517 ATAACAATTTGAATTAGAGAATTGTTCATATAGTTTTAACTATTTAAACTAGTTTGGTAAACAAA
1 ATAACAATTTGAAGTAGAGAACTGTTCAAATAGTCATAACTATTTAAACTAGTTCGGTAAACAAA
* * * * *
582 TTTATTTTTTAAATCACTTAGTTATTAATTTTTGGAATATTATTAGATTAGTATTGTTTTATTTC
66 TTAATTTTTTAAAT-ACTTAGTTATTAATTTTTGAAAGATTATAAGATTAGTATTATTTTATTTC
647 GAATAAGCTTGTATGAACAAAAATAATTATTTTATGGCATAACAAAAGGCT
130 GAATAAGCTTGTATGAACAAAAATAATTATTTTATGGCATAACAAAAGGCT
* * * * * *
698 ATAACGATTTGAAGTATAGAACTGTTCAAATAGTCATAACTATTTGAACTGGTTCGGTAAATAGA
1 ATAACAATTTGAAGTAGAGAACTGTTCAAATAGTCATAACTATTTAAACTAGTTCGGTAAACAAA
* * *
763 TTAATTTTTTAAAT-C-TCG-TATTAATTTTTGAAAGATTAATAAAGTGTTATTATTATTTTATT
66 TTAATTTTTTAAATACTTAGTTATTAATTTTTGAAAGATT-AT-AAG-ATTAGTATTATTTTATT
* *
825 TTGAATAAGCTTGTATGATCAAA
128 TCGAATAAGCTTGTATGAACAAA
848 TACTTATTAT
Statistics
Matches: 125, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
177 17 0.14
178 4 0.03
179 3 0.02
180 35 0.28
181 66 0.53
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (180 bp):
ATAACAATTTGAAGTAGAGAACTGTTCAAATAGTCATAACTATTTAAACTAGTTCGGTAAACAAA
TTAATTTTTTAAATACTTAGTTATTAATTTTTGAAAGATTATAAGATTAGTATTATTTTATTTCG
AATAAGCTTGTATGAACAAAAATAATTATTTTATGGCATAACAAAAGGCT
Found at i:1317 original size:180 final size:179
Alignment explanation
Indices: 856--1558 Score: 544
Period size: 180 Copynumber: 3.9 Consensus size: 179
846 AATACTTATT
* * * * * * * * *
856 ATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGGCAAACACATTTATT
1 ATTTGAAATAAATAATTATTCAAATAATCATAACTATTTAAACTTGCTCGGTAAACAAATTTA-T
* * * * * * *
921 TTTTTAAATC-T---CTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTGAATT-GAATA
65 TTTTAAAATCTTCAACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * * *
981 AGCTAGTATGAA-AAGAAACACTTGTTTTATGACAAAA-TAAAGATCATAAAG
130 A-ATTGTATGAACAA-AAATA-TTGTTTTACGACAAAACAAAAGATCATAATG
* ** * * * * * * * * *
1032 ATTTGAGATAGTTAATTGTTCAAATAGTCATAAATATTTGAAGTAT-TTTGGTAAATAAATTT-G
1 ATTTGAAATAAATAATTATTCAAATAATCATAACTATTTAAACT-TGCTCGGTAAACAAATTTAT
* * * * * * *
1095 TTTT-AAATC-T---GTTATTAATTATCAAAATATTAATAGATTAGTATTATTATA-TTCTGAAT
65 TTTTAAAATCTTCAACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTC-AAAT
* *
1154 -AATTGTACATGAACAAAAATATTGTTTTACGACAAAACAAAATATCATTATG
129 AAATTGT--ATGAACAAAAATATTGTTTTACGACAAAACAAAAGATCATAATG
* * *
1206 ATTTGAAATAGATAA-TAGTTCAAATAAAT-ATGACTATTTAAACTTGTTCGGTAAACAAATTTA
1 ATTTGAAATAAATAATTA-TTCAAAT-AATCATAACTATTTAAACTTGCTCGGTAAACAAATTTA
*
1269 TTTTTTAAATC-TCAAACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAA
64 TTTTTAAAATCTTC-AACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAA
* * ** *
1333 TAAAATTGTATGAATAGAAATATTGTTTTATTACAAAACAAAAGATCGTAATG
128 T-AAATTGTATGAACAAAAATATTGTTTTACGACAAAACAAAAGATCATAATG
* * * *
1386 ATTTGAAATAAATAATTATTCCAATAATCATAATTATTTGAACTTGCTCGGTAAACAGATTTATT
1 ATTTGAAATAAATAATTATTCAAATAATCATAACTATTTAAACTTGCTCGGTAAACAAATTTATT
* * * *
1451 TTTAAAATCTTCTACTTATTAATTTTTGGAATGTTAATAAATTAGTATTATTTTATTTCAAAAAA
66 TTTAAAATCTTCAACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATAA
* * * * * *
1516 ACTTTTTATGAATAGAAACAGTTGGTTTATGACAAAACAAAAG
131 A--TTGTATGAACAAAAATA-TTGTTTTACGACAAAACAAAAG
1559 GGACATTTTA
Statistics
Matches: 430, Mismatches: 72, Indels: 44
0.79 0.13 0.08
Matches are distributed among these distances:
172 5 0.01
173 55 0.13
174 72 0.17
175 8 0.02
176 55 0.13
179 6 0.01
180 181 0.42
181 22 0.05
182 26 0.06
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (179 bp):
ATTTGAAATAAATAATTATTCAAATAATCATAACTATTTAAACTTGCTCGGTAAACAAATTTATT
TTTAAAATCTTCAACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATAA
ATTGTATGAACAAAAATATTGTTTTACGACAAAACAAAAGATCATAATG
Found at i:1930 original size:180 final size:177
Alignment explanation
Indices: 1737--2210 Score: 483
Period size: 180 Copynumber: 2.7 Consensus size: 177
1727 ACATTTCAAT
* * * *
1737 AATTATTTATTTCAAATCATTATAACCTTTTATTTTATCATCAAACAATTGGTTCTGTTCATACT
1 AATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATTGGTTCTGTTCATACA
** *
1802 ATTTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAACTTAATAACCAAGA-AATTA
65 AGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAACCAAGAGAATTA
*
1866 AAAAATAAATCTAATTGT-C-GAACTAGTTCAAATAGTTAAGACTTTATAA-
130 AAAAATAAAT-TAATT-TACTGAACTAGTTCAAATAGTTAA-A-ATTATAAG
** * * * * *
1915 ATGATTATCTATTTCAAATTGTTATGACCTTTTCTTTCAACGTAAAACAATT-GTTTTGTTCGTA
1 A--ATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATTGGTTCTGTTCATA
* * ** *
1979 CAAGCTTATTTGGATTAAAATAATACTAATTTAATAATATTTT-AATAATTAATAAGTAAGAGAT
63 CAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAA-AATTAATAACCAAGAGAA
** * * *
2043 TTAAAAAATAAATTTGTTTACTGAATTAGTTCAAATGGTTAAAATTATTAG
127 TTAAAAAATAAATTAATTTACTGAACTAGTTCAAATAGTTAAAATTATAAG
* * * * * *
2094 AATTATCTATTTCATATCATTTTGATCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCATACA
1 AATTATCTATTTCAAATCATTATGACCTTTTTTTTA-TCATAAAACAATTGGTTCTGTTCATACA
* * * * * *
2159 AGCTTATTCAGAATAAATTAATACTAATTTATTAACATTTGGAAATTTAATA
65 AGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATA
2211 TGAAATAGAT
Statistics
Matches: 239, Mismatches: 47, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
176 3 0.01
177 36 0.15
178 60 0.25
179 68 0.28
180 72 0.30
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (177 bp):
AATTATCTATTTCAAATCATTATGACCTTTTTTTTATCATAAAACAATTGGTTCTGTTCATACAA
GCTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAACCAAGAGAATTAA
AAAATAAATTAATTTACTGAACTAGTTCAAATAGTTAAAATTATAAG
Found at i:2841 original size:181 final size:179
Alignment explanation
Indices: 2377--2844 Score: 485
Period size: 181 Copynumber: 2.6 Consensus size: 179
2367 TTGTTTTATA
* * * * *
2377 TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATCTTTCAAAAATTAATAAGTAAG
1 TCATACAAGCTTATTTAGAATAAAATAA-AATAATTTATTAATATTTTAAAAATTAATAAGTAAG
* * * * ** * *
2442 AGATTTAAAAAATAAATCTATTTACAAAACCAATTCTAATAGTTATGACTATTAGAGCAATTGTA
65 AGATTTAAAAAATAAATTTATTTACCAAA-CAGTTCAAATAGTTAAAACTATTAGAACAATTATA
** * * *
2507 TACTTCAAATTGTTATAACCTTTTGTTGTGTCATAAAATAATTATTTCTAT
129 TACTTCAAATCATTATAACATTTTGTTGTGTCATAAAACAATTATTTCAAT
* * * * * *
2558 TCATAAAAGCTTATTT-GAAATAAAATAAAACTAATCTAATAATATTCTGAAAATTAATAACTAA
1 TCATACAAGCTTATTTAG-AATAAAATAAAA-TAATTTATTAATATTTTAAAAATTAATAAGTAA
* * * * *
2622 GAGATTTAAAAAATAAAATTGTTTATCGAACTAGTTCAAATAGTTAAAACTA-TATGAATAATTA
64 GAGATTTAAAAAATAAATTTATTTACCAAAC-AGTTCAAATAGTTAAAACTATTA-GAACAATTA
* * * *
2686 TCTATTTCAAATCATTATAACATTTTGTTTTGTCATCAAACAA-TATTTTCAAT
127 TATACTTCAAATCATTATAACATTTTGTTGTGTCATAAAACAATTA-TTTCAAT
* *
2739 TCATACTAGCTTATTTAGAATAAAATAAAATAAATTTATTAAAATTTTAAAAATTAATAAGTAAG
1 TCATACAAGCTTATTTAGAATAAAATAAAAT-AATTTATTAATATTTTAAAAATTAATAAGTAAG
* *
2804 AGGA-TTAAAAAATAATTTTATTTACCTAATCAGTTCAAATA
65 A-GATTTAAAAAATAAATTTATTTACC-AAACAGTTCAAATA
2845 ATTGTGACTA
Statistics
Matches: 231, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
180 7 0.03
181 219 0.95
182 5 0.02
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (179 bp):
TCATACAAGCTTATTTAGAATAAAATAAAATAATTTATTAATATTTTAAAAATTAATAAGTAAGA
GATTTAAAAAATAAATTTATTTACCAAACAGTTCAAATAGTTAAAACTATTAGAACAATTATATA
CTTCAAATCATTATAACATTTTGTTGTGTCATAAAACAATTATTTCAAT
Found at i:3762 original size:12 final size:12
Alignment explanation
Indices: 3745--3769 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3735 ATATTATAAT
3745 ATAATTTAAATA
1 ATAATTTAAATA
3757 ATAATTTAAATA
1 ATAATTTAAATA
3769 A
1 A
3770 GCTATAATAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTTAAATA
Found at i:4060 original size:19 final size:19
Alignment explanation
Indices: 3994--4060 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
3984 TATAGTATTA
* *
3994 ATAA-TAATTATTGATAAT
1 ATAATTAATAATTAATAAT
* *
4012 ATAATTAATAGTTTATAAAT
1 ATAATTAATAATTAAT-AAT
4032 ATAATT-ATAATTAATAAT
1 ATAATTAATAATTAATAAT
*
4050 ACAATTAATAA
1 ATAATTAATAA
4061 CATATTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 12 0.30
19 19 0.47
20 9 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (19 bp):
ATAATTAATAATTAATAAT
Found at i:4184 original size:27 final size:27
Alignment explanation
Indices: 4154--4223 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
4144 GAATTAAAAC
4154 AATTATAGTAATAATATATATTAT-TTT
1 AATTATA-TAATAATATATATTATATTT
* *
4181 AATTATA-ATTAAAATATATTATATTT
1 AATTATATAATAATATATATTATATTT
*
4207 AAATATA-ATATAATATA
1 AATTATATA-ATAATATA
4224 CATGTCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.36
26 10 0.28
27 13 0.36
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
AATTATATAATAATATATATTATATTT
Found at i:4201 original size:16 final size:16
Alignment explanation
Indices: 4182--4220 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4172 TATTATTTTA
4182 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
4198 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
4213 AATATAAT
1 ATTATAAT
4221 ATACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:4221 original size:25 final size:25
Alignment explanation
Indices: 4169--4223 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
4159 TAGTAATAAT
*
4169 ATATATTATTTTAATTATAATTAAA
1 ATATATTATTTTAAATATAATTAAA
*
4194 ATATATTATATTTAAATATAA-TATA
1 ATATATTAT-TTTAAATATAATTAAA
4219 ATATA
1 ATATA
4224 CATGTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTATTTTAAATATAATTAAA
Found at i:4339 original size:36 final size:36
Alignment explanation
Indices: 4296--4366 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
4286 TCATAGTCAT
4296 TTATTTATATAACAATTATATTAATA-ATAATATTAA
1 TTATTTATATAACAATTATA-TAATATATAATATTAA
* *
4332 TTATTTATATTATAATTATATAATATTATAATATT
1 TTATTTATATAACAATTATATAATA-TATAATATT
4367 TACTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 5 0.16
36 18 0.58
37 8 0.26
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (36 bp):
TTATTTATATAACAATTATATAATATATAATATTAA
Found at i:4359 original size:16 final size:16
Alignment explanation
Indices: 4300--4363 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
4290 AGTCATTTAT
*
4300 TTATATAACAATTAT-A
1 TTATATAA-TATTATAA
*
4316 TTA-ATAATAATATTAA
1 TTATATAATATTA-TAA
*
4332 TTAT-TTATATTATAA
1 TTATATAATATTATAA
4347 TTATATAATATTATAA
1 TTATATAATATTATAA
4363 T
1 T
4364 ATTTACTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.08
15 12 0.31
16 24 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATATAATATTATAA
Found at i:4359 original size:25 final size:25
Alignment explanation
Indices: 4311--4360 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4301 TATATAACAA
*
4311 TTATATTAATAATAATATTAATTAT
1 TTATATTAATAATAATATAAATTAT
*
4336 TTATATT-ATAATTATATAATATTAT
1 TTATATTAATAATAATATAA-ATTAT
4361 AATATTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATATTAATAATAATATAAATTAT
Found at i:4388 original size:15 final size:15
Alignment explanation
Indices: 4325--4390 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
4315 ATTAATAATA
4325 ATATTAATTATTTAT
1 ATATTAATTATTTAT
*
4340 AT-TATAATTATATA-
1 ATAT-TAATTATTTAT
*
4354 ATATTATAATATTTACT
1 ATATTA-ATTATTTA-T
4371 ATATTAATTATTTAT
1 ATATTAATTATTTAT
4386 ATATT
1 ATATT
4391 GTTAATAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.12
15 24 0.57
16 7 0.17
17 6 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTAATTATTTAT
Found at i:6053 original size:30 final size:31
Alignment explanation
Indices: 6005--6067 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
5995 TAATTTAAAA
6005 TGATAATTTTAAAATAATTAATAA-ATTATTAT
1 TGATAATTTT-AAATAATT-ATAATATTATTAT
*
6037 TGATAATTTT-AATAATTATAATATTTTTAT
1 TGATAATTTTAAATAATTATAATATTATTAT
6067 T
1 T
6068 AAAATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 15 0.52
32 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
TGATAATTTTAAATAATTATAATATTATTAT
Found at i:6549 original size:24 final size:23
Alignment explanation
Indices: 6467--6567 Score: 66
Period size: 24 Copynumber: 4.3 Consensus size: 23
6457 TGTAATATAT
* *
6467 ATTAATTTTAAATATTAAAT-CTA
1 ATTAATTTTATA-ATTAAATAATA
* *
6490 ATTTATTTATATAATTAAA-ATTAA
1 ATTAATTT-TATAATTAAATAAT-A
*
6514 AGTAATTGTTATAATTAAATAATA
1 ATTAATT-TTATAATTAAATAATA
*
6538 ATCTAATTTTATTA-T-AATATATA
1 AT-TAATTTTATAATTAAATA-ATA
6561 ATTAATT
1 ATTAATT
6568 AAAATATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
22 9 0.14
23 20 0.32
24 26 0.41
25 8 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTAATTTTATAATTAAATAATA
Found at i:6607 original size:13 final size:13
Alignment explanation
Indices: 6579--6616 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
6569 AAATATAATA
6579 TAAATATTTAAATTT
1 TAAATA-TT-AATTT
6594 TAAATATTAATTT
1 TAAATATTAATTT
6607 TAAATATTAA
1 TAAATATTAA
6617 AACTAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 15 0.65
14 2 0.09
15 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATATTAATTT
Found at i:7058 original size:18 final size:18
Alignment explanation
Indices: 7035--7069 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7025 GTCCAATTAA
7035 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
7053 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
7070 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:7070 original size:25 final size:25
Alignment explanation
Indices: 7037--7112 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
7027 CCAATTAAAT
*
7037 TATATAATAAATAATTATTATATA-A
1 TATATAATAAATAATTATAAT-TACA
* *
7062 TATATAATATACAATTATAATTACA
1 TATATAATAAATAATTATAATTACA
*
7087 TATTATAATAATTAA-TATAATT-CA
1 TA-TATAATAAATAATTATAATTACA
7111 TA
1 TA
7113 AAATATTAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.14
25 28 0.65
26 9 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:7082 original size:13 final size:14
Alignment explanation
Indices: 7050--7096 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
7040 ATAATAAATA
*
7050 ATTATTATATA-AT
1 ATTATAATATACAT
7063 A-TATAATATACA-
1 ATTATAATATACAT
7075 ATTATAAT-TACAT
1 ATTATAATATACAT
7088 ATTATAATA
1 ATTATAATA
7097 ATTAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATATACAT
Found at i:7118 original size:47 final size:44
Alignment explanation
Indices: 7028--7118 Score: 103
Period size: 47 Copynumber: 2.0 Consensus size: 44
7018 TATATATGTC
* *
7028 CAATTAAATTATATAATAAATAATTATTATATAATATATAATATA
1 CAATTAAATTACATAATAAATAATTA-TATATAATATAAAATATA
*
7073 CAATTATAATTACATATTATAATAATTA-ATATAATTCATAAAATAT
1 CAATTA-AATTACATAATA-AATAATTATATATAA-T-ATAAAATAT
7119 TAGTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 12 0.31
46 11 0.28
47 16 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (44 bp):
CAATTAAATTACATAATAAATAATTATATATAATATAAAATATA
Found at i:7210 original size:18 final size:17
Alignment explanation
Indices: 7122--7222 Score: 55
Period size: 18 Copynumber: 5.5 Consensus size: 17
7112 AAAATATTAG
*
7122 TAATAATATT-TAATTA
1 TAATAATATTATAAATA
7138 TAATAAT-TTATTAAATTA
1 TAATAATATTA-TAAA-TA
*
7156 TTACATGATACTATATAAAT-
1 -TA-ATAATA-T-TATAAATA
* *
7176 TAATTATTATAATAAATA
1 TAA-TAATATTATAAATA
7194 GTAATAATATTATAAATA
1 -TAATAATATTATAAATA
7212 TTAACTAATAT
1 -TAA-TAATAT
7223 ATGATTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
15 2 0.03
16 7 0.11
17 9 0.14
18 19 0.29
19 16 0.25
20 4 0.06
21 1 0.02
22 5 0.08
23 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATAATATTATAAATA
Found at i:7889 original size:17 final size:14
Alignment explanation
Indices: 7845--7881 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7835 CGAACAAGTC
*
7845 TATTA-TAAATAAA
1 TATTATTAAATTAA
7858 TATTATTAAATTAA
1 TATTATTAAATTAA
7872 TATTATTAAA
1 TATTATTAAA
7882 GTCATAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATTATTAAATTAA
Found at i:8041 original size:13 final size:12
Alignment explanation
Indices: 8020--8071 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
8010 TTACATATTG
8020 TATAA-ATTTAT
1 TATAATATTTAT
8031 TATAAATATTTAT
1 TAT-AATATTTAT
*
8044 TATAATATTTAA
1 TATAATATTTAT
*
8056 AACTAATATTTAT
1 TA-TAATATTTAT
8069 TAT
1 TAT
8072 TTATAAAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.09
12 12 0.35
13 19 0.56
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATATTTAT
Found at i:8702 original size:181 final size:178
Alignment explanation
Indices: 8159--8713 Score: 618
Period size: 181 Copynumber: 3.1 Consensus size: 178
8149 AACATGTTCA
* * * *
8159 AATTATTTATTTCAAATAGTTATGACCTTTTCTTTTGTGC-TAAACCAATTGTTTCTATCCATAC
1 AATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGT-CATAAACCAATTGTTTCTATTCATAT
**
8223 AAGCTTATTCCGAATAAAATAAT--TAAATTTATTAATATTCTAAAATTTAATAAGTAAAAATTT
65 AAGCTTATTCAAAATAAAATAATACT-AATTTATTAATATTCTAAAA-TTAATAAGTAAAAATTT
* * ** * * *
8286 TAAAAATAAATTTATGTT-TTGAACATGTTCAAATAGATTTGACTATTTGAAT
128 AAAAAATAAATATAT-TTACCGAACAAGTTCAAATAG-TATGACTATTTGAAC
*
8338 AATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTG-TT-TATGTCTATA
1 AATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTAT-TC-ATA
* *
8401 TAAGCTTATTCAAAATAAAATAATACTAATTTAATAATATTCCAACAATTAATAAGTAAAAAATT
64 TAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAA-AATTAATAAGT-AAAAATT
* * ** * *
8466 TAAAAAATAAATCTGTTTACCGAGTAAGCTCAAATAGTTATAACTATTTGAAC
127 TAAAAAATAAATATATTTACCGAACAAGTTCAAATAG-TATGACTATTTGAAC
* * * * * * *
8519 AATTTTTTATTTCTAGTAGTTGTGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATATA
1 AATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCATATA
* * * * *
8584 AGTTTATTCAAAATAAAATAATACTACTTTATTAATATTTTACAAATTAATAGGTAGAAGATTTA
66 AGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTA-AAATTAATAAGTA-AAAATTTA
* * *
8649 AAAAATAAATATATTTACCGAACAAGTTCAAATAGTCATGTCCATTAGAAC
129 AAAAATAAATATATTTACCGAACAAGTTCAAATAGT-ATGACTATTTGAAC
8700 AATTATCTATTTCA
1 AATTATCTATTTCA
8714 TAAAAACAAT
Statistics
Matches: 314, Mismatches: 49, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
177 3 0.01
178 3 0.01
179 71 0.23
180 29 0.09
181 200 0.64
182 5 0.02
183 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (178 bp):
AATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCATATA
AGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAATTAATAAGTAAAAATTTAAA
AAATAAATATATTTACCGAACAAGTTCAAATAGTATGACTATTTGAAC
Found at i:9050 original size:27 final size:27
Alignment explanation
Indices: 8996--9054 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
8986 TTAATTAGGA
*
8996 TAAT-ACCTTTAATTTATTAAAGATAT
1 TAATAACCTTTAATTTATCAAAGATAT
*
9022 TAATAACCTTTAATTTATCCAA-ATAAT
1 TAATAACCTTTAATTTATCAAAGAT-AT
9049 TAATAA
1 TAATAA
9055 TATTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (27 bp):
TAATAACCTTTAATTTATCAAAGATAT
Found at i:9398 original size:13 final size:13
Alignment explanation
Indices: 9356--9401 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
9346 GTATTTAATA
9356 ATAATATAGTTATT
1 ATAATATA-TTATT
* *
9370 AT-ATATTTTAAT
1 ATAATATATTATT
9382 -TAATATATTATT
1 ATAATATATTATT
9394 ATAATATA
1 ATAATATA
9402 ATCATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 1 0.04
12 12 0.46
13 11 0.42
14 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
ATAATATATTATT
Found at i:9400 original size:27 final size:27
Alignment explanation
Indices: 9349--9401 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
9339 AATCAAAGTA
*
9349 TTTAATAATAATATAGTTATTATATAT
1 TTTAATAATAATATAGTTATAATATAT
9376 TTTAATTAAT-ATATTA-TTATAATATA
1 TTTAA-TAATAATA-TAGTTATAATATA
9402 ATCATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAATAATAATATAGTTATAATATAT
Found at i:9718 original size:21 final size:21
Alignment explanation
Indices: 9692--9764 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
9682 TATTTACTAT
*
9692 TTAATATTTAATAATTATATA
1 TTAATAATTAATAATTATATA
*
9713 TTAATAATTAATAATTATTTA
1 TTAATAATTAATAATTATATA
* *
9734 -T-ATATTATAACAA-TATATA
1 TTAATAAT-TAATAATTATATA
9753 TTAATAATTAAT
1 TTAATAATTAAT
9765 GATCTTACAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.21
20 10 0.24
21 23 0.55
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATTAATAATTATATA
Found at i:9726 original size:7 final size:7
Alignment explanation
Indices: 9692--9729 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
9682 TATTTACTAT
*
9692 TTAATAT
1 TTAATAA
9699 TTAATAA
1 TTAATAA
9706 TT-ATATA
1 TTAATA-A
9713 TTAATAA
1 TTAATAA
9720 TTAATAA
1 TTAATAA
9727 TTA
1 TTA
9730 TTTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.79
8 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTAATAA
Found at i:9739 original size:40 final size:39
Alignment explanation
Indices: 9689--9764 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
9679 ATTTATTTAC
*
9689 TATTTAATATT-TAATAATTATATATTAATAATTAATAAT
1 TATTTAATATTATAACAA-TATATATTAATAATTAATAAT
9728 TATTTATATATTATAACAATATATATTAATAATTAAT
1 TATTTA-ATATTATAACAATATATATTAATAATTAAT
9765 GATCTTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 6 0.18
40 23 0.68
41 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (39 bp):
TATTTAATATTATAACAATATATATTAATAATTAATAAT
Found at i:10461 original size:15 final size:18
Alignment explanation
Indices: 10436--10480 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
10426 ATTAAATTAA
10436 ATTATTAATATAA-TAA-T
1 ATTA-TAATATAATTAATT
10453 A-TATAATATAATTAATT
1 ATTATAATATAATTAATT
10470 ATTATAATATA
1 ATTATAATATA
10481 CGATTAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 5 0.20
17 3 0.12
18 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATAATATAATTAATT
Found at i:10807 original size:15 final size:16
Alignment explanation
Indices: 10771--10813 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
10761 AACTTAAATT
*
10771 AATATAATTA-ACTTT
1 AATATAATTATACTTG
10786 AATTATAATTATA-TTG
1 AA-TATAATTATACTTG
10802 AATATAATTATA
1 AATATAATTATA
10814 ATTATACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 12 0.48
17 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATATAATTATACTTG
Found at i:10916 original size:9 final size:9
Alignment explanation
Indices: 10904--10955 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
10894 GTATTTAATC
10904 TATTAATTA
1 TATTAATTA
10913 TATTAATTA
1 TATTAATTA
10922 GTATTAAATTA
1 -TATT-AATTA
*
10933 TAGT-ATT-
1 TATTAATTA
*
10940 TATTAATAA
1 TATTAATTA
10949 TATTAAT
1 TATTAAT
10956 ACTTAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.08
8 5 0.14
9 16 0.44
10 7 0.19
11 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (9 bp):
TATTAATTA
Found at i:11436 original size:40 final size:40
Alignment explanation
Indices: 11340--11439 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
11330 TCAGTTCAAT
* * *
11340 TAATAATGAATAATAAAAATTAATTATTATTATATAGTTAA
1 TAATAAT-TATAATAAATATTAATTATTAATATATAGTTAA
* * **
11381 TAATAATTATTATAAATATTAATT-TTAATCTATTTTTAA
1 TAATAATTATAATAAATATTAATTATTAATATATAGTTAA
*
11420 TCATAATATATAATAAATAT
1 TAATAAT-TATAATAAATAT
11440 ATGTATAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.35
40 25 0.51
41 7 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
TAATAATTATAATAAATATTAATTATTAATATATAGTTAA
Found at i:11691 original size:19 final size:18
Alignment explanation
Indices: 11655--11719 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
11645 AAATTATACA
*
11655 ATTAATATACTTAATAATT
1 ATTAATA-AATTAATAATT
11674 ATTAATAAATTAATTAA-T
1 ATTAATAAATTAA-TAATT
11692 A-TAA-AAATT-ATATATT
1 ATTAATAAATTAATA-ATT
11708 ATTAATAAATTA
1 ATTAATAAATTA
11720 TAAATTAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 7 0.18
17 6 0.15
18 12 0.31
19 10 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAATAAATTAATAATT
Found at i:11719 original size:18 final size:18
Alignment explanation
Indices: 11671--11726 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
11661 ATACTTAATA
11671 ATTATTAATAAATTA-AT
1 ATTATTAATAAATTATAT
*
11688 -TAATATAA-AAATTATAT
1 ATTAT-TAATAAATTATAT
*
11705 ATTATTAATAAATTATAA
1 ATTATTAATAAATTATAT
11723 ATTA
1 ATTA
11727 GTATTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 9 0.28
17 8 0.25
18 15 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTATTAATAAATTATAT
Found at i:11859 original size:27 final size:28
Alignment explanation
Indices: 11829--11907 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
11819 TAATAAATTA
11829 TATTATTAATAATTAAT-TTATAGT-TAT
1 TATTA-TAATAATTAATATTATAGTATAT
** * *
11856 TATTAATAATTGTTAATACTATTATTATAT
1 TATT-ATAATAATTAATATTA-TAGTATAT
11886 TATTATAATAATTAATATTATA
1 TATTATAATAATTAATATTATA
11908 AATTGTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
27 13 0.32
28 5 0.12
29 16 0.39
30 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
TATTATAATAATTAATATTATAGTATAT
Found at i:12000 original size:19 final size:18
Alignment explanation
Indices: 11963--12001 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11953 ATATTTATTG
* *
11963 TTTATTAAATTATATATA
1 TTTATAAAATTATAAATA
11981 TTTATAAAATATATAAATA
1 TTTATAAAAT-TATAAATA
12000 TT
1 TT
12002 AAGTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAAAATTATAAATA
Found at i:12319 original size:19 final size:21
Alignment explanation
Indices: 12283--12326 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
12273 AGGTATAATT
12283 TAATTATAACATTTATTTA-TA
1 TAATTATAACA-TTATTTATTA
12304 TAATTATAAC-TTATTTATTA
1 TAATTATAACATTATTTATTA
12324 TAA
1 TAA
12327 AATTTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTATAACATTATTTATTA
Found at i:12949 original size:21 final size:20
Alignment explanation
Indices: 12911--12949 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12901 TAGATTAATT
**
12911 AATAAAATTAATCTATTAAG
1 AATAAAATTAATAAATTAAG
12931 AATAATAATTAATAAATTA
1 AATAA-AATTAATAAATTA
12950 TTAATAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAAAATTAATAAATTAAG
Found at i:12955 original size:21 final size:20
Alignment explanation
Indices: 12908--12970 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
12898 AATTAGATTA
**
12908 ATTAATAAAATTAATCTATT
1 ATTAATAAAATTAATAAATT
**
12928 AAGAATAATAATTAATAAATT
1 ATTAATAA-AATTAATAAATT
*
12949 ATTAAT-AGATTAGATAAATT
1 ATTAATAAAATTA-ATAAATT
12969 AT
1 AT
12971 ATAACATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 14 0.41
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTAATAAAATTAATAAATT
Found at i:12967 original size:20 final size:18
Alignment explanation
Indices: 12933--12970 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
12923 CTATTAAGAA
12933 TAATAATTAATAAATTAT
1 TAATAATTAATAAATTAT
12951 TAATAGATTAGATAAATTAT
1 TAATA-ATTA-ATAAATTAT
12971 ATAACATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATAATTAATAAATTAT
Found at i:14827 original size:23 final size:23
Alignment explanation
Indices: 14801--14860 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
14791 ATAAATAGTT
14801 ATTATAATTAATTTA-ACTAATAA
1 ATTATAATTAATTTATACT-ATAA
*
14824 ATTAGATATT-A-TTATACTATAA
1 ATTATA-ATTAATTTATACTATAA
14846 ATTATAATCTAATTT
1 ATTATAAT-TAATTT
14861 TAAGTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 13 0.43
23 10 0.33
24 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATAATTAATTTATACTATAA
Found at i:15573 original size:44 final size:44
Alignment explanation
Indices: 15489--15574 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
15479 TTATTGATAC
* *
15489 TTATAATTAATATTATATTTTAATAATTATTATAACTTATTAGG
1 TTATAATTAATAATATATTTTAATAATTAATATAACTTATTAGG
* *
15533 TTATAATTATTAATATATTTAATTATAATTAAT-TAA-TTATTA
1 TTATAATTAATAATATATTT--TAATAATTAATATAACTTATTA
15575 TATCTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 24 0.67
45 3 0.08
46 9 0.25
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (44 bp):
TTATAATTAATAATATATTTTAATAATTAATATAACTTATTAGG
Found at i:15794 original size:37 final size:37
Alignment explanation
Indices: 15737--15822 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
15727 ATTAATTGTT
* *
15737 TAATAAATATTAAT--TAAATTAAATATTAATAGT-AA
1 TAATAAATATTTATGATAAATTAAA-ATTAATAATAAA
* * *
15772 TTATTAATATTTATGATAAATTAAAATTTATAATAAA
1 TAATAAATATTTATGATAAATTAAAATTAATAATAAA
15809 TAATAAATATTTAT
1 TAATAAATATTTAT
15823 TATTAATAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
35 11 0.27
36 7 0.17
37 23 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (37 bp):
TAATAAATATTTATGATAAATTAAAATTAATAATAAA
Found at i:15800 original size:17 final size:17
Alignment explanation
Indices: 15751--15809 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
15741 AAATATTAAT
* *
15751 TAAATTAAATATTAATAG
1 TAAATTAAA-ATTTATAA
* *
15769 TAATTATTAATATTTATGA
1 TAA--ATTAAAATTTATAA
15788 TAAATTAAAATTTATAA
1 TAAATTAAAATTTATAA
15805 TAAAT
1 TAAAT
15810 AATAAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 17 0.52
18 3 0.09
19 8 0.24
20 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TAAATTAAAATTTATAA
Found at i:15831 original size:20 final size:19
Alignment explanation
Indices: 15780--15822 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
15770 AATTATTAAT
*
15780 ATTTATGATAAAT--TAAA
1 ATTTATAATAAATAATAAA
15797 ATTTATAATAAATAATAAA
1 ATTTATAATAAATAATAAA
15816 TATTTAT
1 -ATTTAT
15823 TATTAATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 12 0.55
19 4 0.18
20 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTTATAATAAATAATAAA
Found at i:16200 original size:12 final size:12
Alignment explanation
Indices: 16176--16224 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
16166 GAAATCTAAG
16176 ATAATTAATAATA
1 ATAATT-ATAATA
*
16189 TTAATTATAATA
1 ATAATTATAATA
16201 ATAATTA-AAT-
1 ATAATTATAATA
*
16211 A-AATTATATTA
1 ATAATTATAATA
16222 ATA
1 ATA
16225 TAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 4 0.13
12 13 0.43
13 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:16221 original size:14 final size:14
Alignment explanation
Indices: 16177--16231 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
16167 AAATCTAAGA
*
16177 TAAT-TAATAATAT
1 TAATATAATTATAT
*
16190 TAATTATAATAATAAT
1 TAA-TATAATTAT-AT
16206 TAA-ATAAATTATAT
1 TAATAT-AATTATAT
16220 TAATATAATTAT
1 TAATATAATTAT
16232 TTATTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.39
15 14 0.39
16 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATAATTATAT
Found at i:16247 original size:30 final size:30
Alignment explanation
Indices: 16186--16267 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
16176 ATAATTAATA
* *
16186 ATATTAATTATAA-TAATAATTAAATAAATT
1 ATATTAA-TATAATTATTTATTAAATAAATT
* *
16216 ATATTAATATAATTATTTATTGAATAGATT
1 ATATTAATATAATTATTTATTAAATAAATT
*
16246 ATAATTTATAT-ATTATTTATTA
1 AT-ATTAATATAATTATTTATTA
16268 TCTAATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 5 0.11
30 32 0.73
31 7 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATTAATATAATTATTTATTAAATAAATT
Found at i:16361 original size:26 final size:26
Alignment explanation
Indices: 16332--16430 Score: 73
Period size: 26 Copynumber: 3.7 Consensus size: 26
16322 TTATTATATT
16332 TATTATTATAT-TAATAATTTTAGTTA
1 TATTATTATATATAATAA-TTTAGTTA
*
16358 TATTAAATAATAAGTATAATATAATTTA-TTA
1 TATT--ATTAT-A-TAT-A-ATAATTTAGTTA
16389 TTATTATTATATATAATAATTT-GTTA
1 -TATTATTATATATAATAATTTAGTTA
*
16415 TA-AATTATA-ATAATAA
1 TATTATTATATATAATAA
16431 AAATAAAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
23 7 0.11
24 6 0.10
25 2 0.03
26 14 0.23
27 1 0.02
28 7 0.11
29 2 0.03
30 5 0.08
31 4 0.07
32 9 0.15
33 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
TATTATTATATATAATAATTTAGTTA
Found at i:16443 original size:61 final size:58
Alignment explanation
Indices: 16331--16446 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 58
16321 ATTATTATAT
** *
16331 TTATTATTATATTAATAATTTTAGTTATATTAAATAATAAGTATAATATAATTTATTA
1 TTATTATTATATTAATAATTTTAGTTATATTAAATAATAAAAATAAAATAATTTATTA
16389 TTATTATTATATATAATAA-TTT-GTTATAAATTATAATAATAAAAATAAAAATAATTTA
1 TTATTATTATAT-TAATAATTTTAGTTAT--ATTA-AATAATAAAAAT-AAAATAATTTA
16447 ATTAGATTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
57 5 0.10
58 15 0.30
59 10 0.20
60 10 0.20
61 10 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (58 bp):
TTATTATTATATTAATAATTTTAGTTATATTAAATAATAAAAATAAAATAATTTATTA
Found at i:17016 original size:21 final size:20
Alignment explanation
Indices: 16972--17058 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 20
16962 TTATTAGTAC
16972 ATTATAATAATATATTATAAT
1 ATTATAATAA-ATATTATAAT
**
16993 ATTATAATAAATAGTTATTTT
1 ATTATAATAAATA-TTATAAT
*
17014 ATTTTGAATAAACT-TTATTAAT
1 ATTAT-AATAAA-TATTA-TAAT
17036 AATTATAATAGAA-ATTATTAAT
1 -ATTATAATA-AATATTA-TAAT
17058 A
1 A
17059 AAGTTATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.06
21 23 0.43
22 20 0.38
23 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTATAATAAATATTATAAT
Found at i:17225 original size:15 final size:15
Alignment explanation
Indices: 17207--17258 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
17197 AATAATTTAT
17207 ATAATTTTAATATTA
1 ATAATTTTAATATTA
**
17222 ATAACATTAATATTTCA
1 ATAATTTTAATA-TT-A
*
17239 TTAATTTTAATA-TA
1 ATAATTTTAATATTA
17253 ATAATT
1 ATAATT
17259 ATTATATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 6 0.21
15 11 0.38
16 2 0.07
17 10 0.34
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTTTAATATTA
Found at i:17249 original size:32 final size:31
Alignment explanation
Indices: 17208--17269 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
17198 ATAATTTATA
17208 TAATTTTAATATTAATAA-CATTAATATTTCAT
1 TAATTTTAATA-TAATAATCATT-ATATTTCAT
*
17240 TAATTTTAATATAATAATTATTATATTTCA
1 TAATTTTAATATAATAATCATTATATTTCA
17270 CATTGTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (31 bp):
TAATTTTAATATAATAATCATTATATTTCAT
Found at i:17296 original size:16 final size:18
Alignment explanation
Indices: 17275--17322 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
17265 TTTCACATTG
17275 TAATATTATAATTA-TA-
1 TAATATTATAATTATTAT
*
17291 TAATATTATAACTATTAT
1 TAATATTATAATTATTAT
17309 TAATAGTTATAATT
1 TAATA-TTATAATT
17323 TAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 13 0.48
17 2 0.07
18 5 0.19
19 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATATTATAATTATTAT
Found at i:17321 original size:9 final size:8
Alignment explanation
Indices: 17275--17321 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
17265 TTTCACATTG
17275 TAATATTA
1 TAATATTA
17283 TAAT-TATA
1 TAATAT-TA
17291 TAATATTA
1 TAATATTA
17299 TAACTATTA
1 TAA-TATTA
17308 TTAATAGTTA
1 -TAATA-TTA
17318 TAAT
1 TAAT
17322 TTAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.03
8 15 0.44
9 12 0.35
10 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:17581 original size:19 final size:19
Alignment explanation
Indices: 17559--17595 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17549 TTTTAATATT
17559 AATAA-TTATTATTATAATG
1 AATAACTTATTA-TATAATG
17578 AATAACTTATTATATAAT
1 AATAACTTATTATATAAT
17596 ATTCTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
AATAACTTATTATATAATG
Found at i:17699 original size:19 final size:18
Alignment explanation
Indices: 17652--17700 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
17642 ACATTTTAAT
17652 TATTGTTATTAATTTATAG
1 TATT-TTATTAATTTATAG
**
17671 TATAAATATTAATTTATTAG
1 TAT-TTTATTAATTTA-TAG
17691 TATTTTATTA
1 TATTTTATTA
17701 TTATAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TATTTTATTAATTTATAG
Found at i:17839 original size:13 final size:13
Alignment explanation
Indices: 17815--17839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17805 ATAGATTAAT
17815 AATAATAATTATA
1 AATAATAATTATA
17828 AATAATAATTAT
1 AATAATAATTAT
17840 TTGAATTATA
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:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAATAATTATA
Found at i:18083 original size:28 final size:28
Alignment explanation
Indices: 18019--18083 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
18009 AATATAATAT
* *
18019 TATATTTATTGTTTAATATATTTATTAC
1 TATATTTATTGTTTAATATATGTATTAA
*
18047 TACTA-TTATTGTCTTATTATATGT-TTAA
1 TA-TATTTATTGT-TTAATATATGTATTAA
18075 TATATTTAT
1 TATATTTAT
18084 AAATAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.06
28 18 0.58
29 11 0.35
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (28 bp):
TATATTTATTGTTTAATATATGTATTAA
Found at i:18390 original size:14 final size:15
Alignment explanation
Indices: 18311--18390 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 15
18301 AATAAATATT
*
18311 TTTATATTTTATATAA
1 TTTATATTATAT-TAA
18327 -TTA-ATTATATATAA
1 TTTATATTATAT-TAA
**
18341 TTATATACAATATTAA
1 TT-TATATTATATTAA
18357 TTTAATATGTATAATT-A
1 TTT-ATAT-TAT-ATTAA
18374 TTTA-ATTATATTAA
1 TTTATATTATATTAA
18388 TTT
1 TTT
18391 TTGTATAGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
13 3 0.06
14 17 0.33
15 7 0.13
16 11 0.21
17 11 0.21
18 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TTTATATTATATTAA
Found at i:18951 original size:182 final size:179
Alignment explanation
Indices: 18533--19773 Score: 873
Period size: 182 Copynumber: 6.9 Consensus size: 179
18523 ATGATCTTTA
** * * * *
18533 TTTTGTCATAAAACAATTGTTTCTTTTCATATAAGC-TATTCATATTAAAATAATACTAATTTAA
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTTA-AATAAAATAATACTAATTTAT
* * * * * *
18597 TAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGGA-CAGTTCAAA
65 TAATATT-CAAAAATTAATAAGCATGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAA
* * * * * *
18661 TAGTTAAGACTA-TTAGGATAATTATCTATTTCATATCATTTTGACCTTTTG
129 TAATTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * * * * * *
18712 TTTAGTCACAAAACAATTATTTCAATCCATATAAGCTTATTTAGAACAAATTAATACTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTTA-AATAAAATAATACTAATTTAT
* * * * * *
18777 TCACATTCGAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCCGTTTATCGAATAAATTAAA
65 TAATATTC-AAAAATTAATAAGCATGAGATTT-AAAAAATAAATCTGTTTATCGAATCAGTTCAA
* * *
18842 ATAGATT-TGATTATTTAAACAATTATCTATTT-AAAGTCGTTATGACCTTTTA
128 ATA-ATTATGACTATTTAAACAATTATCTATTTCAAA-TCATTATGACCTTTTG
* **
18894 TTTTGTCATAAAACAATTGTTTCAGTTTATAAAAATTTATTTGAAATAAAATAATACTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTT-AAATAAAATAATACTAATTTAT
* * * ** * *
18959 TAATATTTTAAAAATTAATAAACAAGATTTTTAAAAACTAAAAT-TGTTT-TCCAAATCAGTTCA
65 TAATA-TTCAAAAATTAATAAGCATGAGATTTAAAAAAT-AAATCTGTTTAT-CGAATCAGTTCA
* * * * * * ** * *
19022 AATAATTATGGCTATTTGAATAAATATCAATCTCAAATTGTTTTGATC-TTTG
127 AATAATTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * * * * *
19074 TTTTCTCATAAAATAATTATTTCTGATT-ATACAAGCTTATTTAGATAAAAATATTACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCAG-TTCATAAAAGCTTATTTAAAT-AAAATAATACTAATTTA
* * * * * *
19138 ATAATATTTCAAAAATTAAT-A--A-GAGATTCAAAAAATAAATGTATTTATTGAACCAGTTCAA
64 TTAATA-TTCAAAAATTAATAAGCATGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAA
* * * * * * *
19199 ATAGTTAAGACTA-TTAGAATAATTATCAATTTCAAATCATTCTGACATTTTC
128 ATAATTATGACTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTTG
* * ** * * * * *
19251 TTTAGTCGTGTAATAATTGCTTCAATTCATACAAGCTTATTTGAAAAAAAAATAATACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTT--AAATAAAATAATACTAATTTA
* * * * * **
19316 TTAACATTC-AAAATTAATAATCTTGAGATTTAAAAAATAAATCTGTTTA-CCAAACAAGTTTGA
64 TTAATATTCAAAAATTAATAAGCATGAGATTTAAAAAATAAATCTGTTTATCGAATC-AGTTCAA
** * * * * *
19379 ATAATTATGGTTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTG
128 ATAATTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * ** * *
19431 TTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTAG
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTAT-TTAAATAAAATAATACTAATTTAT
** * * *
19496 TAATATTTTGAAAATTAATAAGTAACT-A-ATTTAAAAGAATAAATCAGTTTA-CACAATCAGTT
65 TAATA-TTCAAAAATTAATAAG-CA-TGAGATTTAAAA-AATAAATCTGTTTATC-GAATCAGTT
* * ** *
19558 CAAATAATTAT-AGCCATTTAAACAACTATCTATTTCAAATTTTTATTACCTTTTG
125 CAAATAATTATGA-CTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * *
19613 TTTTGTCATAAAACAATTGTTTTTCA--ACATACAAGCTTAGTTGAAATAAAATAATACCAATTT
1 TTTTGTCATAAAACAATTG--TTTCAGTTCATAAAAGCTTA-TTTAAATAAAATAATACTAATTT
* * * * *
19676 ATTAATATTTTAAGAATTAAT-A--A-GACATTTAAAAAATAAATCAGTTTATTGAA-CTAGTTC
63 ATTAATA-TTCAAAAATTAATAAGCATGAGATTTAAAAAATAAATCTGTTTATCGAATC-AGTTC
* * *
19736 AAATAGTTATGACTATTT-GACAATTTTCTATTTCAAAT
126 AAATAATTATGACTATTTAAACAATTATCTATTTCAAAT
19774 TGTTACAACC
Statistics
Matches: 829, Mismatches: 189, Indels: 91
0.75 0.17 0.08
Matches are distributed among these distances:
175 6 0.01
176 86 0.10
177 75 0.09
178 30 0.04
179 63 0.08
180 214 0.26
181 93 0.11
182 244 0.29
183 14 0.02
184 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTTAAATAAAATAATACTAATTTATT
AATATTCAAAAATTAATAAGCATGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATA
ATTATGACTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTG
Found at i:19397 original size:18 final size:17
Alignment explanation
Indices: 19374--19422 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
19364 ACCAAACAAG
19374 TTTGAATAATTATGGTTA
1 TTTGAATAATTAT-GTTA
*
19392 TTTGAACAATTAT-TTA
1 TTTGAATAATTATGTTA
*
19408 TTTAAAATAATTATG
1 TTT-GAATAATTATG
19423 ACCATTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTGAATAATTATGTTA
Found at i:19712 original size:539 final size:536
Alignment explanation
Indices: 18513--19752 Score: 1411
Period size: 539 Copynumber: 2.3 Consensus size: 536
18503 ATTATTTAAA
* * * * *
18513 TCAAATTGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGC-TATTCATA
1 TCAAATTGTTTTGACCTTTGTTTTGTCATAAAACAATTGTTT-TTATCATACAAGCTTATTCA-A
* *
18577 TTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATGT
64 ATAAAATAATACTAATTTAATAATATTTCAAAAA-T--TAA-TAAGAGATTTAAAAAATAAATGT
* * * * * * * *
18642 GTTTGTCGGA-CAGTTCAAATAGTTAAGACTATTAGGATAATTATCTATTTCATATCATTTTGAC
125 ATTTATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTGAC
* * * * * * *
18706 CTTTTGTTTAGTCACAAAACAATTATTTCAATCCATATAAGCTTATTTAGAACAAATTAATACTA
190 ATTTTCTTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTTAAAAAAAAATAATACTA
* * * *
18771 ATTTATTCACATTCGAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCCGTTTATCGAATAA
255 ATTTATTAACATTC-AAAAATTAATAAGCATGAGATTTAAAAAAATAAATCCGTTTACCAAACAA
* ** *
18836 ATTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAAGTCGTTATGACCTTTTATTTTGTC
319 ATTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTATTTTGTC
* *** *
18901 ATAAAACAATTGTTTCAGTTTATAAAAATTTATTTGAAATAAAATAATACTAATTTATTAATATT
384 ATAAAACAATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAGTAATATT
* * * *
18966 TTAAAAATTAATAAACAAGATTTTTAAAAACTAAAATTGTTTTCCAAATCAGTTCAAATAATTAT
449 TTAAAAATTAATAAACAAGATATTTAAAAAATAAAATAGTTTACCAAATCAGTTCAAATAATTAT
* * * *
19031 GGCTATTTGAATAAATATCAATC
514 AGCCATTTAAACAAATATCAATC
* * * * * * * *
19054 TCAAATTGTTTTGATCTTTGTTTTCTCATAAAATAATTATTTCTGATTATACAAGCTTATTTAGA
1 TCAAATTGTTTTGACCTTTGTTTTGTCATAAAACAATTGTTT-TTATCATACAAGCTTATTCAAA
* *
19119 TAAAAATATTACTAATTTAATAATATTTCAAAAATTAATAAGAGATTCAAAAAATAAATGTATTT
65 T-AAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATGTATTT
19184 ATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTGACATTT
129 ATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTGACATTT
**** * * *
19249 TCTTTAGTCGTGTAATAATTGCTTCAATTCATACAAGCTTATTTGAAAAAAAAATAATACTAATT
194 TCTTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTT-AAAAAAAAATAATACTAATT
* * * * *
19314 TATTAACATTC-AAAATTAATAATCTTGAGATTT-AAAAAATAAATCTGTTTACCAAACAAGTTT
258 TATTAACATTCAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCCGTTTACCAAACAAATTA
* * * * *
19377 GAATA-ATTATGGTTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATA
323 AAATAGATT-TGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTATTTTGTCATA
* * * *
19441 AAACAATTGTTTTAGTTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTAGTAATATTTTG
387 AAACAATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAGTAATATTTTA
** *
19506 AAAATTAATAAGTAA-CTAATTTAAAAGAAT-AAATCAGTTTA-CACAATCAGTTCAAATAATTA
452 AAAATTAATAAACAAGAT-ATTTAAAA-AATAAAAT-AGTTTACCA-AATCAGTTCAAATAATTA
* * *
19568 TAGCCATTTAAACAACTATCTATT
513 TAGCCATTTAAACAAATATCAATC
* * *
19592 TCAAATT-TTTATTACCTTTTGTTTTGTCATAAAACAATTGTTTTTCAACATACAAGCTTAGTTG
1 TCAAATTGTTT-TGACC-TTTGTTTTGTCATAAAACAATTGTTTTT-ATCATACAAGCTTA-TTC
* * * * * *
19656 AAATAAAATAATACCAATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAATAAAT-CAG
62 AAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATGTA-
* *
19720 TTTATTGAACTAGTTCAAATAGTTATGACTATT
126 TTTATTGAACCAGTTCAAATAGTTAAGACTATT
19753 TGACAATTTT
Statistics
Matches: 587, Mismatches: 98, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
536 4 0.01
537 160 0.27
538 101 0.17
539 206 0.35
540 32 0.05
541 49 0.08
542 35 0.06
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (536 bp):
TCAAATTGTTTTGACCTTTGTTTTGTCATAAAACAATTGTTTTTATCATACAAGCTTATTCAAAT
AAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATGTATTTAT
TGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTGACATTTTC
TTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTTAAAAAAAAATAATACTAATTTAT
TAACATTCAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCCGTTTACCAAACAAATTAAAA
TAGATTTGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTATTTTGTCATAAAAC
AATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAGTAATATTTTAAAAA
TTAATAAACAAGATATTTAAAAAATAAAATAGTTTACCAAATCAGTTCAAATAATTATAGCCATT
TAAACAAATATCAATC
Found at i:19845 original size:16 final size:15
Alignment explanation
Indices: 19821--19864 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
19811 AATTTAATTG
*
19821 TTAATTATATATATAA
1 TTAAATATA-ATATAA
19837 TTAAATATAATATAA
1 TTAAATATAATATAA
19852 TTATAATATAATA
1 TTA-AATATAATA
19865 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATAATATAA
Found at i:19858 original size:11 final size:11
Alignment explanation
Indices: 19822--19876 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
19812 ATTTAATTGT
19822 TAATTATATATA
1 TAATTATA-ATA
19834 TAATTA-AATA
1 TAATTATAATA
19844 TAA-TATAATTA
1 TAATTATAA-TA
19855 TAATATAATAATA
1 TAAT-T-ATAATA
*
19868 AAATTATAA
1 TAATTATAA
19877 AATAGAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 2 0.05
10 8 0.22
11 10 0.27
12 7 0.19
13 6 0.16
14 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATTATAATA
Found at i:19865 original size:19 final size:18
Alignment explanation
Indices: 19839--19895 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
19829 ATATATAATT
19839 AAATATAATATAATTATA
1 AAATATAATATAATTATA
* *
19857 ATATAATAATAAAATTATA
1 AAAT-ATAATATAATTATA
* *
19876 AAATAGAATATAATTTTA
1 AAATATAATATAATTATA
19894 AA
1 AA
19896 TGTTATATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATAATATAATTATA
Found at i:21012 original size:14 final size:15
Alignment explanation
Indices: 20995--21024 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20985 AAATAGCAAT
20995 AATTAAT-ATAAACA
1 AATTAATAATAAACA
21009 AATTAATAATAAACA
1 AATTAATAATAAACA
21024 A
1 A
21025 TATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTAATAATAAACA
Found at i:21145 original size:13 final size:13
Alignment explanation
Indices: 21088--21145 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
21078 ACAAATAAGT
*
21088 TAATTATAAATAA
1 TAATTATAAATTA
21101 TAA-TAT-AATTA
1 TAATTATAAATTA
*
21112 TAA-TATTATATTA
1 TAATTA-TAAATTA
21125 TATTATTATAAATTA
1 TA--ATTATAAATTA
21140 TAATTA
1 TAATTA
21146 ACTTATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 9 0.24
12 4 0.11
13 13 0.35
15 9 0.24
16 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTATAAATTA
Found at i:21152 original size:21 final size:21
Alignment explanation
Indices: 21103--21141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21093 ATAAATAATA
*
21103 ATATAATTATAATATTATATT
1 ATATTATTATAATATTATATT
21124 ATATTATTATAA-ATTATA
1 ATATTATTATAATATTATA
21142 ATTAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTATTATAATATTATATT
Found at i:21460 original size:16 final size:15
Alignment explanation
Indices: 21441--21470 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21431 TAGTTATGAC
21441 TTTTAATTATTACAAA
1 TTTTAATTA-TACAAA
21457 TTTTAATTATACAA
1 TTTTAATTATACAA
21471 TTAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATTATACAAA
Found at i:21855 original size:181 final size:179
Alignment explanation
Indices: 21557--22155 Score: 595
Period size: 181 Copynumber: 3.3 Consensus size: 179
21547 GAACTTGTTT
* ** * ** *
21557 GGTAAATAGATTTATTTTTTAAATCTCCTACCTATTAATTTGTAAAATATTAATAAAGTAGTATT
1 GGTAAATAGATTTATTTTTTAAATTTTTTACTTATTAATTT-TGGAATATTAATAAATTAGTATT
* * * *
21622 ATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAA
65 ATTTTATTTTGAATAAGCTTGTATG-ATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAA
* * * *
21687 CTATTAGAAATAAAAAATTGTTCAAACAATT-ATAA-CTATTTGAGCTTACTC
129 CTATTTGAAATAAAAAATTATTCAAA-AATTCA-AATCTATTTGAACATACTC
* * *
21738 GGTAAACAGATTTATTTTTAAAATTTTTTACTTATTAATTGTTGGAATATTATTAAATTAGTATT
1 GGTAAATAGATTTATTTTTTAAATTTTTTACTTATTAATT-TTGGAATATTAATAAATTAGTATT
* * * *
21803 ATTTTATTTTGAATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGCCATAA
65 ATTTTATTTTGAATAAGCTTGTAT-GATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAA
* * * * * **
21868 TTATTTGAAATAGATAATTATTTAAATATTCAAATCTATTTGAACATGTTC
129 CTATTTGAAATAAAAAATTATTCAAAAATTCAAATCTATTTGAACATACTC
*** * * *
21919 AAAAAATAAATTTATTTTTTAAA-TTTTTATTTATTAAAATTTGGAATATTAATAAATT--TAAT
1 GGTAAATAGATTTATTTTTTAAATTTTTTACTTATT-AATTTTGGAATATTAATAAATTAGT-AT
*
21981 TATTTTATTTGGAATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATA
64 TATTTTATTTTGAATAAGCTTGTAT-GATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATA
* * * * ** **
22046 ACTATTTGAAATAAATAATCATTCAAATAGTCAGAA-CTATTCAAACATGTTC
128 ACTATTTGAAATAAAAAATTATTCAAAAATTCA-AATCTATTTGAACATACTC
** *
22098 AAATAACA-A-ATTTATTTTTTAAA-TTTTTACTTATTAAATTTTGGAATATTAATTAATT
1 -GGTAA-ATAGATTTATTTTTTAAATTTTTTACTTATT-AATTTTGGAATATTAATAAATT
22156 TAATTATTTC
Statistics
Matches: 354, Mismatches: 55, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
178 1 0.00
179 149 0.42
180 40 0.11
181 162 0.46
182 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (179 bp):
GGTAAATAGATTTATTTTTTAAATTTTTTACTTATTAATTTTGGAATATTAATAAATTAGTATTA
TTTTATTTTGAATAAGCTTGTATGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACT
ATTTGAAATAAAAAATTATTCAAAAATTCAAATCTATTTGAACATACTC
Found at i:21886 original size:17 final size:16
Alignment explanation
Indices: 21864--21895 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
21854 ACAAAAGGCC
21864 ATAATTATTTGAAATAG
1 ATAATTATTT-AAATAG
21881 ATAATTATTTAAATA
1 ATAATTATTTAAATA
21896 TTCAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
ATAATTATTTAAATAG
Found at i:22031 original size:179 final size:179
Alignment explanation
Indices: 21566--22164 Score: 670
Period size: 179 Copynumber: 3.3 Consensus size: 179
21556 TGGTAAATAG
** * ** *
21566 ATTTATTTTTTAAATCTCCTACCTATT-AATTTGTAAAATATTAATAAAGTAGTATTATTTTATT
1 ATTTATTTTTTAAAT-TTTTACTTATTAAATTT-TGGAATATTAATAAATTAG-ATTATTTTATT
* * * * * *
21630 TTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAACTATTAGA
63 TTGAATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGA
* * * * * * ** *** *
21695 AATAAAAAATTGTTCAAACAATT-ATAACTATTTGAGCTTACTCGGTAAACAG
128 AATAAATAATTATTCAAA-TATTCAGAACTATTTGAACATGTTCAAAAAACAA
* *
21747 ATTTATTTTTAAAATTTTTTACTTATT-AATTGTTGGAATATTATTAAATTAGTATTATTTTATT
1 ATTTATTTTTTAAA-TTTTTACTTATTAAATT-TTGGAATATTAATAAATTAG-ATTATTTTATT
* * * * * *
21811 TTGAATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGCCATAATTATTTGA
63 TTGAATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGA
* * *
21876 AATAGATAATTATTTAAATATTCA-AATCTATTTGAACATGTTCAAAAAATAA
128 AATAAATAATTATTCAAATATTCAGAA-CTATTTGAACATGTTCAAAAAACAA
* * *
21928 ATTTATTTTTTAAATTTTTATTTATTAAAATTTGGAATATTAATAAATTTA-ATTATTTTATTTG
1 ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAA-TTAGATTATTTTATTTT
21992 GAATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAAA
65 GAATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAAA
* * ** *
22057 TAAATAATCATTCAAATAGTCAGAACTATTCAAACATGTTCAAATAACAA
130 TAAATAATTATTCAAATATTCAGAACTATTTGAACATGTTCAAAAAACAA
*
22107 ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATTAATTTA-ATTATTT
1 ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAA-TAAATTAGATTATTT
22165 CAAATAATTA
Statistics
Matches: 354, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
179 161 0.45
180 36 0.10
181 155 0.44
182 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
ATTTATTTTTTAAATTTTTACTTATTAAATTTTGGAATATTAATAAATTAGATTATTTTATTTTG
AATAAGCTTGTATGGATAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAAAT
AAATAATTATTCAAATATTCAGAACTATTTGAACATGTTCAAAAAACAA
Found at i:22464 original size:17 final size:16
Alignment explanation
Indices: 22439--22472 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
22429 AAATTAGTTT
22439 TATAATTATAATTATTA
1 TATAATTATAATT-TTA
*
22456 TATACTTATAATTTTA
1 TATAATTATAATTTTA
22472 T
1 T
22473 GAAATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TATAATTATAATTTTA
Found at i:22595 original size:15 final size:14
Alignment explanation
Indices: 22575--22631 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 14
22565 CTATTGGAAT
22575 TATTATATTAATTA
1 TATTATATTAATTA
22589 CTATTATATTAATTA
1 -TATTATATTAATTA
22604 -A-TATTATTAATTA
1 TATTA-TATTAATTA
*
22617 TTTTATATTAATTA
1 TATTATATTAATTA
22631 T
1 T
22632 TATATATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 2 0.05
13 10 0.26
14 10 0.26
15 16 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATATTAATTA
Found at i:22602 original size:27 final size:26
Alignment explanation
Indices: 22572--22636 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 26
22562 TTACTATTGG
22572 AATTATTATATTAATTACTATTATATT
1 AATTATTATATTAATTA-TATTATATT
* *
22599 AATTAATATTATTAATTATTTTATATT
1 AATTATTA-TATTAATTATATTATATT
22626 AATTATTATAT
1 AATTATTATAT
22637 ATTGAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.09
27 22 0.65
28 9 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTATTATATTAATTATATTATATT
Found at i:22853 original size:14 final size:14
Alignment explanation
Indices: 22831--22879 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
22821 GACAATTAAT
* *
22831 ATTATTATTTATTA
1 ATTAATATTAATTA
22845 ATTAATATTAATTA
1 ATTAATATTAATTA
22859 ATTAATATTAAATTGA
1 ATTAATATT-AATT-A
22875 ATTAA
1 ATTAA
22880 CAAAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 21 0.68
15 4 0.13
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTAATATTAATTA
Found at i:23172 original size:26 final size:26
Alignment explanation
Indices: 23143--23192 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23133 ATTTATTATT
23143 ATTATAAATATTAATAATAATATTTG
1 ATTATAAATATTAATAATAATATTTG
* * *
23169 ATTATTATTATTTATAATAATATT
1 ATTATAAATATTAATAATAATATT
23193 AGGAATAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATAAATATTAATAATAATATTTG
Found at i:23190 original size:32 final size:32
Alignment explanation
Indices: 23116--23190 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
23106 TCCAATAATC
23116 TTATAATAATAATAATAATTTATTATTATTAT
1 TTATAATAATAATAATAATTTATTATTATTAT
** *
23148 AAATATTAATAATAAT-ATTTGATTATTATTAT
1 TTATAATAATAATAATAATTT-ATTATTATTAT
23180 TTATAATAATA
1 TTATAATAATA
23191 TTAGGAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATAATAATAATAATAATTTATTATTATTAT
Found at i:23574 original size:22 final size:21
Alignment explanation
Indices: 23535--23588 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
23525 ACTTATCATT
23535 ATTAATAGTTAATAATTATAA
1 ATTAATAGTTAATAATTATAA
* * *
23556 ATTAATATTATAATTATTATAT
1 ATTAATAGT-TAATAATTATAA
23578 ATTAAATAGTT
1 ATT-AATAGTT
23589 TTGTTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTAATAGTTAATAATTATAA
Found at i:24310 original size:180 final size:178
Alignment explanation
Indices: 23903--24321 Score: 434
Period size: 180 Copynumber: 2.3 Consensus size: 178
23893 TGGCCATAAT
* * *
23903 TATTTGAACTGATTCGATAAACTGATTTATGTTTTAAATCTCTAACTT-ATCAATTTTTATAATA
1 TATTTGAACTGATTCG-TAAACAGATTTATTTTTTAAATC-CTTACTTAAT-AATTTTTATAATA
* * * *
23967 TTAATAAAGTAATATTATTTTATTTCAGATAAGCTTTTATGAATTGAAACAATTGTTTTATGATA
63 TTAATAAAGTAATATTATTTTATTTCAGATAACCATATATGAATTGAAACAATTATTTTATGATA
* * ** *
24032 ACTTATAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCAAAAA
128 AC-TAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
* * * * * *
24084 TATTTGAACTTGCTTGGTAAATAGATTT-TTTTTCTAATTTCTTACTTAATAATTTTT-TGAATG
1 TATTTGAAC-TGATTCGTAAACAGATTTATTTTT-TAAATCCTTACTTAATAATTTTTAT-AATA
* * * *
24147 TTAATAAATTAGTATTATTTTATTTC-GAATAACCATATATGAGTTGAAGCAATTATTTTATGAC
63 TTAATAAAGTAATATTATTTTATTTCAG-ATAACCATATATGAATTGAAACAATTATTTTATGA-
* ** *
24211 TAAAC-AAAAGGTCAAAACAATTTGAAATAGATAATTGTTCTAATAGTCTTAAC
126 T-AACTAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
* * * *
24264 TATTTGAACTGATTCAGCAAACACATTTATTTTTTAAATCCTTACTTATTAATGTTTA
1 TATTTGAACTGATTC-GTAAACAGATTTATTTTTTAAATCCTTACTTAATAATTTTTA
24322 GAGTATTATT
Statistics
Matches: 193, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
179 6 0.03
180 149 0.77
181 30 0.16
182 8 0.04
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (178 bp):
TATTTGAACTGATTCGTAAACAGATTTATTTTTTAAATCCTTACTTAATAATTTTTATAATATTA
ATAAAGTAATATTATTTTATTTCAGATAACCATATATGAATTGAAACAATTATTTTATGATAACT
AAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
Found at i:24902 original size:183 final size:176
Alignment explanation
Indices: 24576--25153 Score: 555
Period size: 183 Copynumber: 3.2 Consensus size: 176
24566 CATTAATTTT
* * * *
24576 TAAATAAATTGATTTTTAAAAT-TTTTACTTATTAATTTTTGGAACATTAATAAATT-TATATTA
1 TAAATAGATTTATTTTT-TAATCTTTTACTTATTAATTTTTGGAATATTAATAAATTATAT-TTA
* * * *
24639 TTTTATTTGAAATAAGCTTGAATGAATAAAACCAATTGTTTTATGACAAAACAAAAGGTTGTAAT
64 TTTTATTTCAAATAAGC-TAAATGAATAAAA-CAATTGTTTTATGACAAAACAAAAAG-T-CAAT
* *
24704 GTTTTGAAATAGATAATTATTAAGACAGTCATAACTATTTGAACTTGTTCGA
125 GATTTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGA
* * *
24756 TAAATAGATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATGAATTAGTATTT
1 TAAATAGATTTA-TTTTTTAA-TCTTTTACTTATTAATTTTTGGAATATTAATAAATTA-TATTT
* * * * *
24821 TTTTTATTTCAAATAAGCTAACATGAATTGAAACAACTGTTTTATTACAAAACAAAATGCTACAA
63 ATTTTATTTCAAATAAGCTAA-ATGAA-TAAAACAATTGTTTTATGACAAAACAAAAAG-T-CAA
* * * * *
24886 TGATTTGAAGTAGATAATTATTCAA-ATAGTCATGACTATTTGAACTTATTTGG
124 TGATTTGAAATAGATAATTATT-AAGATAGTCATAACTATTTGAACTTGTTCGA
* * * *
24939 T--A-A-ACTTATTTTTTAATCTTTTACTTATTAATTATTGAAATATTAATAAATCA-ATATTAT
1 TAAATAGATTTATTTTTTAATCTTTTACTTATTAATTTTTGGAATATTAATAAATTATAT-TTAT
* * **
24999 TTTA-ATCGACATAAGCTTGTATGGACA-AAAACAATTGTTTTATGACAAAACAAAAAAGTCATA
65 TTTATTTC-AAATAAGC-TAAAT-GA-ATAAAACAATTGTTTTATGACAAAAC-AAAAAGTCA-A
* * * * *
25062 AGAATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAATTTGTTCGA
124 TG-ATTTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGA
25116 TAAATAGATTTATTTTTTAAATCTTTTACTTATTAATT
1 TAAATAGATTTATTTTTT-AATCTTTTACTTATTAATT
25154 GTCTTATTAA
Statistics
Matches: 325, Mismatches: 51, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
175 6 0.02
176 41 0.13
177 80 0.25
178 9 0.03
179 5 0.02
180 14 0.04
181 17 0.05
182 51 0.16
183 93 0.29
184 9 0.03
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (176 bp):
TAAATAGATTTATTTTTTAATCTTTTACTTATTAATTTTTGGAATATTAATAAATTATATTTATT
TTATTTCAAATAAGCTAAATGAATAAAACAATTGTTTTATGACAAAACAAAAAGTCAATGATTTG
AAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGA
Found at i:25435 original size:15 final size:15
Alignment explanation
Indices: 25415--25444 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25405 CCTTTTGTAA
25415 TATTATAATTATAAT
1 TATTATAATTATAAT
25430 TATTATAATTATAAT
1 TATTATAATTATAAT
25445 AGATTAGAAT
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:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATTATAAT
Found at i:25688 original size:33 final size:35
Alignment explanation
Indices: 25651--25734 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 35
25641 TTTAATTTAC
*
25651 ATATTATTATAATTAATT-T-AAC-TAATAAATTAG
1 ATATTATTATAATTAATTATAAACGAAAT-AATTAG
* * *
25684 ATATTATTATACTATATTTATAAACGAAATTATTAG
1 ATATTATTATAAT-TAATTATAAACGAAATAATTAG
25720 ATATTATTATAATTA
1 ATATTATTATAATTA
25735 TTGTAATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 12 0.29
34 4 0.10
35 3 0.07
36 20 0.48
37 3 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (35 bp):
ATATTATTATAATTAATTATAAACGAAATAATTAG
Found at i:26051 original size:15 final size:16
Alignment explanation
Indices: 26031--26061 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
26021 ATCTGAATTT
26031 AATTAATAAAT-TTAA
1 AATTAATAAATATTAA
26046 AATTAATAAATATTAA
1 AATTAATAAATATTAA
26062 TAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATAAATATTAA
Found at i:27387 original size:21 final size:20
Alignment explanation
Indices: 27362--27400 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27352 TAAAATAGTA
27362 ATAATATATTACTTAATTAAT
1 ATAATATA-TACTTAATTAAT
*
27383 ATAATATATATTTAATTA
1 ATAATATATACTTAATTA
27401 TAACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATATACTTAATTAAT
Found at i:27748 original size:23 final size:25
Alignment explanation
Indices: 27718--27773 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
27708 TAATATATTG
27718 TTATTTATCTA-A-ATAT-ATTATAA
1 TTATTTATCTATATATATAATTAT-A
*
27741 TTATTTATTTATATATATAATTATA
1 TTATTTATCTATATATATAATTATA
27766 TTATTTAT
1 TTATTTAT
27774 TAATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.34
24 1 0.03
25 13 0.45
26 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTTATCTATATATATAATTATA
Found at i:27756 original size:21 final size:21
Alignment explanation
Indices: 27730--27816 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 21
27720 ATTTATCTAA
27730 ATATATTATAATTAT-TTATTT
1 ATATA-TATAATTATATTATTT
27751 ATATATATAATTATATTATTT
1 ATATATATAATTATATTATTT
* *
27772 AT-TA-ATTAATAATATTAATT
1 ATATATA-TAATTATATTATTT
27792 A-ATA-ATAA-TATATTGATTGT
1 ATATATATAATTATATT-ATT-T
27812 ATATA
1 ATATA
27817 AATGTTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.09
19 6 0.11
20 29 0.52
21 16 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATATATAATTATATTATTT
Found at i:27789 original size:13 final size:13
Alignment explanation
Indices: 27771--27798 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27761 TTATATTATT
27771 TATTAATTAATAA
1 TATTAATTAATAA
27784 TATTAATTAATAA
1 TATTAATTAATAA
27797 TA
1 TA
27799 ATATATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTAATTAATAA
Found at i:27947 original size:24 final size:25
Alignment explanation
Indices: 27919--27969 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
27909 AAATAAACAA
*
27919 TAATAAAATATATAATAA-TTATAT
1 TAATAAAATATATAATAAGTTAAAT
* *
27943 TAATATAATTTATAATAAGTTAAAT
1 TAATAAAATATATAATAAGTTAAAT
27968 TA
1 TA
27970 TTAATTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
TAATAAAATATATAATAAGTTAAAT
Found at i:27986 original size:44 final size:41
Alignment explanation
Indices: 27938--28021 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
27928 ATATAATAAT
*
27938 TATATTAATATAATTTATAATAAGTTAAATTAT-TAATTGTTATG
1 TATATTAATAT-A-TTATAATAA-TTAAATAATATAA-TGTTATG
*
27982 TATATTAATATATTATATTAATTAAATAATATAATGTTAT
1 TATATTAATATATTATAATAATTAAATAATATAATGTTAT
28022 CCTCTTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 14 0.38
42 11 0.30
43 1 0.03
44 11 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (41 bp):
TATATTAATATATTATAATAATTAAATAATATAATGTTATG
Found at i:28168 original size:16 final size:18
Alignment explanation
Indices: 28147--28181 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
28137 GTTAATTTAC
28147 AATAATA-TTAT-ATTGT
1 AATAATATTTATAATTGT
28163 AATAATATTTATAATTGT
1 AATAATATTTATAATTGT
28181 A
1 A
28182 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATAATATTTATAATTGT
Found at i:28209 original size:58 final size:63
Alignment explanation
Indices: 28163--28282 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
28153 ATTATATTGT
*
28163 AATAATATTTAT-AATTGTAT-A-AAAAT-TAATTAA-TAA-TATATTAATAATTTAATATTC
1 AATAATATATATCAATTGTATCATAAAATATAATTAATTAATTATATTAATAATTTAATATTC
* **
28220 AATTATATATATCAATTGTATCATTTAATATAATTAATTAATTATATTAATAATCTTACATAT
1 AATAATATATATCAATTGTATCATAAAATATAATTAATTAATTATATTAATAAT-TTA-ATAT
28283 CAACAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
57 10 0.20
58 8 0.16
59 1 0.02
60 3 0.06
61 7 0.14
62 3 0.06
63 12 0.24
64 3 0.06
65 4 0.08
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (63 bp):
AATAATATATATCAATTGTATCATAAAATATAATTAATTAATTATATTAATAATTTAATATTC
Found at i:28619 original size:20 final size:20
Alignment explanation
Indices: 28591--28640 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
28581 TAAGAAATTT
* *
28591 TAATGTTATAATATATAAAA
1 TAATTTTATAATAAATAAAA
* *
28611 TAATTTTATATTAAATAAAT
1 TAATTTTATAATAAATAAAA
*
28631 TTATTTTATA
1 TAATTTTATA
28641 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTTTATAATAAATAAAA
Found at i:28626 original size:15 final size:15
Alignment explanation
Indices: 28602--28653 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
28592 AATGTTATAA
*
28602 TATATAAAATAATTT
1 TATATTAAATAATTT
*
28617 TATATTAAATAAATT
1 TATATTAAATAATTT
* * *
28632 TATTTTATATATTTT
1 TATATTAAATAATTT
28647 TA-ATTAA
1 TATATTAA
28654 TTATTATAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTAAATAATTT
Found at i:28713 original size:12 final size:13
Alignment explanation
Indices: 28690--28719 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
28680 AATTGTTTTA
28690 TATATAAATAATT
1 TATATAAATAATT
28703 TATAT-AATAATT
1 TATATAAATAATT
28715 TATAT
1 TATAT
28720 TATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATATAAATAATT
Found at i:28725 original size:68 final size:72
Alignment explanation
Indices: 28596--28726 Score: 164
Period size: 71 Copynumber: 1.9 Consensus size: 72
28586 AATTTTAATG
* * *
28596 TTATAATATATAAAATAATTTTATATTAAATAAATTTATTTTATATATTTTTAATTAATTATTAT
1 TTATAATATATAAAATAATTTTATATTAAATAAATTTATATAATATATTTATAATTAATTATTAT
28661 AAATATA
66 AAATATA
* **
28668 TTATAATA-ATATAATTGTTTTATATATAAAT-AATTTATATAATA-ATTTAT-ATT-ATTATT
1 TTATAATATATAAAATAATTTTATAT-TAAATAAATTTATATAATATATTTATAATTAATTATT
28727 TAAGAATAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
68 6 0.12
69 3 0.06
70 5 0.10
71 25 0.48
72 13 0.25
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (72 bp):
TTATAATATATAAAATAATTTTATATTAAATAAATTTATATAATATATTTATAATTAATTATTAT
AAATATA
Found at i:29741 original size:12 final size:12
Alignment explanation
Indices: 29724--29748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29714 TGGATATAAT
29724 TATTATTATTAA
1 TATTATTATTAA
29736 TATTATTATTAA
1 TATTATTATTAA
29748 T
1 T
29749 TTAATTCATA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:29922 original size:27 final size:27
Alignment explanation
Indices: 29880--29946 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
29870 TTATTTTATA
*
29880 ATTAATTAATTA-TAATGAATATATAAT
1 ATTAATT-ATTATTAATGAAAATATAAT
* *
29907 ATTAATTATTATTAATTAAAATATTAT
1 ATTAATTATTATTAATGAAAATATAAT
* *
29934 TTTAATGATTATT
1 ATTAATTATTATT
29947 TAATAAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTAATTATTATTAATGAAAATATAAT
Found at i:30365 original size:21 final size:20
Alignment explanation
Indices: 30318--30379 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
30308 AATGATATGA
*
30318 AACTTAATTAT-TTATATAT
1 AACTTAATAATATTATATAT
*
30337 AACTTAATGATATTATATA-
1 AACTTAATAATATTATATAT
*
30356 ATACTATAATAATATTAAATAT
1 A-ACT-TAATAATATTATATAT
30378 AA
1 AA
30380 GAGATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.31
20 10 0.28
21 14 0.39
22 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
AACTTAATAATATTATATAT
Found at i:30883 original size:10 final size:10
Alignment explanation
Indices: 30868--30894 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30858 TTATTCATAT
30868 ATAATTATTA
1 ATAATTATTA
30878 ATAATTATTA
1 ATAATTATTA
30888 ATAATTA
1 ATAATTA
30895 ACAACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTATTA
Found at i:31017 original size:16 final size:16
Alignment explanation
Indices: 30998--31028 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30988 TTTCTTATGT
*
30998 TATAATACAATTATAC
1 TATAAAACAATTATAC
31014 TATAAAACAATTATA
1 TATAAAACAATTATA
31029 GTATTATTAA
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAACAATTATAC
Found at i:31086 original size:19 final size:19
Alignment explanation
Indices: 31062--31099 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
31052 TTAATTAATA
31062 TTATTTATTATTAT-ATTAT
1 TTATTTATT-TTATAATTAT
31081 TTATTTATTTTATAATTAT
1 TTATTTATTTTATAATTAT
31100 AAATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTATTTTATAATTAT
Found at i:31098 original size:24 final size:25
Alignment explanation
Indices: 31043--31100 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
31033 TATTAATAAT
31043 TAATTATAATTAATTAATATTATTTA
1 TAATTAT-ATTAATTAATATTATTTA
* *
31069 TTATTATATT-ATTTAT-TTATTTTA
1 TAATTATATTAATTAATATTA-TTTA
31093 TAATTATA
1 TAATTATA
31101 AATAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.11
24 16 0.57
25 3 0.11
26 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTATATTAATTAATATTATTTA
Found at i:31099 original size:15 final size:17
Alignment explanation
Indices: 31055--31099 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
31045 ATTATAATTA
31055 ATTA-ATATTATTTATT
1 ATTATATATTATTTATT
31071 ATTATATTATTTATTTATT
1 ATTATA-TA-TTATTTATT
31090 -TTATA-ATTAT
1 ATTATATATTAT
31100 AAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 1 0.04
18 7 0.27
19 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATATATTATTTATT
Found at i:31406 original size:20 final size:20
Alignment explanation
Indices: 31383--31420 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31373 TTATTATTAA
31383 TATTAGAATTAACTTAATTT
1 TATTAGAATTAACTTAATTT
* *
31403 TATTATAATTAAGTTAAT
1 TATTAGAATTAACTTAAT
31421 AATTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTAGAATTAACTTAATTT
Found at i:33172 original size:18 final size:18
Alignment explanation
Indices: 33133--33174 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33123 AGTTATTAAT
* *
33133 TATAATATTTAATATGTT
1 TATAATAATTAATATGTA
33151 TATAATAATTAATTAT-TA
1 TATAATAATTAA-TATGTA
33169 TATAAT
1 TATAAT
33175 TGTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATAATAATTAATATGTA
Found at i:33395 original size:16 final size:17
Alignment explanation
Indices: 33346--33395 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
33336 ATATAATTAT
33346 ATTAATAATTAAGAATTAAA
1 ATTAATAA-T-AGAA-TAAA
33366 ATTAATAATA-AATAAA
1 ATTAATAATAGAATAAA
*
33382 A-TAATACTAGAATA
1 ATTAATAATAGAATA
33396 TTAATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 7 0.25
16 9 0.32
17 2 0.07
18 1 0.04
19 1 0.04
20 8 0.29
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (17 bp):
ATTAATAATAGAATAAA
Found at i:33472 original size:16 final size:15
Alignment explanation
Indices: 33451--33480 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
33441 TAAACAATTG
33451 TATATTATTAATTAAT
1 TATATTA-TAATTAAT
33467 TATATTATAATTAA
1 TATATTATAATTAA
33481 CACTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTATAATTAAT
Done.