Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 60 of 120
Found at i:6786816 original size:3 final size:3
Alignment explanation
Indices: 6786810--6786872 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
6786800 TATTATTAAG
* *
6786810 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- GTT ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
*
6786855 ATA ATTA A-G ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA
6786873 TACTTTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:6797609 original size:15 final size:15
Alignment explanation
Indices: 6797589--6797618 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6797579 ATAAGTTAAA
6797589 TATATTAAATTTTAT
1 TATATTAAATTTTAT
*
6797604 TATATTATATTTTAT
1 TATATTAAATTTTAT
6797619 AACTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTAAATTTTAT
Found at i:6798293 original size:16 final size:18
Alignment explanation
Indices: 6798261--6798299 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6798251 AACAAGTACA
6798261 AATAATTATGACTATTTC-
1 AATAATTAT-ACTATTTCT
6798279 AATAATTAT-CTATTTCT
1 AATAATTATACTATTTCT
6798296 AATA
1 AATA
6798300 GCTATAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 4 0.20
18 9 0.45
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (18 bp):
AATAATTATACTATTTCT
Found at i:6798496 original size:181 final size:179
Alignment explanation
Indices: 6797835--6798625 Score: 589
Period size: 181 Copynumber: 4.4 Consensus size: 179
6797825 TTATATAATT
* * ** *
6797835 ATTTATTAATATTTTGAAAATTAAGAAGTAAAA-ATTTTAAAAAGTAAAAT-TATTTACTAAACC
1 ATTTATTAATA-TTT-AAAATTAATAAGTAAAAGA-TTTAAAAAAT-AAATCTATTTACCGAACA
* * * * * * ** * * *
6797898 AGTTCAATTAGTTATAACTATTGGAACAATTATTTATTTCAAATCATTATAACCA-TTTGTATTG
62 AGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGA-CATTTTGTTTTA
* * * * * * * * * * **
6797962 TCATAAAATAATTATTTTTGTTCATAC-AGTCTTATTCGGACTAAAGTAATATTA
126 TCATGAAACAAATCTTTCTATTCATACAAG-CTTATTTGAAATAAAATAATACAA
* * * * * ** *
6798016 ATTTATCAATATTTTGAAATTAATAAGTAATAGATTTAAAAAATGAATCAATTGGCCTG-ACTAG
1 ATTTATTAATA-TTTAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACC-GAACAAG
* * * * *
6798080 TGCAAATAGTTATGACTGTTTGAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTATCA
64 TTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACATTTTGTTTTATCA
** * ** *
6798145 CAAAAC-AATCATTTCTGTTTGTACTAGCTTATTTGAAATAATAA-AATACAA
129 TGAAACAAATC-TTTCTATTCATACAAGCTTATTTGAAATAA-AATAATACAA
* * * * *
6798196 TTTTATTAATATTCTAAAAATTAATAAG----AGATTTAAAAAATGAATCTGTTTATCAAACAAG
1 ATTTATTAATATT-T-AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAG
* * * * * * * *
6798257 TACAAATAATTATGACTATTTCAATAATTATCTATTTCTAATAGCTATAACATTTTGTTTTGTCT
64 TTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACATTTTGTTTTATCA
* * *
6798322 TGAAACAAAACTTTCTATTCATACAAGCTTATTTCAAATAAAATTATACAA
129 TGAAACAAATCTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACAA
* * *
6798373 ATTTATTAATATTTAGATAACTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAATAAG
1 ATTTATTAATATTTA-A-AATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAG
* * * * *
6798438 TTTAAATAATTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGTCTTTTTGTTTTCTCA
64 TTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACATTTTGTTTTATCA
* * * * * * * * * **
6798503 TGACACAATTGTTTTTCTTCATAAAAGCCTATTTGGATTAAAATAATATTA
129 TGAAACAAATCTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACAA
* * *
6798554 ATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTT-TAAAATAAATATGTTTACCGAACAAG
1 ATTTATTAATA-TTT-AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAG
6798618 TTCAAATA
64 TTCAAATA
6798626 TTCATAACTA
Statistics
Matches: 483, Mismatches: 107, Indels: 41
0.77 0.17 0.06
Matches are distributed among these distances:
175 1 0.00
176 4 0.01
177 134 0.28
178 3 0.01
179 8 0.02
180 150 0.31
181 178 0.37
182 4 0.01
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
ATTTATTAATATTTAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAGTT
CAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACATTTTGTTTTATCATG
AAACAAATCTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACAA
Found at i:6799103 original size:20 final size:20
Alignment explanation
Indices: 6799065--6799104 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6799055 AATTTATGTT
**
6799065 TATATAATTGTTATAATTTA
1 TATATAATTCATATAATTTA
*
6799085 TATATAATTCATATTATTTA
1 TATATAATTCATATAATTTA
6799105 ATTATGTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TATATAATTCATATAATTTA
Found at i:6799398 original size:179 final size:181
Alignment explanation
Indices: 6799182--6799535 Score: 396
Period size: 180 Copynumber: 2.0 Consensus size: 181
6799172 TAAAAATTAA
* ** * *
6799182 TAAGAGATTTAAAAAATAAATCTATTTATTGAATCAGTTCAAATAGTTATA-ACTAT-TTGAATA
1 TAAGAGAATTAAAAAATAAATCTATTTATCAAATCAGTTCAAATAGTTA-AGACTATAAT-AACA
** * ** * *
6799245 ATTATATA-CTCAAATTGTTATAACCTT-TTGTTCTATCATAAAATAATTATTT-TTGTTCATAG
64 ATTATATATCTCAAAACGTTATAA-CTTCTTGTTCTATCATAAAACAAAAATTTCAT-TTCATAC
* * *
6799307 AAGCTTATTCGAAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAC
127 AAGCTTATTCGAAATAAAATAAAACAAATTTAATAATATTTCAAAAATTAATAAC
* * * *
6799362 TAAGAGAATT-AAAAATAAATTTGTTTATCAAATCAGTTTAAATATTTAAGACTATAATAACAAT
1 TAAGAGAATTAAAAAATAAATCTATTTATCAAATCAGTTCAAATAGTTAAGACTATAATAACAAT
* * * * *
6799426 TATCTATTTCAAAACGTTATGACTTCTTGTTTTATCATAAAACAAAAATTTCATTTCATACTAGC
66 TATATATCTCAAAACGTTATAACTTCTTGTTCTATCATAAAACAAAAATTTCATTTCATACAAGC
* *
6799491 TTATTTGAAATAAAATAAAACAAATTTATTAATATTTCAAAAATT
131 TTATTCGAAATAAAATAAAACAAATTTAATAATATTTCAAAAATT
6799536 TAAGAGATTT
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
178 1 0.01
179 50 0.35
180 91 0.64
181 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (181 bp):
TAAGAGAATTAAAAAATAAATCTATTTATCAAATCAGTTCAAATAGTTAAGACTATAATAACAAT
TATATATCTCAAAACGTTATAACTTCTTGTTCTATCATAAAACAAAAATTTCATTTCATACAAGC
TTATTCGAAATAAAATAAAACAAATTTAATAATATTTCAAAAATTAATAAC
Found at i:6799815 original size:18 final size:18
Alignment explanation
Indices: 6799788--6799822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6799778 GTCCAATTAA
6799788 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
* *
6799806 ATTATGTAATATATAAT
1 ATTATATAATAAATAAT
6799823 ATACAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:6799823 original size:25 final size:25
Alignment explanation
Indices: 6799790--6799865 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
6799780 CCAATTAAAT
*
6799790 TATATAATAAATAATTATTATGTA-A
1 TATATAATAAATAATTATAAT-TACA
* *
6799815 TATATAATATACAATTATAATTACA
1 TATATAATAAATAATTATAATTACA
*
6799840 TATTATAATAATTAA-TATAATT-CA
1 TA-TATAATAAATAATTATAATTACA
6799864 TA
1 TA
6799866 AAATATTATT
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:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:6799835 original size:13 final size:14
Alignment explanation
Indices: 6799817--6799849 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6799807 TTATGTAATA
6799817 TATAATATACA-AT
1 TATAATATACATAT
6799830 TATAAT-TACATAT
1 TATAATATACATAT
6799843 TATAATA
1 TATAATA
6799850 ATTAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATATACATAT
Found at i:6799963 original size:18 final size:19
Alignment explanation
Indices: 6799940--6799975 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6799930 AATTATTATA
6799940 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
6799958 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
6799976 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:6800734 original size:22 final size:21
Alignment explanation
Indices: 6800693--6800735 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6800683 AATTTATTAG
**
6800693 TAATTTATTAATAAGTAAAAT
1 TAATTTATTAATAACAAAAAT
6800714 TAATATTATTAATAACAAAAAT
1 TAAT-TTATTAATAACAAAAAT
6800736 ATTTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAACAAAAAT
Found at i:6800766 original size:10 final size:10
Alignment explanation
Indices: 6800741--6800781 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
6800731 AAAATATTTG
6800741 TAATAATAA-
1 TAATAATAAT
6800750 T-ATAATAAT
1 TAATAATAAT
6800759 TAATAATAAT
1 TAATAATAAT
* *
6800769 TATTAATAGT
1 TAATAATAAT
6800779 TAA
1 TAA
6800782 CATAGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.26
9 2 0.07
10 18 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:6801005 original size:25 final size:24
Alignment explanation
Indices: 6800968--6801015 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
6800958 GTAATATTAA
* **
6800968 TATTTAGTATTATTTATAATAAAT
1 TATTTAATATTATAAATAATAAAT
6800992 TATTTAATATTTATAAATAATAAA
1 TATTTAATA-TTATAAATAATAAA
6801016 AATAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTTAATATTATAAATAATAAAT
Found at i:6801301 original size:19 final size:19
Alignment explanation
Indices: 6801277--6801330 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
6801267 TATATTTTTG
6801277 TTAATTCAAT-TTAAATTAA
1 TTAATT-AATATTAAATTAA
*
6801296 TTAATTAATATTTAATTAA
1 TTAATTAATATTAAATTAA
*
6801315 TAAATAATAATATTAA
1 TTAAT--TAATATTAA
6801331 TTGTCATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 18 0.62
21 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATTAATATTAAATTAA
Found at i:6801893 original size:23 final size:23
Alignment explanation
Indices: 6801866--6801909 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6801856 ATAATTATTA
*
6801866 ATATTAA-AACTAATATTATAAGC
1 ATATTAATAAATAATA-TATAAGC
6801889 ATATTAATAAATAATATATAA
1 ATATTAATAAATAATATATAA
6801910 AGTAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTAATAAATAATATATAAGC
Found at i:6802115 original size:19 final size:17
Alignment explanation
Indices: 6802072--6802193 Score: 81
Period size: 18 Copynumber: 6.9 Consensus size: 17
6802062 CCATAACTAT
*
6802072 TAATATATAA-ATTATTA
1 TAAT-TATAATATTAATA
6802089 -AATTATAACTATTAATAA
1 TAATTATAA-TATTAAT-A
*
6802107 TAGTTATAATATT-ATA
1 TAATTATAATATTAATA
6802123 TAATTATAATATTAATTA
1 TAATTATAATATTAA-TA
* *
6802141 TAATATTACAATATGAAATA
1 T-A-ATTATAATAT-TAATA
* * *
6802161 TAATAATTATATTAAAA
1 TAATTATAATATTAATA
6802178 TTAATTA-AATATTAAT
1 -TAATTATAATATTAAT
6802194 TTTATTAATA
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
15 5 0.06
16 16 0.20
17 18 0.22
18 20 0.24
19 9 0.11
20 12 0.15
21 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATTATAATATTAATA
Found at i:6802140 original size:12 final size:12
Alignment explanation
Indices: 6802064--6802148 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
6802054 AGTTATGACC
6802064 ATAACTATTAATAT
1 ATAA-TATTAAT-T
6802078 ATAAATTATTAAATT
1 AT-AA-TATT-AATT
*
6802093 ATAACTATTAATA
1 ATAA-TATTAATT
*
6802106 ATAGT-TATAA-T
1 ATAATAT-TAATT
*
6802117 ATTATA-TAATT
1 ATAATATTAATT
6802128 ATAATATTAATT
1 ATAATATTAATT
6802140 ATAATATTA
1 ATAATATTA
6802149 CAATATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
10 3 0.05
11 10 0.18
12 18 0.32
13 6 0.11
14 8 0.14
15 9 0.16
16 3 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (12 bp):
ATAATATTAATT
Found at i:6802141 original size:28 final size:29
Alignment explanation
Indices: 6802064--6802148 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 29
6802054 AGTTATGACC
6802064 ATAACTATTAATATATAAATTATTAA-A-T-T
1 ATAACTATTAATA-AT-AATTA-TAATATTAT
*
6802093 ATAACTATTAATAATAGTTATAATATTAT
1 ATAACTATTAATAATAATTATAATATTAT
* *
6802122 ATAATTA-TAATATTAATTATAATATTA
1 ATAACTATTAATAATAATTATAATATTA
6802149 CAATATGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
26 3 0.06
27 5 0.10
28 21 0.43
29 20 0.41
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
ATAACTATTAATAATAATTATAATATTAT
Found at i:6802148 original size:8 final size:8
Alignment explanation
Indices: 6802072--6802136 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 8
6802062 CCATAACTAT
6802072 TAATA-TA
1 TAATATTA
6802079 TAA-ATTA
1 TAATATTA
6802086 TTAA-ATTA
1 -TAATATTA
6802094 TAACTATTAA
1 TAA-TATT-A
6802104 TAATAGTTA
1 TAATA-TTA
6802113 TAATATTA
1 TAATATTA
6802121 T-ATAATTA
1 TAAT-ATTA
6802129 TAATATTA
1 TAATATTA
6802137 ATTATAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
6 1 0.02
7 10 0.20
8 20 0.40
9 13 0.26
10 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATATTA
Found at i:6802213 original size:15 final size:15
Alignment explanation
Indices: 6802069--6802213 Score: 64
Period size: 15 Copynumber: 10.2 Consensus size: 15
6802059 TGACCATAAC
6802069 TATTAATA-TATAAAT
1 TATTAATATTA-AAAT
* *
6802084 TATTAA-ATTATAAC
1 TATTAATATTAAAAT
* *
6802098 TATTAATA--ATAGT
1 TATTAATATTAAAAT
6802111 TA-TAATATTATATAAT
1 TATTAATATTA-A-AAT
6802127 TA-TAATATT--AAT
1 TATTAATATTAAAAT
*
6802139 TA-TAATATTACAA-
1 TATTAATATTAAAAT
* *
6802152 TATGAA-A-TATAAT
1 TATTAATATTAAAAT
*
6802165 AATT-ATATTAAAAT
1 TATTAATATTAAAAT
**
6802179 TAATTAAATATTAATTT
1 T-ATT-AATATTAAAAT
6802196 TATTAATATTAAAAT
1 TATTAATATTAAAAT
6802211 TAT
1 TAT
6802214 ATAAACTATT
Statistics
Matches: 99, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
12 22 0.22
13 11 0.11
14 19 0.19
15 24 0.24
16 14 0.14
17 9 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
TATTAATATTAAAAT
Found at i:6802347 original size:17 final size:17
Alignment explanation
Indices: 6802322--6802377 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
6802312 TTTAATATAT
*
6802322 TTATTATAATTATAATA
1 TTATAATAATTATAATA
*
6802339 TTATAATAAATA-AATAA
1 TTATAATAATTATAAT-A
*
6802356 TTATTATAATTGATAA-A
1 TTATAATAATT-ATAATA
6802373 TTATA
1 TTATA
6802378 CTATTTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 3 0.10
17 25 0.81
18 1 0.03
19 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TTATAATAATTATAATA
Found at i:6802361 original size:28 final size:28
Alignment explanation
Indices: 6802285--6802365 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
6802275 TAAATAAATA
* * *
6802285 AATAAATAATATATTGTATTAAAATATTTT
1 AATAAATAA-ATAAT-TATTATAATATTAT
* ** * *
6802315 AATATATTTATTATAATTATAATATTAT
1 AATAAATAAATAATTATTATAATATTAT
6802343 AATAAATAAATAATTATTATAAT
1 AATAAATAAATAATTATTATAAT
6802366 TGATAAATTA
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
28 29 0.76
29 3 0.08
30 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
AATAAATAAATAATTATTATAATATTAT
Found at i:6804605 original size:24 final size:24
Alignment explanation
Indices: 6804578--6804634 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
6804568 AAAATTATCC
6804578 TAATTTAATTAATTAATAATACTA
1 TAATTTAATTAATTAATAATACTA
*
6804602 TAATATT-ATTAATTAATATTACTA
1 TAAT-TTAATTAATTAATAATACTA
*
6804626 TTA-TTAATT
1 TAATTTAATT
6804635 CAGTGGTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 3 0.10
24 22 0.76
25 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATTTAATTAATTAATAATACTA
Found at i:6805272 original size:21 final size:21
Alignment explanation
Indices: 6805243--6805283 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6805233 TAGTGGAGTA
* *
6805243 TATTTAATTTATTTAATTATC
1 TATTAAATTCATTTAATTATC
6805264 TATTAAATTCATTTAATTAT
1 TATTAAATTCATTTAATTAT
6805284 TAAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTAAATTCATTTAATTATC
Found at i:6805522 original size:24 final size:23
Alignment explanation
Indices: 6805458--6805522 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
6805448 TTATTTATTT
*
6805458 TAAATATTATT-TTATTTAAATTAA
1 TAAATATTATTATTA--TAAATAAA
6805482 TAAATAATTAATTATTATAAATAAA
1 TAAAT-ATT-ATTATTATAAATAAA
*
6805507 TCAATATTATTGATTA
1 TAAATATTATT-ATTA
6805523 AATCATAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 3 0.09
24 12 0.34
25 14 0.40
26 3 0.09
27 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAATATTATTATTATAAATAAA
Found at i:6805580 original size:13 final size:14
Alignment explanation
Indices: 6805555--6805602 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
6805545 TAATTATATG
6805555 AAATTATAATAATT
1 AAATTATAATAATT
6805569 AAATTA-AATAATTT
1 AAATTATAATAA-TT
* *
6805583 TAATTTTAAT-ATT
1 AAATTATAATAATT
6805596 AAATTAT
1 AAATTAT
6805603 TAAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:6805586 original size:22 final size:22
Alignment explanation
Indices: 6805556--6805604 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
6805546 AATTATATGA
6805556 AATTATAATAATTAA-ATTAAAT
1 AATTATAAT-ATTAATATTAAAT
* *
6805578 AATTTTAATTTTAATATTAAAT
1 AATTATAATATTAATATTAAAT
*
6805600 TATTA
1 AATTA
6805605 AAATGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATAATATTAATATTAAAT
Found at i:6805641 original size:19 final size:19
Alignment explanation
Indices: 6805617--6805653 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6805607 ATGATTTATC
* *
6805617 TATTTATTAATTATTAATT
1 TATTTAATAATTAATAATT
6805636 TATTTAATAATTAATAAT
1 TATTTAATAATTAATAAT
6805654 AATATATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTAATAATTAATAATT
Found at i:6805655 original size:10 final size:10
Alignment explanation
Indices: 6805640--6805717 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
6805630 TTAATTTATT
6805640 TAATAATTAA
1 TAATAATTAA
6805650 TAATAA-T-A
1 TAATAATTAA
*
6805658 TATATCA-TAA
1 TA-ATAATTAA
*
6805668 TAA-AAATATA
1 TAATAATTA-A
6805678 TAATAATTAA
1 TAATAATTAA
*
6805688 TAACAATTAA
1 TAATAATTAA
*
6805698 TAATATTTTAA
1 TAATA-ATTAA
6805709 TTAATAATT
1 -TAATAATT
6805718 TAATTACAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
8 4 0.07
9 8 0.15
10 27 0.50
11 10 0.19
12 5 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATTAA
Found at i:6805678 original size:16 final size:18
Alignment explanation
Indices: 6805642--6805702 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 18
6805632 AATTTATTTA
6805642 ATAATTAATAATAATATAT
1 ATAA-TAATAATAATATAT
*
6805661 ATCATAATAA-AA-ATAT
1 ATAATAATAATAATATAT
*
6805677 ATAATAATTAATAACA-AT
1 ATAATAA-TAATAATATAT
6805695 -TAATAATA
1 ATAATAATA
6805703 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 12 0.32
17 11 0.30
18 10 0.27
19 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATATAT
Found at i:6805919 original size:17 final size:18
Alignment explanation
Indices: 6805887--6805931 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6805877 TATTATTATT
*
6805887 AATTTTATTAATTTTGAA
1 AATTTAATTAATTTTGAA
*
6805905 AATTTAATTAA-TTTGTA
1 AATTTAATTAATTTTGAA
6805922 AATTCTAATT
1 AATT-TAATT
6805932 TAACTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
AATTTAATTAATTTTGAA
Found at i:6806373 original size:4 final size:4
Alignment explanation
Indices: 6806350--6806385 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
6806340 TAATATAAAT
*
6806350 TTAA TAAA TTAA TTATA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTA-A TTAA TTAA TTAA TTAA TTA
6806386 GAATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:6806548 original size:15 final size:16
Alignment explanation
Indices: 6806520--6806562 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6806510 AATTGTTTAA
*
6806520 TAAT-ATTATAATAC-
1 TAATAATTATTATACT
6806534 TAATAATTATTATACT
1 TAATAATTATTATACT
6806550 TAATTAATTATTA
1 TAA-TAATTATTA
6806563 AATTCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 3 0.12
17 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAATTATTATACT
Found at i:6806707 original size:5 final size:5
Alignment explanation
Indices: 6806697--6806721 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6806687 CATTATTTAT
6806697 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
6806722 ATTTTGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:6806916 original size:23 final size:23
Alignment explanation
Indices: 6806890--6806935 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6806880 CTAATAAGTA
6806890 ATAATATTAAT-GATTATATAATT
1 ATAATATTAATCGATTAT-TAATT
* *
6806913 ATAATCTTATTCGATTATTAATT
1 ATAATATTAATCGATTATTAATT
6806936 TAAGGTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
ATAATATTAATCGATTATTAATT
Found at i:6807230 original size:32 final size:32
Alignment explanation
Indices: 6807162--6807230 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
6807152 TAATATTTAC
*
6807162 TATAATT-A-TGTATAATTAATATTATATAAT
1 TATAATTAATTGTATAATTAATATAATATAAT
*
6807192 TATAATTAATTGTATAATTAATA-AATTTAAT
1 TATAATTAATTGTATAATTAATATAATATAAT
6807223 TATTAATT
1 TA-TAATT
6807231 TAACTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.21
31 9 0.26
32 18 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TATAATTAATTGTATAATTAATATAATATAAT
Found at i:6807447 original size:23 final size:24
Alignment explanation
Indices: 6807402--6807452 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
6807392 TAAGTTAACT
6807402 TAATATATAAATTTATAAGT-AAA
1 TAATATATAAATTTATAAGTAAAA
**
6807425 TAATAT-TAGAATTTATATTTAAAA
1 TAATATATA-AATTTATAAGTAAAA
6807449 TAAT
1 TAAT
6807453 TAATATTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 15 0.62
24 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATATATAAATTTATAAGTAAAA
Found at i:6807457 original size:28 final size:27
Alignment explanation
Indices: 6807425--6807482 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
6807415 TATAAGTAAA
*
6807425 TAATATTAGAATTTATATTTAAA-ATAAT
1 TAATATTAG--TTTATAATTAAATATAAT
6807453 TAATATTAGTTTATAATTAAATTATAAT
1 TAATATTAGTTTATAATTAAA-TATAAT
6807481 TA
1 TA
6807483 TTTAACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 11 0.41
28 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATATTAGTTTATAATTAAATATAAT
Found at i:6807674 original size:17 final size:18
Alignment explanation
Indices: 6807646--6807680 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6807636 CTAAATACAA
*
6807646 TTATTAATTAATATATAT
1 TTATTAATTAATAAATAT
6807664 TTATT-ATTAATAAATAT
1 TTATTAATTAATAAATAT
6807681 AATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTAATTAATAAATAT
Found at i:6807706 original size:17 final size:18
Alignment explanation
Indices: 6807674--6807707 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6807664 TTATTATTAA
*
6807674 TAAATATAATTAATAATT
1 TAAATATAAATAATAATT
6807692 TAAAT-TAAATAATAAT
1 TAAATATAAATAATAAT
6807708 AATTTGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATAAATAATAATT
Found at i:6808026 original size:17 final size:16
Alignment explanation
Indices: 6808003--6808046 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
6807993 TAAAATTGTT
6808003 AATATTAATAATAGAA
1 AATATTAATAATAGAA
*
6808019 ATATATTAAT-ATATAA
1 A-ATATTAATAATAGAA
6808035 AATATTAATAAT
1 AATATTAATAAT
6808047 TAAGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AATATTAATAATAGAA
Found at i:6808526 original size:12 final size:12
Alignment explanation
Indices: 6808471--6808558 Score: 54
Period size: 12 Copynumber: 6.9 Consensus size: 12
6808461 TAATAAGGTA
6808471 AATATTTATAATT
1 AATATTT-TAATT
*
6808484 AATATTTAAATT
1 AATATTTTAATT
* *
6808496 ATAAATATTAA-T
1 A-ATATTTTAATT
*
6808508 AATTATTTTAATG
1 AA-TATTTTAATT
6808521 AATATTTTAA-T
1 AATATTTTAATT
6808532 AATCAATTTATTAATT
1 AAT--A-TT-TTAATT
*
6808548 ATTATTTTAAT
1 AATATTTTAAT
6808559 AAATTAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
11 4 0.07
12 26 0.45
13 18 0.31
14 3 0.05
15 4 0.07
16 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:6808576 original size:12 final size:12
Alignment explanation
Indices: 6808471--6808594 Score: 51
Period size: 12 Copynumber: 10.2 Consensus size: 12
6808461 TAATAAGGTA
*
6808471 AATATTTATAATT
1 AATATTAATAA-T
*
6808484 AATATTTAAATTAT
1 AATA-TT-AATAAT
6808498 AAATATTAATAAT
1 -AATATTAATAAT
* *
6808511 TATTTTAATGAAT
1 AATATTAAT-AAT
*
6808524 -ATTTTAATAAT
1 AATATTAATAAT
*
6808535 CAAT-TTATTAATT
1 -AATATTAATAA-T
* *
6808548 ATTATT-TTAAT
1 AATATTAATAAT
6808559 AA-ATTAATAAT
1 AATATTAATAAT
*
6808570 AATATT-ATATT
1 AATATTAATAAT
* *
6808581 ATTATTAGTAAT
1 AATATTAATAAT
6808593 AA
1 AA
6808595 CATATATAGA
Statistics
Matches: 86, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
10 3 0.03
11 20 0.23
12 34 0.40
13 17 0.20
14 5 0.06
15 7 0.08
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (12 bp):
AATATTAATAAT
Found at i:6808762 original size:22 final size:22
Alignment explanation
Indices: 6808729--6808771 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6808719 CTTTTAGTTA
*
6808729 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
6808751 TATT-AAATTAATACAATAATA
1 TATTCAAA-TAATACAATAATA
6808772 ATTGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:6809173 original size:7 final size:7
Alignment explanation
Indices: 6809161--6809198 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
6809151 TAATAATCAA
6809161 AAATTTT
1 AAATTTT
6809168 AAATTTT
1 AAATTTT
6809175 AAATATTT
1 AAAT-TTT
*
6809183 AAATTTA
1 AAATTTT
6809190 AAATTTT
1 AAATTTT
6809197 AA
1 AA
6809199 TTGTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
AAATTTT
Found at i:6810416 original size:14 final size:13
Alignment explanation
Indices: 6810399--6810446 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
6810389 TTATAAATAT
6810399 TAATTATTATTTTA
1 TAATTATTA-TTTA
* **
6810413 TAATTAATATAAA
1 TAATTATTATTTA
6810426 TAAATTATTATTTA
1 T-AATTATTATTTA
6810440 TAATTAT
1 TAATTAT
6810447 ATTAGATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTATTATTTA
Found at i:6810495 original size:16 final size:17
Alignment explanation
Indices: 6810468--6810499 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6810458 AGAATAATAT
6810468 TTATAGTATTTATTATA
1 TTATAGTATTTATTATA
6810485 TTATA-TATTTATTAT
1 TTATAGTATTTATTAT
6810500 TATATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATAGTATTTATTATA
Found at i:6810517 original size:17 final size:14
Alignment explanation
Indices: 6810468--6810533 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 14
6810458 AGAATAATAT
6810468 TTATAGTATTTATTATA
1 TTATA-TATTTA-T-TA
6810485 TTATATATTTATTA
1 TTATATATTTATTA
6810499 TTATATTATTTGAATTA
1 TTATA-TATTT--ATTA
* *
6810516 TTAATATAATTATAA
1 TT-ATATATTTATTA
6810531 TTA
1 TTA
6810534 ATTTATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
14 8 0.19
15 11 0.26
16 6 0.14
17 15 0.35
18 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTATATATTTATTA
Found at i:6810976 original size:6 final size:6
Alignment explanation
Indices: 6810965--6810989 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6810955 ATTAACTTAT
6810965 TATTAA TATTAA TATTAA TATTAA T
1 TATTAA TATTAA TATTAA TATTAA T
6810990 TATATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:6811311 original size:22 final size:22
Alignment explanation
Indices: 6811269--6811313 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6811259 TTAATTATTG
*
6811269 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
6811291 TTATTAATTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
6811313 T
1 T
6811314 AGTAAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:6811910 original size:10 final size:10
Alignment explanation
Indices: 6811897--6811970 Score: 62
Period size: 10 Copynumber: 6.8 Consensus size: 10
6811887 TTATTATTAA
6811897 TATTAAATAT
1 TATTAAATAT
6811907 TATTAAATATT
1 TATTAAATA-T
6811918 TAATTAAAT-T
1 T-ATTAAATAT
6811928 TATATAAATATAAT
1 TAT-T-AA-AT-AT
6811942 TATATAAATAT
1 TAT-TAAATAT
6811953 TATTAAAT-T
1 TATTAAATAT
6811962 TATATAAAT
1 TAT-TAAAT
6811971 TTAATAATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.11
10 22 0.39
11 9 0.16
12 11 0.20
13 2 0.04
14 6 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATTAAATAT
Found at i:6811943 original size:20 final size:20
Alignment explanation
Indices: 6811898--6811987 Score: 70
Period size: 20 Copynumber: 4.7 Consensus size: 20
6811888 TATTATTAAT
6811898 ATTAAATATTAT-TAAATATTTA
1 ATTAAAT-TTATATAAATA--TA
6811920 ATTAAATTTATAT-AA-AT-
1 ATTAAATTTATATAAATATA
*
6811937 A-T-AA-TTATATAAATATT
1 ATTAAATTTATATAAATATA
*
6811954 ATTAAATTTATATAAATTTA
1 ATTAAATTTATATAAATATA
6811974 A-TAATATTTATATA
1 ATTAA-ATTTATATA
6811988 TTGTTTGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
14 6 0.10
15 4 0.07
16 3 0.05
17 2 0.03
18 2 0.03
19 5 0.09
20 22 0.38
21 6 0.10
22 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAATTTATATAAATATA
Found at i:6811946 original size:14 final size:14
Alignment explanation
Indices: 6811927--6811957 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6811917 TTAATTAAAT
6811927 TTATATAAATATAA
1 TTATATAAATATAA
*
6811941 TTATATAAATATTA
1 TTATATAAATATAA
6811955 TTA
1 TTA
6811958 AATTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATATAAATATAA
Found at i:6812177 original size:23 final size:25
Alignment explanation
Indices: 6812151--6812212 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 25
6812141 ATGTAATATT
6812151 AAATTATATTTATTTCA-AATT-AA
1 AAATTATATTTATTTCATAATTCAA
* *
6812174 AAATAATATTTATTTGATAATTCAA
1 AAATTATATTTATTTCATAATTCAA
*
6812199 AAATTAAATTTATT
1 AAATTATATTTATT
6812213 GATAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.45
24 4 0.12
25 14 0.42
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATTATATTTATTTCATAATTCAA
Found at i:6812371 original size:24 final size:26
Alignment explanation
Indices: 6812341--6812403 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 26
6812331 GTAATAGATA
6812341 ATAATATTAATTATAATTATTCTAA-
1 ATAATATTAATTATAATTATTCTAAT
*
6812366 AT-ATATTAA-T-TGATTATTCTAAT
1 ATAATATTAATTATAATTATTCTAAT
*
6812389 TTAATATTAATTATA
1 ATAATATTAATTATA
6812404 TATTTATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 11 0.35
23 2 0.06
24 14 0.45
25 3 0.10
26 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
ATAATATTAATTATAATTATTCTAAT
Found at i:6812407 original size:24 final size:24
Alignment explanation
Indices: 6812342--6812415 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
6812332 TAATAGATAA
*
6812342 TAATATTAATTATAATTATTCTAA-A
1 TAATATTAATTAT-A-TATTCTAATT
6812367 T-ATATTAATTGAT-TATTCTAATT
1 TAATATTAATT-ATATATTCTAATT
6812390 TAATATTAATTATATATT-T-ATT
1 TAATATTAATTATATATTCTAATT
6812412 TAAT
1 TAAT
6812416 GTTTATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
22 15 0.34
23 4 0.09
24 22 0.50
25 3 0.07
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (24 bp):
TAATATTAATTATATATTCTAATT
Found at i:6812576 original size:23 final size:22
Alignment explanation
Indices: 6812467--6812602 Score: 77
Period size: 22 Copynumber: 6.0 Consensus size: 22
6812457 TAGAACTTTG
*
6812467 ATTTATACATAATTATATAAATAT
1 ATTTATA-ATAATTAT-TAATTAT
* * *
6812491 A-TAATAATTATCTATTTATT-T
1 ATTTATAATAAT-TATTAATTAT
*
6812512 AATTT-TAATATATTA-TATTATAT
1 -ATTTATAATA-ATTATTAAT-TAT
* *
6812535 ATTTAATATTAA-CATTAATTAT
1 ATTT-ATAATAATTATTAATTAT
6812557 AGTATTATAA-AATTATTAATTAT
1 A-T-TTATAATAATTATTAATTAT
*
6812580 ATTTATAATAATTATTAAATAT
1 ATTTATAATAATTATTAATTAT
6812602 A
1 A
6812603 AATCATTATA
Statistics
Matches: 85, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
21 9 0.11
22 40 0.47
23 29 0.34
24 7 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (22 bp):
ATTTATAATAATTATTAATTAT
Found at i:6813030 original size:27 final size:27
Alignment explanation
Indices: 6812974--6813030 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6812964 TATTATTAAT
*
6812974 TTATTAAAATAGTAATTAATAAATTGA
1 TTATTAAAATAGTAATTAAAAAATTGA
* *
6813001 TTATTAAAATATTCATTAAAATAATT-A
1 TTATTAAAATAGTAATTAAAA-AATTGA
6813028 TTA
1 TTA
6813031 ATATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAGTAATTAAAAAATTGA
Found at i:6813139 original size:27 final size:25
Alignment explanation
Indices: 6813107--6813182 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
6813097 GTATTAAGTA
6813107 AATAATAAATAATAATTATTTATTAT
1 AATAATAAAT-ATAATTATTTATTAT
*
6813133 AATTAATGAATATAA-TATTT-TTATT
1 AA-TAATAAATATAATTATTTATTA-T
*
6813158 AAT-ATAAATATACATTATTAATTAT
1 AATAATAAATATA-ATTATTTATTAT
6813183 TAAATTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
23 8 0.19
24 5 0.12
25 13 0.31
26 9 0.21
27 7 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
AATAATAAATATAATTATTTATTAT
Found at i:6813991 original size:16 final size:17
Alignment explanation
Indices: 6813970--6814002 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6813960 TAGCGACTAG
6813970 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
6813986 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
6814003 TGTACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:6814547 original size:11 final size:11
Alignment explanation
Indices: 6814533--6814570 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6814523 TAATAGTCAT
6814533 ATATTTAATTA
1 ATATTTAATTA
6814544 ATATTTAATT-
1 ATATTTAATTA
6814554 AT-TTTAATTA
1 ATATTTAATTA
6814564 A-ATTTAA
1 ATATTTAA
6814571 AAAATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTTAATTA
Found at i:6814704 original size:21 final size:19
Alignment explanation
Indices: 6814675--6814722 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
6814665 TTTTGTTTAT
6814675 TTATAATTTATAATATATTA
1 TTAT-ATTTATAATATATTA
6814695 CTTAATATTTAT-ATAATATTA
1 -TT-ATATTTATAAT-ATATTA
6814716 TTATATT
1 TTATATT
6814723 ATTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 14 0.56
22 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATTTATAATATATTA
Found at i:6814938 original size:15 final size:16
Alignment explanation
Indices: 6814909--6814938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6814899 ATTAAAAGAT
6814909 TTAATCTATTTGATTA
1 TTAATCTATTTGATTA
6814925 TTAATCTA-TTGATT
1 TTAATCTATTTGATT
6814939 TTTATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (16 bp):
TTAATCTATTTGATTA
Found at i:6815253 original size:19 final size:19
Alignment explanation
Indices: 6815229--6815266 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6815219 CTCTACCATT
* *
6815229 TAATTATTTTTAATATTAA
1 TAATTATTATAAATATTAA
6815248 TAATTATTATAAATATTAA
1 TAATTATTATAAATATTAA
6815267 AAAATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTATTATAAATATTAA
Found at i:6815348 original size:28 final size:28
Alignment explanation
Indices: 6815294--6815348 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6815284 TAATTAGTAT
* **
6815294 ATTAATATTTGAATACATTTACTTATTA
1 ATTAATATTTAAATACATTTAAATATTA
*
6815322 ATTAATATTTAAATATATTTAAATATT
1 ATTAATATTTAAATACATTTAAATATT
6815349 GGTTTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (28 bp):
ATTAATATTTAAATACATTTAAATATTA
Found at i:6815806 original size:21 final size:21
Alignment explanation
Indices: 6815715--6815806 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 21
6815705 ATACATATTG
*
6815715 TTAATTATAATT-TATAATATA
1 TTAATTATAATTAT-TATTATA
* *
6815736 ATATTTATAATATATTAATTA-A
1 TTAATTATAAT-TATT-ATTATA
* *
6815758 TTAATT-TAATTAATTTATGAAA
1 TTAATTATAATT-A-TTATTATA
**
6815780 ACAATTATAATTATTATTATA
1 TTAATTATAATTATTATTATA
6815801 TTAATT
1 TTAATT
6815807 TTATTCAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.02
21 27 0.52
22 15 0.29
23 9 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TTAATTATAATTATTATTATA
Found at i:6816197 original size:16 final size:17
Alignment explanation
Indices: 6816165--6816197 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6816155 TCTTTAGTCA
6816165 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
6816183 AATAATTAT-CTATTT
1 AATAATTATACTATTT
6816198 TAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:6816215 original size:17 final size:17
Alignment explanation
Indices: 6816164--6816215 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
6816154 TTCTTTAGTC
*
6816164 AAATAATTATAACTATTT
1 AAATAATTATTACT-TTT
*
6816182 GAATAATTATCTA-TTTT
1 AAATAATTAT-TACTTTT
*
6816199 AAATCATTATTACTTTT
1 AAATAATTATTACTTTT
6816216 TGTTTTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 15 0.54
18 10 0.36
19 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATAATTATTACTTTT
Found at i:6816858 original size:29 final size:27
Alignment explanation
Indices: 6816821--6816889 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
6816811 AAAAATCTTT
*
6816821 TAATGTATTAATCAAATATAATTATATAA
1 TAATATATTAATCAAATA-AATT-TATAA
*
6816850 TAATATATTAAACAAATAAATTTATAA
1 TAATATATTAATCAAATAAATTTATAA
*
6816877 TAAAATTATTAAT
1 TAATA-TATTAAT
6816890 TATATCTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.26
28 10 0.29
29 16 0.46
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (27 bp):
TAATATATTAATCAAATAAATTTATAA
Found at i:6817025 original size:27 final size:29
Alignment explanation
Indices: 6816993--6817048 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
6816983 TTTAAAAAGA
6816993 ATTAAAGAT-AATT-TTAATTAT-TAATTT
1 ATTAAAGATAAATTCTT-ATTATATAATTT
*
6817020 ATTAAATATAAATTCTTATTATATAATTT
1 ATTAAAGATAAATTCTTATTATATAATTT
6817049 TTTCTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 8 0.32
28 9 0.36
29 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
ATTAAAGATAAATTCTTATTATATAATTT
Found at i:6817118 original size:13 final size:14
Alignment explanation
Indices: 6817100--6817131 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6817090 AATTCTTATG
6817100 ATTTAAA-TATATA
1 ATTTAAATTATATA
6817113 ATTTAAATTATATA
1 ATTTAAATTATATA
6817127 ATTTA
1 ATTTA
6817132 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATTATATA
Found at i:6817487 original size:15 final size:13
Alignment explanation
Indices: 6817454--6817492 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
6817444 AACTACATAA
6817454 TATAATTATAAAT
1 TATAATTATAAAT
6817467 TATAATTATGATAAT
1 TATAATTAT-A-AAT
*
6817482 TGTAATTATAA
1 TATAATTATAA
6817493 GTTTTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (13 bp):
TATAATTATAAAT
Found at i:6817634 original size:8 final size:8
Alignment explanation
Indices: 6817614--6817645 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
6817604 TGTTAATAAT
6817614 TTTAAAT-
1 TTTAAATA
6817621 TTTAAATA
1 TTTAAATA
6817629 TTTAAATA
1 TTTAAATA
6817637 TTTAAATA
1 TTTAAATA
6817645 T
1 T
6817646 AATAATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTAAATA
Found at i:6817761 original size:16 final size:15
Alignment explanation
Indices: 6817732--6817766 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
6817722 ACTATTCACA
6817732 TATACATTTAATTAT
1 TATACATTTAATTAT
*
6817747 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
6817763 TATA
1 TATA
6817767 AAATTATTAA
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:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:6817773 original size:27 final size:27
Alignment explanation
Indices: 6817741--6817803 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
6817731 ATATACATTT
* *
6817741 AATTATTATACT-ATTTGATTATTATAA
1 AATTATTA-ACTAATTTAATTATAATAA
*
6817768 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTATAATAA
*
6817795 ATTTATTAA
1 AATTATTAA
6817804 AATATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAACTAATTTAATTATAATAA
Found at i:6817877 original size:23 final size:22
Alignment explanation
Indices: 6817847--6817913 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
6817837 ACACAATTTG
*
6817847 TATT-ATTATAAATTAAT-ATT
1 TATTAATTATAAATAAATAATT
6817867 ATACTTAATTATAAATAAATAATT
1 -TA-TTAATTATAAATAAATAATT
*
6817891 TATTAATTAT-ATTAAAT-ATT
1 TATTAATTATAAATAAATAATT
6817911 TAT
1 TAT
6817914 AATGAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.15
21 8 0.20
22 10 0.24
23 14 0.34
24 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTAATTATAAATAAATAATT
Found at i:6818139 original size:18 final size:18
Alignment explanation
Indices: 6818118--6818183 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
6818108 ACACAAATTT
* * *
6818118 ATTAAATTATTTTGTTTA
1 ATTAAATTATTATATTAA
6818136 ATTAAAATTATTATATTAA
1 ATT-AAATTATTATATTAA
6818155 ATTAAA-TATTA-ATT-A
1 ATTAAATTATTATATTAA
6818170 ATTATATATTATTA
1 ATTA-A-ATTATTA
6818184 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 6 0.15
18 11 0.27
19 15 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAAATTATTATATTAA
Found at i:6818184 original size:18 final size:16
Alignment explanation
Indices: 6818133--6818186 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
6818123 ATTATTTTGT
6818133 TTAATTAAAATTATTATA
1 TTAATT-AAATTATTA-A
6818151 TTAAATTAAA-TATTAA
1 TT-AATTAAATTATTAA
6818167 TTAATTATATATTATTAA
1 TTAATTA-A-ATTATTAA
6818185 TT
1 TT
6818187 TACTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 6 0.19
18 13 0.41
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTAAATTATTAA
Found at i:6819166 original size:14 final size:15
Alignment explanation
Indices: 6819147--6819176 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6819137 TATAGAATAT
6819147 TATATAAT-TTTAAA
1 TATATAATATTTAAA
6819161 TATATAATATTTAAA
1 TATATAATATTTAAA
6819176 T
1 T
6819177 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATAATATTTAAA
Found at i:6819227 original size:18 final size:17
Alignment explanation
Indices: 6819206--6819262 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
6819196 TAGTTACAAC
6819206 TAATTATAATATAATTAT
1 TAATTATAATATAA-TAT
*
6819224 TAATAATAACTATAA-AT
1 TAATTATAA-TATAATAT
*
6819241 TAATTATATTATAATAAT
1 TAATTATAATATAAT-AT
6819259 TAAT
1 TAAT
6819263 AAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 9 0.27
18 14 0.42
19 5 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTATAATATAATAT
Found at i:6819273 original size:35 final size:34
Alignment explanation
Indices: 6819143--6819292 Score: 86
Period size: 35 Copynumber: 4.5 Consensus size: 34
6819133 TTATTATAGA
* *
6819143 ATATTAT-ATAATT-TTAAATA-TAT-AATATTT
1 ATATTATAATAATTAATAAATACTATAAATAATT
* * *
6819173 AAATTCTTAATAATTTAATAAATTAGT-TACAACTAATT
1 ATATT-ATAATAA-TTAATAAA-TACTATA-AA-TAATT
* *
6819211 ATAATATAATTATTAAT-AATAACTATAAATTAATT
1 ATATTATAATAATTAATAAAT-ACTATAAA-TAATT
6819246 ATATTATAATAATTAAT-AA-ACTATATAATAATT
1 ATATTATAATAATTAATAAATACTATA-AATAATT
*
6819279 -TATTATTAT-ATTAA
1 ATATTATAATAATTAA
6819293 AAAAATAATC
Statistics
Matches: 95, Mismatches: 13, Indels: 23
0.73 0.10 0.18
Matches are distributed among these distances:
30 4 0.04
31 6 0.06
32 12 0.13
33 13 0.14
34 7 0.07
35 31 0.33
36 8 0.08
37 7 0.07
38 7 0.07
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (34 bp):
ATATTATAATAATTAATAAATACTATAAATAATT
Found at i:6819858 original size:21 final size:21
Alignment explanation
Indices: 6819767--6819858 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 21
6819757 ATACATATTG
*
6819767 TTAATTATAATT-TATAATATA
1 TTAATTATAATTAT-TATTATA
* *
6819788 ATATTTATAATATATTAATTA-A
1 TTAATTATAAT-TATT-ATTATA
* *
6819810 TTAATT-TAATTAATTTATGAAA
1 TTAATTATAATT-A-TTATTATA
**
6819832 ACAATTATAATTATTATTATA
1 TTAATTATAATTATTATTATA
6819853 TTAATT
1 TTAATT
6819859 TTATTCAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.02
21 27 0.52
22 15 0.29
23 9 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TTAATTATAATTATTATTATA
Found at i:6820252 original size:16 final size:17
Alignment explanation
Indices: 6820220--6820252 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6820210 TCTTTAGTCA
6820220 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
6820238 AATAATTAT-CTATTT
1 AATAATTATACTATTT
6820253 TAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:6820270 original size:17 final size:17
Alignment explanation
Indices: 6820219--6820270 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
6820209 TTCTTTAGTC
*
6820219 AAATAATTATAACTATTT
1 AAATAATTATTACT-TTT
*
6820237 GAATAATTATCTA-TTTT
1 AAATAATTAT-TACTTTT
*
6820254 AAATCATTATTACTTTT
1 AAATAATTATTACTTTT
6820271 TGTTTTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 15 0.54
18 10 0.36
19 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATAATTATTACTTTT
Found at i:6821156 original size:21 final size:23
Alignment explanation
Indices: 6821122--6821167 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
6821112 GATAATATCA
6821122 ATTTAATATTCAAATATT-AATT
1 ATTTAATATTCAAATATTAAATT
6821144 ATTTAAT-TTCAAATATTAAATT
1 ATTTAATATTCAAATATTAAATT
6821166 AT
1 AT
6821168 AAATAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAATATTCAAATATTAAATT
Found at i:6821276 original size:28 final size:31
Alignment explanation
Indices: 6821232--6821299 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 31
6821222 TAACATAACT
*
6821232 TAATTATAATATAATT-ATT-TAATGT-TAA
1 TAATTATATTATAATTAATTATAATGTATAA
*
6821260 TAATTATATTA-ATATTAATTATAATTTATAA
1 TAATTATATTATA-ATTAATTATAATGTATAA
6821291 TAATTATAT
1 TAATTATAT
6821300 ACTATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 13 0.38
29 3 0.09
30 5 0.15
31 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
TAATTATATTATAATTAATTATAATGTATAA
Found at i:6821277 original size:18 final size:17
Alignment explanation
Indices: 6821242--6821278 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6821232 TAATTATAAT
*
6821242 ATAATTATTTAATGTTA
1 ATAATTATTTAATATTA
6821259 ATAATTATATTAATATTA
1 ATAATTAT-TTAATATTA
6821277 AT
1 AT
6821279 TATAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATAATTATTTAATATTA
Found at i:6821315 original size:31 final size:31
Alignment explanation
Indices: 6821257--6821315 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6821247 TATTTAATGT
*
6821257 TAATAATTATATTAATATTAATTATAATTTA
1 TAATAATTATATTAATATTAATAATAATTTA
6821288 TAATAATTATA-TACTATATT-ATAATAAT
1 TAATAATTATATTA--ATATTAATAATAAT
6821316 ATAATTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 2 0.08
31 18 0.72
32 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATAATTATATTAATATTAATAATAATTTA
Found at i:6821706 original size:21 final size:21
Alignment explanation
Indices: 6821651--6821713 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
6821641 AATATTTAAT
* *
6821651 TTATAATA-AACAATAATTTTA
1 TTATATTATAACAAT-AGTTTA
*
6821672 TTATATTAT-GCAATA-TTTA
1 TTATATTATAACAATAGTTTA
6821691 TTATACTTATAACAATAGTTTA
1 TTATA-TTATAACAATAGTTTA
6821713 T
1 T
6821714 ATAATAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 9 0.26
20 5 0.14
21 16 0.46
22 5 0.14
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (21 bp):
TTATATTATAACAATAGTTTA
Found at i:6821757 original size:13 final size:13
Alignment explanation
Indices: 6821739--6821763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6821729 ATACTTTATT
6821739 AATAATTAGATTA
1 AATAATTAGATTA
6821752 AATAATTAGATT
1 AATAATTAGATT
6821764 TATTTCTATT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:6821921 original size:17 final size:17
Alignment explanation
Indices: 6821899--6821951 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6821889 ATATTTATAT
6821899 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
6821916 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
6821934 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
6821950 TA
1 TA
6821952 ACAAATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:6821922 original size:22 final size:23
Alignment explanation
Indices: 6821894--6821949 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
6821884 TTTAAATATT
* *
6821894 TATATTATATTTTAATTA-ATTA
1 TATATTATAATTAAATTAGATTA
6821916 TATATTATAATTAAATTAGATTA
1 TATATTATAATTAAATTAGATTA
6821939 T-TATT-TAATTA
1 TATATTATAATTA
6821950 TAACAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATTATAATTAAATTAGATTA
Found at i:6821999 original size:31 final size:29
Alignment explanation
Indices: 6821961--6822039 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 29
6821951 AACAAATATT
*
6821961 TTAATTTTAAATTAATAAGTAAAAATTTTAA
1 TTAATTTTAAATTAATAA--AAAAATTTGAA
* *
6821992 TTAATTTT-AATTATATAAATAAATTTGAT
1 TTAATTTTAAATTA-ATAAAAAAATTTGAA
6822021 TTAATATTTAAAATTAATA
1 TTAAT-TTT-AAATTAATA
6822040 TATATTTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 13 0.32
30 8 0.20
31 15 0.37
32 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAATTTTAAATTAATAAAAAAATTTGAA
Found at i:6822056 original size:85 final size:84
Alignment explanation
Indices: 6821954--6822128 Score: 196
Period size: 85 Copynumber: 2.1 Consensus size: 84
6821944 TAATTATAAC
* * **
6821954 AAATATTTTAATTTTAAAT-TAA-TAAGTAAAAATTTTAATTAATTTTAATTATATAAATAAATT
1 AAATATTTTAATATTAAATATAACT-AGTAAAAA-TATAATTAATAATAATTAT-TAAA-AAATT
*
6822017 TGATTTAATA-TTT-AAAATTAAT
62 TG-TTAAATATTTTGAAAATTAAT
* * * *
6822039 ATATATTTTAGTATTAAATATAACTAGTAAAAATATATTTAATAATAATTATTAAAATATTTGTT
1 AAATATTTTAATATTAAATATAACTAGTAAAAATATAATTAATAATAATTATTAAAAAATTTGTT
6822104 AAATATTTTGAAAATTAAT
66 AAATATTTTGAAAATTAAT
6822123 AAATAT
1 AAATAT
6822129 AATTATTTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
82 6 0.08
83 9 0.12
84 18 0.24
85 31 0.41
86 11 0.14
87 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (84 bp):
AAATATTTTAATATTAAATATAACTAGTAAAAATATAATTAATAATAATTATTAAAAAATTTGTT
AAATATTTTGAAAATTAAT
Found at i:6822632 original size:21 final size:22
Alignment explanation
Indices: 6822608--6822657 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6822598 TTTGCTATTT
*
6822608 ATATTATAATTAATTAACT-TA
1 ATATTATAATAAATTAACTGTA
* *
6822629 ATATTAAAATAAATTAATTGTA
1 ATATTATAATAAATTAACTGTA
6822651 ATATTAT
1 ATATTAT
6822658 TTGATTCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTATAATAAATTAACTGTA
Found at i:6823198 original size:19 final size:19
Alignment explanation
Indices: 6823174--6823212 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6823164 TAAATTAATT
6823174 AATAT-ATAAAAATAATTTA
1 AATATAATAAAAAT-ATTTA
*
6823193 AATATAATATAAATATTTA
1 AATATAATAAAAATATTTA
6823212 A
1 A
6823213 TTGAGAAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAATAAAAATATTTA
Found at i:6823420 original size:32 final size:29
Alignment explanation
Indices: 6823384--6823453 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
6823374 ATATTAAACC
6823384 TATATATAATAATTATATTAATATT-TATTATT
1 TATATAT-ATAATTA-A-TAATATTAT-TTATT
6823416 TATATATATAATTAATAATATTATTTATT
1 TATATATATAATTAATAATATTATTTATT
6823445 TA-AT-TATAA
1 TATATATATAA
6823454 ATATTACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.14
28 2 0.05
29 14 0.38
30 2 0.05
31 7 0.19
32 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATATATAATTAATAATATTATTTATT
Found at i:6823439 original size:21 final size:21
Alignment explanation
Indices: 6823415--6823476 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
6823405 TATTTATTAT
6823415 TTATATATATAATTAATAATA
1 TTATATATATAATTAATAATA
* *
6823436 TTATTTATTTAATT-ATAAATA
1 TTATATATATAATTAAT-AATA
*
6823457 TTACTATA-ATAATTATTAAT
1 TTA-TATATATAATTAATAAT
6823477 TAATTATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 2 0.06
21 27 0.82
22 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATATATATAATTAATAATA
Found at i:6823444 original size:29 final size:31
Alignment explanation
Indices: 6823384--6823503 Score: 89
Period size: 32 Copynumber: 3.7 Consensus size: 31
6823374 ATATTAAACC
6823384 TATATATAATAATTATATTAATATTTATTATT
1 TATATAT-ATAATTATATTAATATTTATTATT
* * *
6823416 TATATATATAATTAATAATATTATTTATTTAAT
1 TATATATATAATT-ATATTAATATTTA-TTATT
* * * * * *
6823449 TATAAATATTACTATAATAATTATTAATTAAT
1 TATATATATAATTATATTAA-TATTTATTATT
* *
6823481 TATA-AGTATACTTATAATAATAT
1 TATATA-TATAATTATATTAATAT
6823504 AAAAATATGA
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
31 10 0.14
32 44 0.60
33 19 0.26
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (31 bp):
TATATATATAATTATATTAATATTTATTATT
Found at i:6823466 original size:32 final size:31
Alignment explanation
Indices: 6823396--6823499 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 31
6823386 TATATAATAA
* * * * * *
6823396 TTATATTAATATTTATTATTTATATATATAA
1 TTATAATATTATTAATTAATTATAAATATAC
*
6823427 TTAATAATATTATTTATTTAATTATAAATATTAC
1 TT-ATAATATTA-TTAATTAATTATAAATA-TAC
*
6823461 -TATAATAATTATTAATTAATTATAAGTATAC
1 TTATAAT-ATTATTAATTAATTATAAATATAC
6823492 TTATAATA
1 TTATAATA
6823500 ATATAAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
31 6 0.10
32 33 0.56
33 18 0.31
34 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (31 bp):
TTATAATATTATTAATTAATTATAAATATAC
Found at i:6823658 original size:16 final size:17
Alignment explanation
Indices: 6823629--6823735 Score: 65
Period size: 17 Copynumber: 6.1 Consensus size: 17
6823619 AATATTGTAA
6823629 TATTATATAAATTAAAT
1 TATTATATAAATTAAAT
* *
6823646 TATT-TATACATTATAT
1 TATTATATAAATTAAAT
* * *
6823662 TAGTATAAAAATTATAT
1 TATTATATAAATTAAAT
* * *
6823679 TATCAAATAATATTTAATT
1 TATTATATAA-A-TTAAAT
6823698 TATTATAATAAAATTATAAT
1 TATTAT-AT-AAATTA-AAT
*
6823718 TA-TAGTATTAATTAAAT
1 TATTA-TATAAATTAAAT
6823735 T
1 T
6823736 TACCAAACTT
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
16 13 0.19
17 24 0.35
18 6 0.09
19 15 0.22
20 8 0.12
21 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTATATAAATTAAAT
Found at i:6824444 original size:180 final size:181
Alignment explanation
Indices: 6824099--6824525 Score: 454
Period size: 180 Copynumber: 2.4 Consensus size: 181
6824089 TTATTTAATT
* ** *
6824099 TTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAACTTAATAACCAAGAAAATTAAAA
1 TTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAAGAAATTTAAAA
* * *
6824164 AATAAATATAATTGTCGAACCAGTTCAAATAGTTAAGACTCTATGAATGATTATCTATTTCAAAT
66 AATAAATATAATTGTCAAACCAGTTCAAATAGTTAAGAATCTATGAATAATTATCTATTTCAAAT
* * * * *
6824229 CGTTATGACATTTTCTTTTAACGTAAAACAATTATTT-TGTTCATACAAGC
131 CATTATGACATTTTCGTCTAACATAAAACAATTATTTCAGTTCATACAAGC
* * * * *
6824279 TTATTTGGATTAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGTAAGATATTTAAAA
1 TTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAAGAAATTTAAAA
** *
6824344 AATAAAT-TTGTT-TACTAAATCAGTTCAAATAGTTAA-AAT-TATTAGAATAATTATCTATTTC
66 AATAAATATAATTGT-C-AAACCAGTTCAAATAGTTAAGAATCTA-T-GAATAATTATCTATTTC
* * * * * *
6824405 ATATCATTTTGATC-TTTT-GTCTAGTCATAAAATAATTATTTCAGTTTATACAAGT
127 AAATCATTATGA-CATTTTCGTCTA-ACATAAAACAATTATTTCAGTTCATACAAGC
* * * * * * *
6824460 TTATTCAGAATAAATTAATACTAATTTATTAACATTTGGAAAATTAATATGAAAGAGATTTAAAA
1 TTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAAGAAATTTAAAA
6824525 A
66 A
6824526 TATTTATTTT
Statistics
Matches: 204, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
178 3 0.01
179 10 0.05
180 125 0.61
181 66 0.32
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (181 bp):
TTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAAGAAATTTAAAA
AATAAATATAATTGTCAAACCAGTTCAAATAGTTAAGAATCTATGAATAATTATCTATTTCAAAT
CATTATGACATTTTCGTCTAACATAAAACAATTATTTCAGTTCATACAAGC
Found at i:6824568 original size:16 final size:16
Alignment explanation
Indices: 6824544--6824591 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
6824534 TTATCTTTGA
6824544 TTAAT-TTTTACAATT
1 TTAATATTTTACAATT
*
6824559 TTAATATTTTAAATATT
1 TTAATATTTTACA-ATT
6824576 TTAA-ATTTTAACAATT
1 TTAATATTTT-ACAATT
6824592 GAAGATTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 5 0.18
16 14 0.50
17 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTTTACAATT
Found at i:6824739 original size:13 final size:12
Alignment explanation
Indices: 6824715--6824755 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
6824705 AATATAATAA
6824715 ATTTATTATTAAT
1 ATTTA-TATTAAT
6824728 ATATTATATTAAT
1 AT-TTATATTAAT
*
6824741 ATTTATAATAAT
1 ATTTATATTAAT
6824753 ATT
1 ATT
6824756 ATCCAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.46
13 11 0.42
14 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTATATTAAT
Found at i:6824752 original size:25 final size:25
Alignment explanation
Indices: 6824683--6824754 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
6824673 AATCCTTACT
*
6824683 TATTA-AATAAA-TAATTAATAA-A
1 TATTATAATAAATTTATTAATAATA
* *
6824705 -AATATAATAAATTTATTATTAATA
1 TATTATAATAAATTTATTAATAATA
*
6824729 TATTATATTAATATTTA-TAATAATA
1 TATTATAATAA-ATTTATTAATAATA
6824754 T
1 T
6824755 TATCCAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 3 0.08
22 6 0.15
23 8 0.21
24 1 0.03
25 16 0.41
26 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTATAATAAATTTATTAATAATA
Found at i:6825891 original size:6 final size:6
Alignment explanation
Indices: 6825880--6826011 Score: 57
Period size: 6 Copynumber: 22.2 Consensus size: 6
6825870 ATTCAATATT
* * *
6825880 TTATAA TTATAA TAAT-A TTA-AA TTATTA TTATAA CTTATAA -TAAAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA -TTATAA TTATAA
* * *
6825926 TAACCTAA TTACT-A TTAATAA TTA-AA TTAAAA TTA-AA ATATAA TTATAGCA
1 TTA--TAA TTA-TAA TT-ATAA TTATAA TTATAA TTATAA TTATAA TTATA--A
* *
6825977 -AATAA TTTTAA TTATAA CTTATAA -T-TAA TTATAA T
1 TTATAA TTATAA TTATAA -TTATAA TTATAA TTATAA T
6826012 ATTAGTAGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 32
0.68 0.10 0.23
Matches are distributed among these distances:
4 3 0.03
5 23 0.24
6 44 0.46
7 21 0.22
8 5 0.05
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (6 bp):
TTATAA
Found at i:6826127 original size:15 final size:16
Alignment explanation
Indices: 6826107--6826173 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
6826097 TGTCCAATTA
6826107 AATTATATAATA-AAT
1 AATTATATAATATAAT
6826122 AATTAT-T-ATATAAT
1 AATTATATAATATAAT
*
6826136 ATATTATATACA-ATTAT
1 A-ATTATATA-ATATAAT
* *
6826153 AATTACATATTATAAT
1 AATTATATAATATAAT
6826169 AATTA
1 AATTA
6826174 ATATGATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 5 0.12
15 11 0.26
16 17 0.40
17 5 0.12
18 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATAATATAAT
Found at i:6826200 original size:14 final size:15
Alignment explanation
Indices: 6826159--6826224 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
6826149 TTATAATTAC
6826159 ATATTA-TAATAATTA
1 ATATTATTAATAA-TA
* *
6826174 ATATGATTCATAA-A
1 ATATTATTAATAATA
6826188 ATATTATTAATAAT-
1 ATATTATTAATAATA
6826202 AT-TTAATT-ATAATA
1 ATATT-ATTAATAATA
6826216 AT-TTATTAA
1 ATATTATTAA
6826225 ATTATTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.24
14 22 0.52
15 5 0.12
16 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATTATTAATAATA
Found at i:6826828 original size:35 final size:37
Alignment explanation
Indices: 6826784--6826859 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
6826774 AATTTATTAT
*
6826784 TAATCAAATT-ATAAT-TATATTATA-TATAATATAAA
1 TAATCAAATTAATAATATATATTAAATTAT-ATATAAA
* *
6826819 TAATTAAATTAATAATATTTATTAAATTATATATAAA
1 TAATCAAATTAATAATATATATTAAATTATATATAAA
6826856 TAAT
1 TAAT
6826860 ATCTTTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 9 0.26
36 5 0.14
37 18 0.51
38 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAATCAAATTAATAATATATATTAAATTATATATAAA
Found at i:6827032 original size:14 final size:14
Alignment explanation
Indices: 6827006--6827038 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6826996 ATAATTGTTT
*
6827006 ATTA-TATTTAATA
1 ATTATTATTAAATA
6827019 ATTATTATTAAATA
1 ATTATTATTAAATA
6827033 ATTATT
1 ATTATT
6827039 TTTATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:6827234 original size:13 final size:13
Alignment explanation
Indices: 6827216--6827240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6827206 TAATTTATTT
6827216 AATAATTAGATTA
1 AATAATTAGATTA
6827229 AATAATTAGATT
1 AATAATTAGATT
6827241 TATTTGTATT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:6827342 original size:17 final size:17
Alignment explanation
Indices: 6827320--6827372 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6827310 ATATTTGTAT
6827320 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
6827337 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
6827355 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
6827371 TA
1 TA
6827373 ACAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:6827343 original size:22 final size:22
Alignment explanation
Indices: 6827317--6827370 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6827307 TAAATATTTG
* *
6827317 TATTATATTTTAATTA-ATTAT
1 TATTATAATTAAATTAGATTAT
6827338 ATATTATAATTAAATTAGATTAT
1 -TATTATAATTAAATTAGATTAT
6827361 TATT-TAATTA
1 TATTATAATTA
6827371 TAACAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 18 0.62
23 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATAATTAAATTAGATTAT
Found at i:6827903 original size:27 final size:28
Alignment explanation
Indices: 6827851--6827906 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
6827841 TAAGAATAAT
6827851 AATTTTAATAAAAATATTATAATTATTAA
1 AATTTTAATAAAAATATTAT-ATTATTAA
*
6827880 AATTTTCAATAATAAT-TTAT-TTATTAA
1 AATTTT-AATAAAAATATTATATTATTAA
6827907 TTTAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
29 10 0.40
30 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTTTAATAAAAATATTATATTATTAA
Found at i:6829232 original size:18 final size:18
Alignment explanation
Indices: 6829201--6829238 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6829191 AAATAATAAT
* *
6829201 AATTATTAATATTTGAAG
1 AATTAGTAAGATTTGAAG
6829219 AATTAGTAAGATTTGAAG
1 AATTAGTAAGATTTGAAG
6829237 AA
1 AA
6829239 ATAAATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (18 bp):
AATTAGTAAGATTTGAAG
Found at i:6830030 original size:36 final size:34
Alignment explanation
Indices: 6829989--6830057 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
6829979 AATTGTTATT
6829989 ATTAAGATAATAATAATAATGTTATAATTAATAATA
1 ATTAAGATAATAAT-ATAAT-TTATAATTAATAATA
* *
6830025 ATTAAGATAATAATATAGTTTATCATTAATAAT
1 ATTAAGATAATAATATAATTTATAATTAATAAT
6830058 TAATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 13 0.42
35 4 0.13
36 14 0.45
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (34 bp):
ATTAAGATAATAATATAATTTATAATTAATAATA
Found at i:6830532 original size:17 final size:17
Alignment explanation
Indices: 6830512--6830625 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
6830502 TCTATTTATA
6830512 TATTTAATAAATATAAT
1 TATTTAATAAATATAAT
* *
6830529 TATTT-ATAATTATAAC
1 TATTTAATAAATATAAT
* *
6830545 TAATTATATAATTTATTAATT
1 TATTTA-ATAA-ATA-TAA-T
6830566 TATATT-ATAAATATAAGT
1 TAT-TTAATAAATATAA-T
**
6830584 ATAATATATAATATTTATAAT
1 -T-AT-T-TAATAAATATAAT
6830605 TATTTAAT-AATAATAAT
1 TATTTAATAAAT-ATAAT
6830622 TATT
1 TATT
6830626 ATTAATATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
16 14 0.19
17 18 0.24
18 9 0.12
19 8 0.11
20 12 0.16
21 4 0.05
22 10 0.13
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (17 bp):
TATTTAATAAATATAAT
Found at i:6830558 original size:25 final size:24
Alignment explanation
Indices: 6830505--6830567 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
6830495 TAATAAATCT
*
6830505 ATTTATATATTTAATAAATATAATT
1 ATTTATA-ATTTAATAAATATAATA
*
6830530 ATTTATAATTATAACTAATTAT-ATA
1 ATTTATAATT-TAA-TAAATATAATA
6830555 ATTTATTAATTTA
1 ATTTA-TAATTTA
6830568 TATTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.09
25 19 0.58
26 11 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTATAATTTAATAAATATAATA
Found at i:6830619 original size:23 final size:23
Alignment explanation
Indices: 6830585--6830683 Score: 87
Period size: 23 Copynumber: 4.2 Consensus size: 23
6830575 AATATAAGTA
*
6830585 TAATATATAATATTTATAATTATT
1 TAATA-ATAATAATTATAATTATT
* *
6830609 TAATAATAATAATTATTATTAATA
1 TAATAATAATAATTATAATT-ATT
6830633 TAACTAATAGA-AATTAT-ATTATT
1 TAA-TAATA-ATAATTATAATTATT
* *
6830656 TAATTATAATATATTATATTTA-T
1 TAATAATAATA-ATTATAATTATT
6830679 TAATA
1 TAATA
6830684 TACAATTAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 5 0.08
23 28 0.45
24 16 0.26
25 11 0.18
26 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
TAATAATAATAATTATAATTATT
Found at i:6830640 original size:19 final size:20
Alignment explanation
Indices: 6830603--6830697 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
6830593 AATATTTATA
6830603 ATTATTTAATAATAATAATT
1 ATTATTTAATAATAATAATT
*
6830623 ATTATTAATATAACTAATAGAAATTAT
1 ATTATTTA-ATAA-TAAT---AA-T-T
*
6830650 ATTATTTAATTATAATATATT
1 ATTATTTAATAATAATA-ATT
* *
6830671 A-TATTTATTAATATACAATT
1 ATTATTTAATAATA-ATAATT
6830691 AATTATT
1 -ATTATT
6830698 ACTAATATTG
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
20 20 0.34
21 9 0.16
22 10 0.17
23 1 0.02
25 6 0.10
26 4 0.07
27 8 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (20 bp):
ATTATTTAATAATAATAATT
Done.