Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011808.1 Corchorus capsularis cultivar CVL-1 contig11829, 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: 85421
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1145 original size:60 final size:60
Alignment explanation
Indices: 1059--1176 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
1049 ATTTAACTAG
* *
1059 TAAATTCAAAGCATGGACAATGAATTGAGCATTTTCAAATACGTTAGGACCCTATTTATC
1 TAAATTCAAAGCATGGACAATAAATTGAGCATTTTCAAATACGCTAGGACCCTATTTATC
* * *
1119 TAAATTCAAAGCATGGATC-CTAAATTGAGCATTTTCAAATATGCTAGGGCCCTATTTA
1 TAAATTCAAAGCATGGA-CAATAAATTGAGCATTTTCAAATACGCTAGGACCCTATTTA
1177 ACCAAATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (60 bp):
TAAATTCAAAGCATGGACAATAAATTGAGCATTTTCAAATACGCTAGGACCCTATTTATC
Found at i:2663 original size:6 final size:6
Alignment explanation
Indices: 2649--2679 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2639 TTTAATATAG
*
2649 TATATA TATAAA TATAAA TATAAA TATAAA T
1 TATAAA TATAAA TATAAA TATAAA TATAAA T
2680 TAACTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TATAAA
Found at i:16745 original size:109 final size:109
Alignment explanation
Indices: 16592--16887 Score: 432
Period size: 109 Copynumber: 2.7 Consensus size: 109
16582 TAAATTAAAA
** *
16592 TGGTAAAAATAAAAAAAATTATATAAAATATT-GAATTTAATTAAATGAAAATAGAATTTTTAGT
1 TGGTAAAAAT-AAAGTAATTATA-AAAATATTAG-ATTTAATTAAATGAAAATAGAGTTTTTAGT
16656 AGAATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
63 AGAATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
*
16703 TGGTAAAAATAAAGTAATTATAAACATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
1 TGGTAAAAATAAAGTAATTATAAAAATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
* *
16768 ATAAAATTGTATATTAGAAAAAATTTTAGTATATCCAATTTTTT
66 ATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
* * *
16812 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTTAATTGAATAAAAATAGAGTTTCTA
1 TGGTAAAAATAAAGTAATTATAAAAATATTAGATTTAA-TT-A---AATGAAAATAGAGTTTTTA
16877 GTAGAATAAAA
61 GTAGAATAAAA
16888 CTATAATAGT
Statistics
Matches: 170, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
109 118 0.69
110 13 0.08
111 11 0.06
114 28 0.16
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (109 bp):
TGGTAAAAATAAAGTAATTATAAAAATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
ATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
Found at i:22057 original size:29 final size:28
Alignment explanation
Indices: 22017--22073 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
22007 TTTTGTCCCA
* * *
22017 TAAACTTTAATTTTGAACATTTTCCCCT
1 TAAACTTCAATTTTCAACATTTTACCCT
22045 TAAACTCTCAATTTTCAACATTTTACCCT
1 TAAACT-TCAATTTTCAACATTTTACCCT
22074 CTCATACGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (28 bp):
TAAACTTCAATTTTCAACATTTTACCCT
Found at i:22565 original size:53 final size:54
Alignment explanation
Indices: 22464--22585 Score: 124
Period size: 53 Copynumber: 2.3 Consensus size: 54
22454 AAAATAGCCC
*
22464 TTTTTGGATGAAAATTAGATAAGCTATATTAACAATTGGACTAAAATTA-ACCA
1 TTTTTGGATGAAAATTAGATAAGCTACATTAACAATTGGACTAAAATTAGACCA
* * * * * * * *
22517 TTTTTGGATGAATATTAGTTAAGCTCCGTTAACTATTTGAC-AGGAATTAGCCCA
1 TTTTTGGATGAAAATTAGATAAGCTACATTAACAATTGGACTA-AAATTAGACCA
*
22571 -TTTTGGACGAAAATT
1 TTTTTGGATGAAAATT
22586 GGGTCCAATT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.02
53 52 0.93
54 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (54 bp):
TTTTTGGATGAAAATTAGATAAGCTACATTAACAATTGGACTAAAATTAGACCA
Found at i:24049 original size:98 final size:98
Alignment explanation
Indices: 23880--24073 Score: 370
Period size: 98 Copynumber: 2.0 Consensus size: 98
23870 TCCGGCATCT
23880 AAATTGTAAAGCGTCTACCAACATGAAAACAAATTCAATTTGTAGTTATTAAAAAATAGCATAAT
1 AAATTGTAAAGCGTCTACCAACATGAAAACAAATTCAATTTGTAGTTATTAAAAAATAGCATAAT
*
23945 TGATTGAAATAAGTGTTAACTGGGAAGAAATCC
66 TGATTGAAATAAGAGTTAACTGGGAAGAAATCC
23978 AAATTGTAAAGCGTCTACCAACATGAAAACAAATTCAATTTGTAGTTATTAAAAAATAGCATAAT
1 AAATTGTAAAGCGTCTACCAACATGAAAACAAATTCAATTTGTAGTTATTAAAAAATAGCATAAT
*
24043 TGATTGAAATAAGAGTTAATTGGGAAGAAAT
66 TGATTGAAATAAGAGTTAACTGGGAAGAAAT
24074 ATTTACTGTG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (98 bp):
AAATTGTAAAGCGTCTACCAACATGAAAACAAATTCAATTTGTAGTTATTAAAAAATAGCATAAT
TGATTGAAATAAGAGTTAACTGGGAAGAAATCC
Found at i:24637 original size:11 final size:11
Alignment explanation
Indices: 24621--24645 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24611 GTATAATAAG
24621 AGAAAAAAAAA
1 AGAAAAAAAAA
24632 AGAAAAAAAAA
1 AGAAAAAAAAA
24643 AGA
1 AGA
24646 GTTTTGCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:31755 original size:167 final size:168
Alignment explanation
Indices: 31464--31789 Score: 462
Period size: 167 Copynumber: 1.9 Consensus size: 168
31454 TTAATGCTCG
31464 TTAAAGCAACCAAAGCTGATAGTTTGGAGAGTATGAAATAAAAAAAAAATGATCCCATTTTGGGG
1 TTAAAGCAACCAAAGCTGATAGTTTGGAGAGTATGAAAT--AAAAAAAATGATCCCA-TTTGGGG
*
31529 AAAAAAGAAAGAAGAAGATATACAAATGTGAATCATCATGATACTCTAGCTTATTTTAATATGCA
63 AAAAAAGAAAGAAGAAGATATACAAATGTGAATCATCATGATACTCTAGATTATTTTAATATGCA
* *
31594 TTAAGAATG-TTCATGTCAATCAACCTGATATTTTACCTTA
128 TTAAGAATGCTACACGTCAATCAACCTGATATTTTACCTTA
* * * *
31634 TTAAAGCAAGCAAAGCTGATAATTTTGG-GAGTATGAAAT-AAAATATTGATCCC-TTTGGGGAA
1 TTAAAGCAACCAAAGCTGAT-AGTTTGGAGAGTATGAAATAAAAAAAATGATCCCATTTGGGG-A
* * *
31696 AAAAATAAAGAAGAAGATATATCACATGTGAATCATCATGATATTCTAGATTATTTTAATATGCA
64 AAAAAGAAAGAAGAAGATATA-CAAATGTGAATCATCATGATACTCTAGATTATTTTAATATGCA
* *
31761 TTTAGAATGCTACGCGTCAATCAACCTGA
128 TTAAGAATGCTACACGTCAATCAACCTGA
31790 GTCCTGATAT
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
165 7 0.05
166 21 0.15
167 60 0.43
168 16 0.11
170 30 0.21
171 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (168 bp):
TTAAAGCAACCAAAGCTGATAGTTTGGAGAGTATGAAATAAAAAAAATGATCCCATTTGGGGAAA
AAAGAAAGAAGAAGATATACAAATGTGAATCATCATGATACTCTAGATTATTTTAATATGCATTA
AGAATGCTACACGTCAATCAACCTGATATTTTACCTTA
Found at i:36285 original size:2 final size:2
Alignment explanation
Indices: 36278--36303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36268 CCACCTTAAA
36278 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
36304 CTAGAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38079 original size:13 final size:13
Alignment explanation
Indices: 38061--38085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38051 TGATTAAACC
38061 AATAATAATAATA
1 AATAATAATAATA
38074 AATAATAATAAT
1 AATAATAATAAT
38086 TTCTTGGTGA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:40318 original size:23 final size:23
Alignment explanation
Indices: 40287--40330 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
40277 TGTGATTGAA
* *
40287 TAAACAGAAGGTGATTTATATTT
1 TAAAAAGAAAGTGATTTATATTT
40310 TAAAAAGAAAGTGATTTATAT
1 TAAAAAGAAAGTGATTTATAT
40331 AAGAGGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (23 bp):
TAAAAAGAAAGTGATTTATATTT
Found at i:42814 original size:22 final size:22
Alignment explanation
Indices: 42767--43018 Score: 136
Period size: 22 Copynumber: 11.8 Consensus size: 22
42757 TGTCACATTT
* *
42767 TATGAAATTTTGGTAA-TTACAT
1 TATGAAATTTTGGTAACCT-CAC
*
42789 TATGAAATTTTGGTAACCTGAC
1 TATGAAATTTTGGTAACCTCAC
* *
42811 TATGAAATTTGGGTAACGTCAC
1 TATGAAATTTTGGTAACCTCAC
* * *
42833 TATGAAAATTCTGGCAACCTTC-T
1 TATG-AAATTTTGGTAACC-TCAC
* * *
42856 TATGAAAATTTAGTAAACTCAC
1 TATGAAATTTTGGTAACCTCAC
* * * *
42878 TGTGTAATTTTGATAACCT-AT
1 TATGAAATTTTGGTAACCTCAC
* *
42899 TTTGAAATATTGGTAACC-CGAC
1 TATGAAATTTTGGTAACCTC-AC
* *
42921 -ATGAAATTTTGGTAACATCCC
1 TATGAAATTTTGGTAACCTCAC
*
42942 CATGAAATTTTGGTAAACC-C-C
1 TATGAAATTTTGGT-AACCTCAC
* *
42963 --T---ATTTTAGTAACCCCAC
1 TATGAAATTTTGGTAACCTCAC
*
42980 TAT-AAA-ATTGGATAACCTCAC
1 TATGAAATTTTGG-TAACCTCAC
*
43001 TAAGAAATTTTGGTAACC
1 TATGAAATTTTGGTAACC
43019 CCAATATTCG
Statistics
Matches: 172, Mismatches: 40, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
15 4 0.02
16 8 0.05
17 1 0.01
19 2 0.01
20 3 0.02
21 44 0.26
22 86 0.50
23 22 0.13
24 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (22 bp):
TATGAAATTTTGGTAACCTCAC
Found at i:43420 original size:22 final size:22
Alignment explanation
Indices: 43395--43689 Score: 267
Period size: 22 Copynumber: 13.5 Consensus size: 22
43385 AGATAATTGT
* **
43395 CCTATGGAATTTTACTAACCTC
1 CCTATGAAATTTTGGTAACCTC
*
43417 CCTATGAAATTTTGGTAATCTC
1 CCTATGAAATTTTGGTAACCTC
* *
43439 ACTATCAAATTTTGGTAACCTC
1 CCTATGAAATTTTGGTAACCTC
*
43461 CCTATAAAATTTTGGTAACCTC
1 CCTATGAAATTTTGGTAACCTC
* *
43483 CCTATGAAATTTTCAGTAACCTT
1 CCTATGAAATTTT-GGTAACCTC
** * *
43506 AATATGAAAATTTGGTAATCT-
1 CCTATGAAATTTTGGTAACCTC
** *
43527 TTTATGAAATTTTGGTAACAT-
1 CCTATGAAATTTTGGTAACCTC
* *
43548 CCTGATGAAATTTTTGTAAACTC
1 CCT-ATGAAATTTTGGTAACCTC
* * *
43571 CTTATAAAATTTTAGTAA-C-C
1 CCTATGAAATTTTGGTAACCTC
*
43591 CCTATGAAATTTTAGTAATCCTC
1 CCTATGAAATTTTGGTAA-CCTC
* *
43614 CCTGTGAAATTTTTGTAACCTC
1 CCTATGAAATTTTGGTAACCTC
*
43636 CCTATGACATTTTGGTAACC-C
1 CCTATGAAATTTTGGTAACCTC
** *
43657 CCTATGAAATTTTTATAAACTC
1 CCTATGAAATTTTGGTAACCTC
*
43679 CTTATGAAATT
1 CCTATGAAATT
43690 GTTACCTAAG
Statistics
Matches: 224, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.08
21 35 0.16
22 136 0.61
23 36 0.16
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (22 bp):
CCTATGAAATTTTGGTAACCTC
Found at i:44024 original size:22 final size:22
Alignment explanation
Indices: 43991--44270 Score: 273
Period size: 22 Copynumber: 12.8 Consensus size: 22
43981 GGAATTTCAC
43991 TAACCTCCCTATGAAATTTTGG
1 TAACCTCCCTATGAAATTTTGG
* * *
44013 TAATCTCACTATCAAATTTTGG
1 TAACCTCCCTATGAAATTTTGG
*
44035 TAACCTCCCTATAAAATTTTGG
1 TAACCTCCCTATGAAATTTTGG
*
44057 TAACCTCCCTATGAAATTTTCAG
1 TAACCTCCCTATGAAATTTT-GG
*** *
44080 TAACCTTAATATGAAAATTTGG
1 TAACCTCCCTATGAAATTTTGG
* **
44102 TAATCT-TTTATGAAATTTTGG
1 TAACCTCCCTATGAAATTTTGG
* *
44123 TAACAT-CCTGATGAAATTTTTG
1 TAACCTCCCT-ATGAAATTTTGG
* * * *
44145 TAAACTCCTTATAAAATTTTAG
1 TAACCTCCCTATGAAATTTTGG
*
44167 TAA-C-CCCTATGAAATTTTAG
1 TAACCTCCCTATGAAATTTTGG
* *
44187 TAATCCTCCCTGTGAAATTTTTG
1 TAA-CCTCCCTATGAAATTTTGG
44210 TAACCTCCCTATGAAATTTTGG
1 TAACCTCCCTATGAAATTTTGG
**
44232 TAACC-CCCTATGAAATTTTTA
1 TAACCTCCCTATGAAATTTTGG
* *
44253 TAAACTCCTTATGAAATT
1 TAACCTCCCTATGAAATT
44271 GTTACCTAAG
Statistics
Matches: 214, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.08
21 36 0.17
22 125 0.58
23 36 0.17
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (22 bp):
TAACCTCCCTATGAAATTTTGG
Found at i:44306 original size:581 final size:581
Alignment explanation
Indices: 43203--44363 Score: 2304
Period size: 581 Copynumber: 2.0 Consensus size: 581
43193 TTTGCCTTCT
43203 AGGTACCGTTTCTTGTCCATGATAGTCGTGATGGATAACATTTTGCCATCTGGGCGAGTTTTGAG
1 AGGTACCGTTTCTTGTCCATGATAGTCGTGATGGATAACATTTTGCCATCTGGGCGAGTTTTGAG
43268 ACTCGATAGTTATAACGGATAGCCTTTAACATCAGGTTCATTTTACGCCCCCAATGGCCCTATTG
66 ACTCGATAGTTATAACGGATAGCCTTTAACATCAGGTTCATTTTACGCCCCCAATGGCCCTATTG
43333 GGTAAGATACACTTTAGTTTTTATGCCTTTTTTGGAAATCCATGGCCGTGTTAGATAATTGTCCT
131 GGTAAGATACACTTTAGTTTTTATGCCTTTTTTGGAAATCCATGGCCGTGTTAGATAATTGTCCT
*
43398 ATGGAATTTTACTAACCTCCCTATGAAATTTTGGTAATCTCACTATCAAATTTTGGTAACCTCCC
196 ATGGAATTTCACTAACCTCCCTATGAAATTTTGGTAATCTCACTATCAAATTTTGGTAACCTCCC
43463 TATAAAATTTTGGTAACCTCCCTATGAAATTTTCAGTAACCTTAATATGAAAATTTGGTAATCTT
261 TATAAAATTTTGGTAACCTCCCTATGAAATTTTCAGTAACCTTAATATGAAAATTTGGTAATCTT
43528 TTATGAAATTTTGGTAACATCCTGATGAAATTTTTGTAAACTCCTTATAAAATTTTAGTAACCCC
326 TTATGAAATTTTGGTAACATCCTGATGAAATTTTTGTAAACTCCTTATAAAATTTTAGTAACCCC
*
43593 TATGAAATTTTAGTAATCCTCCCTGTGAAATTTTTGTAACCTCCCTATGACATTTTGGTAACCCC
391 TATGAAATTTTAGTAATCCTCCCTGTGAAATTTTTGTAACCTCCCTATGAAATTTTGGTAACCCC
43658 CTATGAAATTTTTATAAACTCCTTATGAAATTGTTACCTAAGTGATTCATAATGAAAATTTATTG
456 CTATGAAATTTTTATAAACTCCTTATGAAATTGTTACCTAAGTGATTCATAATGAAAATTTATTG
43723 AATTATTTGGTTCACTTATATTTTTTTTATAATAAAATATATAACTTTTCAGTAACTAAGA
521 AATTATTTGGTTCACTTATATTTTTTTTATAATAAAATATATAACTTTTCAGTAACTAAGA
43784 AGGTACCGTTTCTTGTCCATGATAGTCGTGATGGATAACATTTTGCCATCTGGGCGAGTTTTGAG
1 AGGTACCGTTTCTTGTCCATGATAGTCGTGATGGATAACATTTTGCCATCTGGGCGAGTTTTGAG
43849 ACTCGATAGTTATAACGGATAGCCTTTAACATCAGGTTCATTTTACGCCCCCAATGGCCCTATTG
66 ACTCGATAGTTATAACGGATAGCCTTTAACATCAGGTTCATTTTACGCCCCCAATGGCCCTATTG
43914 GGTAAGATACACTTTAGTTTTTATGCCTTTTTTGGAAATCCATGGCCGTGTTAGATAATTGTCCT
131 GGTAAGATACACTTTAGTTTTTATGCCTTTTTTGGAAATCCATGGCCGTGTTAGATAATTGTCCT
43979 ATGGAATTTCACTAACCTCCCTATGAAATTTTGGTAATCTCACTATCAAATTTTGGTAACCTCCC
196 ATGGAATTTCACTAACCTCCCTATGAAATTTTGGTAATCTCACTATCAAATTTTGGTAACCTCCC
44044 TATAAAATTTTGGTAACCTCCCTATGAAATTTTCAGTAACCTTAATATGAAAATTTGGTAATCTT
261 TATAAAATTTTGGTAACCTCCCTATGAAATTTTCAGTAACCTTAATATGAAAATTTGGTAATCTT
44109 TTATGAAATTTTGGTAACATCCTGATGAAATTTTTGTAAACTCCTTATAAAATTTTAGTAACCCC
326 TTATGAAATTTTGGTAACATCCTGATGAAATTTTTGTAAACTCCTTATAAAATTTTAGTAACCCC
44174 TATGAAATTTTAGTAATCCTCCCTGTGAAATTTTTGTAACCTCCCTATGAAATTTTGGTAACCCC
391 TATGAAATTTTAGTAATCCTCCCTGTGAAATTTTTGTAACCTCCCTATGAAATTTTGGTAACCCC
44239 CTATGAAATTTTTATAAACTCCTTATGAAATTGTTACCTAAGTGATTCATAATGAAAATTTATTG
456 CTATGAAATTTTTATAAACTCCTTATGAAATTGTTACCTAAGTGATTCATAATGAAAATTTATTG
44304 AATTATTTGGTTCACTTATATTTTTTTTATAATAAAATATATAACTTTTCAGTAACTAAG
521 AATTATTTGGTTCACTTATATTTTTTTTATAATAAAATATATAACTTTTCAGTAACTAAG
44364 TACTGCAAAT
Statistics
Matches: 578, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
581 578 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (581 bp):
AGGTACCGTTTCTTGTCCATGATAGTCGTGATGGATAACATTTTGCCATCTGGGCGAGTTTTGAG
ACTCGATAGTTATAACGGATAGCCTTTAACATCAGGTTCATTTTACGCCCCCAATGGCCCTATTG
GGTAAGATACACTTTAGTTTTTATGCCTTTTTTGGAAATCCATGGCCGTGTTAGATAATTGTCCT
ATGGAATTTCACTAACCTCCCTATGAAATTTTGGTAATCTCACTATCAAATTTTGGTAACCTCCC
TATAAAATTTTGGTAACCTCCCTATGAAATTTTCAGTAACCTTAATATGAAAATTTGGTAATCTT
TTATGAAATTTTGGTAACATCCTGATGAAATTTTTGTAAACTCCTTATAAAATTTTAGTAACCCC
TATGAAATTTTAGTAATCCTCCCTGTGAAATTTTTGTAACCTCCCTATGAAATTTTGGTAACCCC
CTATGAAATTTTTATAAACTCCTTATGAAATTGTTACCTAAGTGATTCATAATGAAAATTTATTG
AATTATTTGGTTCACTTATATTTTTTTTATAATAAAATATATAACTTTTCAGTAACTAAGA
Found at i:55077 original size:29 final size:29
Alignment explanation
Indices: 55042--55101 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
55032 AGAGAAGCTC
* *
55042 AAATTGAGAGTTCAGGGGCAAAATGTCCA
1 AAATTGAGAGTTCAGAGACAAAATGTCCA
*
55071 AAATTGAGAGTTCTGAGACAAAATGTCCA
1 AAATTGAGAGTTCAGAGACAAAATGTCCA
55100 AA
1 AA
55102 CACTACAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (29 bp):
AAATTGAGAGTTCAGAGACAAAATGTCCA
Found at i:72648 original size:20 final size:20
Alignment explanation
Indices: 72623--72660 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
72613 AATCTTGAAT
72623 ACTCTCACTCGGTCTCTAGC
1 ACTCTCACTCGGTCTCTAGC
*
72643 ACTCTCGCTCGGTCTCTA
1 ACTCTCACTCGGTCTCTA
72661 CAAACTAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.39, G:0.16, T:0.32
Consensus pattern (20 bp):
ACTCTCACTCGGTCTCTAGC
Found at i:79503 original size:27 final size:27
Alignment explanation
Indices: 79470--82448 Score: 1999
Period size: 31 Copynumber: 106.1 Consensus size: 27
79460 GTCATATAGT
*
79470 GGGCCTCATATAGTTGCATATTCATTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
79497 GAGCCTCATATAGTTGCATATTCATTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
79524 GAGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
79551 GGGGCCATAATCATATAGTTGCATATTCAGTA
1 -GGGCC----TCATATAGTTGCATATTCAGTA
79583 GGGGCCATAATCATATAGTTGCATATTCAGTA
1 -GGGCC----TCATATAGTTGCATATTCAGTA
* *
79615 GGGCCTTATATAGTTGCTTATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
79642 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
79669 GGACCTCATATAGTTGCATATTCAATA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
79696 GGGCCTGATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
79723 GGGTCATAATCATATAGTTACATATTCAGTA
1 GGG-C---CTCATATAGTTGCATATTCAGTA
* *
79754 GGACAATCATATAGTTGCATATTCAGTA
1 GGGC-CTCATATAGTTGCATATTCAGTA
*
79782 GGGCCATAATCATATAGTTGCATATTCATTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
79813 GGGCCATAATCATATAGTTGCATATT-AGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
79843 AGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
79868 GGGCCTTAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
79899 GGGTCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
79926 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
79957 GGGCCATAATCATATGGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
* *
79988 AGGCCTCATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80015 GGG--TCATATAGTTGCATATTCAATA
1 GGGCCTCATATAGTTGCATATTCAGTA
80040 GGGCCTTAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
80071 GGGCCTTAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80102 GGGCCTCATAAAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
80129 AGGCCATAATAATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80160 GGACCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80187 GGGTCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80214 GGG-C-CATATA---GCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80236 GGG--TCATATAGTTGCATATTCATTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80261 GGGCCTTAATCATATAGTTGCATATTCAATA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80292 GGACCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
80323 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80350 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
80375 GGGTCATAAACATTTAGTTGCATATTCAGTA
1 GGG-CCT---CATATAGTTGCATATTCAGTA
** *
80406 GGGTTATAATCATATAGTTGCATATTTAGTA
1 GGG----CCTCATATAGTTGCATATTCAGTA
*
80437 GGG--TCATATAGTTGTATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80462 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80493 GGG-C-CATATAGTTACATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
80518 GGGTCATAATCATATAGTTGCAAATTCAGTA
1 GGG-C---CTCATATAGTTGCATATTCAGTA
80549 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80580 AGGCCTCATATAGTTGCATATGT-AGTA
1 GGGCCTCATATAGTTGCATAT-TCAGTA
80607 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80632 GGGCCTTAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80663 GGGCCTCATAAAGTTGCA-ATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80689 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
80714 GGGACTCGTATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80741 AGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80772 GGGTCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80799 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
80826 TGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80853 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80878 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80909 GGGTCATAATCATATAGTTGCATATTCAGTA
1 GGG-C---CTCATATAGTTGCATATTCAGTA
*
80940 GGGCCATAATCATATAATTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
80971 GGGCATCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
80998 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
81025 GGG--TCATAAAGTTGCATATTCAGTT
1 GGGCCTCATATAGTTGCATATTCAGTA
*
81050 GGGCCTTAATCATATAGTTGCATATTCAGTT
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
81081 GGGCCTTAATCATATAGTTGCATATTTTAGTA
1 GGGCC----TCATATAGTTGCATA-TTCAGTA
*
81113 GGGTCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
81140 GGGCATAATCATATAGTTGCATATTCAGTA
1 GGGC---CTCATATAGTTGCATATTCAGTA
*
81170 GGGCATAATCATATAGTTGCATATTCAGTA
1 GGGC---CTCATATAGTTGCATATTCAGTA
* * *
81200 GGATCATAATCATATAGTTGTATATTCAGTA
1 GG-GC---CTCATATAGTTGCATATTCAGTA
81231 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
* * *
81262 GAGCCTCATATAGTTGCATATACA-AA
1 GGGCCTCATATAGTTGCATATTCAGTA
***** * *
81288 CATATTCA-GTAG-GGCCATA-T-AGT-
1 GGGCCTCATATAGTTG-CATATTCAGTA
* * * * *
81311 -TGCAT-AT-TCAGTAGGGCCATAATCATATA
1 GGGCCTCATAT-AGT--TG-CATATTCA-GTA
* * * *
81340 GTTGCAT-ATTCAATAG-GGCCATAATCA-TA
1 G-GGCCTCA-T--ATAGTTG-CATATTCAGTA
** * * *
81369 TAG-TTGCATATTCAGTAGGGCCTCA-T-A-TA
1 GGGCCT-CATA-T-AGT--TGCAT-ATTCAGTA
* * * *
81398 GTTGCAT-AT-TCAGTAGGGCCATAATCA-TA
1 G-GGCCTCATAT-AGT--TG-CATATTCAGTA
** * * ****
81427 TCG-TTGCATATTCAGTAG-GGCCTCA-TA
1 GGGCCT-CATA-T-AGTTGCATATTCAGTA
** * *
81454 TCG-TTGCATATCAGTTGGGCCATA---AATA
1 GGGCCT-CATAT-AGTT--G-CATATTCAGTA
* *
81482 ----ATCATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
81505 GGGCCTCATATCGTTGCATA-TCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* * *
81531 GGGCCATAATCATATAGATGTATATTCAATA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*
81562 GGGCCATAATCATATAGTTGCAGATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
*** * * *
81593 -ATTCTC-TA-GGGT-CATAATCA-TA
1 GGGCCTCATATAGTTGCATATTCAGTA
** *
81615 TAG-TTGCATATTA-TT-CAGTAGGGTCTCA-TA
1 GGGCCT-CATA-TAGTTGCA-TA---T-TCAGTA
** * ** **
81645 TAG-TTGC--ATA-TT-CAGTAGGGCCCTA
1 GGGCCT-CATATAGTTGCA-TA-TTCAGTA
*
81670 ----ATCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
81693 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
81720 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
81747 GGGCCTTATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
81774 GGG--TCATATGGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
81799 GGGCCATAATCATCATATAGTTGTATATTCAGTT
1 GGG-C-----C-TCATATAGTTGCATATTCAGTA
* *
81833 GGGCCTCATATAGTTGCATATTGACTA
1 GGGCCTCATATAGTTGCATATTCAGTA
81860 GGG-C-CATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
81885 GGGCCTCATATAGTTGCATTTTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* * *
81912 TGG-C-GATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
81937 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
* * * *
81968 GGGTCATAATCTTATAGTTACATATTCATTA
1 GGG-C---CTCATATAGTTGCATATTCAGTA
81999 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
82024 GGGCCATAAATAATCATATAGTTGCGTATTTAGTA
1 GGGCC--------TCATATAGTTGCATATTCAGTA
*
82059 GGGCCTCATATCGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
82086 GGGCCTCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
82113 GGGCCTTATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
82140 GGG--TCATATGGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
82165 GGGCCATAATCATCATATAGTTGTATATTCAGTT
1 GGG-C-----C-TCATATAGTTGCATATTCAGTA
* *
82199 GGGCCTCATATAGTTGCATATTGACTA
1 GGGCCTCATATAGTTGCATATTCAGTA
82226 GGG-C-CATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
*
82251 AGG-C-CATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* *
82276 GGGCCTCATATAGTTGCATTTTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
* * *
82303 TGG-C-GATATAGTTGCATATTTAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
82328 GGGCCATAATCATATAGTTGCATATTCAGTA
1 GGGCC----TCATATAGTTGCATATTCAGTA
* * * *
82359 GGGTCATAATCTTATAGTTACATATTCATTA
1 GGG-C---CTCATATAGTTGCATATTCAGTA
82390 GGG--TCATATAGTTGCATATTCAGTA
1 GGGCCTCATATAGTTGCATATTCAGTA
82415 GGGCCATCATCGTATAGTTGCATATTCAGTA
1 GGGCC-TCA---TATAGTTGCATATTCAGTA
82446 GGG
1 GGG
82449 TCAAAGTCAT
Statistics
Matches: 2481, Mismatches: 230, Indels: 478
0.78 0.07 0.15
Matches are distributed among these distances:
20 4 0.00
21 4 0.00
22 28 0.01
23 22 0.01
24 45 0.02
25 424 0.17
26 46 0.02
27 794 0.32
28 66 0.03
29 14 0.01
30 93 0.04
31 797 0.32
32 67 0.03
33 2 0.00
34 49 0.02
35 26 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCCTCATATAGTTGCATATTCAGTA
Found at i:79575 original size:16 final size:16
Alignment explanation
Indices: 79529--79607 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
79519 CATTAGAGCC
*
79529 TCATATAGTTGCATAT
1 TCATATAGTTGCATAA
* **
79545 TCA-GTAGGGGCCATAA
1 TCATATAGTTG-CATAA
*
79561 TCATATAGTTGCATAT
1 TCATATAGTTGCATAA
* **
79577 TCA-GTAGGGGCCATAA
1 TCATATAGTTG-CATAA
79593 TCATATAGTTGCATA
1 TCATATAGTTGCATA
79608 TTCAGTAGGG
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
15 8 0.18
16 28 0.64
17 8 0.18
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (16 bp):
TCATATAGTTGCATAA
Found at i:79741 original size:31 final size:29
Alignment explanation
Indices: 79475--80217 Score: 760
Period size: 27 Copynumber: 25.9 Consensus size: 29
79465 ATAGTGGGCC
* * *
79475 TCATATAGTTGCATATTCATTAGAGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
* * *
79502 TCATATAGTTGCATATTCATTAGAGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
79529 TCATATAGTTGCATATTCAGTAGGGGCCATAA
1 TCATATAGTTGCATATTCAGTA-GGG-C-TAA
79561 TCATATAGTTGCATATTCAGTAGGGGCCATAA
1 TCATATAGTTGCATATTCAGTA-GGG-C-TAA
79593 TCATATAGTTGCATATTCAGTAGGGCCT--
1 TCATATAGTTGCATATTCAGTAGGG-CTAA
* *
79621 T-ATATAGTTGCTTATTCAGTAGGGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
* *
79647 TCATATAGTTGCATATTCAGTAGGAC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
* *
79674 TCATATAGTTGCATATTCAATAGGGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
*
79701 TGATATAGTTGCATATTCAGTAGGGTCATAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
* *
79732 TCATATAGTTACATATTCAGTAGGAC-AA
1 TCATATAGTTGCATATTCAGTAGGGCTAA
79760 TCATATAGTTGCATATTCAGTAGGGCCATAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
*
79791 TCATATAGTTGCATATTCATTAGGGCCATAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
*
79822 TCATATAGTTGCATATT-AGTAAGG----
1 TCATATAGTTGCATATTCAGTAGGGCTAA
79846 TCATATAGTTGCATATTCAGTAGGGCCTTAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
*
79877 TCATATAGTTGCATATTCAGTAGGG-T-C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
79904 TCATATAGTTGCATATTCAGTAGGGCCATAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
79935 TCATATAGTTGCATATTCAGTAGGGCCATAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
* * *
79966 TCATATGGTTGCATATTCAGTAAGGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
*
79993 TCATATAGTTGCATATTTAGTAGGG----
1 TCATATAGTTGCATATTCAGTAGGGCTAA
*
80018 TCATATAGTTGCATATTCAATAGGGCCTTAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
80049 TCATATAGTTGCATATTCAGTAGGGCCTTAA
1 TCATATAGTTGCATATTCAGTAGGG-C-TAA
*
80080 TCATATAGTTGCATATTCAGTAGGGC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
* *
80107 TCATAAAGTTGCATATTCAGTAAGGCCATAA
1 TCATATAGTTGCATATTCAGT-AGGGC-TAA
* * *
80138 TAATATAGTTGCATATTCAGTAGGAC--C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
*
80165 TCATATAGTTGCATATTCAGTAGGG-T-C
1 TCATATAGTTGCATATTCAGTAGGGCTAA
80192 TCATATAGTTGCATATTCAGTAGGGC
1 TCATATAGTTGCATATTCAGTAGGGC
80218 CATATAGCAT
Statistics
Matches: 638, Mismatches: 41, Indels: 73
0.85 0.05 0.10
Matches are distributed among these distances:
24 17 0.03
25 29 0.05
26 2 0.00
27 257 0.40
28 34 0.05
29 2 0.00
30 14 0.02
31 229 0.36
32 54 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (29 bp):
TCATATAGTTGCATATTCAGTAGGGCTAA
Found at i:79825 original size:15 final size:16
Alignment explanation
Indices: 79780--79829 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
79770 GCATATTCAG
79780 TAGGGCCATAATCATA
1 TAGGGCCATAATCATA
* *
79796 TAGTTG-CATATTCAT-
1 TAG-GGCCATAATCATA
79811 TAGGGCCATAATCATA
1 TAGGGCCATAATCATA
79827 TAG
1 TAG
79830 TTGCATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 14 0.52
17 1 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (16 bp):
TAGGGCCATAATCATA
Found at i:80292 original size:15 final size:16
Alignment explanation
Indices: 80239--80319 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
80229 TTCAGTAGGG
80239 TCATATAGTTGCATAT
1 TCATATAGTTGCATAT
* * *
80255 TCAT-TAG-GGCCTTAA
1 TCATATAGTTG-CATAT
80270 TCATATAGTTGCATAT
1 TCATATAGTTGCATAT
*** *
80286 TCA-ATAGGACCATAA
1 TCATATAGTTGCATAT
80301 TCATATAGTTGCATAT
1 TCATATAGTTGCATAT
80317 TCA
1 TCA
80320 GTAGGGCCTC
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 1 0.02
15 21 0.45
16 24 0.51
17 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (16 bp):
TCATATAGTTGCATAT
Found at i:80299 original size:78 final size:75
Alignment explanation
Indices: 80148--81046 Score: 331
Period size: 83 Copynumber: 10.8 Consensus size: 75
80138 TAATATAGTT
* *
80148 GCATATTCAGTAGGACCTCATATAGTTGCATATTCAGTAGGGTCTCATATAGTTGCATATTCAGT
1 GCATATTCAGTAGGA-CTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTCAAT
*
80213 AGGGCCATATA
65 AGGACCATATA
* *
80224 GCATATTCAGTAGG-GTCATATAGTTGCATATTCATTAGGGCCTTAATCATATAGTTGCATATTC
1 GCATATTCAGTAGGACTCATATAGTTGCATATTCAGTAGGG---T-ATCATATAGTTGCATATTC
80288 AATAGGACCATAATCATATA
62 AATAGGA-C-----CATATA
*
80308 GTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGG--TCATATAGTTGCATATTC
1 ---GCATATTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTC
* * *
80371 AGTAGGGTCATAAACATTTAGTT
62 AATA-GG-----ACCA--TA-TA
* * *** ** *
80394 GCATATTCAGTAGG-GT--TATAATCATATAGTTGCA-TATTTAGTAGGGTCATATAGTTGTATA
1 GCATATTCAGTAGGACTCATATAGTTGCATA-TT-CAGTA--GGGTA---TCATATAGTTGCATA
* *
80455 TTCAGTAGGGCCATAATCATATA
59 TTCAATA-GG-----ACCATATA
* * *
80478 GTTGCATATTCAGTAGGGC-CATATAGTTACATATTCAGTAGGGTCATAATCATATAGTTGCAAA
1 ---GCATATTCAGTAGGACTCATATAGTTGCATATTCAGTAGGG---T-ATCATATAGTTGCATA
* *
80542 TTCAGTAGGGCCATAATCATATA
59 TTCAATA-GG-----ACCATATA
*
80565 GTTGCATATTCAGTAAGGCCTCATATAGTTGCATATGT-AGTAGGG--TCATATAGTTGCATATT
1 ---GCATATTCAGT-AGGACTCATATAGTTGCATAT-TCAGTAGGGTATCATATAGTTGCATATT
* *
80627 CAGTAGGGCCTTAATCATATA
61 CAATA-GG-----ACCATATA
* *
80648 GTTGCATATTCAGTAGGGCCTCATAAAGTTGCA-ATTCAGTAGGG--TCATATAGTTGCATATTC
1 ---GCATATTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTC
* *
80710 AGTAGGGACTCGTATAGTT
62 AATA-GGAC-C--ATA-TA
* *
80729 GCATATTCAGTAAGGCCATAATCATATAGTTGCATATTCAGTAGGGTCTCATATAGTTGCATATT
1 GCATATTCAGT-AGG----ACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATT
* *
80794 CAGTAGGGCCTCATATA
61 CAATA-GGAC-CATATA
*
80811 GTTGCATATTCAGTATGGCCTCATATAGTTGCATATTCAGTAGGG--TCATATAGTTGCATATTC
1 ---GCATATTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTC
* *
80874 AGTAGGGCCATAATCATATA
62 AATA-GG-----ACCATATA
* *
80894 GTTGCATATTCAGTAGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAATT
1 ---GCATATTCAGTA-GGAC-T---CATATAGTTGCATATTCAGTAGGG---T-ATCATATAGTT
* *
80959 GCATATTCAGTAGGGCATCATATA
54 GCATATTCAATA-GG-ACCATATA
* *
80983 GTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGG--TCATAAAGTTGCATATTC
1 ---GCATATTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTC
81046 A
62 A
81047 GTTGGGCCTT
Statistics
Matches: 691, Mismatches: 52, Indels: 157
0.77 0.06 0.17
Matches are distributed among these distances:
74 24 0.03
76 14 0.02
77 2 0.00
78 37 0.05
79 52 0.08
80 7 0.01
81 30 0.04
82 51 0.07
83 139 0.20
84 11 0.02
85 69 0.10
86 2 0.00
87 133 0.19
88 11 0.02
89 83 0.12
90 2 0.00
93 24 0.03
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (75 bp):
GCATATTCAGTAGGACTCATATAGTTGCATATTCAGTAGGGTATCATATAGTTGCATATTCAATA
GGACCATATA
Found at i:80315 original size:16 final size:16
Alignment explanation
Indices: 80239--80315 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 16
80229 TTCAGTAGGG
*
80239 TCATATAGTTGCATAT
1 TCATATAGTTGCATAA
* *
80255 TCAT-TAG-GGCCTTAA
1 TCATATAGTTG-CATAA
*
80270 TCATATAGTTGCATAT
1 TCATATAGTTGCATAA
***
80286 TCA-ATAGGACCATAA
1 TCATATAGTTGCATAA
80301 TCATATAGTTGCATA
1 TCATATAGTTGCATA
80316 TTCAGTAGGG
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 1 0.02
15 21 0.48
16 21 0.48
17 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (16 bp):
TCATATAGTTGCATAA
Found at i:80698 original size:391 final size:386
Alignment explanation
Indices: 79470--82619 Score: 2790
Period size: 391 Copynumber: 7.9 Consensus size: 386
79460 GTCATATAGT
* * * *
79470 GGGCCTCATATAGTTGCATATTCATTAGAGCCTCATATAGTTGCATATTCATTAGAGCCTCATAT
1 GGGCCTCATATAGTTGCATATTCAGTAG-GGCTCATATAGTTGCATATTCAGTAGGGCCTCATAT
*
79535 AGTTGCATATTCAGTAGGGGCCATAATCATATAGTTGCATATTCAGTAGGGGCCATAATCATATA
65 AGTTGCATATTCAGTA-GGG-----ATCATATAGTTGCATATTCAGTA-GGGTCATAATCATATA
* * *
79600 GTTGCATATTCAGTAGGGCCTTATATAGTTGCTTATTCAGTAGGGCCTCATATAGTTGCATATTC
123 GTTGCATATTCAGTAGGG--TCATATAGTTGCATATTCAGTAGGG-ATCATATAGTTGCATATTC
* * *
79665 AGTAGGACC---TCATATAGTTGCATATTCAATAGGGCCTGATATAGTTGCATATTCAGTAGGGT
185 AGTAGGGCCTAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGGT
* *
79727 CATAATCATATAGTTACATATTCAGTA-GG--ACAATCATATAGTTGCATATTCAGTAGGGCCAT
250 CATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGGGCC--
* *
79789 AATCATATAGTTGCATATTCATTAGGGCCATAATCATATAGTTGCATATT-AGTAAGG-TCATAT
313 --TCATATAGTTGCATATTCAGTAGGG-C----TCATATAGTTGCATATTCAGTAGGGCTCATAT
79852 AGTTGCATATTCAGTA
371 AGTTGCATATTCAGTA
79868 GGGCCTTAATCATATAGTTGCATATTCAGTAGGGTCTCATATAGTTGCATATTCAGTAGGGCCAT
1 GGGCC----TCATATAGTTGCATATTCAGTAGGG-CTCATATAGTTGCATATTCAGTAGGGCC--
* * *
79933 AATCATATAGTTGCATATTCAGTAGGGCCATAATCATATGGTTGCATATTCAGTAAGG-C---CT
59 --TCATATAGTTGCATATTCAGTAGGG-----ATCATATAGTTGCATATTCAGTAGGGTCATAAT
* *
79994 CATATAGTTGCATATTTAGTAGGGTCATATAGTTGCATATTCAATAGGGCCTTAATCATATAGTT
117 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGG-----ATCATATAGTT
*
80059 GCATATTCAGTAGGGCCTTAATCATATAGTTGCATATTCAGTAGGGCCTCATAAAGTTGCATATT
177 GCATATTCAGTAGGGCC-TAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATT
* * * *
80124 CAGTAAGGCCATAATAATATAGTTGCATATTCAGTAGGACC----TCATATAGTTGCATATTCAG
241 CAGTAGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAG
*
80185 TAGGGTCTCATATAGTTGCATATTCAGTAGGGC-CATATA---GCATATTCAGTAGGG-TCATAT
306 TAGGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCTCATAT
*
80245 AGTTGCATATTCATTA
371 AGTTGCATATTCAGTA
* *
80261 GGGCCTTAATCATATAGTTGCATATTCAATAGGACCATAATCATATAGTTGCATATTCAGTAGGG
1 GGGCC----TCATATAGTTGCATATTCAGTAGG-GC----TCATATAGTTGCATATTCAGTAGGG
* *
80326 CCTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGTCATAAACATTT
57 CCTCATATAGTTGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGTCATAATCATAT
* *
80390 AGTTGCATATTCAGTAGGGTTATAATCATATAGTTGCATATTTAGTAGGG-TCATATAGTTGTAT
122 AGTTGCATATTCAGTAGGG------TCATATAGTTGCATATTCAGTAGGGATCATATAGTTGCAT
*
80454 ATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGGG-C-CATATAGTTACATATTCAGT
181 ATTCAGTAGGGCC-TAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGT
* *
80517 AGGGTCATAATCATATAGTTGCAAATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAAG
245 AGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGG
80582 GCCTCATATAGTTGCATATGT-AGTAGGG-TCATATAGTTGCATATTCAGTAGGGCCTTAATCAT
310 GCCTCATATAGTTGCATAT-TCAGTAGGGCTCATATAGTTGCATATTCAGTAGGG-C----TCAT
80645 ATAGTTGCATATTCAGTA
369 ATAGTTGCATATTCAGTA
* * *
80663 GGGCCTCATAAAGTTGCA-ATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGACTCGTATA
1 GGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCCTCATATA
*
80726 GTTGCATATTCAGTAAGGCCATAATCATATAGTTGCATATTCAGTAGGGTC----TCATATAGTT
66 GTTGCATATTCAGT-AGG----GATCATATAGTTGCATATTCAGTAGGGTCATAATCATATAGTT
**
80787 GCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTATGGCCTCATATAGTTGCATATTCAGT
126 GCATATTCAGTAGGG--TCATATAGTTGCATATTCAGTA-GGGATCATATAGTTGCATATTCAGT
80852 AGGG-----TCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGGG
188 AGGGCCTAATCATATAGTTGCATATTCAGTAGGGCC----TCATATAGTTGCATATTCAGTAGGG
* *
80912 TCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAATTGCATATTCAGTAGGGCAT
249 TCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGGGCCT
*
80977 CATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGG-TCATAAAGTTGCA
314 CATATAGTTGCATATTCAGTAGGG-CTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
*
81041 TATTCAGTT
378 TATTCAGTA
* *
81050 GGGCCTTAATCATATAGTTGCATATTCAGTTGGGCCTTAATCATATAGTTGCATATTTTAGTAGG
1 GGGCC----TCATATAGTTGCATATTCAGTAGGG-C----TCATATAGTTGCATA-TTCAGTAGG
*
81115 GTCTCATATAGTTGCATATTCAGTAGGGCATAATCATATAGTTGCATATTCAGTAGGG-CATAAT
56 GCCTCATATAGTTGCATATTCAGTAGGG----ATCATATAGTTGCATATTCAGTAGGGTCATAAT
* *
81179 CATATAGTTGCATATTCAGTAGGATCATAATCATATAGTTGTATATTCAGTAGGGCCATAATCAT
117 CATATAGTTGCATATTCAGTAGG------GTCATATAGTTGCATATTCAGTAGGG-----ATCAT
* ****
81244 ATAGTTGCATATTCAGTAGAGCCTCATATAGTTGCATATACAAACATATTCAGTAGGG-C-CATA
171 ATAGTTGCATATTCAGTAG-GGC-C-TA-A--T-CATATAGTTGCATATTCAGTAGGGCCTCATA
* *
81307 TAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAATAGGGCCATAATCATATAG
229 TAGTTGCATATTCAGTAGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAG
*
81372 TTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGGCCATAATCATATCGTTGCATA
294 TTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGG-C----TCATATAGTTGCATA
* *
81437 TTCAGTAGGGCCTCATATCGTTGCATA-TCAGTT
354 TTCAGTAGGG-CTCATATAGTTGCATATTCAGTA
* *
81470 GGGCCATAAATAATCATATAGTTGCATATTTAGTAGGGCCTCATATCGTTGCATA-TCAGTAGGG
1 GGGCC--------TCATATAGTTGCATATTCAGTAGGG-CTCATATAGTTGCATATTCAGTAGGG
* * * *
81534 CCATAATCATATAGATGTATATTCAATAGGGCCATAATCATATAGTTGCAGATTCAGTAATTCTC
57 CC----TCATATAGTTGCATATTCAGTAGGG-----ATCATATAGTTGCATATTCAG--------
81599 TAGGGTCATAATCATATAGTTGCATATTATTCAGTAGGGTCTCATATAGTTGCATATTCAGTAGG
105 TAGGGTCATAATCATATAGTTGC--A-TATTCAGTAGGG--TCATATAGTTGCATATTCAGTAGG
81664 GCCCTAATCATATAGTTGCATATTCAGTAGGGCC---TCATATAGTTGCATATTCAGTAGGGCCT
165 G-----ATCATATAGTTGCATATTCAGTAGGGCCTAATCATATAGTTGCATATTCAGTAGGGCCT
* *
81726 CATATAGTTGCATATTCAGTAGGG-CCT--T-ATATAGTTGCATATTTAGTAGGG------TCAT
225 CATATAGTTGCATATTCAGTAGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCAT
* * *
81781 ATGGTTGCATATTCAGTAGGGCCATAATCATCATATAGTTGTATATTCAGTTGGGCCTCATATAG
290 ATAGTTGCATATTCAGTAGGG-C-----C-TCATATAGTTGCATATTCAGTAGGG-CTCATATAG
* *
81846 TTGCATATTGACTAGGGC-CATATAGTTGCATATTCAGTA
347 TTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTA
* * * * *
81885 GGGCCTCATATAGTTGCATTTTTAGTATGGC-GATATAGTTGCATATTTAGTAGGGCCATAATCA
1 GGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCC----TCA
* * *
81949 TATAGTTGCATATTCAGTAGGGTCATAATCTTATAGTTACATATTCATTAGGG------TCATAT
62 TATAGTTGCATATTCAGTAGGG-----ATCATATAGTTGCATATTCAGTAGGGTCATAATCATAT
* * * *
82008 AGTTGCATATTCAGTAGGGCCATAAATAATCATATAGTTGCGTATTTAGTAGGGCCTCATATCGT
122 AGTTGCATATTCAGTAGGG----------TCATATAGTTGCATATTCAGTAGGG-ATCATATAGT
*
82073 TGCATATTCAGTAGGGCC---TCATATAGTTGCATATTCAGTAGGGCCTTATATAGTTGCATATT
176 TGCATATTCAGTAGGGCCTAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATT
* * *
82135 TAGTAGGG------TCATATGGTTGCATATTCAGTAGGGCCATAATCATCATATAGTTGTATATT
241 CAGTAGGGTCATAATCATATAGTTGCATATTCAGTAGGGCCAT-A--ATCATATAGTTGCATATT
* * * *
82194 CAGTTGGGCCTCATATAGTTGCATATTGACTAGGGC-CATATAGTTGCATATTCAGTAAGGC-CA
303 CAGTAGGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCTCA
82257 TATAGTTGCATATTCAGTA
368 TATAGTTGCATATTCAGTA
* * * * *
82276 GGGCCTCATATAGTTGCATTTTTAGTATGGC-GATATAGTTGCATATTTAGTAGGGCCATAATCA
1 GGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCC----TCA
* * *
82340 TATAGTTGCATATTCAGTAGGGTCATAATCTTATAGTTACATATTCATTAGGG------TCATAT
62 TATAGTTGCATATTCAGTAGGG-----ATCATATAGTTGCATATTCAGTAGGGTCATAATCATAT
82399 AGTTGCATATTCAGTAGGGCCATCATCGTATAGTTGCATATTCAGTAGGG-TCA-A-AG-T-CAT
122 AGTTGCATATTCAGTAGGG---TCA---TATAGTTGCATATTCAGTAGGGATCATATAGTTGCAT
* *
82459 A-T-AGT-TGG-----TCATATTGTTGCATATTCAGTAGGG--TCATATAGTTGCATATTCAGTA
181 ATTCAGTAGGGCCTAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTA
* * * * * *
82514 GGGTCATAAACATTTAGTTGCATATTCAGTAGTGTCATAAACATTTAGTTGCATATTCAGTAGTG
246 GGGTCATAATCATATAGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAG-G
*** *
82579 TTATAATCATATAGTTGCATATTTAGTAGGG-TCATATAGTT
310 ---GCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTT
82620 AAAGATAACA
Statistics
Matches: 2393, Mismatches: 176, Indels: 383
0.81 0.06 0.13
Matches are distributed among these distances:
374 23 0.01
376 24 0.01
377 20 0.01
378 3 0.00
379 4 0.00
380 25 0.01
381 36 0.02
382 1 0.00
383 1 0.00
384 5 0.00
385 28 0.01
386 1 0.00
387 68 0.03
388 1 0.00
389 83 0.03
390 6 0.00
391 470 0.20
392 33 0.01
393 284 0.12
394 2 0.00
395 6 0.00
396 15 0.01
397 110 0.05
398 88 0.04
399 31 0.01
400 47 0.02
401 49 0.02
402 100 0.04
403 1 0.00
404 4 0.00
405 89 0.04
406 153 0.06
407 24 0.01
409 23 0.01
410 1 0.00
413 24 0.01
414 14 0.01
415 122 0.05
416 22 0.01
418 9 0.00
419 46 0.02
420 53 0.02
421 53 0.02
422 26 0.01
423 48 0.02
424 28 0.01
429 1 0.00
430 2 0.00
431 57 0.02
432 17 0.01
434 1 0.00
435 11 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (386 bp):
GGGCCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCCTCATATA
GTTGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGTCATAATCATATAGTTGCATA
TTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGCCTA
ATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCAGTAGGGTCATAATCATAT
AGTTGCATATTCAGTAGGGCCATAATCATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCA
TATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTA
Found at i:81378 original size:16 final size:16
Alignment explanation
Indices: 81328--81378 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
81318 TCAGTAGGGC
81328 CATAATCATATAGTTG
1 CATAATCATATAGTTG
* *
81344 CATATTCA-ATAG-GG
1 CATAATCATATAGTTG
81358 CCATAATCATATAGTTG
1 -CATAATCATATAGTTG
81375 CATA
1 CATA
81379 TTCAGTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.39
16 15 0.54
17 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (16 bp):
CATAATCATATAGTTG
Found at i:81873 original size:25 final size:25
Alignment explanation
Indices: 81812--82031 Score: 179
Period size: 25 Copynumber: 8.2 Consensus size: 25
81802 CCATAATCAT
* *
81812 CATATAGTTGTATATTCAGTTGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
* *
81838 TCATATAGTTGCATATTGACTAGGGC
1 -CATATAGTTGCATATTCAGTAGGGC
81864 CATATAGTTGCATATTCAGTAGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
* * *
81890 TCATATAGTTGCATTTTTAGTATGGC
1 -CATATAGTTGCATATTCAGTAGGGC
* *
81916 GATATAGTTGCATATTTAGTAGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
81942 ATAATCATATAGTTGCATATTCAGTAGGGTC
1 -----CATATAGTTGCATATTCAGTAGGG-C
* * * *
81973 ATAATCTTATAGTTACATATTCATTAGGGT
1 -----CATATAGTTGCATATTCAGTAGGGC
82003 CATATAGTTGCATATTCAGTAGGGC
1 CATATAGTTGCATATTCAGTAGGGC
82028 CATA
1 CATA
82032 AATAATCATA
Statistics
Matches: 162, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
25 68 0.42
26 4 0.02
27 41 0.25
31 49 0.30
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (25 bp):
CATATAGTTGCATATTCAGTAGGGC
Found at i:82239 original size:25 final size:25
Alignment explanation
Indices: 82178--82448 Score: 218
Period size: 25 Copynumber: 10.0 Consensus size: 25
82168 CCATAATCAT
* *
82178 CATATAGTTGTATATTCAGTTGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
* *
82204 TCATATAGTTGCATATTGACTAGGGC
1 -CATATAGTTGCATATTCAGTAGGGC
*
82230 CATATAGTTGCATATTCAGTAAGGC
1 CATATAGTTGCATATTCAGTAGGGC
82255 CATATAGTTGCATATTCAGTAGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
* * *
82281 TCATATAGTTGCATTTTTAGTATGGC
1 -CATATAGTTGCATATTCAGTAGGGC
* *
82307 GATATAGTTGCATATTTAGTAGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
82333 ATAATCATATAGTTGCATATTCAGTAGGGTC
1 -----CATATAGTTGCATATTCAGTAGGG-C
* * * *
82364 ATAATCTTATAGTTACATATTCATTAGGGT
1 -----CATATAGTTGCATATTCAGTAGGGC
82394 CATATAGTTGCATATTCAGTAGGGCC
1 CATATAGTTGCATATTCAGTAGGG-C
82420 ATCATCGTATAGTTGCATATTCAGTAGGG
1 --CA---TATAGTTGCATATTCAGTAGGG
82449 TCAAAGTCAT
Statistics
Matches: 205, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
25 87 0.42
26 4 0.02
27 41 0.20
28 2 0.01
31 71 0.35
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (25 bp):
CATATAGTTGCATATTCAGTAGGGC
Found at i:82264 original size:77 final size:77
Alignment explanation
Indices: 82178--82448 Score: 263
Period size: 77 Copynumber: 3.3 Consensus size: 77
82168 CCATAATCAT
* * *
82178 CATATAGTTGTATATTCAGTTGGGCCTCATATAGTTGCATATTGACTAGGGCCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCACTAGGGCCATATAGTTGCAT
*
82243 ATTCAGTAAGGC
66 ATTCAGTAGGGC
* * * * *
82255 CATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATTTTTAGTATGGCGATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCACTAGGGCCATATAGTTGCAT
*
82320 ATTTAGTAGGGCC
66 ATTCAGTAGGG-C
* * * * *
82333 ATAATCATATAGTTGCATATTCAGTAGGGTCATAATCTTATAGTTACATATTCATTAGGGTCATA
1 -----CATATAGTTGCATATTCAGTAGGG-C---CTCATATAGTTGCATATTCACTAGGGCCATA
82398 TAGTTGCATATTCAGTAGGGCC
57 TAGTTGCATATTCAGTAGGG-C
82420 ATCATCGTATAGTTGCATATTCAGTAGGG
1 --CA---TATAGTTGCATATTCAGTAGGG
82449 TCAAAGTCAT
Statistics
Matches: 162, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
77 67 0.41
78 1 0.01
83 24 0.15
84 5 0.03
87 65 0.40
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (77 bp):
CATATAGTTGCATATTCAGTAGGGCCTCATATAGTTGCATATTCACTAGGGCCATATAGTTGCAT
ATTCAGTAGGGC
Found at i:82465 original size:31 final size:27
Alignment explanation
Indices: 81609--82448 Score: 701
Period size: 27 Copynumber: 30.0 Consensus size: 27
81599 TAGGGTCATA
81609 ATCATATAGTTGCATATTATTCAGTAGGGTC
1 ATCATATAGTTGC--A-TATTCAGTAGGG-C
81640 -TCATATAGTTGCATATTCAGTAGGGCCC
1 ATCATATAGTTGCATATTCAGTAGGG--C
81668 TAATCATATAGTTGCATATTCAGTAGGGC
1 --ATCATATAGTTGCATATTCAGTAGGGC
*
81697 CTCATATAGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
*
81724 CTCATATAGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * *
81751 CTTATATAGTTGCATATTTAGTAGGG-
1 ATCATATAGTTGCATATTCAGTAGGGC
*
81777 -TCATATGGTTGCATATTCAGTAGGGCCATAATC
1 ATCATATAGTTGCATATTCAGTAGGG-------C
* *
81810 ATCATATAGTTGTATATTCAGTTGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * *
81837 CTCATATAGTTGCATATTGACTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
81864 --CATATAGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * * *
81889 CTCATATAGTTGCATTTTTAGTATGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* *
81916 --GATATAGTTGCATATTTAGTAGGGCC
1 ATCATATAGTTGCATATTCAGTAGGG-C
81942 ATAATCATATAGTTGCATATTCAGTAGGGTC
1 ---ATCATATAGTTGCATATTCAGTAGGG-C
* * *
81973 ATAATCTTATAGTTACATATTCATTAGGG-
1 ---ATCATATAGTTGCATATTCAGTAGGGC
82002 -TCATATAGTTGCATATTCAGTAGGGCC
1 ATCATATAGTTGCATATTCAGTAGGG-C
* *
82029 ATAAATAATCATATAGTTGCGTATTTAGTAGGGC
1 -------ATCATATAGTTGCATATTCAGTAGGGC
* *
82063 CTCATATCGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
*
82090 CTCATATAGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * *
82117 CTTATATAGTTGCATATTTAGTAGGG-
1 ATCATATAGTTGCATATTCAGTAGGGC
*
82143 -TCATATGGTTGCATATTCAGTAGGGCCATAATC
1 ATCATATAGTTGCATATTCAGTAGGG-------C
* *
82176 ATCATATAGTTGTATATTCAGTTGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * *
82203 CTCATATAGTTGCATATTGACTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
*
82230 --CATATAGTTGCATATTCAGTAAGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
82255 --CATATAGTTGCATATTCAGTAGGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* * * *
82280 CTCATATAGTTGCATTTTTAGTATGGC
1 ATCATATAGTTGCATATTCAGTAGGGC
* *
82307 --GATATAGTTGCATATTTAGTAGGGCC
1 ATCATATAGTTGCATATTCAGTAGGG-C
82333 ATAATCATATAGTTGCATATTCAGTAGGGTC
1 ---ATCATATAGTTGCATATTCAGTAGGG-C
* * *
82364 ATAATCTTATAGTTACATATTCATTAGGG-
1 ---ATCATATAGTTGCATATTCAGTAGGGC
82393 -TCATATAGTTGCATATTCAGTAGGGCC
1 ATCATATAGTTGCATATTCAGTAGGG-C
82420 ATCATCGTATAGTTGCATATTCAGTAGGG
1 ATCA---TATAGTTGCATATTCAGTAGGG
82449 TCAAAGTCAT
Statistics
Matches: 684, Mismatches: 71, Indels: 108
0.79 0.08 0.13
Matches are distributed among these distances:
25 199 0.29
26 2 0.00
27 252 0.37
28 5 0.01
29 1 0.00
30 12 0.02
31 145 0.21
34 45 0.07
35 23 0.03
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
ATCATATAGTTGCATATTCAGTAGGGC
Found at i:82533 original size:31 final size:31
Alignment explanation
Indices: 82474--82614 Score: 186
Period size: 31 Copynumber: 4.7 Consensus size: 31
82464 TGGTCATATT
82474 GTTGCATATTCAGTAGGGTCAT----A--TA
1 GTTGCATATTCAGTAGGGTCATAAACATTTA
82499 GTTGCATATTCAGTAGGGTCATAAACATTTA
1 GTTGCATATTCAGTAGGGTCATAAACATTTA
*
82530 GTTGCATATTCAGTAGTGTCATAAACATTTA
1 GTTGCATATTCAGTAGGGTCATAAACATTTA
* * * *
82561 GTTGCATATTCAGTAGTGTTATAATCATATA
1 GTTGCATATTCAGTAGGGTCATAAACATTTA
*
82592 GTTGCATATTTAGTAGGGTCATA
1 GTTGCATATTCAGTAGGGTCATA
82615 TAGTTAAAGA
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
25 22 0.21
29 1 0.01
31 80 0.78
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (31 bp):
GTTGCATATTCAGTAGGGTCATAAACATTTA
Found at i:82563 original size:99 final size:99
Alignment explanation
Indices: 82379--82564 Score: 275
Period size: 99 Copynumber: 1.9 Consensus size: 99
82369 CTTATAGTTA
* * * *
82379 CATATTCATTAGGGTCATATAGTTGCATATTCAGTAGGGCCATCATCGTATAGTTGCATATTCAG
1 CATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCCATAAACATATAGTTGCATATTCAG
*
82444 TAGGGTCAAAGTCATATAGTTGGTCATATTGTTG
66 TAGGGTCAAAGACATATAGTTGGTCATATTGTTG
* *
82478 CATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGTCATAAACATTTAGTTGCATATTCAG
1 CATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCCATAAACATATAGTTGCATATTCAG
* *
82543 TAGTGTCATAA-ACATTTAGTTG
66 TAGGGTCA-AAGACATATAGTTG
82565 CATATTCAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 75 0.97
100 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (99 bp):
CATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCCATAAACATATAGTTGCATATTCAG
TAGGGTCAAAGACATATAGTTGGTCATATTGTTG
Found at i:82568 original size:16 final size:16
Alignment explanation
Indices: 82518--82568 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
82508 TCAGTAGGGT
82518 CATAAACATTTAGTTG
1 CATAAACATTTAGTTG
** *
82534 CATATTCA-GTAG-TG
1 CATAAACATTTAGTTG
82548 TCATAAACATTTAGTTG
1 -CATAAACATTTAGTTG
82565 CATA
1 CATA
82569 TTCAGTAGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.35
16 13 0.50
17 2 0.08
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (16 bp):
CATAAACATTTAGTTG
Found at i:84256 original size:332 final size:332
Alignment explanation
Indices: 83593--85421 Score: 2091
Period size: 332 Copynumber: 5.5 Consensus size: 332
83583 CTTGTGAAAA
* * * * ****
83593 CCTTATATCCAATGTGGCTGAGATTTGACTAGATGAATGTAGATATTTCAAGGAGACTAAATGCC
1 CCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
* * * * ** * * * ** * ** *
83658 AAAAATCAAGTAAAATTGAGTCAGGACTTCGGAACTCGTTTTTAGTAAAAAATAGTGATGGTTAG
66 AAAAATCATGTAAAACTGAG-CCGGGCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGGTTTG
* * * * * * * * *
83723 TACACACGATTTTGGCTAGAATTTTGC-AAAAATTGACCCGAAAAGTTTTCCCACTATTTTCCGC
130 T--ACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTT-TGA
* * * *
83787 CATAATATTCATAA-AAAAAATATAGAATTCAACATCAT-AAGAATTTATGGGCTTTTCATGCTT
192 C-TAAAATGC-TAATAAAAAATATAGAGTTCAACGTCATAAAG-ATTTATGGGCTTTTCATGCTT
* * ** * * *
83850 CAAAATATGGTTT-TCTTTTTTTTTTTTCAAATTAATTTATGATTAAATCGAAATAAGATTCAGA
254 C-AAATATGATTTATC--CTCCTTTTTTCAAATTAATTTCTGATTTAATCGAAACAAGATTCAGA
*
83914 TACTCGTAAAAACAAAT
316 TGCTCGTAAAAACAAAT
* * * * *
83931 CCTTAAATGCAATATGGCTGAGATTTGATTAAATGAATATAGATATTTCAA-GAGTCTCGACACC
1 CCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
* * * * * ** * *
83995 AAAAATCATTTAAAACAGAGCCGGTGCCCTAGAACGCATTTTCAACTTGAAACCGTAATCGTTTG
66 AAAAATCATGTAAAACTGAGCCGG-GCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGGTTTG
* * *
84060 TATACGGTTTCGGCAAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGACTA
130 TACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGACTA
* *
84125 AAATGCTAATAAAAAATATACAATTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAATA
195 AAATGCTAATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAATA
* *
84190 TGATTTATCCTCCTTTTTTCAAATTAATTTCTGGTTTAATCGAAACAAGATTCAGTTGCTCGTAA
260 TGATTTATCCTCCTTTTTTCAAATTAATTTCTGATTTAATCGAAACAAGATTCAGATGCTCGTAA
*
84255 AAAGAAAT
325 AAACAAAT
* * * * *
84263 CCTTAAATCCAATGTGGCTGAGATTTGATTCGACGAATATAGAAATTTCAAAGAGTCTTGGCGCC
1 CCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
* * *
84328 AAAAATCATGTAAAATTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAAAACCGTGATGGTTTG
66 AAAAATCATGTAAAACTGAGCC-GGGCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGGTTTG
* * * * * *
84393 TACACGATTTCGGTCAAAATTTTACAAAAAATTAAGCCAAAATGTTTTTCCTCAATTTTTGACCA
130 TACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGACTA
*
84458 AAATTCT-ATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGG-TTTTCATGCTTCAAATA
195 AAATGCTAATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAATA
* ** *
84521 TGGTTTATCCTCCTTTTTTCAAATTAATTTCTGATTTAAATCGAAACATTATTCAGATGCTTGTA
260 TGATTTATCCTCCTTTTTTCAAATTAATTTCTGATTT-AATCGAAACAAGATTCAGATGCTCGTA
*
84586 AAAATAAAT
324 AAAACAAAT
* * * *
84595 CCTTAAAATCCAGTGTGGCAGAGATTTGATTAGATAAATATAGATATTTCAAGGATTCTCGGCGC
1 CCTT-AAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGC
* ** * * * *
84660 CAAAAATCATGTAAAACTGGGTTAGAGCCCCAAAACGCGTTTTGAGCCAGAAACCATGA-GGTTT
65 CAAAAATCATGTAAAACTGAG-CCGGGCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGG-TT
* * * *
84724 ATATACACAATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTACCTCAATTTTTAA
128 -TGTACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGA
* * *
84789 CTAAAATGCTCATAAAAAATATAGAGTTCAACGTCATAAAGAATTATGGCCTTTTCATGCTTCAA
192 CTAAAATGCTAATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAA
* * * * *
84854 ATAT-AGTTTATCCTCCTTCTTTCAAATTTATTTTTGATTAAATCGAAACAAGATTTAGATGCTC
257 ATATGA-TTTATCCTCCTTTTTTCAAATTAATTTCTGATTTAATCGAAACAAGATTCAGATGCTC
84918 GTAAAAACAAAT
321 GTAAAAACAAAT
* * *
84930 CCTTAAATCCAATGTGGCTGAGATTTGATTGGATGAATATAGATATTTCAAGGAATCTCGACGCC
1 CCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
* * * *
84995 AAAAATCATGTAAAACTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAGAAACCGTGATGGTTTG
66 AAAAATCATGTAAAACTGAG-CCGGGCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGGTTTG
* * * *
85060 TACACGGTTTTGGCCAAAATTTTGC-AAAAATTGACTCGAAATGTTTTTCCTCAATTTTTGTCTA
130 TACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGACTA
* * *
85124 AAA-GTTTCATAAAAAATATAGAGTTCAACGTCATAAAGATTCATGGGCTTTTCATGCTTCAAAT
195 AAATG-CTAATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAAT
* * * * *
85188 ATGATTTATCCTTCTGTTTTCAAATTAATTTCT-AGTTTAATAGAAACATGATTTAGATGCTCGT
259 ATGATTTATCCTCCTTTTTTCAAATTAATTTCTGA-TTTAATCGAAACAAGATTCAGATGCTCGT
85252 AAAAACAAAT
323 AAAAACAAAT
* *
85262 TCTTAAATACAATGTGGCTGAGATTTGATT-GAATGAATATAGATATTTCAAGGAGTCTCGGCGC
1 CCTTAAATCCAATGTGGCTGAGATTTGATTAG-ATGAATATAGATATTTCAAGGAGTCTCGGCGC
* * *
85326 CAAAAATCATTTAAAACTGAGCCGGAGCCGGAGCCTCGGAATGCGTTTTCAGCCAGAAACCGTGA
65 CAAAAATCATGTAAAACTGAGCCGG-G-C----CC-CAGAACGCGTTTTCAGCCAGAAACCGTGA
* *
85391 TGGTTTATACACGATTTCGACCAAAATTTTG
123 TGGTTTGTACACGATTTCGGCCAAAATTTTG
Statistics
Matches: 1273, Mismatches: 191, Indels: 54
0.84 0.13 0.04
Matches are distributed among these distances:
331 58 0.05
332 407 0.32
333 261 0.21
334 222 0.17
335 98 0.08
336 80 0.06
337 48 0.04
338 99 0.08
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (332 bp):
CCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
AAAAATCATGTAAAACTGAGCCGGGCCCCAGAACGCGTTTTCAGCCAGAAACCGTGATGGTTTGT
ACACGATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTTCCTCAATTTTTGACTAA
AATGCTAATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAATAT
GATTTATCCTCCTTTTTTCAAATTAATTTCTGATTTAATCGAAACAAGATTCAGATGCTCGTAAA
AACAAAT
Found at i:84797 original size:667 final size:662
Alignment explanation
Indices: 83588--85354 Score: 2217
Period size: 667 Copynumber: 2.6 Consensus size: 662
83578 AAATACTTGT
* * * * * *
83588 GAAAACCTTATATCCAATGTGGCTGAGATTTGACTAGATGAATGTAGATATTTCAAGGAGACTAA
1 GAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTAG
* * * * * * * ** **
83653 ATGCCAAAAATCAAGTAAAATTGAGTCAGGACTTCGGAACTCGTTTTTAGTAAAAAATAGTGATG
66 ACGCCAAAAATCATGTAAAATTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAAAAACCGTGATG
* * * * *
83718 GTTAGTACACACGATTTTGGCTAGAATTTTGCAAAAATTGACCCGAAAA-GTTTTCCCACTATTT
131 GTTTGT--ACACGATTTTGGC-AAAATTTTGCAAAAATTGA-CC-AAAATGTTTTTCCTCAATTT
* * * *
83782 TCCGCCATAATATTCATAAAAAAAATATAGAATTCAACATCAT-AAGAATTTATGGGCTTTTCAT
191 T-TGCCA-AA-ATTC-TATAAAAAATATAGAGTTCAACGTCATAAAG-ATTTATGGGCTTTTCAT
* * * * *
83846 GCTTCAAAATATGGTTT-TCTTTTTTTTTTTTCAAATTAATTTATGA-TTAAATCGAAATAAGAT
251 GCTTC-AAATATGGTTTATC--CTTCTTTTTTCAAATTAATTTCTGATTTAAATCGAAACATGAT
* * * *
83909 TCAGATACTCGTAAAAACAAATCCTTAAATGCAATATGGCTGAGATTTGATTAAATGAATATAGA
313 TCAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTAGATGAATATAGA
* * * * * * *
83974 TATTTCAA-GAGTCTCGACACCAAAAATCATTTAAAACAGAGCCGGTGCCCTAGAACGCATTTTC
378 TATTTCAAGGAGTCTCGGCGCCAAAAATCATTTAAAACTGAGCCAGAGCCCCAAAACGCATTTTC
** * * **
84038 AACTTGAAACCGTAATCGTTTGTATACGGTTTCGGCAAAAATTTTGCAAAAAATTGACCCGAAAT
443 AACCAGAAACCATAATCGTTTATATACAATTTCGGCAAAAATTTTGCAAAAAATTGACCCGAAAT
* * *
84103 GTTTTTCCTCAATTTTTGACTAAAATGCTAATAAAAAATATACAATTCAACGTCATAAAGATTTA
508 GTTTTACCTCAATTTTTAACTAAAATGCTAATAAAAAATATACAATTCAACGTCATAAAGAATTA
* * * *
84168 TGGGCTTTTCATGCTTCAAATAT-GATTTATCCTCCTTTTTTCAAATTAATTTCTGGTTTAATCG
573 TGGCCTTTTCATGCTTCAAATATAG-TTTATCCTCCTTCTTTCAAATTAATTTCTGATTAAATCG
*
84232 AAACAAGATTCAGTTGCTCGTAAAAA
637 AAACAAGATTCAGATGCTCGTAAAAA
* * * * *
84258 GAAATCCTTAAATCCAATGTGGCTGAGATTTGATTCGACGAATATAGAAATTTCAAAGAGTCTTG
1 GAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTAG
* * * *
84323 GCGCCAAAAATCATGTAAAATTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAAAACCGTGATG
66 ACGCCAAAAATCATGTAAAATTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAAAAACCGTGATG
* * *
84388 GTTTGTACACGATTTCGGTCAAAATTTTACAAAAAATTAAGCCAAAATGTTTTTCCTCAATTTTT
131 GTTTGTACACGATTTTGG-CAAAATTTTGC-AAAAATTGA-CCAAAATGTTTTTCCTCAATTTTT
84453 GACCAAAATTCTATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGG-TTTTCATGCTTCA
193 G-CCAAAATTCTATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCA
* *
84517 AATATGGTTTATCCTCCTTTTTTCAAATTAATTTCTGATTTAAATCGAAACATTATTCAGATGCT
257 AATATGGTTTATCCTTCTTTTTTCAAATTAATTTCTGATTTAAATCGAAACATGATTCAGATGCT
* * * * * *
84582 TGTAAAAATAAATCCTTAAAATCCAGTGTGGCAGAGATTTGATTAGATAAATATAGATATTTCAA
322 CGTAAAAACAAATCCTT-AAATACAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * ** * * *
84647 GGATTCTCGGCGCCAAAAATCATGTAAAACTGGGTTAGAGCCCCAAAACGCGTTTTGAGCCAGAA
386 GGAGTCTCGGCGCCAAAAATCATTTAAAACTGAGCCAGAGCCCCAAAACGCATTTTCAACCAGAA
* * *
84712 ACCATGA-GGTTTATATACACAATTTCGGCCAAAATTTTGCAAAAAATTGACCCGAAATGTTTTA
451 ACCATAATCGTTTATAT--ACAATTTCGGCAAAAATTTTGCAAAAAATTGACCCGAAATGTTTTA
* * *
84776 CCTCAATTTTTAACTAAAATGCTCATAAAAAATATAGAGTTCAACGTCATAAAGAATTATGGCCT
514 CCTCAATTTTTAACTAAAATGCTAATAAAAAATATACAATTCAACGTCATAAAGAATTATGGCCT
* *
84841 TTTCATGCTTCAAATATAGTTTATCCTCCTTCTTTCAAATTTATTTTTGATTAAATCGAAACAAG
579 TTTCATGCTTCAAATATAGTTTATCCTCCTTCTTTCAAATTAATTTCTGATTAAATCGAAACAAG
*
84906 ATTTAGATGCTCGTAAAAA
644 ATTCAGATGCTCGTAAAAA
* * * *
84925 CAAATCCTTAAATCCAATGTGGCTGAGATTTGATTGGATGAATATAGATATTTCAAGGAATCTCG
1 GAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTAG
* *
84990 ACGCCAAAAATCATGTAAAACTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAGAAACCGTGATG
66 ACGCCAAAAATCATGTAAAATTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAAAAACCGTGATG
* *
85055 GTTTGTACACGGTTTTGGCCAAAATTTTGCAAAAATTGACTCGAAATGTTTTTCCTCAATTTTTG
131 GTTTGTACACGATTTTGG-CAAAATTTTGCAAAAATTGAC-CAAAATGTTTTTCCTCAATTTTTG
* *
85120 TCTAAAAGTT-TCATAAAAAATATAGAGTTCAACGTCATAAAGATTCATGGGCTTTTCATGCTTC
194 -CCAAAA-TTCT-ATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTC
* * * *
85184 AAATATGATTTATCCTTCTGTTTTCAAATTAATTTCT-AGTTT-AATAGAAACATGATTTAGATG
256 AAATATGGTTTATCCTTCTTTTTTCAAATTAATTTCTGA-TTTAAATCGAAACATGATTCAGATG
*
85247 CTCGTAAAAACAAATTCTTAAATACAATGTGGCTGAGATTTGATT-GAATGAATATAGATATTTC
320 CTCGTAAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTAG-ATGAATATAGATATTTC
*
85311 AAGGAGTCTCGGCGCCAAAAATCATTTAAAACTGAGCCGGAGCC
384 AAGGAGTCTCGGCGCCAAAAATCATTTAAAACTGAGCCAGAGCC
85355 GGAGCCTCGG
Statistics
Matches: 946, Mismatches: 133, Indels: 40
0.85 0.12 0.04
Matches are distributed among these distances:
663 21 0.02
664 48 0.05
665 64 0.07
666 199 0.21
667 401 0.42
668 76 0.08
669 27 0.03
670 110 0.12
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (662 bp):
GAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTAG
ACGCCAAAAATCATGTAAAATTGAGTCGGGGCCTCGGAACACGTTTTCAGCCAAAAACCGTGATG
GTTTGTACACGATTTTGGCAAAATTTTGCAAAAATTGACCAAAATGTTTTTCCTCAATTTTTGCC
AAAATTCTATAAAAAATATAGAGTTCAACGTCATAAAGATTTATGGGCTTTTCATGCTTCAAATA
TGGTTTATCCTTCTTTTTTCAAATTAATTTCTGATTTAAATCGAAACATGATTCAGATGCTCGTA
AAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGT
CTCGGCGCCAAAAATCATTTAAAACTGAGCCAGAGCCCCAAAACGCATTTTCAACCAGAAACCAT
AATCGTTTATATACAATTTCGGCAAAAATTTTGCAAAAAATTGACCCGAAATGTTTTACCTCAAT
TTTTAACTAAAATGCTAATAAAAAATATACAATTCAACGTCATAAAGAATTATGGCCTTTTCATG
CTTCAAATATAGTTTATCCTCCTTCTTTCAAATTAATTTCTGATTAAATCGAAACAAGATTCAGA
TGCTCGTAAAAA
Done.