Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 84 of 325
Found at i:26833287 original size:7 final size:7
Alignment explanation
Indices: 26833277--26833377 Score: 76
Period size: 7 Copynumber: 13.4 Consensus size: 7
26833267 TAGTGGGTAG
26833277 GGGTTAA
1 GGGTTAA
26833284 GGGTTTTAA
1 GGG--TTAA
* *
26833293 TGGTTAT
1 GGGTTAA
26833300 GGGTTTAA
1 GGG-TTAA
26833308 GGGTTAA
1 GGGTTAA
*
26833315 GGGTTAT
1 GGGTTAA
26833322 GGGTTTAA
1 GGG-TTAA
*
26833330 TGGTTAA
1 GGGTTAA
*
26833337 GGGGATAA
1 -GGGTTAA
*
26833345 GGGTTAG
1 GGGTTAA
26833352 GGGTTAA
1 GGGTTAA
26833359 GTGGTTTAA
1 G-GG-TTAA
*
26833368 TGGTTAA
1 GGGTTAA
26833375 GGG
1 GGG
26833378 GACGTGGGTT
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
7 43 0.59
8 20 0.27
9 10 0.14
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.36
Consensus pattern (7 bp):
GGGTTAA
Found at i:26833312 original size:15 final size:15
Alignment explanation
Indices: 26833277--26833377 Score: 82
Period size: 15 Copynumber: 6.7 Consensus size: 15
26833267 TAGTGGGTAG
26833277 GGGTTAAGGGTTTTAA
1 GGGTTAAGGG-TTTAA
* *
26833293 TGGTTATGGGTTTAA
1 GGGTTAAGGGTTTAA
*
26833308 GGGTTAAGGG-TTAT
1 GGGTTAAGGGTTTAA
*
26833322 GGGTTTAATGG-TTAA
1 GGG-TTAAGGGTTTAA
* *
26833337 GGGGATAAGGG-TTAG
1 -GGGTTAAGGGTTTAA
26833352 GGGTTAAGTGGTTTAA
1 GGGTTAAG-GGTTTAA
*
26833368 TGGTTAAGGG
1 GGGTTAAGGG
26833378 GACGTGGGTT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
14 13 0.19
15 34 0.50
16 21 0.31
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.36
Consensus pattern (15 bp):
GGGTTAAGGGTTTAA
Found at i:26833319 original size:22 final size:22
Alignment explanation
Indices: 26833280--26833339 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
26833270 TGGGTAGGGG
*
26833280 TTAAGGGTTTTAATGGTTATGGGT
1 TTAAGGG--TTAAGGGTTATGGGT
26833304 TTAAGGGTTAAGGGTTATGGGT
1 TTAAGGGTTAAGGGTTATGGGT
*
26833326 TTAATGGTTAAGGG
1 TTAAGGGTTAAGGG
26833340 GATAAGGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 27 0.79
24 7 0.21
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (22 bp):
TTAAGGGTTAAGGGTTATGGGT
Found at i:26833374 original size:38 final size:37
Alignment explanation
Indices: 26833274--26833411 Score: 152
Period size: 38 Copynumber: 3.7 Consensus size: 37
26833264 GATTAGTGGG
* **
26833274 TAGGGGTTAAGGGTTTTAATGGTTATGGGTTTAAGGGT
1 TAGGGGTTAAGGG-TTTAATGGTTAAGGGGATAAGGGT
* *
26833312 TAAGGGTTATGGGTTTAATGGTTAAGGGGATAAGGGT
1 TAGGGGTTAAGGGTTTAATGGTTAAGGGGATAAGGGT
***
26833349 TAGGGGTTAAGTGGTTTAATGGTTAAGGGGACGTGGGT
1 TAGGGGTTAAG-GGTTTAATGGTTAAGGGGATAAGGGT
* *
26833387 TAGGGGTTTATGGTTT-ATGAGTTAA
1 TAGGGGTTAAGGGTTTAATG-GTTAA
26833412 TATTTTAAGG
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
36 3 0.03
37 40 0.47
38 43 0.50
ACGTcount: A:0.23, C:0.01, G:0.40, T:0.36
Consensus pattern (37 bp):
TAGGGGTTAAGGGTTTAATGGTTAAGGGGATAAGGGT
Found at i:26833376 original size:30 final size:30
Alignment explanation
Indices: 26833301--26833377 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
26833291 AATGGTTATG
*
26833301 GGTTTAAGGGTTAAGGGTTATGGGTTTAAT
1 GGTTTAAGGGTTAAGGGTTATGGGGTTAAT
*
26833331 GG-TTAAGGGGATAAGGGTTA-GGGGTTAAGT
1 GGTTTAA-GGGTTAAGGGTTATGGGGTTAA-T
*
26833361 GGTTTAATGGTTAAGGG
1 GGTTTAAGGGTTAAGGG
26833378 GACGTGGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 11 0.28
30 25 0.62
31 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (30 bp):
GGTTTAAGGGTTAAGGGTTATGGGGTTAAT
Found at i:26833496 original size:28 final size:27
Alignment explanation
Indices: 26833456--26833508 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
26833446 TATGAGTTTA
* *
26833456 GGGATTATGGTTTATGGTTTAAGGGCT
1 GGGATTAAGGTTTAGGGTTTAAGGGCT
26833483 GGGATGTAAGGTTTAGGGTTTAAGGG
1 GGGAT-TAAGGTTTAGGGTTTAAGGG
26833509 TTTAGGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.21, C:0.02, G:0.42, T:0.36
Consensus pattern (27 bp):
GGGATTAAGGTTTAGGGTTTAAGGGCT
Found at i:26833506 original size:14 final size:14
Alignment explanation
Indices: 26833451--26833517 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
26833441 GGAGTTATGA
* *
26833451 GTTTAGGGATTATG
1 GTTTAGGGTTTAAG
*
26833465 GTTTATGGTTTAAG
1 GTTTAGGGTTTAAG
** *
26833479 GGCT-GGGATGTAAG
1 GTTTAGGG-TTTAAG
26833493 GTTTAGGGTTTAAGG
1 GTTTAGGGTTTAA-G
26833508 GTTTAGGGTT
1 GTTTAGGGTT
26833518 AATGAGATAG
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
13 2 0.05
14 24 0.60
15 14 0.35
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.40
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:26833628 original size:15 final size:15
Alignment explanation
Indices: 26833608--26833636 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26833598 TTAAAGGGAC
26833608 AAGGGTTAGGGGTTT
1 AAGGGTTAGGGGTTT
26833623 AAGGGTTAGGGGTT
1 AAGGGTTAGGGGTT
26833637 GTTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (15 bp):
AAGGGTTAGGGGTTT
Found at i:26833719 original size:26 final size:26
Alignment explanation
Indices: 26833682--26833800 Score: 145
Period size: 26 Copynumber: 4.6 Consensus size: 26
26833672 TATAGATTTA
26833682 AAGATTTC-AAATTTAGAATAATTTTC
1 AAGATTTCAAAATTTA-AATAATTTTC
*
26833708 AAGAATT-AAAATTTTAAATAATTTTC
1 AAGATTTCAAAA-TTTAAATAATTTTC
*
26833734 -AGATTTCAAATTTTAAATAATTTTC
1 AAGATTTCAAAATTTAAATAATTTTC
* *
26833759 AATATTTCAAAATTTAAATAATTTCC
1 AAGATTTCAAAATTTAAATAATTTTC
* *
26833785 AATATTTCAAATTTTA
1 AAGATTTCAAAATTTA
26833801 TCTAATTCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
25 19 0.23
26 59 0.72
27 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (26 bp):
AAGATTTCAAAATTTAAATAATTTTC
Found at i:26833741 original size:51 final size:51
Alignment explanation
Indices: 26833682--26833798 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
26833672 TATAGATTTA
*
26833682 AAGATTTCAAATTTAGAATAATTTTCAAGAATT-AAAATTTTAAATAATTTTC
1 AAGATTTCAAATTTA-AATAATTTTCAAGAATTCAAAA-TTTAAATAATTTCC
* *
26833734 -AGATTTCAAATTTTAAATAATTTTCAATATTTCAAAATTTAAATAATTTCC
1 AAGATTTCAAA-TTTAAATAATTTTCAAGAATTCAAAATTTAAATAATTTCC
*
26833785 AATATTTCAAATTT
1 AAGATTTCAAATTT
26833799 TATCTAATTC
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 41 0.71
52 17 0.29
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (51 bp):
AAGATTTCAAATTTAAATAATTTTCAAGAATTCAAAATTTAAATAATTTCC
Found at i:26836106 original size:42 final size:43
Alignment explanation
Indices: 26836046--26836151 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
26836036 CCTGATCTAT
* *
26836046 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGTCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * * *
26836088 ATACGACACACGAGGTGCCTGATACGACACACGAGTTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
26836132 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
26836152 GATCGATAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.67
44 17 0.33
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:26836135 original size:23 final size:21
Alignment explanation
Indices: 26836046--26836141 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
26836036 CCTGATCTAT
** * *
26836046 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
* *
26836067 AAACGACACACGAGGTGTCTG
1 ATACGACACACGAGGTGCCTG
26836088 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
26836109 ATACGACACACGAGTTGCCTG
1 ATACGACACACGAGGTGCCTG
26836130 AAATACGACACA
1 --ATACGACACA
26836142 TAAAGTGCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 54 0.84
23 10 0.16
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:26836150 original size:23 final size:22
Alignment explanation
Indices: 26836046--26836153 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 22
26836036 CCTGATCTAT
*
26836046 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAAGTGCCTGA
* * * *
26836067 AAACGACACACGAGGTGTCTG-
1 ATACGACACACAAAGTGCCTGA
* *
26836088 ATACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
*
26836109 ATACGACACAC-GAGTTGCCTGAA
1 ATACGACACACAAAG-TGCCTG-A
*
26836132 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
26836154 TCGATAAAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.01
21 51 0.72
22 1 0.01
23 16 0.23
24 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:26836549 original size:15 final size:15
Alignment explanation
Indices: 26836524--26836581 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
26836514 TCATATATAT
26836524 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
26836540 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
26836555 AATAATTTCAATCAA
1 TATAAATTCAATCAA
26836570 TATAAATTCAAT
1 TATAAATTCAAT
26836582 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:26838042 original size:39 final size:40
Alignment explanation
Indices: 26837993--26838174 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
26837983 GCTCCTCGTT
*
26837993 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
26838033 CAAAT-CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
26838072 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
26838111 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
26838152 CAAA-GTC-TCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
26838175 ACATCATTCA
Statistics
Matches: 120, Mismatches: 13, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.02
39 76 0.63
40 33 0.28
41 9 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:26838173 original size:79 final size:80
Alignment explanation
Indices: 26837993--26838175 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
26837983 GCTCCTCGTT
* *
26837993 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATCCTTCGGGACTTAACCCGG
* *
26838057 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
26838072 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAT-CCTTCGGGA-CTTAACCC
* *
26838134 GGATATGGTCACTTAGCA
64 GGATATAGTAAC-TAGCA
*
26838152 CAAA-GTC-TCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26838176 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 33 0.37
79 48 0.54
80 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:26841375 original size:39 final size:39
Alignment explanation
Indices: 26841292--26841442 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
26841282 ATGAATGCTG
* *
26841292 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGT-CCGAAGGCCTTTGTGCGAGA-T-ACTAAT
26841331 ATCCGGACTAAGAT-CGAAGGCCTTTGTGCGAGATACTAAT
1 -TCCGGACTAAG-TCCGAAGGCCTTTGTGCGAGATACTAAT
**
26841371 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGT-CCGAAGGCCTTTGTGCGAGATACTAAT
** * *
26841411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAGT-CCGAAGGCCTTTGTGCGAG
26841443 TTTTAAATCC
Statistics
Matches: 99, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
38 1 0.01
39 18 0.18
40 78 0.79
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:26841389 original size:40 final size:40
Alignment explanation
Indices: 26841345--26841470 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
26841335 GGACTAAGAT
26841345 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
1 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
26841385 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
1 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
* * ** *
26841425 CGAAGGCATTCGTGCGAG-TTTTAAATCCGGGTTAAGTCC
1 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
26841464 CGAAGGC
1 CGAAGGC
26841471 ATTGAATGAG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 25 0.31
40 56 0.69
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
Found at i:26841493 original size:38 final size:37
Alignment explanation
Indices: 26841371--26841519 Score: 129
Period size: 39 Copynumber: 3.8 Consensus size: 37
26841361 AGATACTAAT
* ** * *
26841371 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-T-TTAAA
**
26841411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAG-TTTAAA
*
26841450 TCCGGGTTAAGTCCCGAAGGCATTGAATGAG-TTAATA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTTAA-A
* *
26841487 TACCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 T-CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
26841520 GAGCTAAATC
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 23 0.24
39 38 0.40
40 28 0.29
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (37 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTTAAA
Found at i:26848386 original size:49 final size:49
Alignment explanation
Indices: 26848333--26849027 Score: 1135
Period size: 49 Copynumber: 14.4 Consensus size: 49
26848323 TTGTGATGTG
26848333 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
26848382 AGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848431 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
26848478 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848525 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
26848574 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
26848623 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848672 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848721 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
26848768 AGTG--TATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848815 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
26848864 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26848913 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
26848962 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26849009 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
26849028 TCCCGAAGGG
Statistics
Matches: 611, Mismatches: 29, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
47 230 0.38
48 1 0.00
49 380 0.62
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:26848778 original size:241 final size:241
Alignment explanation
Indices: 26848333--26849027 Score: 1214
Period size: 241 Copynumber: 2.9 Consensus size: 241
26848323 TTGTGATGTG
26848333 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
* * *
26848398 ATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
66 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
26848461 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
131 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
26848526 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 GTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
26848574 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
26848639 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
66 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* *
26848704 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
131 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
26848769 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAA
196 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
26848815 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
26848880 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
66 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* * * * *
26848945 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
131 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
26849010 GTGTATAAATGTGATAAG
196 GTGTATATATGTGATAAG
26849028 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
241 340 0.79
243 92 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (241 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:26848812 original size:290 final size:290
Alignment explanation
Indices: 26848333--26849027 Score: 1268
Period size: 290 Copynumber: 2.4 Consensus size: 290
26848323 TTGTGATGTG
26848333 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
26848398 ATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
66 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
26848463 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
131 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
26848528 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
196 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
26848593 AGGCCGAATGGCCAATGTGATGAATGTGAA
261 AGGCCGAATGGCCAATGTGATGAATGTGAA
* *
26848623 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
26848688 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
66 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
*
26848753 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGT
131 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
26848818 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
196 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
26848883 AGGCCGAATGGCCAATGTGATGAATGTGAA
261 AGGCCGAATGGCCAATGTGATGAATGTGAA
26848913 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
* * * * * * * *
26848976 ACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
26849028 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
288 54 0.14
290 337 0.86
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (290 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
AGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:26850909 original size:67 final size:67
Alignment explanation
Indices: 26850796--26850933 Score: 249
Period size: 67 Copynumber: 2.1 Consensus size: 67
26850786 CTCAATTTAT
26850796 AATGGCAAACCACATAGACAACTAAGATTAGCCATGGGAGTAGCAACTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATGGGAGTAGCAACTAGCATGCTTTACATCAT
26850861 AA
66 AA
* * *
26850863 AATGGCAAACCACATAGACAACTAAGATTATCCATTGGAGTCGCAACTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATGGGAGTAGCAACTAGCATGCTTTACATCAT
26850928 AA
66 AA
26850930 AATG
1 AATG
26850934 CAGGTGTATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (67 bp):
AATGGCAAACCACATAGACAACTAAGATTAGCCATGGGAGTAGCAACTAGCATGCTTTACATCAT
AA
Found at i:26851566 original size:24 final size:24
Alignment explanation
Indices: 26851539--26851585 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
26851529 ATTATTATTG
*
26851539 AAATATTCTCATACGTTTTATCAC
1 AAATATTATCATACGTTTTATCAC
* *
26851563 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCATACGTTTTATCA
26851586 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCATACGTTTTATCAC
Found at i:26851821 original size:15 final size:14
Alignment explanation
Indices: 26851799--26851875 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
26851789 TCAATCTTAT
26851799 TTTAATTAATATAA
1 TTTAATTAATATAA
*
26851813 TTTAGATTAAT-TTA
1 TTTA-ATTAATATAA
*
26851827 TTT-A--AATATTA
1 TTTAATTAATATAA
26851838 TTTAATTAATATAA
1 TTTAATTAATATAA
* * *
26851852 TTTTTATAAATATTA
1 -TTTAATTAATATAA
26851867 TTTAATTAA
1 TTTAATTAA
26851876 AATATTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 2 0.04
14 22 0.44
15 17 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (14 bp):
TTTAATTAATATAA
Found at i:26851831 original size:24 final size:24
Alignment explanation
Indices: 26851799--26851853 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
26851789 TCAATCTTAT
26851799 TTTAATT-AATATAATTTAGATTAA
1 TTTAATTAAATATAATTTA-ATTAA
* *
26851823 TTTATTTAAATATTATTTAATTAA
1 TTTAATTAAATATAATTTAATTAA
*
26851847 TATAATT
1 TTTAATT
26851854 TTTATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATTAAATATAATTTAATTAA
Found at i:26851852 original size:29 final size:29
Alignment explanation
Indices: 26851820--26851885 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
26851810 TAATTTAGAT
26851820 TAATTTATT-TAAATATTATTTAATTAATA
1 TAATTT-TTATAAATATTATTTAATTAATA
*
26851849 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAATA
*
26851878 TATTTTTT
1 TAATTTTT
26851886 TTCCATGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAATA
Found at i:26851854 original size:25 final size:26
Alignment explanation
Indices: 26851806--26851875 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
26851796 TATTTTAATT
* *
26851806 AATATAATTTAGATTAATTTA-TT-TA
1 AATATTATTTA-ATTAATTAATTTATA
26851831 AATATTATTTAATTAATATAATTTTTATA
1 AATATTATTTAATTAAT-TAA--TTTATA
26851860 AATATTATTTAATTAA
1 AATATTATTTAATTAA
26851876 AATATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 6 0.16
25 12 0.32
28 2 0.05
29 18 0.47
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
AATATTATTTAATTAATTAATTTATA
Found at i:26851858 original size:20 final size:20
Alignment explanation
Indices: 26851799--26851858 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
26851789 TCAATCTTAT
**
26851799 TTTAATTAATATAATTTAGA
1 TTTAATTAATATAATTTTTA
* * * *
26851819 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTTTA
26851838 TTTAATTAATATAATTTTTA
1 TTTAATTAATATAATTTTTA
26851858 T
1 T
26851859 AAATATTATT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAATTAATATAATTTTTA
Found at i:26851876 original size:15 final size:15
Alignment explanation
Indices: 26851822--26851881 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
26851812 ATTTAGATTA
*
26851822 ATTTATTTAAATATT
1 ATTTAATTAAATATT
26851837 ATTTAATTAATATAATT
1 ATTTAATTAA-AT-ATT
26851854 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
26851866 ATTTAATTAAAATATT
1 ATTTAATT-AAATATT
26851882 TTTTTTCCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.08
13 5 0.13
14 4 0.11
15 11 0.29
16 12 0.32
17 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:26852183 original size:9 final size:9
Alignment explanation
Indices: 26852157--26852268 Score: 143
Period size: 9 Copynumber: 12.4 Consensus size: 9
26852147 TATATACTTG
*
26852157 AACTTACAT
1 AACTCACAT
*
26852166 AGCTCACAT
1 AACTCACAT
*
26852175 AACTAACAT
1 AACTCACAT
* *
26852184 AACTTATAT
1 AACTCACAT
*
26852193 AACTTACAT
1 AACTCACAT
26852202 AACTCACAT
1 AACTCACAT
*
26852211 AACTTACAT
1 AACTCACAT
*
26852220 AACTTACAT
1 AACTCACAT
*
26852229 AACTCACGT
1 AACTCACAT
26852238 AACTCACAT
1 AACTCACAT
26852247 AACTCACAT
1 AACTCACAT
26852256 AACTCACAT
1 AACTCACAT
26852265 AACT
1 AACT
26852269 TAATTATACT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 91 1.00
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.28
Consensus pattern (9 bp):
AACTCACAT
Found at i:26852201 original size:27 final size:27
Alignment explanation
Indices: 26852157--26852270 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
26852147 TATATACTTG
* *
26852157 AACTTACATAGCTCACATAACTAACAT
1 AACTTACATAACTCACATAACTCACAT
* *
26852184 AACTTATATAACTTACATAACTCACAT
1 AACTTACATAACTCACATAACTCACAT
* *
26852211 AACTTACATAACTTACATAACTCACGT
1 AACTTACATAACTCACATAACTCACAT
*
26852238 AACTCACATAACTCACATAACTCACAT
1 AACTTACATAACTCACATAACTCACAT
26852265 AACTTA
1 AACTTA
26852271 ATTATACTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTCACAT
Found at i:26857347 original size:13 final size:14
Alignment explanation
Indices: 26857331--26857359 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26857321 TTATAAATAT
26857331 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
26857344 TTATAATGGTTTAA
1 TTATAATGGTTTAA
26857358 TT
1 TT
26857360 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:26858087 original size:31 final size:31
Alignment explanation
Indices: 26858068--26858133 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
26858058 TTGTATTTTT
*
26858068 ATGCTATATTTGCTATTTTTGGTTGGATTTC
1 ATGCTATATTTGCTATTTTTGATTGGATTTC
* * *
26858099 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTATATTTGCTATTTTTGATTGGATTTC
26858130 ATGC
1 ATGC
26858134 AGGAAGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTATATTTGCTATTTTTGATTGGATTTC
Found at i:26858764 original size:35 final size:35
Alignment explanation
Indices: 26858725--26858791 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
26858715 GTATGCTTAG
26858725 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
*
26858760 AAATGGCCAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
26858792 AATTATGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:26864594 original size:40 final size:40
Alignment explanation
Indices: 26864426--26864599 Score: 158
Period size: 40 Copynumber: 4.3 Consensus size: 40
26864416 TATAAATAGG
* * * *
26864426 GGCATGTAAGTGCATTTAGGGGTACCT-AAGTACAAATAGA
1 GGCACGTAAGTGCAATCAGGGGTA-CTGAAGTACAAACAGA
* ** *
26864466 GGCACGTATA-TGCAATGAACGGTAAC-GAAGTACAAACAAA
1 GGCACGTA-AGTGCAATCAGGGGT-ACTGAAGTACAAACAGA
* * * *
26864506 GGCACGCATGTGCAATCAGGGGTACCGAAGTACGAAA-AGG
1 GGCACGTAAGTGCAATCAGGGGTACTGAAGTAC-AAACAGA
* *
26864546 GGCACGTAAGTGCAATCATGGGTACTGAAGTACAAACAGT
1 GGCACGTAAGTGCAATCAGGGGTACTGAAGTACAAACAGA
26864586 GGCACGTAAGTGCA
1 GGCACGTAAGTGCA
26864600 TTCATCAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
39 5 0.05
40 98 0.91
41 5 0.05
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (40 bp):
GGCACGTAAGTGCAATCAGGGGTACTGAAGTACAAACAGA
Found at i:26864599 original size:80 final size:80
Alignment explanation
Indices: 26864426--26864599 Score: 192
Period size: 80 Copynumber: 2.2 Consensus size: 80
26864416 TATAAATAGG
* * * * *
26864426 GGCATGTAAGTGCATTTAGGGGTACCTAAGTACAAATAGAGGCACGTATATGCAATGAACGGTAA
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAAATAGAGGCACGTATATGCAATCAACGGTAA
26864491 CGAAGTACAAACAAA
66 CGAAGTACAAACAAA
* * * **
26864506 GGCACGCATGTGCAATCAGGGGTACCGAAGTACGAAA-AGGGGCACGTA-AGTGCAATCATGGGT
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTAC-AAATAGAGGCACGTATA-TGCAATCAACGGT
**
26864569 -ACTGAAGTACAAACAGT
64 AAC-GAAGTACAAACAAA
26864586 GGCACGTAAGTGCA
1 GGCACGTAAGTGCA
26864600 TTCATCAATA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
79 3 0.04
80 71 0.92
81 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (80 bp):
GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAAATAGAGGCACGTATATGCAATCAACGGTAA
CGAAGTACAAACAAA
Found at i:26866601 original size:27 final size:26
Alignment explanation
Indices: 26866553--26866612 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
26866543 ACGAGGCTGC
*
26866553 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
26866580 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
26866606 CAAATAT
1 CAGATAT
26866613 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:26867329 original size:26 final size:27
Alignment explanation
Indices: 26867300--26867353 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
26867290 TCGCACAAGT
*
26867300 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
26867326 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
26867353 T
1 T
26867354 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:26867384 original size:27 final size:27
Alignment explanation
Indices: 26867354--26867549 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
26867344 GGGGCAAAAT
* * *
26867354 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
26867381 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
26867408 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
26867435 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
26867462 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
** *
26867489 AATAATTCTT-CCCTACAGGGGTAGTTC
1 GGTAATT-TTACCCTACAGGGGTATTTC
*
26867516 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
26867543 GGTAATT
1 GGTAATT
26867550 CTACAACTTA
Statistics
Matches: 141, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
26 5 0.04
27 132 0.94
28 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:26867458 original size:81 final size:81
Alignment explanation
Indices: 26867354--26867553 Score: 283
Period size: 81 Copynumber: 2.5 Consensus size: 81
26867344 GGGGCAAAAT
* * * * * *
26867354 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTATAGGGGTATTTCAGTATTTCTAC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTAC
*
26867419 CCTACAAGGGTATTTC
66 CCTACAAGGGTAGTTC
* * * *
26867435 GGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCAATAATTCTTC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTAC
*
26867500 CCTACAGGGGTAGTTC
66 CCTACAAGGGTAGTTC
*
26867516 GGTAATTTTACCTTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
26867554 AACTTATCTA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTAC
CCTACAAGGGTAGTTC
Found at i:26874193 original size:27 final size:27
Alignment explanation
Indices: 26874145--26874196 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26874135 GCGAAGCTGC
*
26874145 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
26874172 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
26874197 ATATATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:26874293 original size:27 final size:26
Alignment explanation
Indices: 26874245--26874296 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26874235 GCGAGGCTGT
*
26874245 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
26874271 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
26874297 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:26874979 original size:27 final size:27
Alignment explanation
Indices: 26874949--26875147 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
26874939 GGGGCAAAAT
* * * *
26874949 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
26874976 GGTAATTCTACCCTATAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26875002 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
26875029 CATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
26875056 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
26875083 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26875110 GATAATTCTACCTTAC-GAGGGTATTTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
26875137 GGTAATTCTAC
1 GGTAATTCTAC
26875148 AACTTATCCA
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.16
27 127 0.84
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:26877078 original size:40 final size:40
Alignment explanation
Indices: 26877018--26877201 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
26877008 TATTCGAATG
*
26877018 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
26877058 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
26877098 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
26877138 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
26877178 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
26877202 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:26877151 original size:80 final size:80
Alignment explanation
Indices: 26877018--26877237 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 80
26877008 TATTCGAATG
* * * *
26877018 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
26877082 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
26877098 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
26877162 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
26877178 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
26877238 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 90 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:26885211 original size:40 final size:40
Alignment explanation
Indices: 26885110--26885328 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
26885100 TATTCGAATG
* * *
26885110 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
26885150 ATATCC-GACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
26885189 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
26885229 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
26885269 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
26885308 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
26885329 ATACTTGGGT
Statistics
Matches: 154, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 47 0.31
40 93 0.60
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:26888671 original size:15 final size:16
Alignment explanation
Indices: 26888653--26888686 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26888643 TTTTAAACTG
26888653 TTGATTTTTGGT-TTC
1 TTGATTTTTGGTATTC
*
26888668 TTGATTTTTTGTATTC
1 TTGATTTTTGGTATTC
26888684 TTG
1 TTG
26888687 GTTTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.68
Consensus pattern (16 bp):
TTGATTTTTGGTATTC
Found at i:26895170 original size:45 final size:45
Alignment explanation
Indices: 26895106--26895267 Score: 222
Period size: 45 Copynumber: 3.6 Consensus size: 45
26895096 TATTGTACGG
* *
26895106 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
26895151 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
26895196 TACTATCCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
26895241 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
26895268 GAAATACCGG
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
43 17 0.16
44 3 0.03
45 85 0.80
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:26897514 original size:18 final size:18
Alignment explanation
Indices: 26897491--26897538 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
26897481 ATGTCAAATT
26897491 ATGTGATATACTTGGAAA
1 ATGTGATATACTTGGAAA
26897509 ATGTGATATACTTGGAAA
1 ATGTGATATACTTGGAAA
*
26897527 ATGTGAAATACT
1 ATGTGATATACT
26897539 ACCGAGTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (18 bp):
ATGTGATATACTTGGAAA
Found at i:26897815 original size:93 final size:93
Alignment explanation
Indices: 26897656--26897827 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
26897646 AGGATATTTG
*
26897656 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTGATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAATGTCTGAACTCGTTGAG
26897721 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
26897749 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAATGTCT-GAACTCGTTGA
26897813 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
26897828 ACTTACGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAATGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:26897832 original size:46 final size:46
Alignment explanation
Indices: 26897666--26897830 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
26897656 GGCATCCGAA
* * *
26897666 CTCGTTGAGTTGAGTTCGAGTTCACTGATGGATGCAAATG-TCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCGAATGCTC-GAG
** * *
26897712 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-C-CGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTGATG-GA-T-GCGAATGCTCGAG
*
26897759 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCGAATGCTCGAG
26897805 CTCGTTGAGTTGAGTCCGAGTTCACT
1 CTCGTTGAGTTGAGTCCGAGTTCACT
26897831 TACGGGCGGG
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 56 0.57
47 30 0.30
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCGAATGCTCGAG
Found at i:26912027 original size:24 final size:25
Alignment explanation
Indices: 26911999--26912062 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
26911989 TCAACCAAAT
* *
26911999 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCTATACTAAAC
*
26912023 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCTATACTAAAC
26912048 -CGCACACATAGTGCT
1 TCGCACACATAGTGCT
26912063 TGAAATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.22
Consensus pattern (25 bp):
TCGCACACATAGTGCTATACTAAAC
Found at i:26912212 original size:94 final size:94
Alignment explanation
Indices: 26912091--26912560 Score: 823
Period size: 94 Copynumber: 5.0 Consensus size: 94
26912081 ATCAACATTC
* * * * *
26912091 AAATCTCCAAACATAGTGCCATTTAATTCCGCACAAATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
26912156 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
26912185 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
26912250 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
26912279 AAATCTACACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
26912344 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
26912373 AAATCTGCACACAAAGCGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
26912438 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
26912467 AAATCTGCACACAAAGTGACATTTAATTTCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
26912532 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
26912561 CGGTCACATT
Statistics
Matches: 360, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 360 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:26917558 original size:40 final size:40
Alignment explanation
Indices: 26917491--26917827 Score: 405
Period size: 40 Copynumber: 8.4 Consensus size: 40
26917481 ACCCAAGTAT
*
26917491 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
26917530 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
26917570 CTTTGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
26917610 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
26917650 CTTCGGGTTTTAGCCCGTATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
26917690 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
26917730 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
26917770 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
26917810 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
26917828 TTATCATCCG
Statistics
Matches: 249, Mismatches: 41, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.00
39 16 0.06
40 226 0.91
41 6 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:26917637 original size:80 final size:80
Alignment explanation
Indices: 26917491--26917827 Score: 545
Period size: 80 Copynumber: 4.2 Consensus size: 80
26917481 ACCCAAGTAT
* * * * *
26917491 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
26917553 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
*
26917570 CTTTGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
26917635 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
26917650 CTTCGGGTTTTAGCCCGTATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
26917715 AACTCGCACAAATGC
66 AACTCGCACAAATGC
26917730 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
26917795 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
26917810 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
26917828 TTATCATCCG
Statistics
Matches: 242, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
78 1 0.00
79 10 0.04
80 230 0.95
81 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:26919540 original size:18 final size:19
Alignment explanation
Indices: 26919502--26919543 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
26919492 GTTTTCATTA
* *
26919502 CTTTTATTTTTTATTCTTT
1 CTTTTATTTATTATCCTTT
26919521 CTTTTATTTATT-TCCTTT
1 CTTTTATTTATTATCCTTT
26919539 CTTTT
1 CTTTT
26919544 GCATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTTATTTATTATCCTTT
Found at i:26921558 original size:28 final size:28
Alignment explanation
Indices: 26921518--26921573 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
26921508 TCTAGGCAGT
26921518 AGGCTTTTAAATAAAAATGGGTAAGACA
1 AGGCTTTTAAATAAAAATGGGTAAGACA
26921546 AGGCTTTTAAATAAAAATGGGTAAGACA
1 AGGCTTTTAAATAAAAATGGGTAAGACA
26921574 TGACATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (28 bp):
AGGCTTTTAAATAAAAATGGGTAAGACA
Found at i:26930032 original size:14 final size:15
Alignment explanation
Indices: 26930008--26930036 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26929998 AAATATTTGT
26930008 TAAAGTAAATTAAAA
1 TAAAGTAAATTAAAA
26930023 TAAA-TAAATTAAAA
1 TAAAGTAAATTAAAA
26930037 GAATACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAGTAAATTAAAA
Found at i:26931951 original size:32 final size:32
Alignment explanation
Indices: 26931913--26931974 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
26931903 TATGATTGAG
26931913 TTACTATATGGTTTGATAAATATTGAACTCAC
1 TTACTATATGGTTTGATAAATATTGAACTCAC
26931945 TTACTATATGGTTTGATAAATATTGAACTC
1 TTACTATATGGTTTGATAAATATTGAACTC
26931975 GCCCCTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (32 bp):
TTACTATATGGTTTGATAAATATTGAACTCAC
Found at i:26933092 original size:39 final size:39
Alignment explanation
Indices: 26933046--26933172 Score: 164
Period size: 39 Copynumber: 3.3 Consensus size: 39
26933036 ATTCACTTTT
* * *
26933046 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
** ** * **
26933085 ATTCATATATCACAATACTTTTATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
26933124 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
26933163 AAGCATATAT
1 AAGCATATAT
26933173 ATCGTAATAC
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:26936915 original size:21 final size:23
Alignment explanation
Indices: 26936870--26936915 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
26936860 TACTTAGAAT
*
26936870 AAGCTTAAGAGAAAAATCATTTTC
1 AAGCTTAAAAGAAAAAT-ATTTTC
26936894 AAGCTTAAAAG-AAAAT-TTTTC
1 AAGCTTAAAAGAAAAATATTTTC
26936915 A
1 A
26936916 TTTCTACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
23 5 0.24
24 10 0.48
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (23 bp):
AAGCTTAAAAGAAAAATATTTTC
Found at i:26941316 original size:12 final size:12
Alignment explanation
Indices: 26941299--26941327 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
26941289 TTTTGTCCAT
26941299 ACGGGTAGAGAC
1 ACGGGTAGAGAC
26941311 ACGGGTAGAGAC
1 ACGGGTAGAGAC
26941323 ACGGG
1 ACGGG
26941328 CGTGTGTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.45, T:0.07
Consensus pattern (12 bp):
ACGGGTAGAGAC
Found at i:26961278 original size:22 final size:22
Alignment explanation
Indices: 26961250--26961296 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
26961240 GTATGTGATG
26961250 TTCATTAAAAGTGAATTTTCAC
1 TTCATTAAAAGTGAATTTTCAC
*
26961272 TTCATTAAAAGTGAATTTTGAC
1 TTCATTAAAAGTGAATTTTCAC
26961294 TTC
1 TTC
26961297 TAGAAGTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (22 bp):
TTCATTAAAAGTGAATTTTCAC
Found at i:26961636 original size:34 final size:34
Alignment explanation
Indices: 26961593--26961660 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
26961583 TCTAAATCCA
26961593 AGAAGGAATTTATTGTTTTTAGTGATACATCACT
1 AGAAGGAATTTATTGTTTTTAGTGATACATCACT
*
26961627 AGAAGGAATTTATTGTTTTTAGTGATACGTCACT
1 AGAAGGAATTTATTGTTTTTAGTGATACATCACT
26961661 TAACGGTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (34 bp):
AGAAGGAATTTATTGTTTTTAGTGATACATCACT
Found at i:26966151 original size:43 final size:43
Alignment explanation
Indices: 26966006--26966166 Score: 188
Period size: 43 Copynumber: 3.7 Consensus size: 43
26965996 TGTGTTATCG
*
26966006 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTCTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * *
26966050 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATT-ATTTCC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-TTGATTACA
26966092 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
26966135 TGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT
26966167 TTGAATTGTA
Statistics
Matches: 99, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 30 0.30
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:26971912 original size:23 final size:22
Alignment explanation
Indices: 26971886--26971933 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
26971876 TTTGATGATG
26971886 ATTT-TGAGTTATGCAATTGTTCA
1 ATTTGTGAGTTATG-AATTGTT-A
*
26971909 ATTTGTGAGTTTTGAATTGTTA
1 ATTTGTGAGTTATGAATTGTTA
26971931 ATT
1 ATT
26971934 AATGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 8 0.35
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.52
Consensus pattern (22 bp):
ATTTGTGAGTTATGAATTGTTA
Found at i:26972764 original size:43 final size:43
Alignment explanation
Indices: 26972606--26972762 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
26972596 TGCGTTATCG
* *
26972606 TGTAAGACCACGTCTGGGATGTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCTCGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
** * * *
26972650 TGTAAGACCAT-GTCTGGGATATTGGCATCG-TATATGATTTCG
1 TGTAAGACC-TCGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
26972692 TGTAAGACCTTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCTCGTCTGGGAC-GTTGGCATCGATATTTGATTACA
26972735 TGTAAGACCTCGTCTGGGACGTTGGCAT
1 TGTAAGACCTCGTCTGGGACGTTGGCAT
26972763 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 38 0.40
44 28 0.29
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCTCGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:26977715 original size:47 final size:47
Alignment explanation
Indices: 26977542--26977965 Score: 683
Period size: 47 Copynumber: 9.1 Consensus size: 47
26977532 GAAATGATAG
26977542 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
26977588 TAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26977635 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
26977681 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26977728 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26977775 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26977822 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26977869 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
26977915 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26977962 TAAG
1 TAAG
26977966 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
46 125 0.35
47 233 0.65
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:26978138 original size:35 final size:37
Alignment explanation
Indices: 26978084--26978160 Score: 122
Period size: 35 Copynumber: 2.1 Consensus size: 37
26978074 CCGAGCTCTA
*
26978084 AAGACCCGATGACTACGTGTGG-GATT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
26978119 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26978156 AAGAC
1 AAGAC
26978161 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 20 0.53
36 4 0.11
37 14 0.37
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26978764 original size:40 final size:39
Alignment explanation
Indices: 26978720--26978856 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 39
26978710 CATATCCGAA
* *
26978720 CTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGG
1 CTAAG-TCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGG
* * **
26978760 CTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
1 CTAAGT-CCGAAGAGCATTCGTGCGAGTGATAAATCCGGG
* * *
26978800 CTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG
1 CTAAG-TCCGAAGAGCATTCGTGCGAGTGATAAATCCGGG
*
26978840 CTAAATCCCGAAGAGCA
1 CTAAGT-CCGAAGAGCA
26978857 ATCATGCTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.02
40 68 0.82
41 13 0.16
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
CTAAGTCCGAAGAGCATTCGTGCGAGTGATAAATCCGGG
Found at i:26978810 original size:80 final size:81
Alignment explanation
Indices: 26978674--26978869 Score: 213
Period size: 80 Copynumber: 2.5 Consensus size: 81
26978664 TCGAATGATG
**
26978674 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGAACTAAGATCCGAAGAGCA
* *
26978736 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** ** *
26978754 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGAACTAAGATCCGAAGAGCAT
* *
26978818 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * *
26978834 TCCGTGCTAAATCCCGAAGAGCAATCATGCT-GTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
26978870 GTGTATTCGG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
79 4 0.04
80 68 0.69
81 20 0.20
82 6 0.06
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGAACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:26982515 original size:47 final size:47
Alignment explanation
Indices: 26982449--26982920 Score: 750
Period size: 47 Copynumber: 10.1 Consensus size: 47
26982439 GAAATGATAG
*
26982449 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
26982496 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982543 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982590 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982637 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26982684 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982731 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982778 TAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
26982824 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * * *
26982870 CAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
26982917 TAAG
1 TAAG
26982921 TCCCGAAGGG
Statistics
Matches: 403, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 5 0.01
46 73 0.18
47 325 0.81
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:26983095 original size:37 final size:37
Alignment explanation
Indices: 26983039--26983117 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
26983029 CCGAGCTCTA
* *
26983039 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
26983076 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26983113 AAGAC
1 AAGAC
26983118 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26985163 original size:27 final size:27
Alignment explanation
Indices: 26985122--26985240 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
26985112 TGGATAAGTT
26985122 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
26985149 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
26985176 GTAGAATTATCGAAATACCCCTGAAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
26985203 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
26985230 GTAAAATTACC
1 GTAGAATTACC
26985241 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:26985936 original size:27 final size:26
Alignment explanation
Indices: 26985892--26985943 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26985882 CTCGCTGCAA
*
26985892 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
26985919 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
26985944 GCATCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:26988018 original size:26 final size:27
Alignment explanation
Indices: 26987989--26988057 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
26987979 CCAAAATCGT
26987989 AGCAAAGCTACCAGTAATAAT-AATGC
1 AGCAAAGCTACCAGTAATAATAAATGC
* * * * *
26988015 AGCATAGCTGCCAGAAATAGTAAATGT
1 AGCAAAGCTACCAGTAATAATAAATGC
* *
26988042 GGCAAAGCCACCAGTA
1 AGCAAAGCTACCAGTA
26988058 TTAGTAATTG
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AGCAAAGCTACCAGTAATAATAAATGC
Found at i:26995572 original size:5 final size:5
Alignment explanation
Indices: 26995562--26995586 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26995552 AAAATAAACA
26995562 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
26995587 GGTTGGTATC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:26997942 original size:21 final size:21
Alignment explanation
Indices: 26997918--26997971 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
26997908 TGGCCTAACC
26997918 ACACGGGCGTGTCCCTAGACA
1 ACACGGGCGTGTCCCTAGACA
* * *
26997939 ACACAGGCGCGTCCCTAGACC
1 ACACGGGCGTGTCCCTAGACA
*
26997960 ACACGAGCGTGT
1 ACACGGGCGTGT
26997972 GGCCCTTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (21 bp):
ACACGGGCGTGTCCCTAGACA
Found at i:27000357 original size:27 final size:27
Alignment explanation
Indices: 27000327--27000475 Score: 217
Period size: 27 Copynumber: 5.5 Consensus size: 27
27000317 AGTATCCTAA
*
27000327 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
*
27000354 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
*
27000381 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* * * *
27000408 ATTTATAGAATTACTATTTTACTCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
*
27000435 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCG
*
27000462 ATTTACAAAATTAC
1 ATTTACAGAATTAC
27000476 TGAAATACCT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCG
Found at i:27000484 original size:27 final size:27
Alignment explanation
Indices: 27000454--27000539 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
27000444 ATTACCATTT
**
27000454 TACCCTCAATTTACAAAATTACTGAAA
1 TACCCTCAATTTACAAAATTACAAAAA
* ***
27000481 TACCTTTGGTTTACAAAATTACAAAAA
1 TACCCTCAATTTACAAAATTACAAAAA
* ** *
27000508 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACAAAAA
27000535 TACCC
1 TACCC
27000540 CTGGCTTGTA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACAAAAA
Found at i:27000494 original size:54 final size:54
Alignment explanation
Indices: 27000327--27000502 Score: 203
Period size: 54 Copynumber: 3.3 Consensus size: 54
27000317 AGTATCCTAA
* * * * *
27000327 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGATTTACCTTTG
* *
27000381 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACT-ATTTTA-CTCTTG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGA-TTTACCT-TTG
* * **
27000435 ATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTGAAATACCTTTG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGATTTACCTTTG
* *
27000489 GTTTACAAAATTAC
1 ATTTACAGAATTAC
27000503 AAAAATACCC
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 99 0.96
55 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGATTTACCTTTG
Found at i:27000526 original size:54 final size:54
Alignment explanation
Indices: 27000468--27000591 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
27000458 CTCAATTTAC
** *
27000468 AAAATTACTGAAATACCTTTGGTTTACAAAATTACAAAAATACCCCT-AGTTTGT
1 AAAATTACTGAAATACCCCTGGCTTACAAAATTACAAAAATACCCCTGA-TTTGT
** ** *
27000522 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACTGAAATACCCCTGGCTTACAAAATTACAAAAATACCCCTGATTTGT
*
27000576 GAAATTA-TCGAAATAC
1 AAAATTACT-GAAATAC
27000592 TCTCGATTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACTGAAATACCCCTGGCTTACAAAATTACAAAAATACCCCTGATTTGT
Found at i:27000540 original size:27 final size:26
Alignment explanation
Indices: 27000495--27000645 Score: 128
Period size: 27 Copynumber: 5.7 Consensus size: 26
27000485 TTTGGTTTAC
*
27000495 AAAATTACAAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
*
27000522 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
27000549 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTG-TTTGT
* * * *
27000576 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-G-TTTGT
* * **
27000603 AAAA-TATCAAAA-ACTCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGT-TTGT
*
27000628 AGAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
27000646 TACAGGGTAG
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.01
25 7 0.07
26 20 0.20
27 73 0.72
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTGTTTGT
Found at i:27000680 original size:27 final size:26
Alignment explanation
Indices: 27000618--27000805 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 26
27000608 ATCAAAAACT
*
27000618 CCTGTAGGGTAGAATTACCAAAATAC
1 CCTGTAGGGTAGAATTACCGAAATAC
** *
27000644 CCTACAGGGTAGAATTACTGAAATAAC
1 CCTGTAGGGTAGAATTACCGAAAT-AC
*
27000671 CCTGTAGGGTAGAATTACCGAAGTAC
1 CCTGTAGGGTAGAATTACCGAAATAC
*
27000697 CCTTGTAGGGTAGAATTACTGAAATACC
1 CC-TGTAGGGTAGAATTACCGAAATA-C
27000725 CCTGTAGGGTAGAATTACCGAAATAC
1 CCTGTAGGGTAGAATTACCGAAATAC
* *
27000751 CCTTGTAGGGTAGAAATACCAAAATAC
1 CC-TGTAGGGTAGAATTACCGAAATAC
* * *
27000778 CTCTATAGGGTAGAAGTACCGAGATAC
1 C-CTGTAGGGTAGAATTACCGAAATAC
27000805 C
1 C
27000806 ATTGTGGCGT
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
26 27 0.19
27 109 0.78
28 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (26 bp):
CCTGTAGGGTAGAATTACCGAAATAC
Found at i:27000728 original size:54 final size:54
Alignment explanation
Indices: 27000618--27000823 Score: 263
Period size: 54 Copynumber: 3.8 Consensus size: 54
27000608 ATCAAAAACT
* ** *
27000618 CCTGTAGGGTAGAATTACCAAAATACCC-TACAGGGTAGAATTACTGAAATAAC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACC
*
27000671 CCTGTAGGGTAGAATTACCGAAGTACCCTTGTAGGGTAGAATTACTGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACC
* **
27000725 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACC
* * * * * *
27000779 TCTATAGGGTAGAAGTACCGAGATACCATTGT-GGCGTAAAATTAC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG-GTAGAATTAC
27000824 CATTTTGCCC
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 28 0.21
54 107 0.79
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (54 bp):
CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACC
Found at i:27001098 original size:24 final size:25
Alignment explanation
Indices: 27001027--27001096 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
27001017 AGGAAGTACT
* * * *
27001027 AAAAGCGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
27001052 AAAAGGGCTTTGCCCAAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
27001077 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
27001097 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:27001109 original size:24 final size:24
Alignment explanation
Indices: 27001037--27001123 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
27001027 AAAAGCGCTA
*
27001037 TGCCCCAGTTTACCGAAAAG-GGCTT
1 TGCCCCAG-TTATC-AAAAGAGGCTT
*
27001062 TGCCCAAGTTTATCAAAA-AGGGCTT
1 TGCCCCAG-TTATCAAAAGA-GGCTT
* *
27001087 TGCCCCAGTTATTAAAAGAGGCTA
1 TGCCCCAGTTATCAAAAGAGGCTT
*
27001111 GGCCTCCAGTTAT
1 TGCC-CCAGTTAT
27001124 ATGATAAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 19 0.37
25 33 0.63
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAGAGGCTT
Found at i:27002519 original size:45 final size:44
Alignment explanation
Indices: 27002452--27002669 Score: 187
Period size: 43 Copynumber: 5.0 Consensus size: 44
27002442 TAAGATTCAG
* * * *
27002452 ATATGTGTTTTCGTGTATGACCATGTCTGGGAAATTGGCATCGAT
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCG-T
** * *
27002497 ATATGTCTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCG-
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
27002540 ATATGTGGTTACGA-GTAAGACCATGTCTGGGACATCGGCATCGT
1 ATATGTGGTTTC-ATGTAAGACCATGTCTGGGACATTGGCATCGT
* * * *
27002584 AT-T-T-GATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGT
* * *** * *
27002624 ATATGAGATAGAATGTAAGACCACGTCTGGGACATTGGCATTGT
1 ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGT
27002668 AT
1 AT
27002670 GATATATGTA
Statistics
Matches: 137, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.01
41 30 0.22
42 1 0.01
43 62 0.45
44 5 0.04
45 37 0.27
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTGGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:27002626 original size:84 final size:87
Alignment explanation
Indices: 27002451--27002669 Score: 227
Period size: 84 Copynumber: 2.5 Consensus size: 87
27002441 ATAAGATTCA
* * * * * **
27002451 GATATGTGTTTTCGTGTATGACCATGTCTGGGAAATTGGCATCGATATATGTCTTTTCATGTAAG
1 GATATGTGGTTACGAGTAAGACCATGTCTGGGACATTGGCATCG-TATATGTCGATTCATGTAAG
27002516 ACCACGTCTGGGACGTTGGCATC
65 ACCACGTCTGGGACGTTGGCATC
* *
27002539 GATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGGCATCGTAT-T-T-GATTCGTGTAAGA
1 GATATGTGGTTACGAGTAAGACCATGTCTGGGACATTGGCATCGTATATGTCGATTCATGTAAGA
27002601 CC-CTGTCTGGGACAG-TGGCATC
66 CCAC-GTCTGGGAC-GTTGGCATC
* * * *
27002623 GATATG-AGATA-GAATGTAAGACCACGTCTGGGACATTGGCATTGTAT
1 GATATGTGGTTACG-A-GTAAGACCATGTCTGGGACATTGGCATCGTAT
27002670 GATATATGTA
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
82 1 0.01
83 5 0.04
84 63 0.56
85 2 0.02
86 1 0.01
87 3 0.03
88 38 0.34
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (87 bp):
GATATGTGGTTACGAGTAAGACCATGTCTGGGACATTGGCATCGTATATGTCGATTCATGTAAGA
CCACGTCTGGGACGTTGGCATC
Found at i:27003398 original size:19 final size:19
Alignment explanation
Indices: 27003348--27003392 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
27003338 CATGTGAATT
27003348 ATGGTTGATTATAATGCTA
1 ATGGTTGATTATAATGCTA
27003367 ATGGTTGATTATAATGCTA
1 ATGGTTGATTATAATGCTA
27003386 ATGGTTG
1 ATGGTTG
27003393 TATATACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.42
Consensus pattern (19 bp):
ATGGTTGATTATAATGCTA
Found at i:27018946 original size:56 final size:57
Alignment explanation
Indices: 27018830--27018951 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 57
27018820 AATCCCTCTC
* * * * *
27018830 GAGCATATGTTACAATTAGGATTTAACCTGGACTGGTAATCCTAATTGAGCTCTTCT
1 GAGCATATGCTACAATAAGGATTTAACCTAGACTAGTAATCCTAATTGAGCTCTTAT
*
27018887 GAGCATATGCTACAGA-AAGGATTT-ACCTAGACTAGTAATCCTGATT-ATGCTCTTAT
1 GAGCATATGCTACA-ATAAGGATTTAACCTAGACTAGTAATCCTAATTGA-GCTCTTAT
27018943 GAGCATATG
1 GAGCATATG
27018952 TTGGAAACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 1 0.02
56 35 0.61
57 20 0.35
58 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (57 bp):
GAGCATATGCTACAATAAGGATTTAACCTAGACTAGTAATCCTAATTGAGCTCTTAT
Found at i:27022241 original size:38 final size:38
Alignment explanation
Indices: 27022190--27022266 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27022180 AGAAAGGGTG
27022190 TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
1 TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
27022228 TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
1 TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
27022266 T
1 T
27022267 TGGCGGATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (38 bp):
TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
Found at i:27023684 original size:8 final size:8
Alignment explanation
Indices: 27023673--27023706 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
27023663 TAAAATTCTA
27023673 AAAATATT
1 AAAATATT
27023681 AAAATATT
1 AAAATATT
27023689 AAAATATAT
1 AAAATAT-T
*
27023698 CAAATATT
1 AAAATATT
27023706 A
1 A
27023707 TTATGTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATATT
Found at i:27027540 original size:43 final size:43
Alignment explanation
Indices: 27027487--27027598 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
27027477 TGTACAATGT
* *
27027487 CAACATCCCAGACGTGGTCTTACATGTAATCACATATCGAT-T
1 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGC
* ** * *
27027529 CTACTGTCCCAGACAAGGTCTTACACGTAATCACTTATCGATGC
1 CAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGC
27027573 CAACGTCCCAGACGTGGTCTTACATG
1 CAACGTCCCAGACGTGGTCTTACATG
27027599 AGAACACATA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
42 3 0.05
43 51 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGC
Found at i:27029178 original size:7 final size:6
Alignment explanation
Indices: 27029159--27029189 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
27029149 TCTTCTTTCG
27029159 TTTCTT TTTCTT TTTCCTT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTT-CTT TTTCTT TTTCTT
27029190 CCTTTTCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:27029180 original size:13 final size:13
Alignment explanation
Indices: 27029162--27029187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27029152 TCTTTCGTTT
27029162 CTTTTTCTTTTTC
1 CTTTTTCTTTTTC
27029175 CTTTTTCTTTTTC
1 CTTTTTCTTTTTC
27029188 TTCCTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTTCTTTTTC
Found at i:27029202 original size:18 final size:16
Alignment explanation
Indices: 27029172--27029213 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
27029162 CTTTTTCTTT
27029172 TTCCTTTTTCTTTTTC
1 TTCCTTTTTCTTTTTC
27029188 TTCCTTTTCTACTTTTTC
1 TTCCTTTT-T-CTTTTTC
27029206 TT-CTTTTT
1 TTCCTTTTT
27029214 TGATTTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 6 0.25
18 9 0.38
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCCTTTTTCTTTTTC
Found at i:27029213 original size:9 final size:9
Alignment explanation
Indices: 27029160--27029213 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
27029150 CTTCTTTCGT
27029160 TTCTTTTTC
1 TTCTTTTTC
*
27029169 TT-TTTCCTTT
1 TTCTTT--TTC
27029179 TTCTTTTTC
1 TTCTTTTTC
*
27029188 TTCCTTTTC
1 TTCTTTTTC
*
27029197 TACTTTTTC
1 TTCTTTTTC
27029206 TTCTTTTT
1 TTCTTTTT
27029214 TGATTTTCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 26 0.72
10 4 0.11
11 3 0.08
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:27029769 original size:62 final size:62
Alignment explanation
Indices: 27029622--27029783 Score: 193
Period size: 62 Copynumber: 2.6 Consensus size: 62
27029612 GTGTAGGGTT
* * * *
27029622 CACATGGTCAAGGACACGGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGCAGTATAAAAC
1 CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAGTATAAAAC
* * * *
27029684 CACATTGCCAGGGACACGAGCATGTGCCCGGGCCGTGTAACTCACTGTTTAC-GCT-TAAAAC
1 CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAG-TATAAAAC
* * *
27029745 CACATGGCCAAGGCAGAGGGGCATGTTCCCAGGCCGTGT
1 CACATGGCCAAGG-ACACGGGCATGTGCCCAGGCCGTGT
27029784 GGCAAGATGT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
61 18 0.22
62 65 0.78
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (62 bp):
CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAGTATAAAAC
Found at i:27031601 original size:16 final size:16
Alignment explanation
Indices: 27031582--27031612 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27031572 CTTCTTCACT
27031582 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27031598 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27031613 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27031618 original size:20 final size:20
Alignment explanation
Indices: 27031579--27031618 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27031569 AAACTTCTTC
* *
27031579 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27031599 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27031619 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27031985 original size:55 final size:53
Alignment explanation
Indices: 27031803--27032057 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 53
27031793 ACATGGGTAC
* * * * *
27031803 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * * *
27031852 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTACGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * * * **
27031905 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTTTCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATC-CTTGCCTTA-AG-AA
* *
27031960 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-AGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAG-AA
* * * * *
27032013 CATTATCAATTCCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 C-TTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
27032058 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 40 0.24
52 3 0.02
53 45 0.27
54 8 0.05
55 72 0.43
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
Found at i:27031994 original size:108 final size:110
Alignment explanation
Indices: 27031850--27032050 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
27031840 ATCCTTTTGA
*
27031850 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTACG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACATCACCAA
*
27031913 -TGCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
65 TTCCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
* * * *
27031958 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACATTATCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACATCACCAAT
27032023 TCCCATGCCTTGGCATGGTCTTACATGG
66 TCCCATGCCTTGGCATGGTCTTACATGG
27032051 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 51 0.61
109 5 0.06
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACATCACCAAT
TCCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
Found at i:27034294 original size:30 final size:29
Alignment explanation
Indices: 27034258--27034318 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
27034248 AAACGGAAGT
27034258 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
27034288 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
27034317 TT
1 TT
27034319 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:27037863 original size:182 final size:182
Alignment explanation
Indices: 27037550--27037923 Score: 694
Period size: 182 Copynumber: 2.1 Consensus size: 182
27037540 GATTAATTCA
* *
27037550 AAAGTGTCAGAAAAGAAAGTTAAATCTATGCCTGCTGTTTGTGAGTTCCCTGATGTGTTTCTTGA
1 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGCTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
27037615 AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGCTACCTGGTACTA
66 AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGCTACCTGGTACTA
* *
27037680 CTCCAATTTCGATAGCTCTGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
131 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
*
27037732 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
1 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGCTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
*
27037797 AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
66 AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGCTACCTGGTACTA
27037862 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
131 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
27037914 AAAGTCTCAG
1 AAAGTCTCAG
27037924 TTGCAAGAAT
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 186 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (182 bp):
AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGCTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGCTACCTGGTACTA
CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
Found at i:27040158 original size:40 final size:40
Alignment explanation
Indices: 27040074--27040297 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
27040064 TTGAATGATG
* * * *
27040074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
27040114 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27040154 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27040192 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27040232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27040273 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27040298 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27040292 original size:80 final size:80
Alignment explanation
Indices: 27040074--27040297 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
27040064 TTGAATGATG
* * * * *
27040074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
27040137 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
27040154 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
27040216 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
27040232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
27040297 G
66 G
27040298 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:27048115 original size:40 final size:39
Alignment explanation
Indices: 27048047--27048157 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
27048037 TAAGGGCATA
27048047 AGTTACTAAATCC--G-AAGTCCC-AAGGCATTTGTGCG
1 AGTTACTAAATCCGGGTAAGTCCCGAAGGCATTTGTGCG
27048082 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGG-TAAGTCCCGAAGGCATTTGTGCG
*
27048122 AGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 AGTTACTA-AATCCGGG-TAAGTCCCGAAGGCATTTG
27048158 AACGAGGAGC
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
35 13 0.19
37 1 0.01
39 7 0.10
40 45 0.66
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
AGTTACTAAATCCGGGTAAGTCCCGAAGGCATTTGTGCG
Found at i:27048171 original size:40 final size:40
Alignment explanation
Indices: 27048061--27048176 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
27048051 ACTAAATCCG
** * *
27048061 AAGTCCC-AAGGCATTTGTGCGAGTTACTA-AATCCGGGTT
1 AAGTCCCGAAGGCATTTGAACGAGTGACTATAA-CCGGGCT
** *
27048100 AAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT
1 AAGTCCCGAAGGCATTTGAACGAGTGACTATAACCGGGCT
* *
27048140 ATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGG
1 AAGTCCCGAAGGCATTTGAACGAGTGA-CTATAACCGG
27048177 TTAAATTCCG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 8 0.12
40 58 0.85
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGAACGAGTGACTATAACCGGGCT
Found at i:27058176 original size:33 final size:33
Alignment explanation
Indices: 27058139--27058205 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
27058129 ACAGAGTAGG
27058139 ATAACTTAGCTTAGTAAGCCTTAAGCAAATTAA
1 ATAACTTAGCTTAGTAAGCCTTAAGCAAATTAA
27058172 ATAACTTAGCTTAGTAAGCCTTAAGCAAATTAA
1 ATAACTTAGCTTAGTAAGCCTTAAGCAAATTAA
27058205 A
1 A
27058206 CAATTAATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (33 bp):
ATAACTTAGCTTAGTAAGCCTTAAGCAAATTAA
Found at i:27067013 original size:29 final size:29
Alignment explanation
Indices: 27066971--27067069 Score: 121
Period size: 29 Copynumber: 3.4 Consensus size: 29
27066961 GGCTCAATCT
*
27066971 CATTTATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
27067000 CATTCATATGGCCCATC-GGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * *
27067028 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
27067057 GC-TTTATATGGCC
1 -CATTCATATGGCC
27067070 TGTTAGGCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 25 0.41
29 36 0.59
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:27067039 original size:57 final size:57
Alignment explanation
Indices: 27066942--27067069 Score: 145
Period size: 57 Copynumber: 2.2 Consensus size: 57
27066932 ACCCCTACAT
* * * *
27066942 ACATGCATATGGCCCACTTGGCTCAATCTCATTTATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCACTCGGCCCAATCTCATTTATATGGCCCATCAGGCCCAAATC
* *
27066999 ACATTCATATGGCCCA-TCGGCCCAAT-TCATATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTCGGCCCAATCTCAT-TT-ATATGGCCCATCAGGCCCAAATC
*
27067056 AGC-TTTATATGGCC
1 A-CATTCATATGGCC
27067070 TGTTAGGCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
55 4 0.07
56 10 0.16
57 46 0.75
58 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (57 bp):
ACATTCATATGGCCCACTCGGCCCAATCTCATTTATATGGCCCATCAGGCCCAAATC
Found at i:27067070 original size:29 final size:28
Alignment explanation
Indices: 27066948--27067093 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 28
27066938 ACATACATGC
* *
27066948 ATATGGCCCACTT-GGCTC-AATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCAC-TTT
* * *
27066976 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAAATCAC-TTT
* *
27067005 ATATGGCCCA-TCGGCCCAATTCA-TATT
1 ATATGGCCCATTAGGCCCAAATCACT-TT
*
27067032 CATATGGCCTATTAGGCCCAAATCAGCTTT
1 -ATATGGCCCATTAGGCCCAAATCA-CTTT
** *
27067062 ATATGGCCTGTTAGGCCCAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACTTT
27067090 ATAT
1 ATAT
27067094 TCATGCTCAC
Statistics
Matches: 98, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 41 0.42
29 51 0.52
30 2 0.02
31 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACTTT
Found at i:27071683 original size:43 final size:42
Alignment explanation
Indices: 27071558--27071706 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
27071548 CTACATGTGT
** * * *
27071558 TTTCGTGTAAGACCGGGTTTGGGACATTGGCATCGACT-TATGA
1 TTTCGTGTAAGACCATGTCTGGGA-AGTGGCATCGA-TATTTGA
* *
27071601 TTTACGTGTAAGACCATGTCTGGGACGTCGACATC-ATATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGAAGT-GGCATCGATATTTGA
* *
27071644 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTAA
1 TTTCGTGTAAGACCATGTCTGGGA-AGTGGCATCGATATTTGA
* * *
27071687 TTACATGTAAGACCACGTCT
1 TTTCGTGTAAGACCATGTCT
27071707 AGGACGTTGG
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.30
43 37 0.43
44 23 0.27
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGAAGTGGCATCGATATTTGA
Found at i:27071718 original size:43 final size:42
Alignment explanation
Indices: 27071602--27071719 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
27071592 GACTTATGAT
* * * *
27071602 TTACGTGTAAGACCATGTCTGGGACGTCGACATCATATTTGA
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTAA
* *
27071644 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTAA
1 TTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATTTAA
* *
27071687 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
27071720 TGTACAAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
42 27 0.44
43 33 0.54
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTAA
Found at i:27080161 original size:40 final size:40
Alignment explanation
Indices: 27080099--27080282 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
27080089 AAGCCAAGTA
* * * *
27080099 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
27080138 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
27080178 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
27080218 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27080258 CCTTCGGGACTTAGCCCGGAATATA
1 CCTTCGGGACTTAGCCCGG-ATATA
27080283 ACACCCCGAA
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 12 0.09
40 114 0.87
41 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27089938 original size:29 final size:29
Alignment explanation
Indices: 27089904--27089977 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
27089894 TAATCAACCA
*
27089904 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
27089933 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
27089962 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
27089978 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:27097940 original size:40 final size:39
Alignment explanation
Indices: 27097850--27098072 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 39
27097840 TTGAATGATG
* * * *
27097850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*** * *
27097890 TCCACACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
27097930 TTCGGGCTAAGCCCGAA-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
27097968 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
27098008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
27098049 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
27098073 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
38 27 0.17
39 23 0.15
40 95 0.61
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27097992 original size:78 final size:79
Alignment explanation
Indices: 27097850--27098072 Score: 247
Period size: 78 Copynumber: 2.8 Consensus size: 79
27097840 TTGAATGATG
* * * * * ***
27097850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCACACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATT
*
27097914 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* *
27097930 TTCGGGCTAAG-CCCGAA-GCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGT-CCGAAGGCATT
*
27097992 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* * *
27098008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
27098073 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
77 2 0.02
78 48 0.40
79 31 0.26
80 37 0.31
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Done.