Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 89 of 163
Found at i:25350195 original size:23 final size:23
Alignment explanation
Indices: 25350152--25350213 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
25350142 CTCCTTTTCT
*
25350152 TTTTTCCTT-TTTTTCTCTTTTTG-
1 TTTTT-CTTCTTTTTCT-ATTTTGC
*
25350175 TTTTTCTTCTTTTTTTATTTTGC
1 TTTTTCTTCTTTTTCTATTTTGC
* *
25350198 TCTTTCTTCTTCTTCT
1 TTTTTCTTCTTTTTCT
25350214 TCTTCTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTTCTTCTTTTTCTATTTTGC
Found at i:25350224 original size:29 final size:29
Alignment explanation
Indices: 25350160--25350252 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
25350150 CTTTTTTCCT
* * *
25350160 TTTTTTC-TCTTTTTGTTTTTCTTCTTTTT
1 TTTTTTCTTCTTTCT-TTCTTCTTCTTTTC
25350189 TTATTTTGC-TCTTTC-TTCTTCTTCTTCTTC
1 TT-TTTT-CTTCTTTCTTTCTTCTTCTT-TTC
*
25350219 TTTTTTCTTTTTTCTTTCTT-TTCTTTTC
1 TTTTTTCTTCTTTCTTTCTTCTTCTTTTC
25350247 TTTTTT
1 TTTTTT
25350253 ATTTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 10 0.18
29 26 0.47
30 13 0.24
31 6 0.11
ACGTcount: A:0.01, C:0.18, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTTTTCTTCTTTCTTTCTTCTTCTTTTC
Found at i:25351190 original size:1 final size:1
Alignment explanation
Indices: 25351186--25351224 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
25351176 ATCTTGACCC
* * *
25351186 TTTTTTATTTGTTTTTTTTTTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25351225 AACACGTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.92
Consensus pattern (1 bp):
T
Found at i:25351206 original size:17 final size:17
Alignment explanation
Indices: 25351186--25351224 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
25351176 ATCTTGACCC
*
25351186 TTTTTTATTTGTTTTTT
1 TTTTTTATTTCTTTTTT
*
25351203 TTTTTTTTTTCTTTTTT
1 TTTTTTATTTCTTTTTT
25351220 TTTTT
1 TTTTT
25351225 AACACGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.92
Consensus pattern (17 bp):
TTTTTTATTTCTTTTTT
Found at i:25364702 original size:20 final size:19
Alignment explanation
Indices: 25364664--25364706 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
25364654 AGTTGCGGAT
25364664 GCAATGATTGAGGACTTAG
1 GCAATGATTGAGGACTTAG
*
25364683 AGCAA-GATTGAGAGAGTTAG
1 -GCAATGATTGAG-GACTTAG
25364703 GCAA
1 GCAA
25364707 AAGCTGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (19 bp):
GCAATGATTGAGGACTTAG
Found at i:25364844 original size:17 final size:17
Alignment explanation
Indices: 25364795--25364844 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
25364785 TGTTAGTAAG
*
25364795 CATTGTCATTGCATTCC
1 CATTGTCATTGCATTTC
25364812 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
*
25364829 CATTGTCATTGTATTT
1 CATTGTCATTGCATTT
25364845 TACTGTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.48
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:25372070 original size:20 final size:20
Alignment explanation
Indices: 25372041--25372085 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25372031 GTCATAGATG
* *
25372041 ATAAATATCCTATGCAGTTT
1 ATAAACATCCTATGCAGTCT
*
25372061 ATAAACATCCTATGTAGTCT
1 ATAAACATCCTATGCAGTCT
25372081 ATAAA
1 ATAAA
25372086 TATTGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
ATAAACATCCTATGCAGTCT
Found at i:25373378 original size:37 final size:37
Alignment explanation
Indices: 25373328--25373542 Score: 272
Period size: 37 Copynumber: 5.8 Consensus size: 37
25373318 TGGATTACTA
* **
25373328 GCACAAAGCCTACTAGGTACATAGCCTGAAAACATTG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
25373365 GCACAAAGCCTACTAGGCACATAGCCT-AAATACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAA-ACACCG
* * * * * *
25373402 ACAGAAAACCTACTAGGCACATAGCTTGAATACACCA
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
* * *
25373439 GCCCAAAGCCTACTTGGCACATAGCCTGAATACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
*
25373476 GCACAAATCCTACTAGGCACATAGCCT-AAATACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAA-ACACCG
*
25373513 GCACAAAGCTTACTAGGCACATAGCCTGAA
1 GCACAAAGCCTACTAGGCACATAGCCTGAA
25373543 TTTTAGATGC
Statistics
Matches: 152, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
36 5 0.03
37 143 0.94
38 4 0.03
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.16
Consensus pattern (37 bp):
GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
Found at i:25373385 original size:16 final size:16
Alignment explanation
Indices: 25373323--25373392 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
25373313 GTTCCTGGAT
25373323 TACTA-GCACAAAGCC
1 TACTAGGCACAAAGCC
* *
25373338 TACTAGGTACATAGCC
1 TACTAGGCACAAAGCC
*
25373354 TGAAAACATTGGCACAAAGCC
1 T----AC-TAGGCACAAAGCC
*
25373375 TACTAGGCACATAGCC
1 TACTAGGCACAAAGCC
25373391 TA
1 TA
25373393 AATACACCGA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
15 5 0.12
16 22 0.52
17 2 0.05
20 2 0.05
21 11 0.26
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (16 bp):
TACTAGGCACAAAGCC
Found at i:25373478 original size:21 final size:20
Alignment explanation
Indices: 25373454--25373517 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
25373444 AAGCCTACTT
25373454 GGCACATAGCCTGAATACACC
1 GGCACATAGCCT-AATACACC
* * *
25373475 GGCACAAATCCTACT--A--
1 GGCACATAGCCTAATACACC
25373491 GGCACATAGCCTAAATACACC
1 GGCACATAGCCT-AATACACC
25373512 GGCACA
1 GGCACA
25373518 AAGCTTACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 10 0.31
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 16 0.50
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (20 bp):
GGCACATAGCCTAATACACC
Found at i:25373527 original size:111 final size:111
Alignment explanation
Indices: 25373331--25373543 Score: 327
Period size: 111 Copynumber: 1.9 Consensus size: 111
25373321 ATTACTAGCA
* **
25373331 CAAAGCCTACTAGGTACATAGCCTGAAAACATTGGCACAAAGCCTACTAGGCACATAGCCTAAAT
1 CAAAGCCTACTAGGCACATAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACATAGCCTAAAT
* *
25373396 ACACCGACAGAAAACCTACTAGGCACATAGCTTGAATACACCAGCC
66 ACACCGACACAAAACCTACTAGGCACATAGCCTGAATACACCAGCC
* * *
25373442 CAAAGCCTACTTGGCACATAGCCTGAATACACCGGCACAAATCCTACTAGGCACATAGCCTAAAT
1 CAAAGCCTACTAGGCACATAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACATAGCCTAAAT
* * *
25373507 ACACCGGCACAAAGCTTACTAGGCACATAGCCTGAAT
66 ACACCGACACAAAACCTACTAGGCACATAGCCTGAAT
25373544 TTTAGATGCA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 91 1.00
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.17
Consensus pattern (111 bp):
CAAAGCCTACTAGGCACATAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACATAGCCTAAAT
ACACCGACACAAAACCTACTAGGCACATAGCCTGAATACACCAGCC
Found at i:25380508 original size:27 final size:26
Alignment explanation
Indices: 25380478--25380542 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
25380468 GGAACTACTA
*
25380478 TTTTTTTTT-TAAATCTCTTTTTTGTAT
1 TTTTTTTTTATAAATC-C-TTTTTCTAT
25380505 TTTTCTTTTTATAAATCCTTTTTCTAT
1 TTTT-TTTTTATAAATCCTTTTTCTAT
*
25380532 TTTTTATTTAT
1 TTTTTTTTTAT
25380543 GATTTTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 16 0.47
28 6 0.18
29 6 0.18
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTTTTTTATAAATCCTTTTTCTAT
Found at i:25380542 original size:26 final size:27
Alignment explanation
Indices: 25380475--25380542 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
25380465 AGTGGAACTA
25380475 CTATTTTTTTTT-TAAATCTCTTTTTT
1 CTATTTTTTTTTATAAATCTCTTTTTT
*
25380501 GTATTTTTCTTTTTATAAATC-C-TTTTT
1 CTA-TTTT-TTTTTATAAATCTCTTTTTT
25380528 CTATTTTTTATTTAT
1 CTATTTTTT-TTTAT
25380543 GATTTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 11 0.31
28 6 0.17
29 6 0.17
ACGTcount: A:0.18, C:0.10, G:0.01, T:0.71
Consensus pattern (27 bp):
CTATTTTTTTTTATAAATCTCTTTTTT
Found at i:25385519 original size:16 final size:16
Alignment explanation
Indices: 25385498--25385528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25385488 ATAATGTGAA
25385498 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
25385514 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
25385529 GGATCCACAA
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:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:25387110 original size:19 final size:19
Alignment explanation
Indices: 25387043--25387101 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
25387033 CCATTAACCA
*
25387043 TTGACTATTGACTGTTGAC
1 TTGACTATTGATTGTTGAC
* *
25387062 TTGACCATTGATCGTTGAC
1 TTGACTATTGATTGTTGAC
25387081 TTGACTATTGATTGTTGAC
1 TTGACTATTGATTGTTGAC
25387100 TT
1 TT
25387102 TTCTATTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (19 bp):
TTGACTATTGATTGTTGAC
Found at i:25387110 original size:38 final size:38
Alignment explanation
Indices: 25387043--25387120 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
25387033 CCATTAACCA
* *
25387043 TTGACTATTGACTGTTGACTTGACCATTGATCGTTGAC
1 TTGACTATTGACTGTTGACTTGACCATTGACCATTGAC
* ** *
25387081 TTGACTATTGATTGTTGACTTTTCTATTGACCATTGAC
1 TTGACTATTGACTGTTGACTTGACCATTGACCATTGAC
25387119 TT
1 TT
25387121 TTTTCGAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.45
Consensus pattern (38 bp):
TTGACTATTGACTGTTGACTTGACCATTGACCATTGAC
Found at i:25391842 original size:16 final size:18
Alignment explanation
Indices: 25391804--25391842 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
25391794 ATTTGAAATT
25391804 TCAT-TTGATGTATTGCC
1 TCATATTGATGTATTGCC
25391821 TC-TATTGA-GTA-TGCC
1 TCATATTGATGTATTGCC
25391836 TCATATT
1 TCATATT
25391843 TTCAGTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (18 bp):
TCATATTGATGTATTGCC
Found at i:25394839 original size:20 final size:21
Alignment explanation
Indices: 25394814--25394853 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25394804 TCATATGACC
*
25394814 GAGTTG-CCTCCACTCCAAAT
1 GAGTTGACCTCAACTCCAAAT
*
25394834 GAGTTGACTTCAACTCCAAA
1 GAGTTGACCTCAACTCCAAA
25394854 ATGGACCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (21 bp):
GAGTTGACCTCAACTCCAAAT
Found at i:25396631 original size:76 final size:77
Alignment explanation
Indices: 25396476--25396660 Score: 284
Period size: 76 Copynumber: 2.4 Consensus size: 77
25396466 CCCTCTAATT
* * *
25396476 ATTTTCTCAGACTTTCTCTCTTTCCAAACACCCCTAACTTTTTTATTTTCTCAGACTTTCCCTTA
1 ATTTTCTCAGAATTTCTCTCTTTCCAAACACCACTAACTTTTTTATTTTCTCAGACTATCCCTTA
25396541 ATTCCTTCATGA
66 ATTCCTTCATGA
* *
25396553 ATTTTCTTAGAATTTCTCTCTTTCCAAACACTCAC-AAC-TTTTTATTTTCTCTGACTATCCCTT
1 ATTTTCTCAGAATTTCTCTCTTTCCAAACAC-CACTAACTTTTTTATTTTCTCAGACTATCCCTT
*
25396616 CATTCCTTCATGA
65 AATTCCTTCATGA
*
25396629 ATTTTCTCAGATTTTCTCTCTTTCCAAACACC
1 ATTTTCTCAGAATTTCTCTCTTTCCAAACACC
25396661 CATTTTCTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
75 1 0.01
76 64 0.65
77 32 0.32
78 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (77 bp):
ATTTTCTCAGAATTTCTCTCTTTCCAAACACCACTAACTTTTTTATTTTCTCAGACTATCCCTTA
ATTCCTTCATGA
Found at i:25397357 original size:76 final size:74
Alignment explanation
Indices: 25397226--25397400 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 74
25397216 GATCACAAAA
* * * *
25397226 ATGGATGTTTGGAAAGAGAGAAAGTTTGAGAAAATTCATGAAGGAATGAAGGGAAAGTCTAAGAA
1 ATGGGTGTTTGGAAAGACAAAAAGTCTGAGAAAATTCATGAAGGAATGAAGGGAAAGT-TAA-AA
25397291 AATAAAAAGTC
64 AATAAAAAGTC
* * *
25397302 ATGGGTGTTTGAAAAGACAAAAAGTCTGAGAAAATTCATGTAGGAATGAAGGGAAAGTTAAAGAA
1 ATGGGTGTTTGGAAAGACAAAAAGTCTGAGAAAATTCATGAAGGAATGAAGGGAAAGTTAAAAAA
25397367 TAAAAAGTC
66 TAAAAAGTC
25397376 ATGGGTGTTTGGAAAGACAGAAAAG
1 ATGGGTGTTTGGAAAGACA-AAAAG
25397401 GAATGAAGGG
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
74 30 0.33
75 8 0.09
76 52 0.58
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.21
Consensus pattern (74 bp):
ATGGGTGTTTGGAAAGACAAAAAGTCTGAGAAAATTCATGAAGGAATGAAGGGAAAGTTAAAAAA
TAAAAAGTC
Found at i:25397405 original size:56 final size:58
Alignment explanation
Indices: 25397343--25397450 Score: 186
Period size: 58 Copynumber: 1.9 Consensus size: 58
25397333 AAATTCATGT
25397343 AGGAATGAAGGGAAAGT-T-A-AAGAATAAAAAGTCATGGGTGTTTGGAAAGACAGAAA
1 AGGAATGAAGGGAAAGTCTGAGAA-AATAAAAAGTCATGGGTGTTTGGAAAGACAGAAA
25397399 AGGAATGAAGGGAAAGTCTGAGAAAATAAAAAGTCATGGGTGTTTGGAAAGA
1 AGGAATGAAGGGAAAGTCTGAGAAAATAAAAAGTCATGGGTGTTTGGAAAGA
25397451 AAGAGTGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
56 17 0.35
57 1 0.02
58 29 0.59
59 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.31, T:0.19
Consensus pattern (58 bp):
AGGAATGAAGGGAAAGTCTGAGAAAATAAAAAGTCATGGGTGTTTGGAAAGACAGAAA
Found at i:25397798 original size:20 final size:20
Alignment explanation
Indices: 25397755--25397798 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25397745 GACTTGATAG
**
25397755 TCAACCATTAAATCCAACGG
1 TCAACCATTAAATCCAACAA
*
25397775 TCAACCATTAAATCTAACAA
1 TCAACCATTAAATCCAACAA
25397795 TCAA
1 TCAA
25397799 AGGGCTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (20 bp):
TCAACCATTAAATCCAACAA
Found at i:25401505 original size:17 final size:19
Alignment explanation
Indices: 25401483--25401524 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 19
25401473 TTTTAAAATT
25401483 ATTTTTTAAAA-TA-TAAA
1 ATTTTTTAAAATTATTAAA
25401500 A-TTTTTAAAATTATTAAA
1 ATTTTTTAAAATTATTAAA
25401518 ATTTTTT
1 ATTTTTT
25401525 TTTTTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.41
17 3 0.14
18 5 0.23
19 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAATTATTAAA
Found at i:25401517 original size:18 final size:16
Alignment explanation
Indices: 25401485--25401523 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
25401475 TTAAAATTAT
25401485 TTTTTAAAATATAAAA
1 TTTTTAAAATATAAAA
25401501 TTTTTAAAATTATTAAAA
1 TTTTTAAAA-TA-TAAAA
25401519 TTTTT
1 TTTTT
25401524 TTTTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAAATATAAAA
Found at i:25402556 original size:23 final size:23
Alignment explanation
Indices: 25402512--25402557 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25402502 AAAATTATTT
* *
25402512 AATAATTTTATTACTTTAAAAAA
1 AATAATTTTAATAATTTAAAAAA
*
25402535 AATAATTTTAATAATTTTAAAAA
1 AATAATTTTAATAATTTAAAAAA
25402558 TTTTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTTTAATAATTTAAAAAA
Found at i:25402569 original size:16 final size:18
Alignment explanation
Indices: 25402538--25402573 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
25402528 TAAAAAAAAT
25402538 AATTTTAATAATTTTAAA
1 AATTTTAATAATTTTAAA
25402556 AATTTT-AT-ATTTTAAA
1 AATTTTAATAATTTTAAA
25402572 AA
1 AA
25402574 ATGTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTTAATAATTTTAAA
Found at i:25402575 original size:17 final size:17
Alignment explanation
Indices: 25402533--25402582 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
25402523 TACTTTAAAA
25402533 AAAATAATTTTAATAATTTT
1 AAAA-AATTTT-AT-ATTTT
25402553 -AAAAATTTTATATTTT
1 AAAAAATTTTATATTTT
*
25402569 AAAAAATGTTATAT
1 AAAAAATTTTATAT
25402583 AAGACAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.18
17 14 0.50
18 6 0.21
19 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AAAAAATTTTATATTTT
Found at i:25402890 original size:21 final size:23
Alignment explanation
Indices: 25402864--25402910 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25402854 AAATTTCTTA
*
25402864 AAATTTA-TAAAATATT-GAAAT
1 AAATTTACTAAAATATTAAAAAT
*
25402885 AAATTTACTAAATTATTAAAAAT
1 AAATTTACTAAAATATTAAAAAT
25402908 AAA
1 AAA
25402911 AAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATTTACTAAAATATTAAAAAT
Found at i:25403476 original size:22 final size:21
Alignment explanation
Indices: 25403423--25403481 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
25403413 TTCATGTTTT
* *
25403423 TTAGGGTTTTA-ATTATTTAA
1 TTAGGGTTTAAGATTATTAAA
**
25403443 TTAGGGCCTAAGATTAATTAAA
1 TTAGGGTTTAAGATT-ATTAAA
*
25403465 TTAGGGTTTAAGGTTAT
1 TTAGGGTTTAAGATTAT
25403482 ATTTAATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 17 0.57
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTAAGATTATTAAA
Found at i:25403536 original size:41 final size:41
Alignment explanation
Indices: 25403423--25403555 Score: 96
Period size: 41 Copynumber: 3.2 Consensus size: 41
25403413 TTCATGTTTT
* * *
25403423 TTAGGGTTTTAATTATTTAATTAGGGCCTAAGAT-TAATTA-AA
1 TTAGGGTTTTAATTGTTTAATTAAGGCTTAAG-TGT--TTATAA
* * ***
25403465 TTAGGG-TTTAA-GGTTATATTTAATTTTTAAGTGTTTATAA
1 TTAGGGTTTTAATTGTT-TAATTAAGGCTTAAGTGTTTATAA
*
25403505 TTAGGGTTTTAATTGTTTAATTAAGGCTTAAG-GTTAATTAAA
1 TTAGGGTTTTAATTGTTTAATTAAGGCTTAAGTGTTTA-T-AA
25403547 TTAGGGTTT
1 TTAGGGTTT
25403556 AGGGTTTTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
39 3 0.04
40 15 0.21
41 32 0.46
42 20 0.29
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (41 bp):
TTAGGGTTTTAATTGTTTAATTAAGGCTTAAGTGTTTATAA
Found at i:25403590 original size:82 final size:82
Alignment explanation
Indices: 25403423--25403583 Score: 261
Period size: 82 Copynumber: 2.0 Consensus size: 82
25403413 TTCATGTTTT
*
25403423 TTAGGGTTTTAATTATTTAATTAGGGCCTAAGATTAATTAAATTAGGGTTTAAGGTTATATTTAA
1 TTAGGGTTTTAATTATTTAATTAAGGCCTAAGATTAATTAAATTAGGGTTTAAGGTTATATTTAA
25403488 TTTTTAAGTGTTTATAA
66 TTTTTAAGTGTTTATAA
* * * * *
25403505 TTAGGGTTTTAATTGTTTAATTAAGGCTTAAGGTTAATTAAATTAGGGTTTAGGGTTTTATTTAA
1 TTAGGGTTTTAATTATTTAATTAAGGCCTAAGATTAATTAAATTAGGGTTTAAGGTTATATTTAA
25403570 -TTTTAAGTGTTTAT
66 TTTTTAAGTGTTTAT
25403584 TGATTAGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 14 0.19
82 59 0.81
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (82 bp):
TTAGGGTTTTAATTATTTAATTAAGGCCTAAGATTAATTAAATTAGGGTTTAAGGTTATATTTAA
TTTTTAAGTGTTTATAA
Found at i:25403643 original size:17 final size:17
Alignment explanation
Indices: 25403621--25403656 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25403611 ATTGATTTTA
*
25403621 TTATTAGGGTTTAGGGT
1 TTATTAGGGTTAAGGGT
25403638 TTATTAGGGTTAAGGGT
1 TTATTAGGGTTAAGGGT
25403655 TT
1 TT
25403657 TTGAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (17 bp):
TTATTAGGGTTAAGGGT
Found at i:25407731 original size:390 final size:390
Alignment explanation
Indices: 25407012--25408185 Score: 2197
Period size: 390 Copynumber: 3.0 Consensus size: 390
25407002 GTGTAAGGCA
25407012 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
1 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
*
25407077 TGTGTAATTGCCACCAATATTATTTGGTCTGAAATATTCCGTTTGCTTTTTATATTTTTTGGTAT
66 TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTCCGTTTGCTTTTTATATTTTTTGGTAT
*
25407142 GTAATCGTCACTATCTACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAATG
131 GTAATCGTCACTATCCACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAATG
* * *
25407207 TTAGAAATCTTACAGTCAACTAACTGGACAGGGGCATCGTACCTCTCTAATATACCTTTTGATTA
196 TTAGAAATCTTACAGTCAACTAACTCGACAGGGGCATGGTACCTCTCTAACATACCTTTTGATTA
25407272 GTGGACACAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGCA
261 GTGGACACAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGCA
25407337 TCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTTT
326 TCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTTT
25407402 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
1 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
* *
25407467 TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTTCGTTTACTTTTTATATTTTTTGGTAT
66 TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTCCGTTTGCTTTTTATATTTTTTGGTAT
25407532 GTAATCGTCACTATCCACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAATG
131 GTAATCGTCACTATCCACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAATG
25407597 TTAGAAATCTTACAGTCAACTAACTCGACAGGGGCATGGTACCTCTCTAACATACCTTTTGATTA
196 TTAGAAATCTTACAGTCAACTAACTCGACAGGGGCATGGTACCTCTCTAACATACCTTTTGATTA
* *
25407662 GTGGACATAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATTCA
261 GTGGACACAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGCA
25407727 TCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTTT
326 TCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTTT
25407792 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
1 CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
25407857 TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTCCGTTTGCTTTTTATAGTTTTTT-GTA
66 TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTCCGTTTGCTTTTTATA-TTTTTTGGTA
*
25407921 TGTAATCGTCACTATCCACTTCTATTGACAGAGTATGGGATCATGAAGGATCGTTTTCATGAAAT
130 TGTAATCGTCACTATCCACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAAT
*
25407986 GTTAGAAATCTTACAGTCAACTAACTCGACAGGAGCATGGTACCTCTCTAACATACCTTTTGATT
195 GTTAGAAATCTTACAGTCAACTAACTCGACAGGGGCATGGTACCTCTCTAACATACCTTTTGATT
* **
25408051 AGTGGACACAATCTTACAATGATGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGC
260 AGTGGACACAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGC
*
25408116 ATCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGATTGTACAAGAGAAATACTT
325 ATCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTT
25408181 T
390 T
25408182 CGTT
1 CGTT
25408186 TGGAGAAAGA
Statistics
Matches: 764, Mismatches: 19, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
390 758 0.99
391 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (390 bp):
CGTTGCGTCCAACTACTACTAGCAATATTGCTCTACCGCTGAGCAACGAAAAGTGACCAACATTG
TGTGTAATTGCCACCAATATTATTTGGTTTGAAATATTCCGTTTGCTTTTTATATTTTTTGGTAT
GTAATCGTCACTATCCACTTCTATTGACAGGGTATGGGATCATGAAGGATCGTTTTCATGAAATG
TTAGAAATCTTACAGTCAACTAACTCGACAGGGGCATGGTACCTCTCTAACATACCTTTTGATTA
GTGGACACAATCTTACGATGGGGGTTTACGTTATGGCCACATGACCTCATACCTGGTAGAATGCA
TCAATTCCATTTTAAAGGGAACGTGTCATTTATCGATAACCTCGGTTGTACAAGAGAAATACTTT
Found at i:25410519 original size:147 final size:144
Alignment explanation
Indices: 25410277--25410555 Score: 373
Period size: 147 Copynumber: 1.9 Consensus size: 144
25410267 AAAAGAGAGG
* *
25410277 TTAGATTTTTAAAAATAAAAATATGTTTTTAGCCATTTTAAAGAAAAAGTTTAAATTTTAAACAA
1 TTAGATTTTTAAAAATAAAAATATGTTTTTAGCCATTTCAAAGAAAAAGTATAAATTTTAAACAA
* * * * *
25410342 AGTTTTAATTTTTTTTTAATTATTTCGAAATAAAAGCTTT-ATTTTTTAGAAAAATAGTGATTTT
66 AATTTT-ATATTTTTTTAATTATTTCGAAATAAAAGCTTTGATCTTTAAG-AAAAGAGTGATTTT
25410406 TTTTATCAAAAAAAGT
129 TTTTATCAAAAAAAGT
* **
25410422 TTAGATTTTTAAAAATAAAAATCTATTTTTTTATTCATTTCAAAGGAAAAAGTATAAATTTTTAA
1 TTAGATTTTTAAAAATAAAAA--TATGTTTTTAGCCATTTCAAA-GAAAAAGTATAAA-TTTTAA
* * *
25410487 ACAAAATTTT-TATTTTTTTAATTATTTTGAAATAAAAGTTTTGATCTTTAAGAAACGAGTGATT
62 ACAAAATTTTATATTTTTTTAATTATTTCGAAATAAAAGCTTTGATCTTTAAGAAAAGAGTGATT
25410551 TTTTT
127 TTTTT
25410556 AAAAAAAGAA
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
145 21 0.18
147 61 0.53
148 19 0.16
149 15 0.13
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (144 bp):
TTAGATTTTTAAAAATAAAAATATGTTTTTAGCCATTTCAAAGAAAAAGTATAAATTTTAAACAA
AATTTTATATTTTTTTAATTATTTCGAAATAAAAGCTTTGATCTTTAAGAAAAGAGTGATTTTTT
TTATCAAAAAAAGT
Found at i:25411169 original size:16 final size:15
Alignment explanation
Indices: 25411120--25411169 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
25411110 TTATTTATTC
*
25411120 TTATTTTATCTTTAT
1 TTATTTTATGTTTAT
*
25411135 TTATTTTAATGTCTAT
1 TTATTTT-ATGTTTAT
*
25411151 TTATATTTATGTTTTT
1 TTAT-TTTATGTTTAT
25411167 TTA
1 TTA
25411170 CACATTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 7 0.24
16 19 0.66
17 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (15 bp):
TTATTTTATGTTTAT
Found at i:25416416 original size:21 final size:21
Alignment explanation
Indices: 25416392--25416434 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25416382 ATTACATGCA
* *
25416392 TATGTGAACTCTTTTATATGT
1 TATGTGAACACTTTCATATGT
25416413 TATGTGAACACTTTCATATGT
1 TATGTGAACACTTTCATATGT
25416434 T
1 T
25416435 GTGCGAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (21 bp):
TATGTGAACACTTTCATATGT
Found at i:25417183 original size:43 final size:43
Alignment explanation
Indices: 25417122--25417340 Score: 273
Period size: 43 Copynumber: 5.2 Consensus size: 43
25417112 AGGAGAATGT
** *
25417122 AGTGTTTTTAGAGAGTGCGAGTATTCGTGCTGCACTTACAAGC
1 AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
* *
25417165 AGTGTTTTCGGAGAGTGCGAGCATTCGCGCTGCAGTTACAAGC
1 AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
* * * * *
25417208 AGTGTTTTTGGAAAGTCCGAGCATTCATGTTGCACTTACAAGC
1 AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
* *
25417251 AGTGTTTTCGAAGAGTGCAAGCATTC--G-TGCACTTACAAGC
1 AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
** *
25417291 AGTGTTTTCAAAGAGTGCGAGCATTCGTGCTTCACTTACAAGC
1 AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
*
25417334 AATGTTT
1 AGTGTTT
25417341 CAGGAGACCC
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 37 0.24
41 1 0.01
42 1 0.01
43 113 0.74
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
AGTGTTTTCGGAGAGTGCGAGCATTCGTGCTGCACTTACAAGC
Found at i:25417463 original size:15 final size:15
Alignment explanation
Indices: 25417443--25417489 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
25417433 ATATGCATGC
25417443 GAACTAATTATATGT
1 GAACTAATTATATGT
* *
25417458 GAACT-ATTGTATGC
1 GAACTAATTATATGT
* *
25417472 GAACCAATTATGTGT
1 GAACTAATTATATGT
25417487 GAA
1 GAA
25417490 ATGTTATCTG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (15 bp):
GAACTAATTATATGT
Found at i:25417475 original size:14 final size:15
Alignment explanation
Indices: 25417439--25417482 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
25417429 GCTTATATGC
25417439 ATGCGAACTAATTAT
1 ATGCGAACTAATTAT
* *
25417454 ATGTGAACT-ATTGT
1 ATGCGAACTAATTAT
*
25417468 ATGCGAACCAATTAT
1 ATGCGAACTAATTAT
25417483 GTGTGAAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (15 bp):
ATGCGAACTAATTAT
Found at i:25417501 original size:29 final size:29
Alignment explanation
Indices: 25417439--25417502 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25417429 GCTTATATGC
* * *
25417439 ATGCGAACTAATTATATGTGAACTATTGT
1 ATGCGAACCAATTATATGTGAAATATTAT
* *
25417468 ATGCGAACCAATTATGTGTGAAATGTTAT
1 ATGCGAACCAATTATATGTGAAATATTAT
*
25417497 CTGCGA
1 ATGCGA
25417503 TCTCTATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (29 bp):
ATGCGAACCAATTATATGTGAAATATTAT
Found at i:25419098 original size:13 final size:14
Alignment explanation
Indices: 25419072--25419100 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25419062 AAAATGTTAA
25419072 AATTAATGATAAAT
1 AATTAATGATAAAT
25419086 AATTAAT-ATAAAT
1 AATTAATGATAAAT
25419099 AA
1 AA
25419101 ATATTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AATTAATGATAAAT
Found at i:25421727 original size:41 final size:41
Alignment explanation
Indices: 25421682--25421806 Score: 116
Period size: 39 Copynumber: 3.1 Consensus size: 41
25421672 TATGGACCAT
25421682 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAAC
1 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAAC
* * * * * * ***
25421723 TTGGA-CATGAAAAT-TAG-TATGTGGGTTTGAA-GGCTC-AC
1 TTGGATAAT-AATATAAAGAAAT-TGGATTTCAATTAATCAAC
25421761 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAAC
1 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAAC
25421802 TTGGA
1 TTGGA
25421807 CATGAAAATT
Statistics
Matches: 59, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
38 11 0.19
39 16 0.27
40 16 0.27
41 16 0.27
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (41 bp):
TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAAC
Found at i:25421763 original size:38 final size:38
Alignment explanation
Indices: 25421721--25421843 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
25421711 CAATTAATCA
25421721 ACTTGGACATGAAAATTAGTATGTGGGTTTGAAGGCTC
1 ACTTGGACATGAAAATTAGTATGTGGGTTTGAAGGCTC
* * * * * * ***
25421759 ACTTGGATAAT-AATATAAAGAAAT-TGGATTTCAATTAATC
1 ACTTGGA-CATGAAAAT-TAG-TATGTGGGTTTGAA-GGCTC
25421799 AACTTGGACATGAAAATTAGTATGTGGGTTTGAAGGCTC
1 -ACTTGGACATGAAAATTAGTATGTGGGTTTGAAGGCTC
25421838 ACTTGG
1 ACTTGG
25421844 TGATTTTTTT
Statistics
Matches: 60, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
38 17 0.28
39 16 0.27
40 16 0.27
41 11 0.18
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.33
Consensus pattern (38 bp):
ACTTGGACATGAAAATTAGTATGTGGGTTTGAAGGCTC
Found at i:25421813 original size:79 final size:79
Alignment explanation
Indices: 25421682--25421843 Score: 324
Period size: 79 Copynumber: 2.1 Consensus size: 79
25421672 TATGGACCAT
25421682 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAACTTGGACATGAAAATTAGTATGTGG
1 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAACTTGGACATGAAAATTAGTATGTGG
25421747 GTTTGAAGGCTCAC
66 GTTTGAAGGCTCAC
25421761 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAACTTGGACATGAAAATTAGTATGTGG
1 TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAACTTGGACATGAAAATTAGTATGTGG
25421826 GTTTGAAGGCTCAC
66 GTTTGAAGGCTCAC
25421840 TTGG
1 TTGG
25421844 TGATTTTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (79 bp):
TTGGATAATAATATAAAGAAATTGGATTTCAATTAATCAACTTGGACATGAAAATTAGTATGTGG
GTTTGAAGGCTCAC
Found at i:25423107 original size:29 final size:31
Alignment explanation
Indices: 25423067--25423133 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
25423057 CAACAAATGA
25423067 TATTAAAATTA-TTTTTTAAAAT-ATAAAAT
1 TATTAAAATTATTTTTTTAAAATAATAAAAT
*
25423096 TATTAAAATTATTTTTTTGAAATAATAAAAT
1 TATTAAAATTATTTTTTTAAAATAATAAAAT
25423127 TATTAAA
1 TATTAAA
25423134 TAATTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 11 0.31
30 10 0.29
31 14 0.40
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
TATTAAAATTATTTTTTTAAAATAATAAAAT
Found at i:25423140 original size:29 final size:29
Alignment explanation
Indices: 25423067--25423140 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
25423057 CAACAAATGA
*
25423067 TATTAAAATTATTTTTTAAAATATAAAAT
1 TATTAAAATAATTTTTTAAAATATAAAAT
* *
25423096 TATTAAAATTATTTTTTTGAAATAATAAAAT
1 TATTAAAA-TAATTTTTTAAAAT-ATAAAAT
25423127 TATT-AAATAATTTT
1 TATTAAAATAATTTT
25423141 AATTTCCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.36
30 14 0.36
31 11 0.28
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (29 bp):
TATTAAAATAATTTTTTAAAATATAAAAT
Found at i:25423140 original size:30 final size:30
Alignment explanation
Indices: 25423067--25423140 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
25423057 CAACAAATGA
*
25423067 TATTAAAATTA-TTTTTTAAAATATAAAAT
1 TATTAAAATAATTTTTTTAAAATATAAAAT
* *
25423096 TATTAAAATTATTTTTTTGAAATAATAAAAT
1 TATTAAAATAATTTTTTTAAAAT-ATAAAAT
25423127 TATT-AAATAATTTT
1 TATTAAAATAATTTT
25423141 AATTTCCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 11 0.27
30 19 0.46
31 11 0.27
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTAAAATAATTTTTTTAAAATATAAAAT
Found at i:25424026 original size:9 final size:9
Alignment explanation
Indices: 25424012--25424064 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
25424002 TTCAAAAAAA
25424012 AATAATTTT
1 AATAATTTT
25424021 AATAATTTT
1 AATAATTTT
25424030 -AT-ATTTT
1 AATAATTTT
25424037 AA-AA----
1 AATAATTTT
25424041 AATAATTTT
1 AATAATTTT
25424050 AATAATTTT
1 AATAATTTT
25424059 AA-AATT
1 AATAATT
25424065 ATTTGCTGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 5 0.14
8 8 0.22
9 20 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
AATAATTTT
Found at i:25424046 original size:20 final size:22
Alignment explanation
Indices: 25424021--25424062 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
25424011 AAATAATTTT
25424021 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
25424041 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
25424063 TTATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:25424047 original size:29 final size:31
Alignment explanation
Indices: 25423985--25424059 Score: 109
Period size: 29 Copynumber: 2.4 Consensus size: 31
25423975 ATTAAAATTA
25423985 TTTAATAATTTTATTATTTCAAAAAAAAATAAT
1 TTTAATAATTTTATTATTT--AAAAAAAATAAT
*
25424018 TTTAATAATTTTA-TATTT-TAAAAAATAAT
1 TTTAATAATTTTATTATTTAAAAAAAATAAT
25424047 TTTAATAATTTTA
1 TTTAATAATTTTA
25424060 AAATTATTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 23 0.56
32 5 0.12
33 13 0.32
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTAAAAAAAATAAT
Found at i:25424063 original size:20 final size:20
Alignment explanation
Indices: 25424012--25424068 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
25424002 TTCAAAAAAA
25424012 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
25424030 -AT-ATTTTAAAAAATAATTTT
1 AATAATTTT--AAAATAATTTT
*
25424050 AATAATTTTAAAATTATTT
1 AATAATTTTAAAATAATTT
25424069 GCTGACGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:25426715 original size:31 final size:32
Alignment explanation
Indices: 25426649--25426722 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
25426639 AAGAAAAGAT
* * *
25426649 AATAGTCCAGTGACTTAAAACAAAAAATTTTG
1 AATAGTTCAATGACTTAAAACAAAAAATTTCG
* *
25426681 AATAGTTCAATGACTT-AAATAAAAACTTTCG
1 AATAGTTCAATGACTTAAAACAAAAAATTTCG
25426712 AATAGTTCAAT
1 AATAGTTCAAT
25426723 AACCAAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (32 bp):
AATAGTTCAATGACTTAAAACAAAAAATTTCG
Found at i:25428222 original size:16 final size:16
Alignment explanation
Indices: 25428171--25428222 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25428161 TTTTAAAAAT
*
25428171 TTTTGTATATTATATTA
1 TTTTATATATT-TATTA
*
25428188 TTTTA-ATATTTAATAA
1 TTTTATATATTT-ATTA
*
25428204 TTTTATATATTTTTTA
1 TTTTATATATTTATTA
25428220 TTT
1 TTT
25428223 ATTGAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 18 0.62
17 10 0.34
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTATATATTTATTA
Found at i:25428225 original size:28 final size:28
Alignment explanation
Indices: 25428181--25428245 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
25428171 TTTTGTATAT
*
25428181 TATATTATTTTAATATTTAATAATTTTA
1 TATATTATTTTAATATTGAATAATTTTA
* **
25428209 TATATT-TTTTATTTATTGAATTTTTTTA
1 TATATTATTTTA-ATATTGAATAATTTTA
25428237 TATAATTAT
1 TAT-ATTAT
25428246 CTCAACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 5 0.17
28 21 0.70
29 3 0.10
30 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
TATATTATTTTAATATTGAATAATTTTA
Found at i:25439469 original size:22 final size:22
Alignment explanation
Indices: 25439423--25439474 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
25439413 GCACGTGTAA
* **
25439423 TGCTCTCTGATTAGCACATTTG
1 TGCTCTCCGATTAGCACATCGG
*
25439445 TGCTCTCCGATTAGCACCTCGG
1 TGCTCTCCGATTAGCACATCGG
25439467 TGCTCTCC
1 TGCTCTCC
25439475 ATTCATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.13, C:0.33, G:0.19, T:0.35
Consensus pattern (22 bp):
TGCTCTCCGATTAGCACATCGG
Found at i:25452998 original size:29 final size:29
Alignment explanation
Indices: 25452966--25453057 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
25452956 TGGATACCTA
25452966 GGGGCAAAATGGTAATTTTCAGTGAAATC
1 GGGGCAAAATGGTAATTTTCAGTGAAATC
* * ***
25452995 GGGGTTAAAAATGG-AATTTT-AGAGGCTTC
1 GGGG--CAAAATGGTAATTTTCAGTGAAATC
* *
25453024 GGGGGCAAAATGGTAATTTTCGGTGAAAAC
1 -GGGGCAAAATGGTAATTTTCAGTGAAATC
25453054 GGGG
1 GGGG
25453058 TTGAAAACGG
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
28 7 0.15
29 19 0.41
30 13 0.28
31 7 0.15
ACGTcount: A:0.32, C:0.09, G:0.34, T:0.26
Consensus pattern (29 bp):
GGGGCAAAATGGTAATTTTCAGTGAAATC
Found at i:25453029 original size:59 final size:59
Alignment explanation
Indices: 25452966--25453145 Score: 252
Period size: 59 Copynumber: 3.1 Consensus size: 59
25452956 TGGATACCTA
* *
25452966 GGGGCAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAGGCTTCG
1 GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCG
* * * *
25453025 GGGGCAAAATGGTAATTTTCGGTGAAAACGGGGTTGAAAACGGAATTTTAGAAGCTACG
1 GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCG
** * * * *
25453084 GGGTTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATAGAATTTTAGAAGATTCG
1 GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCG
25453143 GGG
1 GGG
25453146 AAAAAAATGA
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 105 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (59 bp):
GGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCG
Found at i:25453117 original size:30 final size:30
Alignment explanation
Indices: 25453030--25453122 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
25453020 CTTCGGGGGC
*
25453030 AAAATGGTAATTTTCGGTGAAAA-CGGGGTT
1 AAAATGGTAATTTTTGGT-AAAATCGGGGTT
* * **
25453060 GAAAACGG-AA-TTTTAG-AAGCTACGGGGTT
1 -AAAATGGTAATTTTTGGTAAAAT-CGGGGTT
25453089 AAAATGGTAATTTTTGGTAAAATCGGGGTT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTT
25453119 AAAA
1 AAAA
25453123 ATAGAATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 13 0.27
30 18 0.38
31 9 0.19
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTT
Found at i:25453144 original size:29 final size:28
Alignment explanation
Indices: 25452993--25453145 Score: 92
Period size: 29 Copynumber: 5.2 Consensus size: 28
25452983 TTCAGTGAAA
* *
25452993 TCGGGGTTAAAAATGGAATTTTAGAGGCT
1 TCGGGGTT-AAAATGGAATTTTAGAAGAT
** * ** *
25453022 TCGGGGGCAAAATGGTAATTTTCGGTGAAA
1 TCGGGGTTAAAATGG-AATTTTAGAAG-AT
* * *
25453052 ACGGGGTTGAAAACGGAATTTTAGAAGCT
1 TCGGGGTT-AAAATGGAATTTTAGAAGAT
* * *
25453081 ACGGGGTTAAAATGGTAATTTTTGGTAA-AA
1 TCGGGGTTAAAATGG-AA-TTTTAG-AAGAT
*
25453111 TCGGGGTTAAAAATAGAATTTTAGAAGAT
1 TCGGGGTT-AAAATGGAATTTTAGAAGAT
25453140 TCGGGG
1 TCGGGG
25453146 AAAAAAATGA
Statistics
Matches: 92, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
28 15 0.16
29 36 0.39
30 27 0.29
31 14 0.15
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (28 bp):
TCGGGGTTAAAATGGAATTTTAGAAGAT
Found at i:25453184 original size:30 final size:30
Alignment explanation
Indices: 25453149--25453391 Score: 308
Period size: 30 Copynumber: 8.0 Consensus size: 30
25453139 TTCGGGGAAA
*
25453149 AAAATGATAATTTTTG-AAAGTTTTGGGGTC
1 AAAATG-TAATTTTGGAAAAGTTTTGGGGTC
*
25453179 GAAATGTAATTTTGGAAAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGG--AAAAGTTTTGGGGTC
* * *
25453211 AAAATATAATTTTGGAGAAGTTTCGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* ** *
25453241 AAAATATAATTTTGGAAAAGTTTTAAGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
25453271 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
25453301 AAAATGTAATTTTGGAAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
25453331 AAAATGTAATTTTGGTAGAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
** *
25453361 AAAATGTAATTTTAAAAAAAGTTTCGGGGTC
1 AAAATGTAATTTT-GGAAAAGTTTTGGGGTC
25453392 GAAAGATGAT
Statistics
Matches: 185, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
29 8 0.04
30 138 0.75
31 12 0.06
32 27 0.15
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:25454285 original size:16 final size:16
Alignment explanation
Indices: 25454264--25454294 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25454254 TTTACTTTTC
25454264 AAAACCCAGATCTGGG
1 AAAACCCAGATCTGGG
25454280 AAAACCCAGATCTGG
1 AAAACCCAGATCTGG
25454295 AAACGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAACCCAGATCTGGG
Found at i:25455024 original size:18 final size:15
Alignment explanation
Indices: 25454991--25455021 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25454981 ATGGTGGATG
25454991 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
25455006 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
25455021 G
1 G
25455022 CAGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:25455126 original size:14 final size:14
Alignment explanation
Indices: 25455107--25455142 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
25455097 AGGGTTAAAA
25455107 TGGGCCAAGGGGTT
1 TGGGCCAAGGGGTT
25455121 TGGGCCAAGGGGTT
1 TGGGCCAAGGGGTT
25455135 TGGGCCAA
1 TGGGCCAA
25455143 TTGGGCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.19
Consensus pattern (14 bp):
TGGGCCAAGGGGTT
Found at i:25455283 original size:6 final size:6
Alignment explanation
Indices: 25455274--25455367 Score: 61
Period size: 6 Copynumber: 15.8 Consensus size: 6
25455264 ACTTTTAATG
** ** *
25455274 TTAAAT TTAATAT TTTGAT TTTTAT TTAAAT TTAAAT TCAAA- TTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
25455322 TTAAATAT TTAAAT TTAAA- ATAAAT CTAAAT TCAAA- -TAAAT TTAAA
1 TT-AA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
25455368 AATCAATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
4 3 0.04
5 8 0.12
6 46 0.67
7 8 0.12
8 4 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:25455331 original size:25 final size:25
Alignment explanation
Indices: 25455303--25455352 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25455293 TTTTATTTAA
* *
25455303 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
25455328 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
25455353 TCAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:25455331 original size:31 final size:31
Alignment explanation
Indices: 25455296--25455359 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
25455286 TTTTGATTTT
* *
25455296 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTCAAA
25455327 TATTTAAATTTAAAATAAATCTAAATTCAAA
1 TATTTAAATTTAAAATAAATCTAAATTCAAA
25455358 TA
1 TA
25455360 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:25455740 original size:68 final size:68
Alignment explanation
Indices: 25455659--25456594 Score: 987
Period size: 68 Copynumber: 13.5 Consensus size: 68
25455649 CTTTGCTATC
* * * *
25455659 CCACTTTACTTCAATTTCAAGAGGATGACGTTGTTCTTACTTCAATTTCAGAGATGAAGATGTGT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25455724 TAT
66 TAT
*
25455727 CCACTCTACTTCAATTTCAGAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACGTG
1 CCACTCTACTTCAATTTCA-AGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTG
25455792 TTAT
65 TTAT
* * *
25455796 CCACTCCACTTCAATTTCAAGGGGATGAAGTTGCTCTTACTTCAATTTCGGAGATGAAGACGTGT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25455861 TAT
66 TAT
* * *
25455864 CCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25455929 TAT
66 TAT
* * * * *
25455932 CCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGG
1 CCACTCTACTTCAATTTCAAGGG--GATGAC--G-T-TGCTCT-TACTTCAATTTC-A-GAGATG
*
25455997 AAGACGTATTAT
57 AAGACGTGTTAT
* * * * *
25456009 CCACTCTACTTCAATTTCAAAGGGGACG-TGTTATCCACTCTACTTCAATTTCA-AG--G--G-G
1 CCACTCTACTTCAATTTC-AAGGGGATGACG-T-TGCTCT-TACTTCAATTTCAGAGATGAAGAC
**
25456067 GTGACAT
62 GTGTTAT
** ** * * * *
25456074 -TGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTCTACTTCAATTTCAAGGGATGA
1 CCACTC-TACTTCAATTTCA-AGGGGATGACG---T-TGCTCT-TACTTCAATTTC-AGAGATGA
25456138 AGACGTGTTAT
58 AGACGTGTTAT
* * * * *
25456149 CCACTCTACTTCAATTTCAAGGGGAGGAATACGTATTATCCACTCTACATCAATTTCA-A-A-GG
1 CCACTCTACTTCAATTTCAAGGGGATG---ACG---T-TGCTCT-TACTTCAATTTCAGAGATGA
*
25456211 GGACGTGTTAT
58 AGACGTGTTAT
* *
25456222 CCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25456287 TAT
66 TAT
* *
25456290 CCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25456355 TAT
66 TAT
* * * * ** *
25456358 CCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCGGAGATAAAGATTTGA
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25456423 TAT
66 TAT
*
25456426 CCAACTCTACTTCAATTTCAA-GGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTG
1 CC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTG
*
25456490 TTGT
65 TTAT
* * * * *
25456494 CCACCCTACTTCAATTTCGAGGAGATGACGTTGTTCTTACTTCAATTTCAGAGATAAAGACGTGT
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
25456559 TAT
66 TAT
* *
25456562 CCACTCTACTTCAATTTCGAGGAGATGACGTTG
1 CCACTCTACTTCAATTTCAAGGGGATGACGTTG
25456595 AGACCTACAG
Statistics
Matches: 758, Mismatches: 78, Indels: 64
0.84 0.09 0.07
Matches are distributed among these distances:
64 4 0.01
65 33 0.04
66 7 0.01
67 18 0.02
68 432 0.57
69 82 0.11
70 8 0.01
72 2 0.00
73 60 0.08
74 11 0.01
75 30 0.04
76 8 0.01
77 58 0.08
78 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (68 bp):
CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGT
TAT
Found at i:25456075 original size:179 final size:178
Alignment explanation
Indices: 25455765--25456312 Score: 898
Period size: 179 Copynumber: 3.1 Consensus size: 178
25455755 ACGTTGCTCT
* *
25455765 TACTTCAATTTC--GGAGATGAAGACGTGTTATCCACTCCACTTCAATTTCAAGGGGATG-AA-G
1 TACTTCAATTTCAAGG-GATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAAACG
* * * **
25455826 ---T-TGCTCT-TACTTCAATTTCGGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
65 TATTATCCACTCTACTTCAATTTC--A-AAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGG
25455886 GGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
127 GGGTGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
25455938 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAAGACG
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAA-ACG
25456003 TATTATCCACTCTACTTCAATTTCAAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGG
65 TATTATCCACTCTACTTCAATTTCAAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGG
25456068 TGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
130 TGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
25456117 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAATACG
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAA-ACG
*
25456182 TATTATCCACTCTACATCAATTTCAAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGG
65 TATTATCCACTCTACTTCAATTTCAAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGG
*
25456247 TGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
130 TGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
25456296 TACTTCAATTTCAAGGG
1 TACTTCAATTTCAAGGG
25456313 GGTGACATTG
Statistics
Matches: 355, Mismatches: 10, Indels: 14
0.94 0.03 0.04
Matches are distributed among these distances:
173 12 0.03
174 41 0.12
175 3 0.01
176 1 0.00
177 1 0.00
179 279 0.79
180 2 0.01
181 4 0.01
182 12 0.03
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (178 bp):
TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAAACGT
ATTATCCACTCTACTTCAATTTCAAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGT
GACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCACTC
Found at i:25456264 original size:31 final size:31
Alignment explanation
Indices: 25456228--25456406 Score: 128
Period size: 31 Copynumber: 5.4 Consensus size: 31
25456218 TTATCCACTC
25456228 TACTTCAATTTCAAGGGGGTGACATTGCTCT
1 TACTTCAATTTCAAGGGGGTGACATTGCTCT
* ** * *
25456259 TACTTCAATTTCAGAGATGAAGACGTGTTA-TCCACT
1 TACTTCAATTTCA-AG--G--G-GGTGACATTGCTCT
25456295 CTACTTCAATTTCAAGGGGGTGACATTGCTCT
1 -TACTTCAATTTCAAGGGGGTGACATTGCTCT
* ** * *
25456327 TACTTCAATTTCAGAGATGAAGACGTGTTA-TCCACT
1 TACTTCAATTTCA-AG--G--G-GGTGACATTGCTCT
25456363 CTACTTCAATTTCAAGGGGGTGACATTGCTCT
1 -TACTTCAATTTCAAGGGGGTGACATTGCTCT
25456395 TACTTCAATTTC
1 TACTTCAATTTC
25456407 GGAGATAAAG
Statistics
Matches: 112, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
31 46 0.41
32 14 0.12
34 4 0.04
36 14 0.12
37 34 0.30
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGGTGACATTGCTCT
Found at i:25456286 original size:247 final size:240
Alignment explanation
Indices: 25455720--25456446 Score: 901
Period size: 247 Copynumber: 3.0 Consensus size: 240
25455710 AGATGAAGAT
* * *
25455720 GTGTTATCCACTCTACTTCAATTTCAGAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGA
1 GTGTTATCCACTCTACTTCAATTTCA-AGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGA
* * *
25455785 AGACGTGTTATCCACTCCACTTCAATTTCAAGGGGATGA-AGTTGCTCTTACTTCAATTTCGGAG
65 AGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACA-TTGCTCTTACTTCAATTTCAGAG
** * *
25455849 ATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCA
129 ATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAAGACATTCCACTTACTTCAATTTCA
* * * *
25455914 GAGATGAAGACGTTTTATCCACTCTACTTCAATTTCAAGGGATGAAGAC
194 GAGAGGAAGACGTATTATCCACTCTACATCAATTTCAAAGGA-G-AGAC
* * *
25455963 GTGTTATCCACTCTACTTCAATTTCAAGGGGAGGAAGACGTATTATCCACTCTACTTCAATTTCA
1 GTGTTATCCACTCTACTTCAATTTCAA-GGG-GG-TGAC--A-T-TGCTCT-TACTTCAATTTCA
**
25456028 -A-A-GGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATT
58 GAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATT
* *
25456090 TCAGAGATGAAGACGTTTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
123 TCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG--GAAGAC---AT-TCCACT-
* *
25456155 TACTTCAATTTCAAGGGGAGGAATACGTATTATCCACTCTACATCAATTTCAAAGG-G-GAC
181 TACTTCAATTTC-A-GAGAGGAAGACGTATTATCCACTCTACATCAATTTCAAAGGAGAGAC
25456215 GTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
25456280 GACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGAT
66 GACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGAT
** * * *
25456345 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCGGA
131 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAAGACATTCCACTTACTTCAATTTCAGA
** ** *
25456410 GATAAAGATTTGA-TATCCAACTCTACTTCAATTTCAA
196 GAGGAAGACGT-ATTATCC-ACTCTACATCAATTTCAA
25456447 GGGATGGCGT
Statistics
Matches: 419, Mismatches: 42, Indels: 50
0.82 0.08 0.10
Matches are distributed among these distances:
238 12 0.03
239 18 0.04
240 12 0.03
241 4 0.01
242 2 0.00
243 29 0.07
244 14 0.03
245 12 0.03
246 2 0.00
247 198 0.47
248 3 0.01
249 12 0.03
250 14 0.03
251 3 0.01
252 31 0.07
253 4 0.01
254 13 0.03
255 1 0.00
256 35 0.08
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (240 bp):
GTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGATGAA
GACGTGTTATCCACTCTACTTCAATTTCAAGGGGGTGACATTGCTCTTACTTCAATTTCAGAGAT
GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAAGACATTCCACTTACTTCAATTTCAGA
GAGGAAGACGTATTATCCACTCTACATCAATTTCAAAGGAGAGAC
Found at i:25456535 original size:31 final size:31
Alignment explanation
Indices: 25456433--25456594 Score: 91
Period size: 37 Copynumber: 4.8 Consensus size: 31
25456423 TATCCAACTC
* *
25456433 TACTTCAATTTCAAGG-GATGGCGTTG-CTCT
1 TACTTCAATTTC-AGGAGATGACGTTGTATCT
* * *
25456463 TACTTCAATTTCAGAGATGAAGACGTGTTGTCCACCC
1 TACTTCAATTTCAG-GA-GATGAC--GTTGT--ATCT
25456500 TACTTCAATTTCGAGGAGATGACGTTGT-TCT
1 TACTTCAATTTC-AGGAGATGACGTTGTATCT
25456531 TACTTCAATTTCA-GAGATAAAGACG-TGTTATCCACT
1 TACTTCAATTTCAGGAGAT---GACGTTG-TAT---CT
25456567 CTACTTCAATTTCGAGGAGATGACGTTG
1 -TACTTCAATTTC-AGGAGATGACGTTG
25456595 AGACCTACAG
Statistics
Matches: 103, Mismatches: 8, Indels: 35
0.71 0.05 0.24
Matches are distributed among these distances:
29 7 0.07
30 14 0.14
31 15 0.15
32 9 0.09
33 1 0.01
34 9 0.09
36 11 0.11
37 29 0.28
38 3 0.03
39 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAGGAGATGACGTTGTATCT
Found at i:25468692 original size:29 final size:29
Alignment explanation
Indices: 25468602--25468692 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
25468592 GGATACCCGA
*
25468602 GGGCAAAATGGTAATTTTTGATGAAATCG
1 GGGCAAAATGGTAATTTTTGGTGAAATCG
* * **
25468631 GGGTTAAAAATGG-AATTTTAGAG-G-CTTCGG
1 GGG--CAAAATGGTAATTTTTG-GTGAAATC-G
25468661 GGGCAAAATGGTAATTTTTGGTGAAATCG
1 GGGCAAAATGGTAATTTTTGGTGAAATCG
25468690 GGG
1 GGG
25468693 TTAAAAAACG
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
28 8 0.17
29 17 0.37
30 14 0.30
31 7 0.15
ACGTcount: A:0.31, C:0.07, G:0.33, T:0.30
Consensus pattern (29 bp):
GGGCAAAATGGTAATTTTTGGTGAAATCG
Found at i:25468761 original size:30 final size:30
Alignment explanation
Indices: 25468726--25468968 Score: 317
Period size: 30 Copynumber: 8.0 Consensus size: 30
25468716 TTTGGGGAAA
* *
25468726 AAAATGATAATTTTTG-AAAGTTTTAGGGTC
1 AAAATG-TAATTTTGGAAAAGTTTTGGGGTC
*
25468756 GAAATGTAATTTTGGAAAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGG--AAAAGTTTTGGGGTC
* *
25468788 AAAATATAATTTTGGAAAAGTTTCGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
25468818 AAAATATAATTTTGGAAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
25468848 AAAATGTAATTTTGGAAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
25468878 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
25468908 AAAATGTAATTTTGGCAGAGTTTTTGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
** *
25468938 AAAATGTAATTTTAAAAAAAGTTTCGGGGTC
1 AAAATGTAATTTT-GGAAAAGTTTTGGGGTC
25468969 GAAAGATGAT
Statistics
Matches: 188, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.04
30 143 0.76
31 11 0.06
32 26 0.14
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:25469857 original size:16 final size:16
Alignment explanation
Indices: 25469836--25469866 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25469826 TTTACTTTTC
25469836 AAAACCCAGATCTGGG
1 AAAACCCAGATCTGGG
25469852 AAAACCCAGATCTGG
1 AAAACCCAGATCTGG
25469867 AAACGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAACCCAGATCTGGG
Found at i:25470594 original size:18 final size:15
Alignment explanation
Indices: 25470561--25470591 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25470551 ATGGTGGATG
25470561 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
25470576 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
25470591 G
1 G
25470592 CAGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:25470839 original size:6 final size:6
Alignment explanation
Indices: 25470830--25470923 Score: 61
Period size: 6 Copynumber: 15.8 Consensus size: 6
25470820 ACTTTTAATG
** ** *
25470830 TTAAAT TTAATAT TTTGAT TTTTAT TTAAAT TTAAAT TCAAA- TTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
25470878 TTAAATAT TTAAAT TTAAA- ATAAAT CTAAAT TCAAA- -TAAAT TTAAA
1 TT-AA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
25470924 AATCAATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
4 3 0.04
5 8 0.12
6 46 0.67
7 8 0.12
8 4 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:25470887 original size:25 final size:25
Alignment explanation
Indices: 25470859--25470908 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25470849 TTTTATTTAA
* *
25470859 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
25470884 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
25470909 TCAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:25470887 original size:31 final size:31
Alignment explanation
Indices: 25470852--25470915 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
25470842 TTTTGATTTT
* *
25470852 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTCAAA
25470883 TATTTAAATTTAAAATAAATCTAAATTCAAA
1 TATTTAAATTTAAAATAAATCTAAATTCAAA
25470914 TA
1 TA
25470916 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:25477011 original size:15 final size:15
Alignment explanation
Indices: 25476991--25477019 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25476981 TACGTCAAGC
25476991 AATTTCAATCCTAAA
1 AATTTCAATCCTAAA
25477006 AATTTCAATCCTAA
1 AATTTCAATCCTAA
25477020 TGCGCGCTTT
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:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTTCAATCCTAAA
Found at i:25483667 original size:122 final size:124
Alignment explanation
Indices: 25483455--25483689 Score: 411
Period size: 122 Copynumber: 1.9 Consensus size: 124
25483445 TGAGTCGTAT
* * * *
25483455 TAATCGTGTGTATTGATCGGATTTTACCTTGTTATTATAATTCAAAAAAATATCATAAAGACAAA
1 TAATCGCGTGTATTGATCAGATTTTACCTTATTATTAGAATTCAAAAAAATATCATAAAGACAAA
25483520 AGTTTAATGCAAATAACAAAATTCGAAAATATAAATGATTGTATAATTTTGAGTAGCAC
66 AGTTTAATGCAAATAACAAAATTCGAAAATATAAATGATTGTATAATTTTGAGTAGCAC
*
25483579 TAATCGCGTGTATTGTTCAGATTTTACCTTATTATTAGAATT-AAAAAAA-ATCATAAAGACAAA
1 TAATCGCGTGTATTGATCAGATTTTACCTTATTATTAGAATTCAAAAAAATATCATAAAGACAAA
25483642 AGTTTAATGCAAATAACAAAATTCGAAAATATAAATGATTGTATAATT
66 AGTTTAATGCAAATAACAAAATTCGAAAATATAAATGATTGTATAATT
25483690 AAAAAACAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
122 62 0.58
123 7 0.07
124 37 0.35
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (124 bp):
TAATCGCGTGTATTGATCAGATTTTACCTTATTATTAGAATTCAAAAAAATATCATAAAGACAAA
AGTTTAATGCAAATAACAAAATTCGAAAATATAAATGATTGTATAATTTTGAGTAGCAC
Found at i:25484514 original size:18 final size:19
Alignment explanation
Indices: 25484485--25484522 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25484475 AAATAGTAAC
25484485 TTTTAAATGGGAAATATAT
1 TTTTAAATGGGAAATATAT
*
25484504 TTTTAAA-GGGAAATTTAT
1 TTTTAAATGGGAAATATAT
25484522 T
1 T
25484523 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (19 bp):
TTTTAAATGGGAAATATAT
Found at i:25502021 original size:18 final size:21
Alignment explanation
Indices: 25501994--25502034 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
25501984 ATCTTTTTGC
25501994 TTTTTAAAATTA-AATTT-TA
1 TTTTTAAAATTAGAATTTATA
25502013 TTTTT-AAATTAGAATTTATA
1 TTTTTAAAATTAGAATTTATA
25502033 TT
1 TT
25502035 ATTACAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTAAAATTAGAATTTATA
Found at i:25502862 original size:3 final size:3
Alignment explanation
Indices: 25502854--25502924 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
25502844 GTCTCACGAT
25502854 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
25502902 AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AG
25502925 GGGGTTAGAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25503715 original size:17 final size:17
Alignment explanation
Indices: 25503690--25503731 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25503680 GAAAAAAGTA
*
25503690 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
25503708 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
25503725 GTTAAAG
1 GTTAAAG
25503732 GTCAAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:25509050 original size:29 final size:29
Alignment explanation
Indices: 25508942--25509053 Score: 161
Period size: 29 Copynumber: 3.8 Consensus size: 29
25508932 ATAATTTTAG
* *
25508942 AAAGTTTAAGGGTAAAAATGTAATTTTGGG
1 AAAGTTT-AGGGTAAAAATGTGATTTTGGA
* *
25508972 AAAGTTTGGGGTCAAAATGTGATTTTGGA
1 AAAGTTTAGGGTAAAAATGTGATTTTGGA
* *
25509001 GAAGTTTAGGGTTAAAATGTGATTTTGGA
1 AAAGTTTAGGGTAAAAATGTGATTTTGGA
25509030 AAAGTTTAGGGTAAAAATGTGATT
1 AAAGTTTAGGGTAAAAATGTGATT
25509054 CTTAGGAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 66 0.90
30 7 0.10
ACGTcount: A:0.36, C:0.01, G:0.29, T:0.35
Consensus pattern (29 bp):
AAAGTTTAGGGTAAAAATGTGATTTTGGA
Found at i:25510691 original size:19 final size:20
Alignment explanation
Indices: 25510647--25510694 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
25510637 ATGAAATTTT
*
25510647 TAAATTTAAAAATGTATTAG
1 TAAATTTAAAAATGTATAAG
* *
25510667 -ACATTTAAAAATTTA-AAG
1 TAAATTTAAAAATGTATAAG
25510685 TAAATTTAAA
1 TAAATTTAAA
25510695 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (20 bp):
TAAATTTAAAAATGTATAAG
Found at i:25510708 original size:17 final size:17
Alignment explanation
Indices: 25510675--25510709 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25510665 AGACATTTAA
*
25510675 AAATTTAAAGTAAATTT
1 AAATTTAAAATAAATTT
*
25510692 AAATTTAAAATATATTT
1 AAATTTAAAATAAATTT
25510709 A
1 A
25510710 TTATTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATTTAAAATAAATTT
Found at i:25511285 original size:39 final size:38
Alignment explanation
Indices: 25511242--25511508 Score: 186
Period size: 39 Copynumber: 6.9 Consensus size: 38
25511232 GCTGATAGTG
25511242 ATCTGCCCTAGGCTCGGTGTAAAAGATCGGATGACTGCA
1 ATCTGCCCTAGGCTCGG-GTAAAAGATCGGATGACTGCA
* * * **
25511281 ATCTG-CCTCAGGCTCGAGGTAAGAGATTGGCTGA-TGGTG
1 ATCTGCCCT-AGGCTCG-GGTAAAAGATCGGATGACT-GCA
* *
25511320 ATCTG-TCTCATGCTCGGGGTAAAAGATCGGATGACTGCA
1 ATCTGCCCT-AGGCTC-GGGTAAAAGATCGGATGACTGCA
* * * * *
25511359 ATCTGCCCCAAGTTCGGGATAAAAGATCAGATGGCTGCA
1 ATCTGCCCTAGGCTCGGG-TAAAAGATCGGATGACTGCA
* * * * **
25511398 ATCTG-CCTCAGGCTTAGGGTAAGAGATTGGCTGA-TAGTG
1 ATCTGCCCT-AGGC-TCGGGTAAAAGATCGGATGACT-GCA
* * *
25511437 ATCTGCCC-AGGCTTAGGGTAAAAGATCAGATGGCTGCA
1 ATCTGCCCTAGGC-TCGGGTAAAAGATCGGATGACTGCA
*
25511475 ATCTGCCTTAGGCTCGGGGTAAAAGATCGGATGA
1 ATCTGCCCTAGGCTC-GGGTAAAAGATCGGATGA
25511509 TTGTGACCCG
Statistics
Matches: 174, Mismatches: 40, Indels: 28
0.72 0.17 0.12
Matches are distributed among these distances:
38 39 0.22
39 125 0.72
40 10 0.06
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (38 bp):
ATCTGCCCTAGGCTCGGGTAAAAGATCGGATGACTGCA
Found at i:25511310 original size:78 final size:78
Alignment explanation
Indices: 25511220--25511365 Score: 240
Period size: 78 Copynumber: 1.9 Consensus size: 78
25511210 CCTGTCGCGG
*
25511220 GGTAAGAGATTGGCTGATAGTGATCTGCC-CTAGGCTCGGTGTAAAAGATCGGATGACTGCAATC
1 GGTAAGAGATTGGCTGATAGTGATCTGCCTC-AGGCTCGGGGTAAAAGATCGGATGACTGCAATC
25511284 TGCCTCAGGCTCGA
65 TGCCTCAGGCTCGA
* * *
25511298 GGTAAGAGATTGGCTGATGGTGATCTGTCTCATGCTCGGGGTAAAAGATCGGATGACTGCAATCT
1 GGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGACTGCAATCT
25511363 GCC
66 GCC
25511366 CCAAGTTCGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 62 0.98
79 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (78 bp):
GGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGACTGCAATCT
GCCTCAGGCTCGA
Found at i:25511382 original size:117 final size:116
Alignment explanation
Indices: 25511242--25511508 Score: 340
Period size: 117 Copynumber: 2.3 Consensus size: 116
25511232 GCTGATAGTG
* *
25511242 ATCTGCCCTAGGCTCGGTG-TAAAAGATCGGATGACTGCAATCTGCCTCAGGCTCGA-GGTAAGA
1 ATCTGCCCCAAGCTCGG-GATAAAAGATCGGATGACTGCAATCTGCCTCAGGCT-GAGGGTAAGA
* * * * *
25511305 GATTGGCTGATGGTGATCTGTCTCATGCTCGGGGTAAAAGATCGGATGACTGCA
64 GATTGGCTGATAGTGATCTG-CCCAGGCTCAGGGTAAAAGATCAGATGACTGCA
* * * *
25511359 ATCTGCCCCAAGTTCGGGATAAAAGATCAGATGGCTGCAATCTGCCTCAGGCTTAGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGATAAAAGATCGGATGACTGCAATCTGCCTCAGGCTGAGGGTAAGAGA
* *
25511424 TTGGCTGATAGTGATCTGCCCAGGCTTAGGGTAAAAGATCAGATGGCTGCA
66 TTGGCTGATAGTGATCTGCCCAGGCTCAGGGTAAAAGATCAGATGACTGCA
** * *
25511475 ATCTGCCTTAGGCTCGGGGTAAAAGATCGGATGA
1 ATCTGCCCCAAGCTCGGGATAAAAGATCGGATGA
25511509 TTGTGACCCG
Statistics
Matches: 128, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
116 56 0.44
117 72 0.56
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (116 bp):
ATCTGCCCCAAGCTCGGGATAAAAGATCGGATGACTGCAATCTGCCTCAGGCTGAGGGTAAGAGA
TTGGCTGATAGTGATCTGCCCAGGCTCAGGGTAAAAGATCAGATGACTGCA
Found at i:25511402 original size:78 final size:77
Alignment explanation
Indices: 25511242--25511508 Score: 267
Period size: 78 Copynumber: 3.4 Consensus size: 77
25511232 GCTGATAGTG
* * * *
25511242 ATCTGCC-CTAGGCTCGGTGTAAAAGATCGGATGACTGCAATCTGCCTCAGGCTCGAGGTAAGAG
1 ATCTGCCTC-AGGCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAGGTTCG-GGTAAAAG
*
25511306 ATTGGCTGATGG-TG--
64 A-T--CAGATGGCTGCA
* * *
25511320 ATCTGTCTCATGCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAAGTTCGGGATAAAAGA
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAGGTTCGGG-TAAAAGA
25511385 TCAGATGGCTGCA
65 TCAGATGGCTGCA
** * * * ** *
25511398 ATCTGCCTCAGGCTTAGGGTAAGAGATTGGCTGA-TAGTGATCTG-CCCAGGCTTAGGGTAAAAG
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGACT-GCAATCTGCCCCAGG-TTCGGGTAAAAG
25511461 ATCAGATGGCTGCA
64 ATCAGATGGCTGCA
*
25511475 ATCTGCCTTAGGCTCGGGGTAAAAGATCGGATGA
1 ATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGA
25511509 TTGTGACCCG
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
75 6 0.04
76 2 0.01
77 57 0.36
78 91 0.58
79 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (77 bp):
ATCTGCCTCAGGCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAGGTTCGGGTAAAAGAT
CAGATGGCTGCA
Found at i:25527637 original size:29 final size:28
Alignment explanation
Indices: 25527566--25527877 Score: 193
Period size: 29 Copynumber: 10.7 Consensus size: 28
25527556 TGGAAAATTA
*
25527566 AGGGT-AAAATGGTAATTTTTGGATGCTT-
1 AGGGTAAAAAT-GTAATTTTTGGAAG-TTG
*
25527594 AGGGGT-AAAATGGTGATTTTTGGAAGTTCG
1 A-GGGTAAAAAT-GTAATTTTTGGAAGTT-G
* * ** *
25527624 AGGGT-AAAATGGTGACTTTTAAAAGTTA
1 AGGGTAAAAAT-GTAATTTTTGGAAGTTG
* * *
25527652 AGGGGCAAAAATGTAATATTTGAGAAGTTT
1 A-GGGTAAAAATGTAATTTTTG-GAAGTTG
* *
25527682 AGGGGTAAAAATGTGATTTTTGGAAGTACG
1 A-GGGTAAAAATGTAATTTTTGGAAGT-TG
**
25527712 AGGGTAAAAATGCGATTTTTGGAAGTTTG
1 AGGGTAAAAATGTAATTTTTGGAAG-TTG
* *
25527741 AGGGCAAAAATGTAATTTTTGAGAAGTTT
1 AGGGTAAAAATGTAATTTTTG-GAAGTTG
*
25527770 AGGGTAAAAATGTAATTTTTAAGAAGTTTG
1 AGGGTAAAAATGTAATTTTT-GGAAG-TTG
* * *
25527800 GGGGTCAAAATTTAATTTTTGGAAAGTTTG
1 AGGGTAAAAATGTAATTTTTGG-AAG-TTG
* * * *
25527830 ATGGTCAAACTGTAAATTTTGGAAAGTTCG
1 AGGGTAAAAATGTAATTTTTGG-AAGTT-G
* *
25527860 -GGGTCAAAATGTGATTTT
1 AGGGTAAAAATGTAATTTT
25527878 AAGAAAATTT
Statistics
Matches: 231, Mismatches: 40, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.02
29 143 0.62
30 84 0.36
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (28 bp):
AGGGTAAAAATGTAATTTTTGGAAGTTG
Found at i:25527691 original size:88 final size:87
Alignment explanation
Indices: 25527592--25527789 Score: 258
Period size: 88 Copynumber: 2.3 Consensus size: 87
25527582 TTTTGGATGC
* *
25527592 TTAGGGGTAAAATGGTGATTTTTGGAAGTTCGAGGGT-AAAATGGTGACTTTTAAAAGTTA-AGG
1 TTAGGGGTAAAAT-GTGATTTTTGGAAGTACGAGGGTAAAAAT-GCGACTTTTAAAAGTTAGA-G
25527655 GGCAAAAATGTAATATTTGAGAAGT
63 GGCAAAAATGTAATATTTGAGAAGT
* ** *
25527680 TTAGGGGTAAAAATGTGATTTTTGGAAGTACGAGGGTAAAAATGCGATTTTTGGAAGTTTGAGGG
1 TTAGGGGT-AAAATGTGATTTTTGGAAGTACGAGGGTAAAAATGCGACTTTTAAAAGTTAGAGGG
*
25527745 CAAAAATGTAATTTTTGAGAAGT
65 CAAAAATGTAATATTTGAGAAGT
*
25527768 TTA-GGGTAAAAATGTAATTTTT
1 TTAGGGGT-AAAATGTGATTTTT
25527790 AAGAAGTTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
87 18 0.18
88 70 0.71
89 11 0.11
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (87 bp):
TTAGGGGTAAAATGTGATTTTTGGAAGTACGAGGGTAAAAATGCGACTTTTAAAAGTTAGAGGGC
AAAAATGTAATATTTGAGAAGT
Found at i:25527721 original size:59 final size:57
Alignment explanation
Indices: 25527658--25527877 Score: 192
Period size: 59 Copynumber: 3.8 Consensus size: 57
25527648 GTTAAGGGGC
* *
25527658 AAAAATGTAATATTTGAGAAGTTTAGGGGTAAAAATGTGATTTTTGGAAGTACGAGGGT
1 AAAAATGTAATTTTTGAGAAGTTT-GGGGTAAAAATGTAATTTTTGGAAGT-CGAGGGT
** * **
25527717 AAAAATGCGATTTTTG-GAAGTTTGAGGGCAAAAATGTAATTTTTGAGAAGTTTAGGGT
1 AAAAATGTAATTTTTGAGAAGTTTG-GGGTAAAAATGTAATTTTTG-GAAGTCGAGGGT
* * * * *
25527775 AAAAATGTAATTTTTAAGAAGTTTGGGGGTCAAAATTTAATTTTTGGAAAGTTTGATGGT
1 AAAAATGTAATTTTTGAGAAGTTT-GGGGTAAAAATGTAATTTTTGG-AAG-TCGAGGGT
* * * * * *
25527835 CAAACTGTAAATTTTG-GAAAGTTCGGGGTCAAAATGTGATTTT
1 AAAAATGTAATTTTTGAG-AAGTTTGGGGTAAAAATGTAATTTT
25527878 AAGAAAATTT
Statistics
Matches: 132, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 44 0.33
59 63 0.48
60 24 0.18
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (57 bp):
AAAAATGTAATTTTTGAGAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTCGAGGGT
Found at i:25527883 original size:29 final size:29
Alignment explanation
Indices: 25527747--25527883 Score: 91
Period size: 30 Copynumber: 4.7 Consensus size: 29
25527737 TTTGAGGGCA
* ** *
25527747 AAAATGTAATTTT-TGAGAAGTTTAGGGTA
1 AAAATGTAATTTTAAGA-AAGTTCGGGGTC
*
25527776 AAAATGTAATTTTTAAG-AAGTTTGGGGGTC
1 AAAATGTAA-TTTTAAGAAAG-TTCGGGGTC
* ** * *
25527806 AAAATTTAATTTTTGGAAAGTTTGATGGTC
1 AAAATGTAATTTTAAGAAAGTTCG-GGGTC
* *
25527836 AAACTGTAAATTTT-GGAAAGTTCGGGGTC
1 AAAATGT-AATTTTAAGAAAGTTCGGGGTC
*
25527865 AAAATGTGATTTTAAGAAA
1 AAAATGTAATTTTAAGAAA
25527884 ATTTAGGAAC
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
28 5 0.06
29 34 0.40
30 39 0.46
31 7 0.08
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTAAGAAAGTTCGGGGTC
Found at i:25529493 original size:6 final size:6
Alignment explanation
Indices: 25529482--25529554 Score: 69
Period size: 6 Copynumber: 12.3 Consensus size: 6
25529472 TTGGACTTTT
** * *
25529482 AATTTA AATTTA AAAATA AATTTA AACTTA AA-TTA AATTTA AATCTAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT-TTA
* *
25529530 AATTTA AACTTA AA-ATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
25529555 AAATGGGTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 9 0.17
6 40 0.74
7 5 0.09
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (6 bp):
AATTTA
Found at i:25529505 original size:18 final size:18
Alignment explanation
Indices: 25529482--25529531 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
25529472 TTGGACTTTT
25529482 AATTTAAATTTAAAAATA
1 AATTTAAATTTAAAAATA
* *
25529500 AATTTAAACTT-AAATTA
1 AATTTAAATTTAAAAATA
*
25529517 AATTTAAATCTAAAA
1 AATTTAAATTTAAAA
25529532 TTTAAACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTAAATTTAAAAATA
Found at i:25529535 original size:30 final size:29
Alignment explanation
Indices: 25529480--25529556 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 29
25529470 TTTTGGACTT
*
25529480 TTAATTTAAATTTAAAAATAAATTTAAAC
1 TTAAATTAAATTTAAAAATAAATTTAAAC
**
25529509 TTAAATTAAATTTAAATCTAAAATTTAAAC
1 TTAAATTAAATTTAAAAAT-AAATTTAAAC
*
25529539 TTAAAATAAATTTAAAAA
1 TTAAATTAAATTTAAAAA
25529557 ATGGGTTTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
TTAAATTAAATTTAAAAATAAATTTAAAC
Found at i:25529548 original size:18 final size:17
Alignment explanation
Indices: 25529482--25529554 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
25529472 TTGGACTTTT
* *
25529482 AATTTAAATTTAAAAATA
1 AATTTAAACTTAAATA-A
*
25529500 AATTTAAACTTAAATTA
1 AATTTAAACTTAAATAA
*
25529517 AATTTAAA--T--CTAA
1 AATTTAAACTTAAATAA
25529530 AATTTAAACTTAAA-ATA
1 AATTTAAACTTAAATA-A
25529547 AATTTAAA
1 AATTTAAA
25529555 AAATGGGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
13 10 0.23
15 2 0.05
16 1 0.02
17 18 0.41
18 13 0.30
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTTAAACTTAAATAA
Found at i:25530011 original size:39 final size:39
Alignment explanation
Indices: 25529968--25530731 Score: 148
Period size: 39 Copynumber: 19.7 Consensus size: 39
25529958 GACTGCAATT
* * *
25529968 TGCCCCATGATCGGGGTAAAAGATTGACTGATGGTGATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTGATC
* * * **
25530007 TGCCCCAAGCTCGGGGTGAAAA-ATCGAATGGTTGCAATC
1 TGCCCCAAGCTCGGGGT-AAAAGATTGAATGATGGTGATC
* * *
25530046 TG-CCCAGGCTC-GGGTAAGAGATT-AGTTGATGGTGATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGA-ATGATGGTGATC
* *
25530083 TGCCCCAAGCTCGAGGTAAAAGATCG---GATGGCTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGG-TG--ATC
* * * * * * *
25530122 TGTCCCATGATCAGGGTAAGAGATTTG-TTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* * ** *
25530161 TACCCCAGGCTCAAGG-AAAGAGA-T-CA-GATGGTTGCAATC
1 TGCCCCAAGCTCGGGGTAAA-AGATTGAATGATGG-TG--ATC
* * * * * * *
25530200 TGCCCTATGATCGGGATAAGAGATTTG-TTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* * * * * *
25530239 TG-CCCGAGCCTAGAGGTAAGAGA-T-CA-GATGGTTACAATC
1 TGCCCCAAG-CTCGGGGTAAAAGATTGAATGATGG-T--GATC
* * * * * * *
25530278 TTCTCGAGGCTCGGGGTAAGAGATTTG-CTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* * *
25530317 TGCCCCAAACTCGGGGTAAAAGATCGAATG--GCTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTG--ATC
* * * * * *
25530356 TGCCCTAGGATCGGGGTAAGAGATTTG-CTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* * * *
25530395 TGCCCCAGGCTCGAGGTAAGAGATCG---GATGGCTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGG-TG--ATC
* * * * * *
25530434 TTCCCCAGGCTCGGGTTAAAAGATTTACTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTGATC
** * * * * **
25530473 TATCCCAGGCTCAGGGTAAGAGATCGAATGACT-GCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGA-TGGTGATC
* * * * * * *
25530512 TTCCTCAGGCTTGGGGTAAGAGATTTG-CTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* * * * *
25530551 TGCCTCAGGCTCGGGGTAAAAG-TCGAATGATTGTAATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTGATC
* * * * * * * *
25530589 TACCTCATGATCGGGGTAAGAGATTTACTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTGATC
* ***
25530628 TGTCCCAAGCTCGGGGTAAAAGATCTG-ATGACT-ACAATC
1 TGCCCCAAGCTCGGGGTAAAAGAT-TGAATGA-TGGTGATC
* * *
25530667 TGCCCCAAGCTCGGGGTAAGAGATTTG-CTGATGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGA-TTGAATGATGGTGATC
* ** *
25530706 TACCCCTGGCTCGGGGTAAGAGATTG
1 TGCCCCAAGCTCGGGGTAAAAGATTG
25530732 GATCTTCAAT
Statistics
Matches: 520, Mismatches: 152, Indels: 107
0.67 0.20 0.14
Matches are distributed among these distances:
36 21 0.04
37 29 0.06
38 56 0.11
39 368 0.71
40 18 0.03
41 12 0.02
42 16 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TGCCCCAAGCTCGGGGTAAAAGATTGAATGATGGTGATC
Found at i:25530722 original size:78 final size:77
Alignment explanation
Indices: 25529960--25530729 Score: 751
Period size: 78 Copynumber: 9.9 Consensus size: 77
25529950 CTTCGAATGA
* * * * *
25529960 CTGCAATTTGCCCCATGATCGGGGTAAAAGA-TTGACTGATGGTGATCTGCCCCAAGCTCGGGGT
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTG-CTGATGATGATCTGCCCCAGGCTCGGGGT
25530024 GAAAA-ATCGAATGG
65 -AAAAGATCG-ATGG
* * * * * * *
25530038 TTGCAATCTG-CCCAGGCTC-GGGTAAGAGATTAGTTGATGGTGATCTGCCCCAAGCTCGAGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
25530101 AAAGATCGGATGG
66 AAAGATC-GATGG
* * * * * **
25530114 CTGCAATCTGTCCCATGATCAGGGTAAGAGATTTGTTGATGATGATCTACCCCAGGCTCAAGG-A
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
25530178 AAGAGATCAGATGG
66 AA-AGATC-GATGG
* * * * * * * * *
25530192 TTGCAATCTGCCCTATGATCGGGATAAGAGATTTGTTGATGATGATCTGCCCGAGCCTAGAGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*
25530257 AGAGATCAGATGG
66 AAAGATC-GATGG
* * * * * * **
25530270 TTACAATCTTCTCGAGGCTCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAAACTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
25530335 AAAGATCGAATGG
66 AAAGATCG-ATGG
* *
25530348 CTGCAATCTGCCCTAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGAGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*
25530413 AGAGATCGGATGG
66 AAAGATC-GATGG
* * * * * ** *
25530426 CTGCAATCTTCCCCAGGCTCGGGTTAAAAGATTTACTGATGATGATCTATCCCAGGCTCAGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
* *
25530491 AGAGATCGAATGA
66 AAAGATCG-ATGG
* * * * *
25530504 CTGCAATCTTCCTCAGGCTTGGGGTAAGAGATTTGCTGATGATGATCTGCCTCAGGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*
25530569 AAAG-TCGAATGA
66 AAAGATCG-ATGG
* * * * * * * *
25530581 TTGTAATCTACCTCATGATCGGGGTAAGAGATTTACTGATGATGATCTGTCCCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*
25530646 AAAGATCTGATGA
66 AAAGATC-GATGG
* * * * *
25530659 CTACAATCTGCCCCAAGCTCGGGGTAAGAGATTTGCTGATGATGATCTACCCCTGGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*
25530724 AGAGAT
66 AAAGAT
25530730 TGGATCTTCA
Statistics
Matches: 584, Mismatches: 96, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
75 4 0.01
76 52 0.09
77 89 0.15
78 435 0.74
79 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (77 bp):
CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTA
AAAGATCGATGG
Found at i:25537919 original size:29 final size:28
Alignment explanation
Indices: 25537887--25538048 Score: 148
Period size: 29 Copynumber: 5.6 Consensus size: 28
25537877 GGAAAATTAG
*
25537887 GGGTAAAATGGTAATTTTTGGATGCTT-GA
1 GGGTAAAAT-GTAATTTTTGGAAG-TTCGA
* *
25537916 GGGTAAAATAGTGATTTTTGGAAGTTCGG
1 GGGTAAAAT-GTAATTTTTGGAAGTTCGA
*
25537945 GGGCAAAATGTAATTTTTGAGAAGTTCGA
1 GGGTAAAATGTAATTTTTG-GAAGTTCGA
*
25537974 GGGGTACAAATGTGATTTTTGGAAGTTC-A
1 -GGGTA-AAATGTAATTTTTGGAAGTTCGA
* * * *
25538003 GGGGAAAATGTATTTTTTGAGAAGTTTGG
1 GGGTAAAATGTAATTTTTG-GAAGTTCGA
* *
25538032 GGGTCAAATGTGATTTT
1 GGGTAAAATGTAATTTT
25538049 AAGAAAATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
27 12 0.11
28 21 0.19
29 52 0.48
30 11 0.10
31 13 0.12
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGTAATTTTTGGAAGTTCGA
Found at i:25537996 original size:59 final size:57
Alignment explanation
Indices: 25537885--25538048 Score: 203
Period size: 58 Copynumber: 2.8 Consensus size: 57
25537875 TTGGAAAATT
*
25537885 AGGGGTAAAATGGTAATTTTTG-GATGCTTGA-GGGTA-AAATAGTGATTTTTGGAAGTTC
1 AGGGG-AAAAT-GTAATTTTTGAGAAG-TTGAGGGGTACAAAT-GTGATTTTTGGAAGTTC
*
25537943 GGGGGCAAAATGTAATTTTTGAGAAGTTCGAGGGGTACAAATGTGATTTTTGGAAGTTC
1 AGGGG-AAAATGTAATTTTTGAGAAGTT-GAGGGGTACAAATGTGATTTTTGGAAGTTC
*
25538002 AGGGGAAAATGTATTTTTTGAGAAGTTTG-GGGGT-CAAATGTGATTTT
1 AGGGGAAAATGTAATTTTTGAGAAG-TTGAGGGGTACAAATGTGATTTT
25538049 AAGAAAATTT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
56 13 0.14
57 17 0.18
58 34 0.35
59 28 0.29
60 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (57 bp):
AGGGGAAAATGTAATTTTTGAGAAGTTGAGGGGTACAAATGTGATTTTTGGAAGTTC
Found at i:25538053 original size:28 final size:28
Alignment explanation
Indices: 25537916--25538053 Score: 106
Period size: 28 Copynumber: 4.8 Consensus size: 28
25537906 GGATGCTTGA
*
25537916 GGGTAAAATAGTGATTTTTG-GAAGTTCGG
1 GGGTCAAAT-GTGA-TTTTGAGAAGTTCGG
*
25537945 GGG-CAAAATGTAATTTTTGAGAAGTTCGAG
1 GGGTC-AAATGTGA-TTTTGAGAAGTTCG-G
*
25537975 GGGTACAAATGTGATTTTTG-GAAGTTCAG
1 GGGT-CAAATGTGA-TTTTGAGAAGTTCGG
* *
25538004 GGG-AAAATGT-ATTTTTTGAGAAGTTTGG
1 GGGTCAAATGTGA--TTTTGAGAAGTTCGG
*
25538032 GGGTCAAATGTGATTTTAAGAA
1 GGGTCAAATGTGATTTTGAGAA
25538054 AATTTAGGGA
Statistics
Matches: 91, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.01
27 12 0.13
28 27 0.30
29 25 0.27
30 12 0.13
31 13 0.14
32 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.34
Consensus pattern (28 bp):
GGGTCAAATGTGATTTTGAGAAGTTCGG
Found at i:25539673 original size:6 final size:6
Alignment explanation
Indices: 25539662--25539727 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
25539652 TTGGACTTTT
** *
25539662 AATTTA AATTTA GAA--TA AATTTA AATTTA AAAATA AATTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
25539709 AA-TTA AATTTA AACTTA AA
1 AATTTA AATTTA AATTTA AA
25539728 ATAAATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 2 0.04
5 7 0.14
6 39 0.78
7 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (6 bp):
AATTTA
Found at i:25539684 original size:17 final size:17
Alignment explanation
Indices: 25539662--25539735 Score: 103
Period size: 17 Copynumber: 4.3 Consensus size: 17
25539652 TTGGACTTTT
* *
25539662 AATTTAAATTTAGAATA
1 AATTTAAACTTAAAATA
*
25539679 AATTTAAATTTAAAAATA
1 AATTTAAACTT-AAAATA
*
25539697 AATTTAAACTTAAATTA
1 AATTTAAACTTAAAATA
25539714 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
25539731 AATTT
1 AATTT
25539736 TAAAAAATGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 37 0.71
18 15 0.29
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:25539698 original size:12 final size:12
Alignment explanation
Indices: 25539683--25539741 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
25539673 AGAATAAATT
25539683 TAAATTTAAAAA
1 TAAATTTAAAAA
**
25539695 TAAATTTAAACT
1 TAAATTTAAAAA
**
25539707 TAAA-TTAAATT
1 TAAATTTAAAAA
*
25539718 TAAACTT-AAAA
1 TAAATTTAAAAA
25539729 TAAATTTTAAAAA
1 TAAA-TTTAAAAA
25539742 ATGGGTTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 16 0.42
12 18 0.47
13 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:25539700 original size:29 final size:28
Alignment explanation
Indices: 25539666--25539721 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
25539656 ACTTTTAATT
25539666 TAAATTTAGAA-TAAATTTAAATTTAAAAA
1 TAAATTTA-AACTAAA-TTAAATTTAAAAA
25539695 TAAATTTAAACTTAAATTAAATTTAAA
1 TAAATTTAAAC-TAAATTAAATTTAAA
25539722 CTTAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 2 0.08
29 19 0.76
30 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAATTTAAACTAAATTAAATTTAAAAA
Found at i:25539739 original size:35 final size:35
Alignment explanation
Indices: 25539662--25539735 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
25539652 TTGGACTTTT
* *
25539662 AATTTAAATTTAGAATAAATTTAAATTTAAAAATA
1 AATTTAAACTTAGAATAAATTTAAACTTAAAAATA
25539697 AATTTAAACTTA-AATTAAATTTAAACTT-AAAATA
1 AATTTAAACTTAGAA-TAAATTTAAACTTAAAAATA
25539731 AATTT
1 AATTT
25539736 TAAAAAATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 13 0.36
35 23 0.64
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (35 bp):
AATTTAAACTTAGAATAAATTTAAACTTAAAAATA
Found at i:25541882 original size:53 final size:53
Alignment explanation
Indices: 25541795--25541935 Score: 194
Period size: 53 Copynumber: 2.7 Consensus size: 53
25541785 GTAAATGTAA
* * *
25541795 AAAGGTCTGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTAT-AGATT
1 AAAGGTTTGATGACTCTGTGTCATCGTGAGTTATACGAATCCTATTATGA-ATT
*
25541848 AAGGGTTTGATGACTCTGTGTCATCGTGAGTTATACGAATCCTATTATGAATT
1 AAAGGTTTGATGACTCTGTGTCATCGTGAGTTATACGAATCCTATTATGAATT
** * *
25541901 AAAGGTTCAATGACACTATGTCATCGTGAGTTATA
1 AAAGGTTTGATGACTCTGTGTCATCGTGAGTTATA
25541936 AAATGTGAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 77 0.99
54 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (53 bp):
AAAGGTTTGATGACTCTGTGTCATCGTGAGTTATACGAATCCTATTATGAATT
Found at i:25542637 original size:21 final size:22
Alignment explanation
Indices: 25542608--25542663 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
25542598 GGAGTTTTTA
25542608 GTATCGGTAGAAGTAAT-ACTT
1 GTATCGGTAGAAGTAATCACTT
* *
25542629 GTTTCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGTAATCACTT
*
25542650 GTATCAGTAGAAGT
1 GTATCGGTAGAAGT
25542664 CTGCACTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (22 bp):
GTATCGGTAGAAGTAATCACTT
Found at i:25545421 original size:20 final size:20
Alignment explanation
Indices: 25545353--25545421 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
25545343 TATTATTTAT
*
25545353 ATTTAATTT-TTTATTTTGAC
1 ATTTAATTTATTTATTTT-TC
*
25545373 ATTTAATTTATTGATTTTT-
1 ATTTAATTTATTTATTTTTC
*
25545392 -TTGCTTATTTATTTATTTTTC
1 ATT--TAATTTATTTATTTTTC
25545413 ATTTAATTT
1 ATTTAATTT
25545422 CATGCCTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.05
20 28 0.72
21 7 0.18
22 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (20 bp):
ATTTAATTTATTTATTTTTC
Found at i:25553386 original size:48 final size:48
Alignment explanation
Indices: 25553314--25553418 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
25553304 TATTTCGCCT
* * *
25553314 AAAAAAAGAAGGTTTGAGTTGAAAACTTAAAAGGGCAGCTCAAACTAGC
1 AAAAAAA-AAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGC
* *
25553363 AAAAAAAAAAGTTCGAGTTGAAAACCTGAAAGGGCAGCTCAAATTAGC
1 AAAAAAAAAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGC
25553411 AAAAAAAA
1 AAAAAAAA
25553419 GAAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 44 0.86
49 7 0.14
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.16
Consensus pattern (48 bp):
AAAAAAAAAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGC
Found at i:25553800 original size:20 final size:20
Alignment explanation
Indices: 25553754--25553800 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
25553744 CTTTTGATTG
*
25553754 ATGTTTGCCTTTTTTGACCG
1 ATGTTTGCCTTTTTTGACCA
**
25553774 ACATTTG-CTATTTTTGACCA
1 ATGTTTGCCT-TTTTTGACCA
25553794 ATGTTTG
1 ATGTTTG
25553801 TAATCTTTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (20 bp):
ATGTTTGCCTTTTTTGACCA
Found at i:25554753 original size:50 final size:49
Alignment explanation
Indices: 25554509--25555745 Score: 549
Period size: 49 Copynumber: 25.2 Consensus size: 49
25554499 TTTGAAGAAT
* * *
25554509 GATAGGTTGAAGTCGCAACGGCGGACCTAACATCC-TAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACA-CCTTAAAATCGAAGAGG
* * * * * *
25554558 GAAAGGTCGAAGCTGA-AA-TAGCGGACCTTACACCTTAAAA-CTGAAGAGG
1 GATAGATTGAAG-TCACAACGA-CGGACCTAACACCTTAAAATC-GAAGAGG
* * ** ***
25554607 GATAGGTTGAAGCCGTAACGGTAGACCTAACACCTTAAAA-CAGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATC-GAAGAGG
* * * * *
25554656 AAAAGATTGAAGCCATAACGATC-GATCTTAA-ACCTTAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGA-CGGA-CCTAACACCTTAAAATCGAAGAGG
* * ** * * *
25554705 GATAGGTTGAAGTCGCAGTGGCGGAGCTAACACCTAAAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCT-TAAAATCGAAGAGG
* * * * * *
25554755 AAAACATTGAAGTCACAACGACAGATCTTACACCTTAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* *
25554804 GATAGGTTGAAGTCACAACAACGGACCTAACACCTTAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
** ** * * * * * *
25554853 GATAGATTGAAG-CTGTAACGGTGGATCTAACACCCTAAAACCAAAAAAG
1 GATAGATTGAAGTC-ACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * * * * *
25554902 AAAAGGTTGAAGCCGCAACGACGGACCTTACACCTTAAAAAT-GAATAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTT-AAAATCGAAGAGG
** ** *
25554951 GATA-AGTTGAAACCGTAACGGC-GAGCCTAACACCTTAAAATCGAAGAGG
1 GATAGA-TTGAAGTCACAACGACGGA-CCTAACACCTTAAAATCGAAGAGG
* *** ** * * ** *
25555000 GAAAGATTG--GTTGTAACGGTGGATCTTACACCTTAAAATTAAATAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* ** * * *
25555047 GATAGGTTGAACCCGCAACGATGAACCTAACACCTTAAAA-CTGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATC-GAAGAGG
* * * * * ** * * *
25555096 GAAAGATTGAAGCCATAATGGCAAATCTTACACCTTAAAATTGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * *
25555145 GATAGGTTGAACTCGCAACGACGGACCTAACACCTTAAAATCGAAAAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
** * * * * * * *
25555194 GATAGATTGAAG-CTGTAACGGCAGATCTAACACCCTAAAACCAAAAAGG
1 GATAGATTGAAGTC-ACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * * * ** * *
25555243 AAAAGGTTAAAGCCGTAACGGCGGACCTTACACCTTAAAAAT-GAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTT-AAAATCGAAGAGG
** ** ** * *
25555292 GATAGGCTGAAACCGTAAC-AGCGAACCTAACACCTTAAAACCGAAGAGG
1 GATAGATTGAAGTCACAACGA-CGGACCTAACACCTTAAAATCGAAGAGG
* * * * * * * * * *
25555341 AAAAGATTGAAGCCGCAAC-AGTGGATCTTACACCTTAAATTTGAATAGG
1 GATAGATTGAAGTCACAACGA-CGGACCTAACACCTTAAAATCGAAGAGG
* * * *
25555390 GATAGGTTGAAGTCGCAACGATGGACCTAACACCTTAAATTCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
*** *** * * * * * *
25555439 GATAGATTGAAGTTGTAACGAAAAATCTAACACCCTAAAACCAAAAAAG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * *
25555488 GA-ATGATTGAAGCCGCAACGACAGACCTTACACCTTAAAA-CTGAAGAGG
1 GATA-GATTGAAGTCACAACGACGGACCTAACACCTTAAAATC-GAAGAGG
* * * * * *
25555537 GATAGGTTGAAGCCGCAATGATGGACCTAACA-CTCTAAAATTGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCT-TAAAATCGAAGAGG
* * ** ** * **
25555586 GATAGGTTGAAGCCGTAACGGTGGACCTAATACCCCAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * * * *
25555635 GAAAGATTGAAGTCGCAACGATGAATCTTACACCTTAAAATCGAAGAGG
1 GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
* * * * * *
25555684 GATAGGTTAAAGGCGA-GACGACGAACCTAACACCTTAAAA-CTAAAGAGG
1 GATAGATTGAAGTC-ACAACGACGGACCTAACACCTTAAAATC-GAAGAGG
*
25555733 GACCAGATTGAAG
1 GA-TAGATTGAAG
25555746 CCGCAACGGT
Statistics
Matches: 898, Mismatches: 251, Indels: 77
0.73 0.20 0.06
Matches are distributed among these distances:
47 33 0.04
48 27 0.03
49 774 0.86
50 64 0.07
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (49 bp):
GATAGATTGAAGTCACAACGACGGACCTAACACCTTAAAATCGAAGAGG
Found at i:25554980 original size:147 final size:146
Alignment explanation
Indices: 25554525--25555761 Score: 691
Period size: 147 Copynumber: 8.4 Consensus size: 146
25554515 TTGAAGTCGC
* * * * ** * * *
25554525 AACGGCGGACCTAACATCC-TAAAATCGAAGAGGGAAAGGTCGAAGCTGAAATAGCGGACCTTAC
1 AACGGC-GACCTAACA-CCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAAC
* ** * * * * *** *
25554589 ACCTTAAAACTGAAGAGGGATAGGTTGAAGCCGTAACGGTAGACCTAACACCTTAAAACA-GAAG
64 ACCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAA-ATGAAG
* * *
25554653 A-GGAAAAGATTGAAGCCAT
128 AGGGATAAG-TTGAAACCGT
* * * * ** * *
25554672 AACGATCGATCTTAA-ACCTTAAAATCGAAGAGGGATAGGTTGAAG-TCGCAGTGGCGGAGCTAA
1 AACG-GCGA-CCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCT-GTAACGGTGGATCTAA
* * * * * * * * *
25554735 CA-CCTAAAAAATCGAAGAGGAAAACATTGAAGTCACAACGACAGATCTTACACCTT-AAAATCG
63 CACCCT--AAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAAT-G
* ** **
25554798 AAGAGGGATAGGTTGAAGTCAC
125 AAGAGGGATAAGTTGAAACCGT
**
25554820 AACAACGGACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAACA
1 AACGGC-GACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAACA
* * * *
25554885 CCCTAAAACCAAAAAAGAAAAGGTTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAATAG
65 CCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAAGAG
25554950 GGATAAGTTGAAACCGT
130 GGATAAGTTGAAACCGT
* * *
25554967 AACGGCGAGCCTAACACCTTAAAATCGAAGAGGGAAAGATTG--GTTGTAACGGTGGATCTTACA
1 AACGGCGA-CCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAACA
* ** * * * * * * * *
25555030 CCTTAAAATTAAATAGGGATAGGTTGAACCCGCAACGATGAACCTAACACCTTAAAACTGAAGAG
65 CCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAAGAG
* *
25555095 GGA-AAGATTGAAGCCAT
130 GGATAAG-TTGAAACCGT
* * * * * * * ** *
25555112 AATGGCAAATCTTACACCTTAAAATTGAAGAGGGATAGGTTGAA-CTCGCAACGACGGACCTAAC
1 AACGGC-GACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCT-GTAACGGTGGATCTAAC
* * * * * * * * * * * ** *
25555176 ACCTTAAAATCGAAAAGGGATAGATTGAAGCTGTAACGGCAGATCTAACACCCT-AAAACCAAAA
64 ACCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAAGA
* *
25555240 AGGAAAAGGTT-AAAGCCGT
129 GGGATAA-GTTGAAA-CCGT
* ** * * * * * *
25555259 AACGGCGGACCTTACACCTTAAAAAT-GAAGAGGGATAGGCTGAAACCGTAACAGCGAACCTAAC
1 AACGGC-GACCTAACACCTT-AAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAAC
* * * * * * ** *
25555323 ACCTTAAAACCGAAGAGGAAAAGATTGAAGCCGCAAC-AGTGGATCTTACACCTTAAATTTGAAT
64 ACCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGA-CGGACCTTACACCTTAAAAATGAAG
* ** *
25555387 AGGGATAGGTTGAAGTCGC
128 AGGGATAAGTTGAAACCGT
* * ****
25555406 AACGATG-GACCTAACACCTTAAATTCGAAGAGGGATAGATTGAAGTTGTAACGAAAAATCTAAC
1 AACG--GCGACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAAC
* * * *
25555470 ACCCTAAAACCAAAAAAGGAATGATTGAAGCCGCAACGACAGACCTTACACCTTAAAACTGAAGA
64 ACCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAAGA
* * *
25555535 GGGATAGGTTGAAGCCGC
129 GGGATAAGTTGAAACCGT
* * * * *
25555553 AATGATG-GACCTAACA-CTCTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAA
1 AACG--GCGACCTAACACCT-TAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAA
* * * * * * * * *
25555616 TACCCCAAAATCGAAGAGGGAAAGATTGAAGTCGCAACGATGAATCTTACACCTT-AAAATCGAA
63 CACCCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAAT-GAA
* *
25555680 GAGGGATAGGTT-AAAGGCG-
127 GAGGGATAAGTTGAAA-CCGT
* * * * * *
25555699 AGACGACGAACCTAACACCTTAAAA-CTAAAGAGGGACCAGATTGAAGCCGCAACGGTGAATCT
1 A-ACGGCG-ACCTAACACCTTAAAATC-GAAGAGGGA-TAGATTGAAGCTGTAACGGTGGATCT
25555762 TACATCTTTT
Statistics
Matches: 852, Mismatches: 197, Indels: 81
0.75 0.17 0.07
Matches are distributed among these distances:
144 3 0.00
145 115 0.13
146 35 0.04
147 541 0.63
148 148 0.17
149 10 0.01
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (146 bp):
AACGGCGACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTGTAACGGTGGATCTAACAC
CCTAAAACCAAAAAGGGAAAGATTGAAGCCGCAACGACGGACCTTACACCTTAAAAATGAAGAGG
GATAAGTTGAAACCGT
Found at i:25555731 original size:98 final size:98
Alignment explanation
Indices: 25554584--25555765 Score: 723
Period size: 98 Copynumber: 12.1 Consensus size: 98
25554574 AATAGCGGAC
25554584 CTTACACCTTAAAA-CTGAAGAGGGATAGGTTGAAGCCGTAACG--GTAGACCTAACACCTTAAA
1 CTTACACCTTAAAATC-GAAGAGGGATAGGTTGAAGCCGTAACGACG-A-ACCTAACACCTTAAA
* * **
25554646 ACAGAAGAGGAAAAGATTGAAGCCATAACGATCG-AT
63 ACTGAAGAGGGAAAGATTGAAGCCGCAACGAT-GAAT
* * * ** * * * * *
25554682 CTTAAACCTTAAAATCGAAGAGGGATAGGTTGAAGTCGCAGTGGCGGAGCTAACACCTAAAAAAT
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
* * * * *
25554747 CGAAGAGGAAAACATTGAAGTCACAACGA-CAGAT
66 -GAAGAGGGAAAGATTGAAGCCGCAACGATGA-AT
* ** * *
25554781 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGTCACAACAACGGACCTAACACCTTAAAA-T
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
* * * * *
25554845 CGAAGAGGGATAGATTGAAGCTGTAACGGTGGAT
66 -GAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* * * * * * * * * * * *
25554879 CTAACACCCTAAAACCAAAAAAGAAAAGGTTGAAGCCGCAACGACGGACCTTACACCTTAAAAAT
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
* * * ** **
25554944 GAATAGGGATAAG-TTGAAACCGTAACGGCGAGC
66 GAAGAGGGA-AAGATTGAAGCCGCAACGATGAAT
* * * ** ** * * * *
25554977 CTAACACCTTAAAATCGAAGAGGGAAAGATTG--GTTGTAACGGTGGATCTTACACCTTAAAATT
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
* * * * * *
25555040 AAATAGGGATAGGTTGAACCCGCAACGATGAAC
66 GAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* * * * * * * * * *
25555073 CTAACACCTTAAAA-CTGAAGAGGGAAAGATTGAAGCCATAATGGCAAATCTTACACCTTAAAAT
1 CTTACACCTTAAAATC-GAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAAC
* * * * *
25555137 TGAAGAGGGATAGGTTGAA-CTCGCAACGACGGAC
65 TGAAGAGGGAAAGATTGAAGC-CGCAACGATGAAT
* * * * * * *
25555171 CTAACACCTTAAAATCGAAAAGGGATAGATTGAAGCTGTAACGGC-AGATCTAACACCCTAAAAC
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGA-ACCTAACACCTTAAAAC
** * * * * * ** * *
25555235 CAAAAAGGAAAAGGTTAAAGCCGTAACGGCGGAC
65 TGAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* *
25555269 CTTACACCTTAAAAAT-GAAGAGGGATAGGCTGAAACCGTAAC-AGCGAACCTAACACCTTAAAA
1 CTTACACCTT-AAAATCGAAGAGGGATAGGTTGAAGCCGTAACGA-CGAACCTAACACCTTAAAA
* * *
25555332 CCGAAGAGGAAAAGATTGAAGCCGCAAC-AGTGGAT
64 CTGAAGAGGGAAAGATTGAAGCCGCAACGA-TGAAT
* * * * * * * *
25555367 CTTACACCTTAAATTTGAATAGGGATAGGTTGAAGTCGCAACGATGGACCTAACACCTT-AAATT
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
* ** * **
25555431 CGAAGAGGGATAGATTGAAGTTGTAACGAAAAAT
66 -GAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* * * * * * * * *
25555465 CTAACACCCTAAAACCAAAAAAGGA-ATGATTGAAGCCGCAACGAC-AGACCTTACACCTTAAAA
1 CTTACACCTTAAAATCGAAGAGGGATA-GGTTGAAGCCGTAACGACGA-ACCTAACACCTTAAAA
* * * * *
25555528 CTGAAGAGGGATAGGTTGAAGCCGCAATGATGGAC
64 CTGAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* * ** * * **
25555563 CTAACA-CTCTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAATACCCCAAAA-
1 CTTACACCT-TAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAAC
*
25555626 TCGAAGAGGGAAAGATTGAAGTCGCAACGATGAAT
65 T-GAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
* *
25555661 CTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGGCG-AGACGACGAACCTAACACCTTAAAAC
1 CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTA-ACGACGAACCTAACACCTTAAAAC
* * *
25555725 TAAAGAGGGACCAGATTGAAGCCGCAACGGTGAAT
65 TGAAGAGGGA-AAGATTGAAGCCGCAACGATGAAT
25555760 CTTACA
1 CTTACA
25555766 TCTTTTGAAA
Statistics
Matches: 855, Mismatches: 193, Indels: 71
0.76 0.17 0.06
Matches are distributed among these distances:
95 3 0.00
96 77 0.09
97 13 0.02
98 630 0.74
99 131 0.15
100 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (98 bp):
CTTACACCTTAAAATCGAAGAGGGATAGGTTGAAGCCGTAACGACGAACCTAACACCTTAAAACT
GAAGAGGGAAAGATTGAAGCCGCAACGATGAAT
Found at i:25556756 original size:101 final size:100
Alignment explanation
Indices: 25556634--25556817 Score: 268
Period size: 100 Copynumber: 1.8 Consensus size: 100
25556624 TTCTTTTTTA
25556634 TTATTATTTATATTTTGTTGTTTATTTT-GACATTTAATTTATTAATTTTTTTGTTTATTTAT-T
1 TTATTATTTATATTTTGTTGTTTATTTTAG-CATTTAATTT-TTAATTTTTTTGTTTATTTATCT
25556697 TATT-TGTCATTTATTTTCATGCATAATCTCAATTATTT
64 TATTAT-T-ATTTATTTTCATGCATAATCTCAATTATTT
* *
25556735 TTATTATTTATA-TTTGTTTGTTTATTTTAGCATTTACTTTTTATTTTTTTTGTTTATTTATCTT
1 TTATTATTTATATTTTG-TTGTTTATTTTAGCATTTAATTTTTAATTTTTTTGTTTATTTATCTT
*
25556799 GTTATTATTTATTTTCATG
65 ATTATTATTTATTTTCATG
25556818 TCATTTATTG
Statistics
Matches: 76, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
100 37 0.49
101 37 0.49
102 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (100 bp):
TTATTATTTATATTTTGTTGTTTATTTTAGCATTTAATTTTTAATTTTTTTGTTTATTTATCTTA
TTATTATTTATTTTCATGCATAATCTCAATTATTT
Found at i:25556810 original size:32 final size:32
Alignment explanation
Indices: 25556734--25556813 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
25556724 CTCAATTATT
25556734 TTTATTATTTATATTTGTTTGTTTATTTTAGCA
1 TTTATTATTTAT-TTTGTTTGTTTATTTTAGCA
* * *
25556767 TTTACTT-TTTATTTTTTTTGTTTA-TTTATCT
1 TTTA-TTATTTATTTTGTTTGTTTATTTTAGCA
25556798 TGTTATTATTTATTTT
1 T-TTATTATTTATTTT
25556814 CATGTCATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 8 0.20
32 22 0.54
33 9 0.22
34 2 0.05
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (32 bp):
TTTATTATTTATTTTGTTTGTTTATTTTAGCA
Found at i:25556849 original size:40 final size:38
Alignment explanation
Indices: 25556805--25556925 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 38
25556795 TCTTGTTATT
25556805 ATTTATTTTCATGTCATTTATTGTTTTTTATTTAATTTAC
1 ATTTATTTT-ATGT-ATTTATTGTTTTTTATTTAATTTAC
25556845 ATTTATTGTTAT-TATCTTATTTGTTTATTTATTT-ATTTATC
1 ATTTATT-TTATGTAT-TTA-TTGTTT-TTTATTTAATTTA-C
* * *
25556886 ATTAAATTTTATGT-TTTTTTTTCTTTTTATTTAA-TTAC
1 ATT-TATTTTATGTATTTATTGT-TTTTTATTTAATTTAC
25556924 AT
1 AT
25556926 GTTGATTAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
38 5 0.07
39 17 0.25
40 25 0.36
41 18 0.26
42 4 0.06
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (38 bp):
ATTTATTTTATGTATTTATTGTTTTTTATTTAATTTAC
Done.