Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 39 of 189
Found at i:11783567 original size:36 final size:36
Alignment explanation
Indices: 11783488--11783567 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
11783478 AATTTGTTTA
* *
11783488 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
11783524 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
11783560 ATATATAT
1 ATATATAT
11783568 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:11786109 original size:3 final size:3
Alignment explanation
Indices: 11786051--11786100 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
11786041 TTTGTTAACT
* *
11786051 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
11786096 GTA TT
1 TTA TT
11786101 GGTATTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11786306 original size:36 final size:36
Alignment explanation
Indices: 11786227--11786306 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
11786217 AATTTGTTTA
* *
11786227 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
11786263 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
11786299 ATATATAT
1 ATATATAT
11786307 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:11788851 original size:3 final size:3
Alignment explanation
Indices: 11788790--11788842 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
11788780 TTTGTTAACT
* *
11788790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
11788835 TTA GTA TT
1 TTA TTA TT
11788843 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11788921 original size:20 final size:20
Alignment explanation
Indices: 11788874--11788922 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
11788864 ACATCTCTAT
*
11788874 TCATATATACTTATGTATTT
1 TCATATATACTTATGTATTA
11788894 TCAAATATATATCTTAT-TATTA
1 TC--ATATATA-CTTATGTATTA
11788916 TCATATA
1 TCATATA
11788923 AGTGCTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (20 bp):
TCATATATACTTATGTATTA
Found at i:11789048 original size:36 final size:36
Alignment explanation
Indices: 11788969--11789048 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
11788959 AATTTGTTTA
* *
11788969 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
11789005 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
11789041 ATATATAT
1 ATATATAT
11789049 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:11827727 original size:23 final size:22
Alignment explanation
Indices: 11827701--11827754 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
11827691 TGTATACGCG
11827701 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
11827724 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
11827746 TAC-TAATAA
1 TACATAATAA
11827755 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:11827735 original size:3 final size:3
Alignment explanation
Indices: 11827704--11827773 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
11827694 ATACGCGTAC
* * * *
11827704 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
11827751 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11827774 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11828756 original size:8 final size:8
Alignment explanation
Indices: 11828743--11828767 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11828733 GGTGTTCGGC
11828743 GCAAGTGG
1 GCAAGTGG
11828751 GCAAGTGG
1 GCAAGTGG
11828759 GCAAGTGG
1 GCAAGTGG
11828767 G
1 G
11828768 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:11834495 original size:57 final size:57
Alignment explanation
Indices: 11834415--11834579 Score: 312
Period size: 57 Copynumber: 2.9 Consensus size: 57
11834405 TGATTCAAAG
* *
11834415 CAAAGCATACCATTACACTGCTGGGCATGATAGCATCCCATATTAAATTCAATGTTT
1 CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCAATGTTT
11834472 CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCAATGTTT
1 CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCAATGTTT
11834529 CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCA
1 CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCA
11834580 CTGATAACAT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 106 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (57 bp):
CAAAGCACACCATTACACAGCTGGGCATGATAGCATCCCATATTAAATTCAATGTTT
Found at i:11835328 original size:2 final size:2
Alignment explanation
Indices: 11835321--11835351 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11835311 TTAAACACAA
11835321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11835352 AAATTATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11837305 original size:29 final size:29
Alignment explanation
Indices: 11837258--11837317 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
11837248 CAGCTTAAAT
* **
11837258 ATATTTAAAAAATTTAAAT-TATAGTATTC
1 ATATATAAAAAATAAAAATATATA-TATTC
11837287 ATATATAAAAAATAAAAATATATATATTC
1 ATATATAAAAAATAAAAATATATATATTC
11837316 AT
1 AT
11837318 GTTTGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
ATATATAAAAAATAAAAATATATATATTC
Found at i:11840379 original size:27 final size:27
Alignment explanation
Indices: 11840349--11840400 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11840339 TTTACATTAT
11840349 TAAAATTAACACAACTT-TTTTTACAAA
1 TAAAATTAACACAA-TTCTTTTTACAAA
*
11840376 TAAAATTAGCACAATTCTTTTTACA
1 TAAAATTAACACAATTCTTTTTACA
11840401 TCAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAATTAACACAATTCTTTTTACAAA
Found at i:11840406 original size:26 final size:26
Alignment explanation
Indices: 11840349--11840408 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
11840339 TTTACATTAT
11840349 TAAAATTAACACAACTTTTTTTACAAA
1 TAAAATTAACACAACTTTTTTTAC-AA
*
11840376 TAAAATTAGCACAA-TTCTTTTTAC-A
1 TAAAATTAACACAACTT-TTTTTACAA
11840401 TCAAAATT
1 T-AAAATT
11840409 TTTAACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.07
26 8 0.27
27 20 0.67
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAAATTAACACAACTTTTTTTACAA
Found at i:11840989 original size:15 final size:16
Alignment explanation
Indices: 11840969--11841001 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11840959 TCGAAAAGTC
*
11840969 AATTTTG-AGATTCAA
1 AATTTTGAAGATCCAA
11840984 AATTTTGAAGATCCAA
1 AATTTTGAAGATCCAA
11841000 AA
1 AA
11841002 AATACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (16 bp):
AATTTTGAAGATCCAA
Found at i:11842567 original size:21 final size:21
Alignment explanation
Indices: 11842538--11842577 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11842528 TAATAATTGT
*
11842538 AAAAGAAAATAAA-GGAAGAGG
1 AAAA-AAAAAAAAGGGAAGAGG
11842559 AAAAAAAAAAAAGGGAAGA
1 AAAAAAAAAAAAGGGAAGA
11842578 AAAGATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAAAGGGAAGAGG
Found at i:11849976 original size:24 final size:24
Alignment explanation
Indices: 11849940--11849987 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
11849930 CTAATAAATG
*
11849940 TAAATATAAATTAT-ACTTATTTT
1 TAAATATAAATTATCACATATTTT
*
11849963 TAAATTTATAATTATCACATATTTT
1 TAAATATA-AATTATCACATATTTT
11849988 ATTTTACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATATAAATTATCACATATTTT
Found at i:11852628 original size:15 final size:15
Alignment explanation
Indices: 11852584--11852631 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11852574 TTTTTTTGTT
11852584 AGTATAAATTCAAAA
1 AGTATAAATTCAAAA
**
11852599 TA-TATAGTCTTCAAAA
1 -AGTATA-AATTCAAAA
11852615 AGTATAAATTCAAAA
1 AGTATAAATTCAAAA
11852630 AG
1 AG
11852632 GTATCTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (15 bp):
AGTATAAATTCAAAA
Found at i:11855412 original size:29 final size:28
Alignment explanation
Indices: 11855345--11855415 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
11855335 TAAAAAAAGT
11855345 AAAAA-TATTTTTATAATTTTTCACAAA
1 AAAAATTATTTTTATAATTTTTCACAAA
* * *
11855372 AAATATAGATTTTTAT-ATGATTTTCATAAA
1 AAAAAT-TATTTTTATAAT--TTTTCACAAA
11855402 AAAAATTATTTTTA
1 AAAAATTATTTTTA
11855416 ATAAAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 4 0.11
28 2 0.06
29 15 0.43
30 14 0.40
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (28 bp):
AAAAATTATTTTTATAATTTTTCACAAA
Found at i:11857410 original size:75 final size:75
Alignment explanation
Indices: 11857287--11857433 Score: 276
Period size: 75 Copynumber: 2.0 Consensus size: 75
11857277 ACAATCCATG
* *
11857287 TTACATTCCAAATTACTTAGATTCAATTATGGCTTTGATCCCTCTGCAATGCTCATGTTTAGGAT
1 TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
11857352 TTAGTTCTTA
66 TTAGTTCTTA
11857362 TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
1 TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
11857427 TTAGTTC
66 TTAGTTC
11857434 ATATAATTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (75 bp):
TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
TTAGTTCTTA
Found at i:11860926 original size:22 final size:22
Alignment explanation
Indices: 11860892--11860938 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
11860882 TGACAATACT
11860892 ATAATGAATACAATAAT-AAGAA
1 ATAATGAATACAATAATGAA-AA
11860914 ATAAT-AATAACAATAATGAAAA
1 ATAATGAAT-ACAATAATGAAAA
11860936 ATA
1 ATA
11860939 TTAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
ATAATGAATACAATAATGAAAA
Found at i:11862853 original size:94 final size:94
Alignment explanation
Indices: 11862676--11863178 Score: 472
Period size: 94 Copynumber: 5.3 Consensus size: 94
11862666 CAATTTCATC
* * * * * * ** *
11862676 TTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTTGTGGTAGTTTCAATTCGACCCACTACAA
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-CTATAGTAGAATCAATCCGACCCACTACAA
*
11862741 CTTTAGGGGTATAAGATTTGTAGCTTCAAT
65 CTTCAGGGGTATAAGATTTGTAGCTTCAAT
* * * * * *
11862771 TTGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATAGTAAAATCAATTCGATCCACAACAAC
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATAGTAGAATCAATCCGACCCACTACAAC
* *
11862836 TTTAGGGGTATAAGATTTGTAACTTCAAT
66 TTCAGGGGTATAAGATTTGTAGCTTCAAT
* * * *
11862865 TTGCT-CACTACAACTTCAGGGAGAAAAGATTCTCTATAGTAGAATCAATCCGACCCACTGCAAC
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATAGTAGAATCAATCCGACCCACTACAAC
*
11862929 TTCAGGGGAATAAGATTTTGTAGCTTCAAT
66 TTCAGGGGTATAAGA-TTTGTAGCTTCAAT
* * * * * *
11862959 ATGCTCCAATGCAATTTCAGGGAGATAAGATTCGCTAT-GATAGATTCAATCCAACCCACTGCAA
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATAG-TAGAATCAATCCGACCCACTACAA
* ** *
11863023 CTTCAAGGGTATGGGATTTGTAGTTTCAAT
65 CTTCAGGGGTATAAGATTTGTAGCTTCAAT
* * * * ** ** * * *
11863053 CTGCTCCACTACAACTTTAGGGACATAAGATTCATTATAGTAGTTTCATTCCGACCTACTGCAAC
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATAGTAGAATCAATCCGACCCACTACAAC
* *
11863118 TTCAAGGGTAT-AGAAATTGTAGCTTCAAT
66 TTCAGGGGTATAAG-ATTTGTAGCTTCAAT
* * * * * * *
11863147 CTGATCCACCGTAACTTTAGGGATATAGGATT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATT
11863179 TGTATCTTCA
Statistics
Matches: 346, Mismatches: 57, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
93 63 0.18
94 188 0.54
95 95 0.27
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (94 bp):
TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATAGTAGAATCAATCCGACCCACTACAAC
TTCAGGGGTATAAGATTTGTAGCTTCAAT
Found at i:11862934 original size:50 final size:49
Alignment explanation
Indices: 11862870--11863027 Score: 148
Period size: 50 Copynumber: 3.3 Consensus size: 49
11862860 TCAATTTGCT
* *
11862870 CACTACAACTTCAGGGAGAAAAGATTCTCTATAGTAGAATCAATCCGACC
1 CACTGCAACTTCAGGGAGAAAAGATTCTCTAT-GTAGATTCAATCCGACC
* **
11862920 CACTGCAACTTCAGGG-GAATAAGA-T-T-T-TGTAGCTTCAATATG-CTC
1 CACTGCAACTTCAGGGAGAA-AAGATTCTCTATGTAGATTCAATCCGAC-C
* * * * *
11862965 CAATGCAATTTCAGGGAGATAAGATTCGCTATGATAGATTCAATCCAACC
1 CACTGCAACTTCAGGGAGAAAAGATTCTCTATG-TAGATTCAATCCGACC
11863015 CACTGCAACTTCA
1 CACTGCAACTTCA
11863028 AGGGTATGGG
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
44 1 0.01
45 29 0.35
46 4 0.05
47 1 0.01
48 2 0.02
49 6 0.07
50 40 0.48
51 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (49 bp):
CACTGCAACTTCAGGGAGAAAAGATTCTCTATGTAGATTCAATCCGACC
Found at i:11863182 original size:44 final size:44
Alignment explanation
Indices: 11863134--11863225 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
11863124 GGTATAGAAA
* * *
11863134 TTGTAGCTTCAATC-TGATCCACCGTAACTTTAGGGATATAGGAT
1 TTGTAGCTTC-ATCTTGATCCACCGTAACTTCAGGGAGATAAGAT
* * **
11863178 TTGTATCTTCATCTTGCTCCATTGTAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCATCTTGATCCACCGTAACTTCAGGGAGATAAGAT
11863222 TTGT
1 TTGT
11863226 GATTTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (44 bp):
TTGTAGCTTCATCTTGATCCACCGTAACTTCAGGGAGATAAGAT
Found at i:11868751 original size:280 final size:280
Alignment explanation
Indices: 11868250--11868809 Score: 1102
Period size: 280 Copynumber: 2.0 Consensus size: 280
11868240 AATGGAGCAT
11868250 CTCTTCTTTGTAATCTATTCGGGTGACCTCTAAAGGTTTGATATGGTAATACCTACGGTAGGTTC
1 CTCTTCTTTGTAATCTATTCGGGTGACCTCTAAAGGTTTGATATGGTAATACCTACGGTAGGTTC
11868315 TTAGGGCTCACCACATGCGGTTTGGTTCTAAAGTAAGGGTACCTAAACCAACAGATTCCTCAATC
66 TTAGGGCTCACCACATGCGGTTTGGTTCTAAAGTAAGGGTACCTAAACCAACAGATTCCTCAATC
11868380 CTCACCCATTATAGCCTCATACGGAAAAAGTTTAGTTCAGGGGAACACATTTCCCTATGTCTATA
131 CTCACCCATTATAGCCTCATACGGAAAAAGTTTAGTTCAGGGGAACACATTTCCCTATGTCTATA
11868445 TGGAGGTGAAGACCTCACGAAAACATAGGTACGGATGTATCCCGAAAGCGATCCACTATCCTATA
196 TGGAGGTGAAGACCTCACGAAAACATAGGTACGGATGTATCCCGAAAGCGATCCACTATCCTATA
*
11868510 CGGAGGTGAAGACCTCACAA
261 CGAAGGTGAAGACCTCACAA
11868530 CTCTTCTTTGTAATCTATTCGGGTGACCTCTAAAGGTTTGATATGGTAATACCTACGGTAGGTTC
1 CTCTTCTTTGTAATCTATTCGGGTGACCTCTAAAGGTTTGATATGGTAATACCTACGGTAGGTTC
*
11868595 TTAGGGCTCACCACATGCGGTTTGGTTTTAAAGTAAGGGTACCTAAACCAACAGATTCCTCAATC
66 TTAGGGCTCACCACATGCGGTTTGGTTCTAAAGTAAGGGTACCTAAACCAACAGATTCCTCAATC
11868660 CTCACCCATTATAGCCTCATACGGAAAAAGTTTAGTTCAGGGGAACACATTTCCCTATGTCTATA
131 CTCACCCATTATAGCCTCATACGGAAAAAGTTTAGTTCAGGGGAACACATTTCCCTATGTCTATA
11868725 TGGAGGTGAAGACCTCACGAAAACATAGGTACGGATGTATCCCGAAAGCGATCCACTATCCTATA
196 TGGAGGTGAAGACCTCACGAAAACATAGGTACGGATGTATCCCGAAAGCGATCCACTATCCTATA
11868790 CGAAGGTGAAGACCTCACAA
261 CGAAGGTGAAGACCTCACAA
11868810 AGGAATAGCT
Statistics
Matches: 278, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
280 278 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (280 bp):
CTCTTCTTTGTAATCTATTCGGGTGACCTCTAAAGGTTTGATATGGTAATACCTACGGTAGGTTC
TTAGGGCTCACCACATGCGGTTTGGTTCTAAAGTAAGGGTACCTAAACCAACAGATTCCTCAATC
CTCACCCATTATAGCCTCATACGGAAAAAGTTTAGTTCAGGGGAACACATTTCCCTATGTCTATA
TGGAGGTGAAGACCTCACGAAAACATAGGTACGGATGTATCCCGAAAGCGATCCACTATCCTATA
CGAAGGTGAAGACCTCACAA
Found at i:11870380 original size:12 final size:12
Alignment explanation
Indices: 11870365--11870397 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11870355 CTCCTTTATT
11870365 TATCATTTTTTG
1 TATCATTTTTTG
*
11870377 TATCATTTTTTT
1 TATCATTTTTTG
11870389 TA-CATTTTT
1 TATCATTTTT
11870398 AACTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (12 bp):
TATCATTTTTTG
Found at i:11871071 original size:3 final size:3
Alignment explanation
Indices: 11871065--11871128 Score: 56
Period size: 3 Copynumber: 21.3 Consensus size: 3
11871055 TTTAATGTTG
** * * * *
11871065 TTA TTA TTA TTA TCC TTA CTA TTA TTA TTA GTA TTA TTA CTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
11871113 TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA T
11871129 ATTTACACTT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:11871099 original size:12 final size:12
Alignment explanation
Indices: 11871065--11871128 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
11871055 TTTAATGTTG
*
11871065 TTATTATTATTA
1 TTATTACTATTA
**
11871077 TCCTTACTATTA
1 TTATTACTATTA
*
11871089 TTATTAGTATTA
1 TTATTACTATTA
* *
11871101 TTACTAATATTA
1 TTATTACTATTA
*
11871113 TTATTACTATCA
1 TTATTACTATTA
11871125 TTAT
1 TTAT
11871129 ATTTACACTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATTACTATTA
Found at i:11871551 original size:27 final size:25
Alignment explanation
Indices: 11871504--11871559 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
11871494 TGTAAATACT
*
11871504 TATATTTTTTATATCTTATAATTTA
1 TATATTTTTCATATCTTATAATTTA
* *
11871529 TATATATTTTCATATTTTCATAATTTT
1 TATAT-TTTTCATATCTT-ATAATTTA
11871556 TATA
1 TATA
11871560 CATATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 10 0.38
27 11 0.42
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTTTCATATCTTATAATTTA
Found at i:11871703 original size:15 final size:16
Alignment explanation
Indices: 11871678--11871709 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11871668 ATTTTTATGT
11871678 TTTAGTTTATTTGTTA
1 TTTAGTTTATTTGTTA
11871694 TTTA-TTTATTTGTTA
1 TTTAGTTTATTTGTTA
11871709 T
1 T
11871710 GGTATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (16 bp):
TTTAGTTTATTTGTTA
Found at i:11874239 original size:109 final size:109
Alignment explanation
Indices: 11874043--11874467 Score: 685
Period size: 109 Copynumber: 3.9 Consensus size: 109
11874033 AAGGAAAATT
* * * * *
11874043 TTTCTAAATGAGGTAATATTTAGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
* * *
11874108 CGATTTTTCTTGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* *
11874152 TTTCAAAATGAGGCACTGTTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
* *
11874217 CGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
11874261 TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
*
11874326 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
11874370 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGG-AACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
*
11874434 CGA--TTTCTTGTTCAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
11874468 CTTGAATTTT
Statistics
Matches: 301, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
106 30 0.10
108 26 0.09
109 245 0.81
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTCAAAATGAGGCAATGTTTTGCGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:11875024 original size:3 final size:3
Alignment explanation
Indices: 11875016--11875063 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
11875006 TGACTATAAC
* * *
11875016 ATA ATA ATA ACA ATA ATA ATT ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11875064 TCTAATGACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11877091 original size:19 final size:19
Alignment explanation
Indices: 11877067--11877104 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11877057 AGCAATAATT
11877067 TTTTTGACTTT-TTTTATTC
1 TTTTTG-CTTTCTTTTATTC
*
11877086 TTTTTGTTTTCTTTTATTC
1 TTTTTGCTTTCTTTTATTC
11877105 AAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTTGCTTTCTTTTATTC
Found at i:11879019 original size:132 final size:132
Alignment explanation
Indices: 11878775--11879054 Score: 542
Period size: 132 Copynumber: 2.1 Consensus size: 132
11878765 TTTCTATCAC
11878775 TGGAATGTTTGAAAATACGAAGGAAGAAAAGGAAGAGTTGAGAGGAACACAGTTTCGGCAAGAGA
1 TGGAAT-TTTGAAAATACGAAGGAAGAAAAGGAAGAGTTGAGAGGAACACAGTTTCGGCAAGAGA
11878840 AATTATAGAGAGTTTGAGTGCGTAAAAACCCTTCAAAAATCATGGCCTTTTATAAGCATGGAGAG
65 AATTATAGAGAGTTTGAGTGCGTAAAAACCCTTCAAAAATCATGGCCTTTTATAAGCATGGAGAG
11878905 TGT
130 TGT
11878908 TGGAATTTTGAAAATACGAAGGAAGAAAAGGAAGAGTTGAGAGGAACACAGTTTCGGCAAGAGAA
1 TGGAATTTTGAAAATACGAAGGAAGAAAAGGAAGAGTTGAGAGGAACACAGTTTCGGCAAGAGAA
11878973 ATTATAGAGAGTTTGAGTGCGTAAAAACCCTTCAAAAATCATGGCCTTTTATAAGCATGGAGAGT
66 ATTATAGAGAGTTTGAGTGCGTAAAAACCCTTCAAAAATCATGGCCTTTTATAAGCATGGAGAGT
11879038 GT
131 GT
11879040 TGGAATTTTGGAAAA
1 TGGAATTTT-GAAAA
11879055 AATATCCACA
Statistics
Matches: 146, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
132 135 0.92
133 11 0.08
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (132 bp):
TGGAATTTTGAAAATACGAAGGAAGAAAAGGAAGAGTTGAGAGGAACACAGTTTCGGCAAGAGAA
ATTATAGAGAGTTTGAGTGCGTAAAAACCCTTCAAAAATCATGGCCTTTTATAAGCATGGAGAGT
GT
Found at i:11882323 original size:31 final size:29
Alignment explanation
Indices: 11882285--11882361 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
11882275 TTAACGGCTC
*
11882285 AGTGACTAAAATGTTACATCATAATAACATA
1 AGTGACTAAAATGTAACAT-ATAA-AACATA
* * * *
11882316 AGTGACTACAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATATAAAACATA
*
11882345 AGTGACTGAAATGTAAC
1 AGTGACTAAAATGTAAC
11882362 CTGAACCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 20 0.53
30 2 0.05
31 16 0.42
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATATAAAACATA
Found at i:11882651 original size:24 final size:23
Alignment explanation
Indices: 11882611--11882663 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
11882601 TTTAAAACTC
11882611 TTTTTATACAAAAAAAAACAT-TT
1 TTTTTATAC-AAAAAAAACATATT
* *
11882634 ATTTTTATACATATAAAACATATT
1 -TTTTTATACAAAAAAAACATATT
11882658 TTTTTA
1 TTTTTA
11882664 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTATACAAAAAAAACATATT
Found at i:11882672 original size:22 final size:23
Alignment explanation
Indices: 11882611--11882673 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
11882601 TTTAAAACTC
* *
11882611 TTTTTATACAAAAAAAAACATTTA
1 TTTTTATA-AATATAAAACATTTA
*
11882635 TTTTTATACATATAAAACATATT-
1 TTTTTATAAATATAAAACAT-TTA
*
11882658 TTTTTA-AAATTTAAAA
1 TTTTTATAAATATAAAA
11882674 TTTATTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 8 0.24
23 15 0.45
24 10 0.30
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTTATAAATATAAAACATTTA
Found at i:11882798 original size:26 final size:26
Alignment explanation
Indices: 11882769--11882820 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11882759 AAACTATATT
11882769 ACACAAATTACATAATATATAAATAA
1 ACACAAATTACATAATATATAAATAA
11882795 ACACAAATTACATAATATATAAATAA
1 ACACAAATTACATAATATATAAATAA
11882821 TAAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (26 bp):
ACACAAATTACATAATATATAAATAA
Found at i:11882833 original size:26 final size:25
Alignment explanation
Indices: 11882778--11882849 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
11882768 TACACAAATT
*
11882778 ACATAATATATAAATAAACACA-AATT
1 ACATAATATATAAATAAA-A-ATAATA
11882804 ACATAATATATAAATAATAAATAATA
1 ACATAATATATAAATAA-AAATAATA
*
11882830 ACATATTAT-TAAATCAAAAA
1 ACATAATATATAAAT-AAAAA
11882850 ATAGATTAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 9 0.22
26 31 0.76
27 1 0.02
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
ACATAATATATAAATAAAAATAATA
Found at i:11888194 original size:11 final size:11
Alignment explanation
Indices: 11888178--11888204 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11888168 ATTTTCGTAG
11888178 TTAATTTAAAT
1 TTAATTTAAAT
11888189 TTAATTTAAAT
1 TTAATTTAAAT
11888200 TTAAT
1 TTAAT
11888205 ATGCACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:11898263 original size:102 final size:103
Alignment explanation
Indices: 11898020--11898284 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 103
11898010 GTTGTACATA
** *
11898020 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* *
11898085 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAA-GTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
11898124 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
11898188 TCTGAAA-TAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAAGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11898226 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
11898285 AATAACGGTT
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
102 83 0.56
103 2 0.01
104 64 0.43
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAAGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11905736 original size:103 final size:104
Alignment explanation
Indices: 11905492--11905757 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
11905482 GTTGTACATA
** *
11905492 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
11905557 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
11905596 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
11905660 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11905699 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
11905758 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11907375 original size:27 final size:22
Alignment explanation
Indices: 11907323--11907366 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11907313 CAGATGTACC
11907323 AAAAACAAATGATACGAGCTTA
1 AAAAACAAATGATACGAGCTTA
11907345 AAAAACAAATGATACGAGCTTA
1 AAAAACAAATGATACGAGCTTA
11907367 TGATAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (22 bp):
AAAAACAAATGATACGAGCTTA
Found at i:11908684 original size:41 final size:41
Alignment explanation
Indices: 11908613--11908946 Score: 182
Period size: 45 Copynumber: 7.5 Consensus size: 41
11908603 TTACAAGTTA
* * * *
11908613 CAAATCTTATCTCTCTGAAGGTGCAATGGAGCAGATTAAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* *
11908654 CGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* *
11908695 CTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAG
1 C---AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-AG
* * * * * *** *
11908743 CGAATCTTATTTTCCTGAAGTTGTAGCAAAACAGATTAAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* *
11908784 CTACAATTTACAAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATTAAAG
1 ---CAA---AC----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * * *
11908835 CGAACATTATCTCCTTGAAGTTACAGTGGAACAGATTAAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * *
11908876 CTACAAAATCTTATATCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAG
1 ---C-AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-AG
* *
11908925 CAAATCTTATTTCCCTGAAGTT
1 CAAACCTTATCTCCCTGAAGTT
11908947 CCAACGAAAT
Statistics
Matches: 225, Mismatches: 43, Indels: 46
0.72 0.14 0.15
Matches are distributed among these distances:
41 68 0.30
42 1 0.00
43 1 0.00
44 37 0.16
45 78 0.35
46 2 0.01
47 3 0.01
48 6 0.03
49 2 0.01
51 27 0.12
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
Found at i:11908689 original size:137 final size:137
Alignment explanation
Indices: 11908422--11908726 Score: 361
Period size: 137 Copynumber: 2.2 Consensus size: 137
11908412 CAGTGAAACC
* * * * *
11908422 ATAAATCCTATAC-CCCTGAAGTTGTAGTGGGACGA-ATTGAAGTCAC-CG-TAGCAAATCTTAC
1 ATAAATCTTAT-CTCCCTGAAGTTGCAGTGGGAC-ATATTAAAGTTACAAGTTA-CAAATCTTAC
* * *
11908483 CTCCTTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
63 CTCCTTGAAGGTGCAATGGAGCAGATTAAAG--ACAAACCTTATCTCCCTGAAGTTACAGTGGAG
*
11908548 CAAATTTAAGAT
126 CAAATTAAAGAT
* * * *
11908560 AGTGAATCTTATTTCCTTGAAGTTGCAGTGGGACATATTAAAGTTACAAGTTACAAATCTTATCT
1 A-TAAATCTTATCTCCCTGAAGTTGCAGTGGGACATATTAAAGTTACAAGTTACAAATCTTACCT
* *
11908625 -CTCTGAAGGTGCAATGGAGCAGATTAAAG-CGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAA
65 CCT-TGAAGGTGCAATGGAGCAGATTAAAGACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAA
*
11908688 ATTAAAGCT
129 ATTAAAGAT
11908697 ATAAATCTTATCTCCCTGAAGTTGCAGTGG
1 ATAAATCTTATCTCCCTGAAGTTGCAGTGG
11908727 AGCAAATTGA
Statistics
Matches: 142, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
136 26 0.18
137 39 0.27
138 2 0.01
139 37 0.26
140 36 0.25
141 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (137 bp):
ATAAATCTTATCTCCCTGAAGTTGCAGTGGGACATATTAAAGTTACAAGTTACAAATCTTACCTC
CTTGAAGGTGCAATGGAGCAGATTAAAGACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAAT
TAAAGAT
Found at i:11908765 original size:45 final size:45
Alignment explanation
Indices: 11908652--11908946 Score: 192
Period size: 45 Copynumber: 6.5 Consensus size: 45
11908642 AGCAGATTAA
* *
11908652 AGCGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCT
1 AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
** *
11908697 A-TAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGAT
1 AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
* * * *** * *
11908741 AGCGAATCTTATTTTCCTGAAGTTGTAGCAAAACAGATTAAAGCTACAATTT
1 AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAG-----A--T
* * * *
11908793 A-CAAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATT--A-A-
1 AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
* * * * *
11908833 AGCGAA-CATTATCTCCTTGAAGTTACAGTGGAACAGATTAAAGCT
1 AGCGAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
* * * * *
11908878 A-CAAAATCTTATATCCTTGAAGTTGCAGTGGAGCAGATTGAAGAT
1 AGC-GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
* *
11908923 AGCAAATCTTATTTCCCTGAAGTT
1 AGCGAATCTTATCTCCCTGAAGTT
11908947 CCAACGAAAT
Statistics
Matches: 192, Mismatches: 41, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
40 2 0.01
41 29 0.15
43 2 0.01
44 40 0.21
45 86 0.45
46 2 0.01
49 1 0.01
50 1 0.01
51 27 0.14
52 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (45 bp):
AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGAT
Found at i:11908979 original size:182 final size:181
Alignment explanation
Indices: 11908483--11909016 Score: 780
Period size: 181 Copynumber: 2.9 Consensus size: 181
11908473 CAAATCTTAC
* * *
11908483 CTCCTTGAAGTTGCAATGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAG
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * ** * *
11908548 CAAATTTAAGATAGTGAATCTTATTTCCTTGAAGTTGCAGTGGGACATATTAAAGTTACAAGTTA
66 CAAATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAGATTAAAGCTACAAGTTA
* * *
11908613 CAAATCTTATCTCTCTGAAGGTGCAATGGAGCAGATTAAAGCGAACCTTAT
131 CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
* * *
11908664 CTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTATAAATCTTATCTCCCTGAAGTTGCAGTGGAG
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * *
11908729 CAAATTGAAGATAGCGAATCTTATTTTCCTGAAGTTGTAGCAAAACAGATTAAAGCTACAATTTA
66 CAAATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAGATTAAAGCTACAAGTTA
*
11908794 CAAATCTTATCTCCCTAAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
131 CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
* * * *
11908845 CTCCTTGAAGTTACAGTGGAACAGATTAAAGCTACAAAATCTTATATCCTTGAAGTTGCAGTGGA
1 CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * * *
11908910 GCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTCCAACGAAATAGATTAAAGCTACAAGTT
65 GCAAATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAGATTAAAGCTACAAGTT
11908975 ACAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG
130 ACAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAG
11909017 TAACAAGTCC
Statistics
Matches: 313, Mismatches: 39, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 189 0.60
182 124 0.40
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (181 bp):
CTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
CAAATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGCGAAACAGATTAAAGCTACAAGTTA
CAAATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTAAAGCGAACATTAT
Found at i:11909150 original size:51 final size:50
Alignment explanation
Indices: 11909072--11909244 Score: 157
Period size: 51 Copynumber: 3.6 Consensus size: 50
11909062 CTATAGCAAG
** **
11909072 TCTTATCTCCCTGAAGTTATAGTGGAATAGACTAAAGTTACAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAACGGAATAGA-TAAAGTTACAAGCTACAAA
* * * *
11909123 TCTTATATCCCTGAAGTTGCAACGGAATAG-----GTT-GAAGATACGAA
1 TCTTATCTCCCTGAAGTTGCAACGGAATAGATAAAGTTACAAGCTACAAA
* *
11909167 ---TATCTCCCTGAACTTGCAATGGAATAGATTAAAGTTACAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAACGGAATAGA-TAAAGTTACAAGCTACAAA
* *
11909215 TCTTATCTCCCTGAAGTTGCAGCAGAATAG
1 TCTTATCTCCCTGAAGTTGCAACGGAATAG
11909245 GTTGAAGATA
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
41 24 0.26
44 8 0.09
45 3 0.03
47 3 0.03
48 8 0.09
51 48 0.51
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTTATCTCCCTGAAGTTGCAACGGAATAGATAAAGTTACAAGCTACAAA
Found at i:11909171 original size:92 final size:92
Alignment explanation
Indices: 11909075--11909298 Score: 324
Period size: 92 Copynumber: 2.4 Consensus size: 92
11909065 TAGCAAGTCT
* * *
11909075 TATCTCCCTGAAGTTATAGTGGAATAGACTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
1 TATCTCCCTGAAATTGTAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
* *
11909140 TGCAACGGAATAGGTTGAAGATACGAA
66 TGCAACAGAATAGGTTGAAGATACAAA
* * * *
11909167 TATCTCCCTGAACTTGCAATGGAATAGATTAAAGTTACAAGCTACAAATCTTATCTCCCTGAAGT
1 TATCTCCCTGAAATTGTAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
*
11909232 TGCAGCAGAATAGGTTGAAGATACAAA
66 TGCAACAGAATAGGTTGAAGATACAAA
* *
11909259 TATCT-CCTCGAAATTGTAGTGGAGTAGATTAAAATTACAA
1 TATCTCCCT-GAAATTGTAGTGGAATAGATTAAAGTTACAA
11909299 TTCTTACACC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
91 3 0.03
92 114 0.97
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (92 bp):
TATCTCCCTGAAATTGTAGTGGAATAGATTAAAGTTACAAGCTACAAATCTTATATCCCTGAAGT
TGCAACAGAATAGGTTGAAGATACAAA
Found at i:11915372 original size:13 final size:13
Alignment explanation
Indices: 11915354--11915381 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11915344 CTATTTATCA
11915354 TATCTCAAAATCT
1 TATCTCAAAATCT
11915367 TATCTCAAAATCT
1 TATCTCAAAATCT
11915380 TA
1 TA
11915382 ATCAACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (13 bp):
TATCTCAAAATCT
Found at i:11919494 original size:21 final size:22
Alignment explanation
Indices: 11919455--11919496 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11919445 CTTTTGAATA
11919455 TTTTTATGATAATACATTATTAT
1 TTTTTATGATAATA-ATTATTAT
*
11919478 TTTTTATGATACT-ATTATT
1 TTTTTATGATAATAATTATT
11919497 CGTATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTTTATGATAATAATTATTAT
Found at i:11925003 original size:800 final size:800
Alignment explanation
Indices: 11923726--11926121 Score: 4720
Period size: 800 Copynumber: 3.0 Consensus size: 800
11923716 GTTTAAAATT
11923726 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
1 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
11923791 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
66 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
11923856 TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
131 TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
11923921 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
196 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
* *
11923986 TATAAACTCATAAGATGCTTCAGGTGTTTTATTGTTCAAAGTACCACCGGCTGCTGCATCGATTA
261 TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
11924051 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAGAGGTAACCCA
326 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAGAGGTAACCCA
11924116 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
391 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
11924181 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
456 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
*
11924246 GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAATTCAACCA
521 GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
11924311 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
586 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
11924376 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
651 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
11924441 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
716 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
11924506 ATTCGCAGTAATGGTGGGAA
781 ATTCGCAGTAATGGTGGGAA
11924526 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
1 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
11924591 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
66 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
* *
11924656 TCAATTTTTTATTTAAAAGTTCTATCTCATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
131 TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
11924721 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
196 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
11924786 TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
261 TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
*
11924851 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAAAGGTAACCCA
326 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAGAGGTAACCCA
11924916 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
391 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
11924981 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
456 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
*
11925046 GTAGGAATTTCTCTGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
521 GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
11925111 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
586 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
11925176 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
651 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
11925241 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
716 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
11925306 ATTCGCAGTAATGGTGGGAA
781 ATTCGCAGTAATGGTGGGAA
11925326 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
1 ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
11925391 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
66 TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
11925456 TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
131 TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
11925521 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
196 CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
11925586 TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
261 TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
*
11925651 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAAATTGTAACCATAGAGGTAACCCA
326 ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAGAGGTAACCCA
11925716 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
391 TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
11925781 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
456 AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
11925846 GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
521 GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
11925911 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
586 CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
11925976 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
651 CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
11926041 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
716 TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
11926106 ATTCGCAGTAATGGTG
781 ATTCGCAGTAATGGTG
11926122 TGTCTTACAA
Statistics
Matches: 1584, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
800 1584 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (800 bp):
ATTACCCATATAATTTATTTGCTCATTCTCCATGCTAGGACCGAAGGGTAAATATTCTGAATTAT
TTATTTCACCTCCATTAGCATCGCATTGCATCACCGGATGTACCTGCGTAGAAACACATAAACCA
TCAATTTTTTATTTAAAAGTTCTACCTGATTCGATAACATGGTGACCGCATCTAAGTTAAAAACA
CCGACTGCTTTTGTCGACTTTGTCCTCATGACTTGCCACTGATAATTATTCAATGACATCTCCTC
TATAAACTCATAAGCTGCTTCAGGTGTTTTATTGTTCAGAGTACCACCGGCTGCTGCATCGATTA
ACTGCCTAGTTGAGGGATTCAAATCGTTGTAGAAGGTTTGAACTTGTAACCATAGAGGTAACCCA
TGGTGAGGGCACATTCTCAATAAATCCTTATACCTCTTACATGCATCATATAGCGTTTCTAAGTC
AATCTGCACGAAGGAAGATATATCATTCCTCAGCTTAGCTGTCTTAGTCGGTGGAAAGTACTTTA
GTAGGAATTTCTCGGTCATTTGATCTCATGTAGTGATAGAACCTCGTATATAAGGAGTTCAACCA
CTGTTTAAATTTGTTTCTCAATGAGAAAGGGAATAATCGTAGGCGAATAGCATCGTAAGAAACGT
CATTTATCTTGAAAGTATCACAAACTTTCAAAAAATTAGCCAAATAAGTATTTGGATCTTCGTCC
TACAAACCATCGAACTAAACAAACTGTTGAATCATCTAAATAGTGTTCGGCTTCAGTTTGAAATT
ATTCGCAGTAATGGTGGGAA
Found at i:11937595 original size:123 final size:124
Alignment explanation
Indices: 11937267--11937616 Score: 594
Period size: 125 Copynumber: 2.8 Consensus size: 124
11937257 TTATTTCGAG
*
11937267 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * **
11937332 AAATCCCGCCCTCATGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAA-TTAATTTTT
*
11937392 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGAATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
11937457 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAA-TAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTAATTTTT
11937515 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
11937580 AAATCGCGCCATCGTGGACGCAATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
11937617 CAAGTTTGGG
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 103 0.49
125 109 0.51
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTAATTTTT
Found at i:11938174 original size:27 final size:26
Alignment explanation
Indices: 11938144--11938232 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
11938134 ATCTGGAAGA
*
11938144 CGCCAATGGTGGTGCCTATTGGGGAGG
1 CGCCAATGGTGGTGCCTATT-AGGAGG
**
11938171 CGCCAATAATGGTGCCTATCTAGGAGG
1 CGCCAATGGTGGTGCCTAT-TAGGAGG
*
11938198 CGCCAATGGTGGTGCCATATTAGAAGG
1 CGCCAATGGTGGTGCC-TATTAGGAGG
11938225 CGCCAATG
1 CGCCAATG
11938233 CTGTGATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 50 0.93
28 4 0.07
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.21
Consensus pattern (26 bp):
CGCCAATGGTGGTGCCTATTAGGAGG
Found at i:11938325 original size:22 final size:21
Alignment explanation
Indices: 11938297--11938340 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
11938287 CGGAAGAAAG
*
11938297 AAGAAGGAAGGAAGCAGAAGAA
1 AAGAAGGAAGGAA-AAGAAGAA
11938319 AAGAAGGAAGGAAAAGAAGAA
1 AAGAAGGAAGGAAAAGAAGAA
11938340 A
1 A
11938341 TAAATTAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (21 bp):
AAGAAGGAAGGAAAAGAAGAA
Found at i:11938335 original size:18 final size:20
Alignment explanation
Indices: 11938293--11938339 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
11938283 AAAACGGAAG
11938293 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
11938313 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
11938331 AAAGAAGAA
1 AAAGAAGAA
11938340 ATAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:11941382 original size:40 final size:38
Alignment explanation
Indices: 11941337--11941420 Score: 141
Period size: 40 Copynumber: 2.2 Consensus size: 38
11941327 AAAAAGTCGG
11941337 TTATAATTAAACTTTTAATAAAATGATTTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATGA-TTTTTAA-TTTTT
*
11941377 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
11941415 TTATAA
1 TTATAA
11941421 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 11 0.26
39 7 0.16
40 25 0.58
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:11941694 original size:49 final size:46
Alignment explanation
Indices: 11941568--11941964 Score: 236
Period size: 49 Copynumber: 8.5 Consensus size: 46
11941558 ATTATAAAAT
* ** *
11941568 AATTACAATATTCATACAAAAAATTACAATATTACAATATATC-CCCCA
1 AATTACAATATTCATAC--AAAATTATAATATTACAATAT-TCATACAA
* *
11941616 CATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
1 AATTACAATATTCATACAAAATTATAATATTACAATATTCATAC---AA
*
11941665 AATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAA
1 AATTACAATATTCATACAAAATTATAATATTACAATATTCATACAA
* * *
11941711 CATTACAATATTCATAAAAAAATTATAATATTCATACAA-AAT--TACAA
1 AATTACAATATTCAT-ACAAAATTATAATA-T--TACAATATTCATACAA
* * *
11941758 TATTACAATATTCATACAAAAAAATTGTAATATTCATACAAAATT-AT--AA
1 AATTACAATATTCATAC---AAAATTATAATA-T--TACAATATTCATACAA
* * *
11941807 TATTACAATATTCATACAAAAAATATAATATTCATACAA-AAT--TACAA
1 AATTACAATATTCATAC-AAAATTATAATA-T--TACAATATTCATACAA
*
11941854 AATTACAATATTCATAC-AAA--A-AA-ATTGCAATATTCATACAA
1 AATTACAATATTCATACAAAATTATAATATTACAATATTCATACAA
* * * * *
11941895 AACTATAATATTACAATATTCATACAA--AAAAT-TTATAATATTCATATAA
1 AATTACAATATT-C-ATA--CA-A-AATTATAATATTACAATATTCATACAA
11941944 AATTACAATATTCATACAAAA
1 AATTACAATATTCATACAAAA
11941965 AATTACTAAT
Statistics
Matches: 294, Mismatches: 28, Indels: 59
0.77 0.07 0.15
Matches are distributed among these distances:
38 4 0.01
39 2 0.01
40 1 0.00
41 16 0.05
42 3 0.01
43 6 0.02
44 1 0.00
45 9 0.03
46 40 0.14
47 74 0.25
48 21 0.07
49 109 0.37
50 7 0.02
51 1 0.00
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (46 bp):
AATTACAATATTCATACAAAATTATAATATTACAATATTCATACAA
Found at i:11941753 original size:115 final size:115
Alignment explanation
Indices: 11941617--11942091 Score: 433
Period size: 115 Copynumber: 4.2 Consensus size: 115
11941607 TATCCCCCAC
11941617 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
*
11941682 AAAATTATAATATTACAATATTCATACAACATTACAATATTCATAAAAAA
66 AAAATTATAATATTACAATATTCATACAAAATTACAATATTCATAAAAAA
* *
11941732 ATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGTAATATTCATAC
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
* *
11941797 AAAATTATAATATTACAATATTCATACAAAAAATATAATATTCATACAAAATTACAAA
66 AAAATTATAATATTACAATATTCATAC-AAAATTACAATATTCAT----AA--A-AAA
* *
11941855 ATTACAATATTCATAC-AAA--A-AA-ATTGCAATATTCATACAAAACTATAATATTACAATATT
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATAC-AAA--A-AA-ATTGCAATATT
* *
11941915 CATAC-AAA--A-AAT-TTATAATATTCATATAAAATTACAATATTCATACAAAAA
61 CATACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCATA-AAAAA
* * * * * * *
11941966 ATTAC--TA---ATCCAAAACTATAA-A-TACAA-ATTTAATTATAAAATAATTACAATATTCAT
1 ATTACAATATTCATACAAAATTACAATATTACAATA-TTCA-TACAAAAAAATTGCAATATTCAT
* * *
11942023 ACAACATTACAATATT-C-ATA---A-A-AAAATTATAATATTCATACAAAAA
64 ACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCATA-AAAAA
*
11942069 ATTTAAAATATTCATACAAAATT
1 A-TTACAATATTCATACAAAATT
11942092 CTAATCTAAA
Statistics
Matches: 305, Mismatches: 24, Indels: 68
0.77 0.06 0.17
Matches are distributed among these distances:
103 24 0.08
104 4 0.01
105 17 0.06
106 8 0.03
107 4 0.01
108 5 0.02
109 24 0.08
110 7 0.02
111 8 0.03
112 1 0.00
113 1 0.00
114 1 0.00
115 90 0.30
116 14 0.05
117 15 0.05
118 28 0.09
119 8 0.03
120 4 0.01
121 1 0.00
122 9 0.03
123 32 0.10
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (115 bp):
ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
AAAATTATAATATTACAATATTCATACAAAATTACAATATTCATAAAAAA
Found at i:11941790 original size:30 final size:27
Alignment explanation
Indices: 11941617--11941955 Score: 269
Period size: 27 Copynumber: 14.1 Consensus size: 27
11941607 TATCCCCCAC
11941617 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11941644 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
11941666 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
11941693 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
11941720 ATT-C-ATA---A-A-AAAATT--AT-
1 ATTACAATATTCATACAAAATTACAAT
11941737 -----AATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11941759 ATTACAATATTCATACAAAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
11941783 -TGT--AATATTCATACAAAATTATAAT
1 AT-TACAATATTCATACAAAATTACAAT
11941808 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
11941831 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAT
11941855 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
11941877 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTACAAT
11941904 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
* *
11941927 -TTATAATATTCATATAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11941953 ATT
1 ATT
11941956 CATACAAAAA
Statistics
Matches: 257, Mismatches: 12, Indels: 86
0.72 0.03 0.24
Matches are distributed among these distances:
14 3 0.01
17 1 0.00
18 2 0.01
19 6 0.02
20 16 0.06
21 5 0.02
22 60 0.23
23 22 0.09
24 12 0.05
25 12 0.05
26 21 0.08
27 97 0.38
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:11941790 original size:96 final size:97
Alignment explanation
Indices: 11941569--11941955 Score: 385
Period size: 96 Copynumber: 4.0 Consensus size: 97
11941559 TTATAAAATA
** *
11941569 ATTACAATATTCATACAAAAAATTACAATA-T-TACAATATATCCCCCACATTACAATATTCATA
1 ATTACAATATTCATACAAAAAATTACAATATTATACAATAT-TCTACAACATTACAATATTCATA
*
11941632 CAAAATTACAATATTACAATATTCATAC-AAA--A-AA-
65 C--AA--A-AA-ATTATAATATTCATACAAAATTACAAT
* *
11941666 ATTGCAATATTCATAC--AAAATTATAATA-T-TACAATATTCATACAACATTACAATATTCATA
1 ATTACAATATTCATACAAAAAATTACAATATTATACAATATTC-TACAACATTACAATATTCATA
11941727 -AAAAAATTATAATATTCATACAAAATTACAAT
65 CAAAAAATTATAATATTCATACAAAATTACAAT
** * * *
11941759 ATTACAATATTCATACAAAAAAATTGTAATATTCATACAA-AAT-TATAATATTACAATATTCAT
1 ATTACAATATTCATAC-AAAAAATTACAATATT-ATACAATATTCTACAACATTACAATATTCAT
*
11941822 ACAAAAAA-TATAATATTCATACAAAATTACAAA
64 ACAAAAAATTATAATATTCATACAAAATTACAAT
* * * *
11941855 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAA-A-ACTATAATATTACAATATTCAT
1 ATTACAATATTCATAC-AAAAAATTACAATATT-ATACAATATTCTACAACATTACAATATTCAT
*
11941918 ACAAAAAATTTATAATATTCATATAAAATTACAAT
64 ACAAAAAA-TTATAATATTCATACAAAATTACAAT
11941953 ATT
1 ATT
11941956 CATACAAAAA
Statistics
Matches: 258, Mismatches: 16, Indels: 31
0.85 0.05 0.10
Matches are distributed among these distances:
88 15 0.06
89 5 0.02
90 1 0.00
91 1 0.00
92 4 0.02
93 15 0.06
94 2 0.01
95 38 0.15
96 122 0.47
97 22 0.09
98 28 0.11
99 5 0.02
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (97 bp):
ATTACAATATTCATACAAAAAATTACAATATTATACAATATTCTACAACATTACAATATTCATAC
AAAAAATTATAATATTCATACAAAATTACAAT
Found at i:11941967 original size:41 final size:40
Alignment explanation
Indices: 11941898--11942089 Score: 160
Period size: 41 Copynumber: 4.7 Consensus size: 40
11941888 CATACAAAAC
*
11941898 TATAATATTACAATATTCATACAAAAAATTTATAATATTCA
1 TATAAAATTACAATATTCATACAAAAAA-TTATAATATTCA
*
11941939 TATAAAATTACAATATTCATACAAAAAATTACT-A-ATCCAA
1 TATAAAATTACAATATTCATACAAAAAATTA-TAATATTC-A
* * * *
11941979 AACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TA-TA-AAATTACAATA-TTCA-TACAAAA-AATTATAATATTCA
* *
11942022 TACAACATTACAATATTCATA-AAAAAATTATAATATTCA
1 TATAAAATTACAATATTCATACAAAAAATTATAATATTCA
* *
11942061 TACAAAAAATTTAAAATATTCATACAAAA
1 T--ATAAAA-TTACAATATTCATACAAAA
11942090 TTCTAATCTA
Statistics
Matches: 121, Mismatches: 15, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
39 17 0.14
40 11 0.09
41 46 0.38
42 31 0.26
43 13 0.11
44 3 0.02
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.33
Consensus pattern (40 bp):
TATAAAATTACAATATTCATACAAAAAATTATAATATTCA
Found at i:11942078 original size:22 final size:21
Alignment explanation
Indices: 11942003--11942089 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 21
11941993 ATTTAATTAT
*
11942003 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* *
11942025 --AACATTACAATATTCATA-
1 AAAAAATTAAAATATTCATAC
*
11942043 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
11942064 AAAAAATTTAAAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
11942086 AAAA
1 AAAA
11942090 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 15 0.26
20 18 0.32
21 6 0.11
22 18 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:11942275 original size:14 final size:13
Alignment explanation
Indices: 11942253--11942283 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11942243 CCTTTTTTCT
11942253 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
11942266 TTCTTCTCTTCTTC
1 TTCTT-TCTTCTTC
11942280 TTCT
1 TTCT
11942284 CCTTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:11942295 original size:14 final size:14
Alignment explanation
Indices: 11942258--11942295 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11942248 TTTCTTTCTT
*
11942258 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTCC
11942272 TCTTCTTCTTCTCC
1 TCTTCTTCTTCTCC
11942286 T-TTCTCTCTT
1 TCTTCT-TCTT
11942296 TTTTTTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTTCTTCTTCTCC
Found at i:11942295 original size:17 final size:17
Alignment explanation
Indices: 11942251--11942295 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11942241 TACCTTTTTT
* *
11942251 CTTTCTTTCTTCTTCTT
1 CTTTCTCTCTTCTTCTC
11942268 C-TTCTCTTCTTCTTCTC
1 CTTTCTC-TCTTCTTCTC
11942285 CTTTCTCTCTT
1 CTTTCTCTCTT
11942296 TTTTTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTTCTCTCTTCTTCTC
Found at i:11945333 original size:10 final size:10
Alignment explanation
Indices: 11945318--11945342 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11945308 CAAATCTAAC
11945318 ATTATGTAAA
1 ATTATGTAAA
11945328 ATTATGTAAA
1 ATTATGTAAA
11945338 ATTAT
1 ATTAT
11945343 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:11945425 original size:29 final size:29
Alignment explanation
Indices: 11945391--11945544 Score: 281
Period size: 29 Copynumber: 5.3 Consensus size: 29
11945381 AAATTATGTA
*
11945391 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
11945420 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
11945450 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
11945479 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
11945508 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
11945537 AAATTAGG
1 AAATTAGG
11945545 GTTTTTATTA
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 94 0.78
30 27 0.22
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:11945630 original size:36 final size:36
Alignment explanation
Indices: 11945590--11945704 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
11945580 ATATCAAATA
*
11945590 ATATCAAAATAACTCGAAAAAATTTCTATGCCTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
* **** * * *
11945626 ATATC-AAATAAACTTCTATTTTATTAC-AT-CAAATA
1 ATATCAAAAT-AAC-TCGAAAAAATTTCTATGCATATT
*
11945661 ATATCAAAATAACTCGAAAAAATTTCTATGCGTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
*
11945697 ACATCAAA
1 ATATCAAA
11945705 TAAACTTCTA
Statistics
Matches: 55, Mismatches: 19, Indels: 10
0.65 0.23 0.12
Matches are distributed among these distances:
34 7 0.13
35 17 0.31
36 24 0.44
37 7 0.13
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (36 bp):
ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
Found at i:11945656 original size:25 final size:25
Alignment explanation
Indices: 11945622--11945732 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
11945612 TTTCTATGCC
*
11945622 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
11945647 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * **
11945668 AATAAC-TCGAAA-AAATTTCTATGCG
1 TATTACATC-AAATAAACTTCTAT-TT
11945693 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
11945718 TATTACATCAAATAA
1 TATTACATCAAATAA
11945733 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.17
22 2 0.03
23 2 0.03
24 4 0.06
25 34 0.52
26 11 0.17
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:11945657 original size:71 final size:71
Alignment explanation
Indices: 11945550--11945734 Score: 334
Period size: 71 Copynumber: 2.6 Consensus size: 71
11945540 TTAGGGTTTT
*
11945550 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
11945615 CTATGCC
65 CTATGCC
*
11945622 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
11945687 TATGCG
66 TATGCC
11945693 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
11945735 AATTTAAATA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
71 96 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:11946162 original size:18 final size:18
Alignment explanation
Indices: 11946135--11946169 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11946125 CGGAAAAGGA
* *
11946135 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
11946153 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
11946170 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:11946610 original size:15 final size:15
Alignment explanation
Indices: 11946590--11946620 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11946580 TTTTGTGGTG
11946590 ATCGTCAAACACCTC
1 ATCGTCAAACACCTC
11946605 ATCGTCAAACACCTC
1 ATCGTCAAACACCTC
11946620 A
1 A
11946621 GGGTTCGCAG
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:0.35, C:0.39, G:0.06, T:0.19
Consensus pattern (15 bp):
ATCGTCAAACACCTC
Found at i:11946848 original size:7 final size:7
Alignment explanation
Indices: 11946836--11946860 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11946826 TTATGTATAT
11946836 AATACTA
1 AATACTA
11946843 AATACTA
1 AATACTA
11946850 AATACTA
1 AATACTA
11946857 AATA
1 AATA
11946861 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11947910 original size:21 final size:21
Alignment explanation
Indices: 11947871--11947910 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11947861 TGAAAATATA
* **
11947871 AAAAAATTTAAAATTATTTTT
1 AAAAAATATAAAAAAATTTTT
11947892 AAAAAATATAAAAAAATTT
1 AAAAAATATAAAAAAATTT
11947911 AAATTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATATAAAAAAATTTTT
Found at i:11947915 original size:30 final size:30
Alignment explanation
Indices: 11947863--11947927 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
11947853 GCCATTGATG
11947863 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
11947894 AAAATATAAAAAAATTT-AAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
11947923 AAAAT
1 AAAAT
11947928 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.32
30 6 0.18
31 17 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:11947983 original size:29 final size:29
Alignment explanation
Indices: 11947951--11948034 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
11947941 AATTGAAATT
11947951 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
11947980 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
11948002 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
11948031 AAAT
1 AAAT
11948035 TGAGAGGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:11947984 original size:51 final size:51
Alignment explanation
Indices: 11947928--11948042 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
11947918 TTTAAAAAAT
*
11947928 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
11947979 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
11948030 GAAATTGAGAGGA
1 GAAATTGAGAGGA
11948043 TTAGAGAGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:11950041 original size:23 final size:23
Alignment explanation
Indices: 11950002--11950049 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11949992 CTGCAAATCT
11950002 TATAAAAATAGTAAAAAATTATA
1 TATAAAAATAGTAAAAAATTATA
* *
11950025 TATAAATATA-TATAAAAATTTTA
1 TATAAAAATAGTA-AAAAATTATA
11950048 TA
1 TA
11950050 AGGTAGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TATAAAAATAGTAAAAAATTATA
Found at i:11950304 original size:20 final size:20
Alignment explanation
Indices: 11950281--11950380 Score: 70
Period size: 19 Copynumber: 5.2 Consensus size: 20
11950271 CTTTATAGTT
*
11950281 TTTTTATGATTTTTATAAAA
1 TTTTTATAATTTTTATAAAA
* *
11950301 -TTTTAAAATTTTT-TATAA
1 TTTTTATAATTTTTATAAAA
**
11950319 TATTTTACGATTTTTAT--AA
1 T-TTTTATAATTTTTATAAAA
11950338 TTTTT-TAATTTTTA-ATAAA
1 TTTTTATAATTTTTATA-AAA
11950357 TTTTTA-ATATTTTTATTAAAA
1 TTTTTATA-ATTTTTA-TAAAA
11950378 TTT
1 TTT
11950381 AATAATTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
17 7 0.11
18 8 0.13
19 22 0.35
20 18 0.29
21 7 0.11
22 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTATAATTTTTATAAAA
Found at i:11950311 original size:19 final size:19
Alignment explanation
Indices: 11950289--11950380 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
11950279 TTTTTTTATG
11950289 ATTTTTATAAAATTTTAAA
1 ATTTTTATAAAATTTTAAA
* **
11950308 ATTTTTTATAATATTTTACG
1 A-TTTTTATAAAATTTTAAA
**
11950328 ATTTTTAT--AATTTTTTA
1 ATTTTTATAAAATTTTAAA
* *
11950345 ATTTTTAATAAATTTTTAAT
1 ATTTTT-ATAAAATTTTAAA
11950365 ATTTTTATTAAAATTT
1 ATTTTTA-TAAAATTT
11950381 AATAATTTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
17 11 0.20
18 2 0.04
19 9 0.16
20 34 0.61
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTTATAAAATTTTAAA
Found at i:11950312 original size:29 final size:28
Alignment explanation
Indices: 11950280--11950370 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
11950270 ACTTTATAGT
*
11950280 TTTTTTATGATTTTTATAAAATTTTAAAA
1 TTTTTTAT-ATTTTTATAAATTTTTAAAA
** *
11950309 TTTTTTATAATATTTTA-CGATTTTTATAA
1 TTTTTTAT-AT-TTTTATAAATTTTTAAAA
*
11950338 TTTTTTA-ATTTTTAATAAATTTTTAATA
1 TTTTTTATATTTTT-ATAAATTTTTAAAA
11950366 TTTTT
1 TTTTT
11950371 ATTAAAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 13 0.26
29 25 0.50
30 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTTTATATTTTTATAAATTTTTAAAA
Found at i:11950342 original size:10 final size:10
Alignment explanation
Indices: 11950280--11950362 Score: 57
Period size: 10 Copynumber: 8.7 Consensus size: 10
11950270 ACTTTATAGT
*
11950280 TTTTTTATGA
1 TTTTTTATAA
11950290 -TTTTTATAA
1 TTTTTTATAA
** *
11950299 AATTTTAAAA
1 TTTTTTATAA
11950309 TTTTTTATAA
1 TTTTTTATAA
* **
11950319 TATTTTACGA
1 TTTTTTATAA
11950329 -TTTTTATAA
1 TTTTTTATAA
11950338 -TTTTT-TAA
1 TTTTTTATAA
*
11950346 TTTTTAATAA
1 TTTTTTATAA
*
11950356 ATTTTTA
1 TTTTTTA
11950363 ATATTTTTAT
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
8 3 0.05
9 23 0.42
10 29 0.53
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:11950388 original size:20 final size:21
Alignment explanation
Indices: 11950343--11950388 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
11950333 TATAATTTTT
*
11950343 TAATTTTTAATAAATTTTTAA
1 TAATTTTTAATAAATATTTAA
*
11950364 T-ATTTTTATTAAA-ATTTAA
1 TAATTTTTAATAAATATTTAA
11950383 TAATTT
1 TAATTT
11950389 AATATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 15 0.68
21 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTTTTAATAAATATTTAA
Found at i:11957761 original size:31 final size:31
Alignment explanation
Indices: 11957725--11957793 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
11957715 ATAAAATGAC
* * **
11957725 TACTGAACAATTCGAAAGTTTTTATTTAAAT
1 TACTGAACAATCCAAAAACTTTTATTTAAAT
* *
11957756 TACTGAACTATCCAAAAACTTTTATTTAAGT
1 TACTGAACAATCCAAAAACTTTTATTTAAAT
11957787 TACTGAA
1 TACTGAA
11957794 TTATTAAGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (31 bp):
TACTGAACAATCCAAAAACTTTTATTTAAAT
Found at i:11965040 original size:12 final size:12
Alignment explanation
Indices: 11965025--11965053 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11965015 TTACTGTTTT
11965025 ATTTAATATTTC
1 ATTTAATATTTC
11965037 ATTTAATATTTC
1 ATTTAATATTTC
11965049 ATTTA
1 ATTTA
11965054 TTTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTTC
Found at i:11967112 original size:19 final size:19
Alignment explanation
Indices: 11967088--11967134 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11967078 AACGTCTCTT
*
11967088 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
11967107 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
11967126 TATGCATTA
1 TTTGCATTA
11967135 AAGACTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:11968727 original size:40 final size:41
Alignment explanation
Indices: 11968673--11968774 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 41
11968663 AAATATATTT
* * *
11968673 ATTTTTTT-AATTTTAAAATATTTTTTACATACTTTTT-TA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
11968712 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
**
11968753 ATTTTTAAAAATTTTTAAAATA
1 ATTTTTTTAAA-TTTTAAAATA
11968775 AAAATAGGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 8 0.15
40 27 0.49
41 10 0.18
42 10 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (41 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
Found at i:11968737 original size:11 final size:11
Alignment explanation
Indices: 11968723--11968774 Score: 74
Period size: 10 Copynumber: 4.9 Consensus size: 11
11968713 TTTTTTTAAA
11968723 TTTTAAAATAT
1 TTTTAAAATAT
11968734 TTTTAAAATACT
1 TTTTAAAATA-T
11968746 TTTT-AAA-AT
1 TTTTAAAATAT
11968755 TTTTAAAA-AT
1 TTTTAAAATAT
11968765 TTTTAAAATA
1 TTTTAAAATA
11968775 AAAATAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.13
10 14 0.37
11 14 0.37
12 5 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:11968755 original size:31 final size:31
Alignment explanation
Indices: 11968714--11968774 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
11968704 CTTTTTTAAT
*
11968714 TTTTTTAAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTAAAA-ATTTTTAAAATAC
11968745 TTTTTAAAATTTTTAAAAATTTTTAAAATA
1 TTTTTAAAATTTTTAAAAATTTTTAAAATA
11968775 AAAATAGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTTAAAATTTTTAAAAATTTTTAAAATAC
Found at i:11969822 original size:6 final size:6
Alignment explanation
Indices: 11969813--11969875 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
11969803 GAAAATGATG
* * * * *
11969813 GAAAAA G-AAAA GAAAAG GAAAAA AAGAAAA G-GAAA GGAAAG GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA
11969860 GAAAAA G-AAAA GAAAA
1 GAAAAA GAAAAA GAAAA
11969876 GGATAGGCCA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
5 14 0.32
6 26 0.59
7 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:11969825 original size:5 final size:5
Alignment explanation
Indices: 11969815--11969876 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
11969805 AAATGATGGA
* * *
11969815 AAAAG AAAAG AAAAG GAAA- AAAAG AAAAGG AAAGG AAAGG AAAAAG AAAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG -AAAAG -AAAAG
11969867 AAAAG AAAAG
1 AAAAG AAAAG
11969877 GATAGGCCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
4 3 0.06
5 33 0.66
6 14 0.28
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11969839 original size:14 final size:14
Alignment explanation
Indices: 11969820--11969847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11969810 ATGGAAAAAG
11969820 AAAAGAAAAGGAAA
1 AAAAGAAAAGGAAA
11969834 AAAAGAAAAGGAAA
1 AAAAGAAAAGGAAA
11969848 GGAAAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGGAAA
Found at i:11969852 original size:36 final size:36
Alignment explanation
Indices: 11969779--11969870 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 36
11969769 AGTTTCAAAA
* * * *
11969779 AAAATAAAAA-AAAAACAAAAAAATGAAAATGATGG
1 AAAAGAAAAAGAAAAAGAAAAAAATGAAAAGGAAGG
*
11969814 AAAA-AGAAAAGAAAAGGAAAAAAA-GAAAAGGAAAGG
1 AAAAGA-AAAAGAAAAAGAAAAAAATGAAAAGG-AAGG
*
11969850 AAAGGAAAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAAAGAAAA
11969871 GAAAAGGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 1 0.02
35 14 0.30
36 31 0.66
37 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.04
Consensus pattern (36 bp):
AAAAGAAAAAGAAAAAGAAAAAAATGAAAAGGAAGG
Found at i:11972331 original size:132 final size:132
Alignment explanation
Indices: 11972090--11972431 Score: 567
Period size: 132 Copynumber: 2.6 Consensus size: 132
11972080 CTGTACTGAC
*
11972090 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * *
11972155 CCAATCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGAATGTACATCTTGTCTCCCTAAGTA
66 CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATGTACATCTTGTCTCCCTAAGCA
*
11972220 GT
131 AT
*
11972222 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGCGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
*
11972287 CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATGTAGATCTTGTCTCCCTAAGCA
66 CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATGTACATCTTGTCTCCCTAAGCA
11972352 AT
131 AT
* * * *
11972354 AGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAACCA
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* *
11972419 CCAGTCATATCTC
66 CCAATCCTATCTC
11972432 TTTGGCATTA
Statistics
Matches: 196, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 196 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATGTACATCTTGTCTCCCTAAGCA
AT
Found at i:11974403 original size:12 final size:12
Alignment explanation
Indices: 11974388--11974416 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11974378 TTACTGTTTT
11974388 ATTTAATATTTC
1 ATTTAATATTTC
11974400 ATTTAATATTTC
1 ATTTAATATTTC
11974412 ATTTA
1 ATTTA
11974417 TTTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTTC
Found at i:11979200 original size:14 final size:15
Alignment explanation
Indices: 11979164--11979193 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11979154 ATCAAAAAGT
*
11979164 AAATTAATTTTTTTA
1 AAATTAATTTTTATA
11979179 AAATTAATTTTTATA
1 AAATTAATTTTTATA
11979194 CATTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTAATTTTTATA
Found at i:11989050 original size:18 final size:18
Alignment explanation
Indices: 11989027--11989062 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11989017 CAAGTTATAC
11989027 AAGCTTAAGGTTAAATAT
1 AAGCTTAAGGTTAAATAT
11989045 AAGCTTAAGGTTAAATAT
1 AAGCTTAAGGTTAAATAT
11989063 TCAAGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
AAGCTTAAGGTTAAATAT
Found at i:12006299 original size:20 final size:20
Alignment explanation
Indices: 12006261--12006300 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12006251 TTTTGAACTA
*
12006261 AATTATTTTTATTTATTTAT
1 AATTATTTTTAATTATTTAT
12006281 AATTATTTTGTAATT-TTTAT
1 AATTATTTT-TAATTATTTAT
12006301 GTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTATTTTTAATTATTTAT
Found at i:12006327 original size:20 final size:20
Alignment explanation
Indices: 12006291--12006328 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12006281 AATTATTTTG
*
12006291 TAATTTTTATGTAATAAAAA
1 TAATTTTTATATAATAAAAA
12006311 TAATATTTTATAT-ATAAA
1 TAAT-TTTTATATAATAAA
12006329 TTATGCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTTTTATATAATAAAAA
Found at i:12008309 original size:2 final size:2
Alignment explanation
Indices: 12008302--12008352 Score: 52
Period size: 2 Copynumber: 25.5 Consensus size: 2
12008292 AATGCTTTCT
* *
12008302 TA TA TA TA TA TA TA T- TCA TA TA TA TG TA TA TG TA TA T- TCA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA
12008344 TA TA TA TA T
1 TA TA TA TA T
12008353 TTTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.90
3 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12008337 original size:22 final size:22
Alignment explanation
Indices: 12008306--12008348 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
12008296 CTTTCTTATA
12008306 TATATATATATTCATATATATG
1 TATATATATATTCATATATATG
*
12008328 TATATGTATATTCATATATAT
1 TATATATATATTCATATATAT
12008349 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATATATTCATATATATG
Found at i:12008866 original size:13 final size:13
Alignment explanation
Indices: 12008839--12008887 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
12008829 ACACTCAAAA
*
12008839 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
12008852 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
12008865 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
12008878 TTTTCAAAAG
1 TTTTCAAAAG
12008888 TAATGAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:12025201 original size:19 final size:20
Alignment explanation
Indices: 12025177--12025221 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
12025167 AGGGTTGGTT
12025177 TTTAATTTTT-AATAATTTA
1 TTTAATTTTTAAATAATTTA
12025196 TTTAATTTTTAAATAATTTA
1 TTTAATTTTTAAATAATTTA
12025216 TTTAAT
1 TTTAAT
12025222 CAAATCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTTTTAAATAATTTA
Found at i:12025630 original size:21 final size:22
Alignment explanation
Indices: 12025583--12025631 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
12025573 AATTGAACTT
**
12025583 AAATTGAATGAGATAAAATTCTTA
1 AAATTGAATGAGAT--AATTCAGA
12025607 AAATTGAATGAGAT-ATTCAGA
1 AAATTGAATGAGATAATTCAGA
12025628 AAAT
1 AAAT
12025632 CGCACGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
24 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (22 bp):
AAATTGAATGAGATAATTCAGA
Found at i:12031203 original size:99 final size:102
Alignment explanation
Indices: 12031006--12031209 Score: 231
Period size: 99 Copynumber: 2.0 Consensus size: 102
12030996 TTTGCAAAAT
** *
12031006 GCGCCGCAAAAATATCTTAACCGAAACGCATTGTTTTGGTCTTGATGTATCCTAGAATTAGTGGC
1 GCGCCGCAAAAATATCTTAACCGAAACGCAGAGTTTTGGTCTTGAGGTATCCTAGAATTAGTGGC
*** *
12031071 GCTTAAGGGAAAACGTCGTTAAGGCATAATATTAGCG
66 GCTTAAGGGAAAACGTCACAAAAGCATAATATTAGCG
* * **
12031108 GCGCCGC-AAAATATCTTAACC-AAATGTAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGC
1 GCGCCGCAAAAATATCTTAACCGAAACGCAGAGTTTTGGTCTTGAGGTATCCTAGAATTAGTGGC
*
12031170 GCTTATA-GGAAAACG-CAACAAACAG-ATAGTATTAGCG
66 GCTTA-AGGGAAAACGTC-ACAAA-AGCATAATATTAGCG
12031207 GCG
1 GCG
12031210 GTTTTTGAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
98 1 0.01
99 57 0.66
100 8 0.09
101 14 0.16
102 7 0.08
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (102 bp):
GCGCCGCAAAAATATCTTAACCGAAACGCAGAGTTTTGGTCTTGAGGTATCCTAGAATTAGTGGC
GCTTAAGGGAAAACGTCACAAAAGCATAATATTAGCG
Found at i:12031764 original size:115 final size:114
Alignment explanation
Indices: 12031108--12031765 Score: 614
Period size: 115 Copynumber: 5.8 Consensus size: 114
12031098 AATATTAGCG
* * * * **
12031108 GCGCCGCAAAATATCTTAACC-AAATGTAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
** ** * * * * *
12031171 CTTATAGGAAAACGCAACAAACAG-ATAGTATTAGCGGCGGTTTTTGAAA
66 CTTACGGGAAAACGCCGCTAA-AGCATAGTATTAGCGGCGATTTGTGGAT
* ** ** * * *
12031220 GCTCCGTGAAATATCTGGACCAAAACGCATCGTTTTGGTTTTGCT-TAT-CTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * *
12031283 TTTAC-CGAAAACGCCGCTACAA-CATAGTATTAGCGGCGAGTAGTGGCT
66 CTTACGGGAAAACGCCGCTA-AAGCATAGTATTAGCGGCGATTTGTGGAT
*
12031331 GTCGCCGCAAAATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
1 G-CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
* * * * * ** *
12031396 GCTTACAGTAAAATGCCGTTAAATG-ATAGTATTAGCGGCGCTTTGGTAAAA
65 GCTTACGGGAAAACGCCGCTAAA-GCATAGTATTAGCGGCGATTT-GTGGAT
* * * ** **
12031447 GCGCTGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATGTTAGCGTTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
** * * * * *
12031512 CTTATTGGAAAATGCAGCTAAAGGATAGTATTAGCGGCGCTTTTTGGAT
66 CTTACGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTGGAT
* * * * * *
12031561 GCACCGCAAAATATCTAAACCAAAACGCAGCGTTTTGGTCTGGATGTATATTTGAATTATTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* *
12031626 CTTACGGTG-AAACACCGCTAAAGCATAGTATTAGCGGCGATTTGTGGCT
66 CTTACGG-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTGGAT
* * *
12031675 AGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTTGTGGC
1 -GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
* *
12031740 GCTTACGGGAAACCGCCGCGAAAGCA
65 GCTTACGGGAAAACGCCGCTAAAGCA
12031766 AATTGTTAAA
Statistics
Matches: 435, Mismatches: 96, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
111 30 0.07
112 69 0.16
113 12 0.03
114 126 0.29
115 195 0.45
116 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (114 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
CTTACGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTGGAT
Found at i:12032601 original size:15 final size:15
Alignment explanation
Indices: 12032578--12032639 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
12032568 GGTTTTAAGA
12032578 TTTAA-GGTTTAGGG
1 TTTAAGGGTTTAGGG
12032592 TTTAAGGGTTTAGCGG
1 TTTAAGGGTTTAG-GG
* *
12032608 CTT-AGGATTTTAGGG
1 TTTAAGG-GTTTAGGG
* *
12032623 TTTAGGGGTTTAAGG
1 TTTAAGGGTTTAGGG
12032638 TT
1 TT
12032640 AAATCCCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 5 0.13
15 22 0.58
16 11 0.29
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.42
Consensus pattern (15 bp):
TTTAAGGGTTTAGGG
Found at i:12033257 original size:148 final size:148
Alignment explanation
Indices: 12033104--12033386 Score: 379
Period size: 148 Copynumber: 1.9 Consensus size: 148
12033094 TTTACTACGA
* * *
12033104 GTTGAGGAAACGGCGCCGTTTCCTACTTTTATTAGTGGCGCTTCAGGTAAAGCGCCGCAAAAATA
1 GTTGAGGAAACGACGCCGTTTCCTACTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAATA
* * * *
12033169 TTTAAGGTTATCTGATAACGGTGCCGTTTTGTCCATGTTATTAGTGGCGTTTTTACTGC-AAGCG
66 TTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACT-CTAAGCG
12033233 CCACAAATATTTATTAGTG
130 CCACAAATATTTATTAGTG
* * * ** ** *
12033252 GTTGAGGTAACGATGCCGTTTCCTATTTTTATTAGTGGCGCTTTTGATAAAACGCCTTAAAAATG
1 GTTGAGGAAACGACGCCGTTTCCTACTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAATA
* * * *
12033317 TTTATGGTTATCTAATAACAGTGTCATTTTGTCCATGGTATTTGTGGCGTTTTTGCTCTAAGCGC
66 TTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACTCTAAGCGC
12033382 CACAA
131 CACAA
12033387 GTTTTAGCTT
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
147 1 0.01
148 114 0.99
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (148 bp):
GTTGAGGAAACGACGCCGTTTCCTACTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAATA
TTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACTCTAAGCGC
CACAAATATTTATTAGTG
Found at i:12033420 original size:148 final size:148
Alignment explanation
Indices: 12033104--12033441 Score: 350
Period size: 148 Copynumber: 2.3 Consensus size: 148
12033094 TTTACTACGA
* * *
12033104 GTTGAGGAAACGGC-GCCGTTTCCTACTTTTATTAGTGGCGCTTCAGGTAAAGCGCCGCAAAAAT
1 GTTGA-GAAACGGCTGCCGTTTCCTATTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAAT
* * * *
12033168 ATTTAAGGTTATCTGATAACGGTGCCGTTTTGTCCATGTTATTAGTGGCGTTTTTACTGCAAGCG
65 ATTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACTGCAAGCG
*
12033233 CCACAAATATTTATTAGTG
130 CCACAAATATTTATTAATG
* * ** **
12033252 GTTGAGGTAAC-GATGCCGTTTCCTATTTTTATTAGTGGCGCTTTTGATAAAACGCCTTAAAAAT
1 GTTGA-GAAACGGCTGCCGTTTCCTATTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAAT
* * * * *
12033316 GTTTATGGTTATCTAATAACAGTGTCATTTTGTCCATGGTATTTGTGGCGTTTTTGCT-CTAAGC
65 ATTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACTGC-AAGC
*
12033380 GCCACAAGT-TTTAGCTTAAT-
129 GCCACAAATATTTA--TTAATG
* **
12033400 GTGTGTA-AAACGGCTG-CGTTT-GTATTGATATTAGTGGCGCTT
1 GT-TG-AGAAACGGCTGCCGTTTCCTATTTTTATTAGTGGCGCTT
12033442 ATTTATAAGC
Statistics
Matches: 158, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
147 24 0.15
148 124 0.78
149 9 0.06
150 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (148 bp):
GTTGAGAAACGGCTGCCGTTTCCTATTTTTATTAGTGGCGCTTCAGATAAAACGCCGCAAAAATA
TTTAAGGTTATCTAATAACAGTGCCATTTTGTCCATGGTATTAGTGGCGTTTTTACTGCAAGCGC
CACAAATATTTATTAATG
Found at i:12034890 original size:3 final size:3
Alignment explanation
Indices: 12034882--12034919 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
12034872 CTTAATAAAT
* *
12034882 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12034920 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12046385 original size:1 final size:1
Alignment explanation
Indices: 12046379--12046408 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
12046369 TTTGCTTCCT
*
12046379 AAAAAAAAAAAAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12046409 CTTTGGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:12047705 original size:44 final size:44
Alignment explanation
Indices: 12047647--12048020 Score: 305
Period size: 44 Copynumber: 8.6 Consensus size: 44
12047637 AAAGAATTTC
* *
12047647 AGATCTTATCTCCCTGAGGTCACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
12047691 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
12047734 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * *
12047777 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-CCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * * *
12047821 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---G
* *
12047865 AGATCATATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
12047909 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
12047952 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
*
12047995 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
12048021 CAGAGTAGAT
Statistics
Matches: 254, Mismatches: 64, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
41 28 0.11
42 9 0.04
43 56 0.22
44 127 0.50
45 2 0.01
46 31 0.12
47 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
Found at i:12047875 original size:131 final size:131
Alignment explanation
Indices: 12047612--12047948 Score: 330
Period size: 131 Copynumber: 2.6 Consensus size: 131
12047602 GGTCTTATTC
* * ** * *
12047612 CCCTG-AGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTCACAGTGGA
1 CCCTGAAG-TTACAGTGGAGCAGATTAAAGAA--AGAGATCTTATCTCCCTGAAGTTACAGTGGA
* * * * *
12047676 GCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCT
63 GCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCAAAGACACGATCAT
12047741 ATCT
128 ATCT
* * *
12047745 CCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCCCTGAAGTTACAGTAGAGC
1 CCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAAGTTACAGTGGAGC
* * *
12047809 AGATCGCA-CCAG-G-TCTTATTTCCCTGAGATTACAGTGGAACAGA-CTAAAGA-ATTTCAGAT
65 AGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATC-AAAGACA---C-GAT
12047869 CATATCT
125 CATATCT
* * ** *
12047876 CCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGC
1 CCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAAG-TTACAGTGGAGC
12047940 AGATCGAAG
65 AGATCGAAG
12047949 ACACTATCCT
Statistics
Matches: 168, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
127 2 0.01
128 32 0.19
129 1 0.01
130 11 0.07
131 96 0.57
133 19 0.11
134 7 0.04
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
CCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAAGTTACAGTGGAGCA
GATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCAAAGACACGATCATATC
T
Found at i:12047962 original size:87 final size:88
Alignment explanation
Indices: 12047647--12047982 Score: 278
Period size: 87 Copynumber: 3.9 Consensus size: 88
12047637 AAAGAATTTC
* * * * **
12047647 AGATCTTATCTCCCTGAGGTCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAG-T
*
12047711 TACAGCGGAGCAGATCGAAGACA-
65 TACAGTGGAGCAGATCGAAGACAG
** * * * * * **
12047734 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAAAATAAAGGATCTTATCTCCCTGAAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGA-CATCGATCTTATCTCCCTGAAG
* * *
12047797 TTACAGTAGAGCAGATCGCA-CCAG
64 TTACAGTGGAGCAGATCGAAGACAG
* * * *
12047821 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGA-CTAAAGA-ATTTCAGATCATATCTCCCTGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGACA--TC-GATCTTATCTCCCTGA
* * *
12047882 GGTTACAGTGGAGCAGATTGAAGCCAG
62 AGTTACAGTGGAGCAGATCGAAGACAG
* * *
12047909 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAGTT
12047973 ACAGTGGAGC
66 ACAGTGGAGC
12047983 GGATTAAAAT
Statistics
Matches: 197, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
84 1 0.01
85 25 0.13
86 8 0.04
87 121 0.61
88 7 0.04
89 1 0.01
90 32 0.16
91 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (88 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAGTT
ACAGTGGAGCAGATCGAAGACAG
Found at i:12047979 original size:218 final size:218
Alignment explanation
Indices: 12047601--12048072 Score: 838
Period size: 218 Copynumber: 2.2 Consensus size: 218
12047591 TCATTATAAA
* *
12047601 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCATATCTCCCTGAGG
12047666 TCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
66 TCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
12047731 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAA
131 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAA
*
12047796 GTTACAGTAGAGCAGATCGCACC
196 GTTACAGCAGAGCAGATCGCACC
12047819 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCATATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCATATCTCCCTGAGG
*
12047884 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
66 TCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
* *
12047949 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAG
131 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAA
* *
12048014 GTTACAGCAGAGTAGATCGCATC
196 GTTACAGCAGAGCAGATCGCACC
* *
12048037 AGGTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACT
1 AGGTCTTATTTCCCTG-AGATTACAGTGGAACAGACT
12048073 GAACACAACA
Statistics
Matches: 243, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
218 240 0.99
219 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (218 bp):
AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCATATCTCCCTGAGG
TCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAA
GTTACAGCAGAGCAGATCGCACC
Found at i:12048001 original size:87 final size:87
Alignment explanation
Indices: 12047871--12048032 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
12047861 TTTCAGATCA
* * ** *
12047871 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
12047936 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
12047958 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
12048022 AGAGTAGATCG
65 AGAGCAGATCG
12048033 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 60 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:12049467 original size:3 final size:3
Alignment explanation
Indices: 12049459--12049496 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
12049449 CTTAATAAAT
* *
12049459 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12049497 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12051101 original size:14 final size:14
Alignment explanation
Indices: 12051082--12051136 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
12051072 TATATTCCAG
12051082 TTGCTGGAATATAC
1 TTGCTGGAATATAC
12051096 TTGCTGGAATATA-
1 TTGCTGGAATATAC
* ***
12051109 TGGCCAAATATATAC
1 TTGCTGGA-ATATAC
12051124 TTGCTGGAATATA
1 TTGCTGGAATATA
12051137 TACTTTACTA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (14 bp):
TTGCTGGAATATAC
Found at i:12051136 original size:16 final size:16
Alignment explanation
Indices: 12051051--12051141 Score: 68
Period size: 16 Copynumber: 5.9 Consensus size: 16
12051041 CTTATAACTT
*
12051051 TGGAATATATACTTGT
1 TGGAATATATACTTGC
*
12051067 TGGAATATATTCCAGTTGC
1 TGGAATATA-T--ACTTGC
12051086 TGG-A-ATATACTTGC
1 TGGAATATATACTTGC
*
12051100 TGG-A-ATATA-TGGC
1 TGGAATATATACTTGC
**
12051113 -CAAATATATACTTGC
1 TGGAATATATACTTGC
12051128 TGGAATATATACTT
1 TGGAATATATACTT
12051142 TACTAAAATC
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
13 4 0.07
14 19 0.32
15 3 0.05
16 21 0.36
17 4 0.07
18 1 0.02
19 7 0.12
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (16 bp):
TGGAATATATACTTGC
Done.