Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 95 of 144
Found at i:29083864 original size:236 final size:236
Alignment explanation
Indices: 29083451--29083876 Score: 601
Period size: 236 Copynumber: 1.8 Consensus size: 236
29083441 ATAAGACTTG
** *
29083451 TATCTTCGATCTACTTCACTGCTGATACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATG
1 TATCTTCGATCTACTTCACCACTAATACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATG
* * * **
29083516 TCAATACATGAAGACAAGATCCATTATCTTCGATCTTCTTCACCACCAGTATGGGAAGACAAGAT
66 TCAATACATGAAAACAACATCCATTATCTTCGATCTTCTTCACCACCAATACAGGAAGACAAGAT
* * *
29083581 CTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTCTGATCTGCTAT
131 CTACTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTGCTATATCTGATCTGCTAT
29083646 CTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCAT
196 CTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCAT
** *
29083687 TATCTTCGATCTACTTCACCACTAATATGGGAAGACAAGATCTGCTATCT-TCGATCTACTTCGT
1 TATCTTCGATCTACTTCACCACTAATACAGGAAGACAAGATCTGCTATCTCT-GATCTACTTCAT
* *
29083751 GTCAATACATGAAAACAACATCTGCCA-T-TCTTCGAT-TTACTTCA-CGCCAATACATGAAGAC
65 GTCAATACATGAAAACAACA--T-CCATTATCTTCGATCTT-CTTCACCACCAATACAGGAAGAC
* * *
29083812 ACGATCTACTATCTTCGATCTATTTCATGTCAATACATAAAGACAAGATCTGCTATATTTGATCT
126 AAGATCTACTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTGCTATATCTGATCT
29083877 ACTTCGCTGC
Statistics
Matches: 166, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
235 1 0.01
236 147 0.89
237 13 0.08
238 2 0.01
239 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (236 bp):
TATCTTCGATCTACTTCACCACTAATACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATG
TCAATACATGAAAACAACATCCATTATCTTCGATCTTCTTCACCACCAATACAGGAAGACAAGAT
CTACTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTGCTATATCTGATCTGCTAT
CTCTGATCTACTTCATGTCAATACATAAAGACAAGATCCAT
Found at i:29084011 original size:88 final size:88
Alignment explanation
Indices: 29083650--29084104 Score: 448
Period size: 89 Copynumber: 5.1 Consensus size: 88
29083640 TGCTATCTCT
* * ***
29083650 GATCTACTTCATGTCAATACATAAAGACAAGATCCATTATCTTCGATCTACTTCAC-CACTAATA
1 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTATCTTCGATCTACTTCACGC-C-AATA
*** **
29083714 TGGGAAGACAAGATCTGCTATCTTC
64 CATGAAGACAAGATCTATTATCTTC
** * * * *
29083739 GATCTACTTCGTGTCAATACATGAAA-ACAACATCTGCCATTCTTCGATTTACTTCACGCCAATA
1 GATCTACTTCACGCCAATACAT-AAAGACAAGATCTGCTA-TCTTCGATCTACTTCACGCCAATA
* *
29083803 CATGAAGACACGATCTACTATCTTC
64 CATGAAGACAAGATCTATTATCTTC
* * * * * * * *
29083828 GATCTATTTCATGTCAATACATAAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTAG
1 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATAC
* * *
29083893 AGGAAGACAAGATCTGTTTTCTTC
65 ATGAAGACAAGATCTATTATCTTC
* * * *
29083917 GATCTACTTCACGCCAGTACATAAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAGTACA
1 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACA
* * *
29083982 TGAAGATAAGATTTATTTTCTTC
66 TGAAGACAAGATCTATTATCTTC
* * * * *
29084005 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCATGTCAATAC
1 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTATCTTC-GATCTACTTCACGCCAATAC
* *
29084069 ATGAAGACAAGATCCATTACCTTC
65 ATGAAGACAAGATCTATTATCTTC
29084093 GATCTACTTCAC
1 GATCTACTTCAC
29084105 CACCAGTATG
Statistics
Matches: 307, Mismatches: 53, Indels: 13
0.82 0.14 0.03
Matches are distributed among these distances:
87 2 0.01
88 128 0.42
89 156 0.51
90 20 0.07
91 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (88 bp):
GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTATTATCTTC
Found at i:29084283 original size:23 final size:22
Alignment explanation
Indices: 29084240--29084297 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
29084230 AAAGGATATC
* *
29084240 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
29084261 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
29084284 TACATATCATATCT
1 TACAAATCATATCT
29084298 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:29084300 original size:19 final size:20
Alignment explanation
Indices: 29084253--29084310 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
29084243 AAATTAAATC
*
29084253 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
29084276 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
29084295 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
29084311 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:29085231 original size:100 final size:100
Alignment explanation
Indices: 29085150--29085467 Score: 501
Period size: 100 Copynumber: 3.2 Consensus size: 100
29085140 AGATTTGCCA
* * *
29085150 TTGTGGCTTTAATCTATTTAACTGCAATGTCGGGGAAACCAGATTCGCCGTCGTAGCTTCAATCT
1 TTGTGGCTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCT
*
29085215 GTTCCACTAGACCGCCAGGGAAGTAAGATTCACCG
66 GTTCCACTACACCGCCAGGGAAGTAAGATTCACCG
* * * * *
29085250 TTGTGACTTCAATCCATTTAACTACAATGTTAGGGAAACAAGATTCGCTGTCGTAGCTTCAATCT
1 TTGTGGCTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCT
* *
29085315 ATTCCATTACACCGCCAGGGAAGTAAGATTCACCG
66 GTTCCACTACACCGCCAGGGAAGTAAGATTCACCG
* *
29085350 TTGTGGCTTCAATCTATTTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCGTAGCTTTAATCT
1 TTGTGGCTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCT
* *
29085415 GTTCCACTACACCGCTAGGGAAGTAAGATTCATCG
66 GTTCCACTACACCGCCAGGGAAGTAAGATTCACCG
29085450 TTGTGGCTTCAATCTATT
1 TTGTGGCTTCAATCTATT
29085468 CCACTGTAAT
Statistics
Matches: 196, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 196 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (100 bp):
TTGTGGCTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCT
GTTCCACTACACCGCCAGGGAAGTAAGATTCACCG
Found at i:29085236 original size:50 final size:50
Alignment explanation
Indices: 29085182--29085472 Score: 226
Period size: 50 Copynumber: 5.8 Consensus size: 50
29085172 TGCAATGTCG
* * * * *
29085182 GGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAGACCGCCA
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCTA
** * * ** ** *
29085232 GGGAAGTAAGATTCACCGTTGT-GACTTCAATCCATTTAACTACAATGTTA
1 GGGAAACAAGATTCACCGTCGTAG-CTTCAATCTATTCCACTACACCGCTA
* * * *
29085282 GGGAAACAAGATTCGCTGTCGTAGCTTCAATCTATTCCATTACACCGCCA
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCTA
** * * ** * ** *
29085332 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTATTTAACTGCAATG-TT
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCTA
* * *
29085381 GGAGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCACTACACCGCTA
1 GG-GAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCTA
** * * *
29085432 GGGAAGTAAGATTCATCGTTGTGGCTTCAATCTATTCCACT
1 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACT
29085473 GTAATGCCAA
Statistics
Matches: 175, Mismatches: 62, Indels: 8
0.71 0.25 0.03
Matches are distributed among these distances:
49 3 0.02
50 168 0.96
51 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCTA
Found at i:29085690 original size:168 final size:168
Alignment explanation
Indices: 29085434--29085806 Score: 511
Period size: 168 Copynumber: 2.2 Consensus size: 168
29085424 CACCGCTAGG
* * * **
29085434 GAAGTAAGATTCATCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTTGCT
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCAATGCAATGCCAAAGAGATAGGATCCGCT
* * *
29085499 GCCCACAGCTTTAATCTGCTCCACTTCAGCTAATCT-AAGTCTTAACGCCAGGGAGATAAGATTC
66 GCCCACAGCTTCAATCTGCTCCACTTCAGCT-ATCTCAAGTCTTAACGCCAAGGAAATAAGATTC
*
29085563 GCTGCCCTCAGCTTTAA-TCTGCTCAC-CTATAACGTCAGA
130 GCTACCCTCAGCTTTAACT-TGCTC-CGCTATAACGTCAGA
* **
29085602 GAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGAATGCAATGCCAAAGAGATAGGATCCGCT
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCAATGCAATGCCAAAGAGATAGGATCCGCT
* *
29085667 GCCCACAGCTTCAAT-TCGCTCCACTTCTGCTATTTCAAGTCTTAACGCCAAGGAAATAAGATTC
66 GCCCACAGCTTCAATCT-GCTCCACTTCAGCTATCTCAAGTCTTAACGCCAAGGAAATAAGATTC
*
29085731 GCTACCCTCAGCTTTAACTTGCTCCGCTATAACGTCAGG
130 GCTACCCTCAGCTTTAACTTGCTCCGCTATAACGTCAGA
* * * *
29085770 GAAGTAAGATTCACCATCGTTGCTTCAATCTGTTCCA
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCA
29085807 CTACACCGCT
Statistics
Matches: 179, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
167 5 0.03
168 173 0.97
169 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (168 bp):
GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCAATGCAATGCCAAAGAGATAGGATCCGCT
GCCCACAGCTTCAATCTGCTCCACTTCAGCTATCTCAAGTCTTAACGCCAAGGAAATAAGATTCG
CTACCCTCAGCTTTAACTTGCTCCGCTATAACGTCAGA
Found at i:29085824 original size:50 final size:50
Alignment explanation
Indices: 29085767--29085951 Score: 199
Period size: 50 Copynumber: 3.9 Consensus size: 50
29085757 CTATAACGTC
* *
29085767 AGGGAAGTAAGATTCACCATCGTTGCTTCAATCTGTTCCACTACACCGCT
1 AGGGAAGTAAGATTCACCGTCGTGGCTTCAATCTGTTCCACTACACCGCT
* *
29085817 AGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTG-----C-A-A-TG-T
1 AGGGAAGTAAGATTCACCGTCGTGGCTTCAATCTGTTCCACTACACCGCT
* ** * *
29085858 TGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCC
1 AGG-GAAGTAAGATTCACCGTCGTGGCTTCAATCTGTTCCACTACACCGCT
* *
29085909 AGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTA
1 AGGGAAGTAAGATTCACCGTCGTGGCTTCAATCTGTTCCACTA
29085952 TAATGCCAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.27
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 68 0.63
51 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (50 bp):
AGGGAAGTAAGATTCACCGTCGTGGCTTCAATCTGTTCCACTACACCGCT
Found at i:29085932 original size:92 final size:92
Alignment explanation
Indices: 29085775--29085942 Score: 309
Period size: 92 Copynumber: 1.8 Consensus size: 92
29085765 TCAGGGAAGT
* *
29085775 AAGATTCACCATCGTTGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCGTTGT
1 AAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGT
29085840 GGCTTCAATCTGCAATGTTGGAGAAAC
66 GGCTTCAATCTGCAATGTTGGAGAAAC
*
29085867 AAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGT
1 AAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGT
29085932 GGCTTCAATCT
66 GGCTTCAATCT
29085943 ATTCCACTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (92 bp):
AAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGT
GGCTTCAATCTGCAATGTTGGAGAAAC
Found at i:29085965 original size:478 final size:482
Alignment explanation
Indices: 29085300--29086281 Score: 1560
Period size: 478 Copynumber: 2.0 Consensus size: 482
29085290 AGATTCGCTG
*
29085300 TCGTAGCTTCAATCTATTCCATTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 TCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAA--T
* *
29085365 ATTTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCACTACACCGC
64 A-TT-ACTGCAATGTTGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGC
* * *
29085430 TAGGGAAGTAAGATTCATCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATT
127 CAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATT
** **
29085495 TGCTGCCCACAGCTTTAATCTGCTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGA
192 CACTGCCCACAGCTTTAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGA
29085560 TTCGCTGCCCTCAGCTTTAATCTGCTCACCTATAACGTCA-GAGAAGTAAGATTCACCGTTTTGG
257 TTCGCTGCCCTCAGCTTTAATCTGCTCACCTATAACGTCAGGA-AAGTAAGATTCACCGTTTTGG
*
29085624 CTTCAATCTATTTGAATGCAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATTCGCTCC
321 CTTCAATCTATTTGAATGCAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCC
* * * *
29085689 ACTTCTGCTATTTCAAGTCTTAACGCCAAGGAAATAAGATTCGCTACCCTCAGCTTTAACTTGCT
386 ACTTCAGCTATTTCAAGTCTTAACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACT
29085754 CCGCTATAACGTCAGGGAAGTAAGATTCACCA
451 CCGCTATAACGTCAGGGAAGTAAGATTCACCA
* * *
29085786 TCGTTGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCGTTGTGGCTTC-A-A-
1 TCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATAT
29085848 T-CTGCAATGTTGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGG
66 TACTGCAATGTTGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGG
*
29085912 GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCATT
131 GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCACT
* * *
29085977 GCCCACTGCTTTAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGTGAGATAAGATTTG
196 GCCCACAGCTTTAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCG
* * ***
29086042 CTGCCCTCAGCTTTAATCTGCTCAGCTATAACGTTAGGAAAGTAAGATTCGTTGTTTTGGCTTCA
261 CTGCCCTCAGCTTTAATCTGCTCACCTATAACGTCAGGAAAGTAAGATTCACCGTTTTGGCTTCA
* *
29086107 ATCTATTTGACTGCAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTC
326 ATCTATTTGAATGCAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCCACTTC
* * *
29086172 AGCTATTTCAAGTCTTAACGCCAAGGAGATAAGATTCACTACCCTCATATTTAATTTACTCCGCT
391 AGCTATTTCAAGTCTTAACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACTCCGCT
*
29086237 ATAACGTCAGGGAAGTAAGATTCACCG
456 ATAACGTCAGGGAAGTAAGATTCACCA
** *
29086264 TTTTGGCTTCAATCTATT
1 TCGTAGCTTCAATCTATT
29086282 TGACTGCAAT
Statistics
Matches: 458, Mismatches: 37, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
478 397 0.87
479 2 0.00
480 1 0.00
482 1 0.00
485 1 0.00
486 56 0.12
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (482 bp):
TCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATAT
TACTGCAATGTTGGAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGG
GAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCACT
GCCCACAGCTTTAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCG
CTGCCCTCAGCTTTAATCTGCTCACCTATAACGTCAGGAAAGTAAGATTCACCGTTTTGGCTTCA
ATCTATTTGAATGCAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCCACTTC
AGCTATTTCAAGTCTTAACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACTCCGCT
ATAACGTCAGGGAAGTAAGATTCACCA
Found at i:29085974 original size:50 final size:50
Alignment explanation
Indices: 29085867--29085963 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
29085857 TTGGAGAAAC
* * **
29085867 AAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGT
1 AAGATTCACCGTCGTAGCTTCAATCTATTCCACTACAACGCCAAAGAAGT
* * * *
29085917 AAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGA
1 AAGATTCACCGTCGTAGCTTCAATCTATTCCACTACAACGCCAAAGA
29085964 GATAGGATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
AAGATTCACCGTCGTAGCTTCAATCTATTCCACTACAACGCCAAAGAAGT
Found at i:29086191 original size:168 final size:168
Alignment explanation
Indices: 29085908--29086292 Score: 513
Period size: 168 Copynumber: 2.3 Consensus size: 168
29085898 ACTACACCGC
* * ** **
29085908 CAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATT
1 CAGGAAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATGCCAAAGAGATAGGATT
* * *
29085973 CATTGCCCACTGCTTTAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCC-AGTGAGATAAG
66 CACTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAAG-GAGATAAG
** * * *
29086037 ATTTGCTGCCCTCAGCTTTAATCTGCTCAGCTATAACGT
130 ATTCACTACCCTCAGATTTAATCTACTCAGCTATAACGT
* ***
29086076 TAGGAAAGTAAGATTCGTTGTTTTGGCTTCAATCTATTTGACTGCAATGCCAAAGAGATAGGATT
1 CAGGAAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATGCCAAAGAGATAGGATT
* * *
29086141 CGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCT-ATTTCAAGTCTTAACGCCAAGGAGATAAG
66 CACTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCT-AAGTCTTAACGCCAAGGAGATAAG
* * *
29086205 ATTCACTACCCTCATATTTAATTTACTCCGCTATAACGT
130 ATTCACTACCCTCAGATTTAATCTACTCAGCTATAACGT
*
29086244 CAGGGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATG
1 CAGGAAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATG
29086293 TAGGGGAACC
Statistics
Matches: 186, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
167 3 0.02
168 181 0.97
169 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (168 bp):
CAGGAAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATGCCAAAGAGATAGGATT
CACTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAAGGAGATAAGA
TTCACTACCCTCAGATTTAATCTACTCAGCTATAACGT
Found at i:29086373 original size:50 final size:50
Alignment explanation
Indices: 29086248--29086479 Score: 124
Period size: 50 Copynumber: 4.8 Consensus size: 50
29086238 TAACGTCAGG
* * ** * ** *
29086248 GAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGACTGCAATG-TAGGG
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCGCTA-GA
** *** *
29086298 GAACCAAGATTCACCGCCATAGCTTCAATCTGTTCCACTACACCGCTAGA
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCGCTAGA
* * *
29086348 GAAGTAAGATTCACCGTTGTGGCTTCAATCTG-----C-A-A-TGTTGGA
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCGCTAGA
** * * ** * *
29086390 GAAACAAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACACCGCCA-A
1 GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCGCTAGA
* * *
29086439 GGAAGTAAGATTCGCTGTTGTGGCTTCAATCTATTCCACTA
1 -GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTA
29086480 TAATGCCAAA
Statistics
Matches: 131, Mismatches: 41, Indels: 20
0.68 0.21 0.10
Matches are distributed among these distances:
42 29 0.22
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 2 0.02
50 93 0.71
51 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (50 bp):
GAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTACACCGCTAGA
Found at i:29086417 original size:478 final size:474
Alignment explanation
Indices: 29085382--29086429 Score: 1266
Period size: 478 Copynumber: 2.2 Consensus size: 474
29085372 TGCAATGTTG
* * * **
29085382 GAGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCA
1 GAGAAACAAGATTCACCGTCGTAGCTTCAATCTG---C-CTACACCGCCAGGGAAACAAGATTCA
* * ** * * **
29085447 TCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTTGCTGCCCACAGCTTTA
62 CCATCCTAGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTA
**
29085512 ATCTGCTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTT
127 ATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTT
29085577 TAATCTGCTCACCTATAACGTCAGAGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGAATG
192 TAATCTGCTCACCTATAACGTCAGAGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGAATG
* *
29085642 CAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATTCGCTCCACTTCTGCTATTTCAAGT
257 CAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
29085707 CTTAACGCCAAGGAAATAAGATTCGCTACCCTCAGCTTTAACTTGCTCCGCTATAACGTCAGGGA
322 CTTAACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACTCCGCTATAACGTCAGGGA
* * ** *
29085772 AGTAAGATTCACCATCGTTGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCGT
387 AGTAAGATTCACCATCGTTGCTTCAATCTATTCCACTACAACGCTAGGGAACCAAGATTCACCGC
** * * * *
29085837 TGTGGCTTCAATCTGCAATGTTG
452 CATAGCTTCAATCTGCAACGCTA
**
29085860 GAGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCA
1 GAGAAACAAGATTCACCGTCGTAGCTTCAATCTG---C-CTACACCGCCAGGGAAACAAGATTCA
* ** * * *
29085925 CCGTTGTGGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCATTGCCCACTGCTTTA
62 CCATCCTAGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTA
* *
29085990 ATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGTGAGATAAGATTTGCTGCCCTCAGCTT
127 ATCCACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTT
* * *** *
29086055 TAATCTGCTCAGCTATAACGTTAG-GAAAGTAAGATTCGTTGTTTTGGCTTCAATCTATTTGACT
192 TAATCTGCTCACCTATAACGTCAGAG-AAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGAAT
*
29086119 GCAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTATTTCAAG
256 GCAATGCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTATTTCAAG
* * *
29086184 TCTTAACGCCAAGGAGATAAGATTCACTACCCTCATATTTAATTTACTCCGCTATAACGTCAGGG
321 TCTTAACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACTCCGCTATAACGTCAGGG
* * ** * *
29086249 AAGTAAGATTCACCGT-TTTGGCTTCAATCTATTTGACTGCAATG-TAGGGGAACCAAGATTCAC
386 AAGTAAGATTCACCATCGTT-GCTTCAATCTATTCCACTACAACGCTA-GGGAACCAAGATTCAC
29086312 CGCCATAGCTTCAATCTGTTCCACTACACCGCTA
449 CGCCATAGCTTCAATCTG-----C-A-A-CGCTA
** * * * ** *
29086346 GAGAAGTAAGATTCACCGTTGTGGCTTCAATCTG-C-A-A-TG-TTGGAGAAACAAGATTCGCCA
1 GAGAAACAAGATTCACCGTCGTAGCTTCAATCTGCCTACACCGCCAGG-GAAACAAGATTCACCA
*
29086406 TCCTAGCTTCAATCTGTTCCACTA
65 TCCTAGCTTCAATCTATTCCACTA
29086430 CACCGCCAAG
Statistics
Matches: 498, Mismatches: 60, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
477 7 0.01
478 453 0.91
479 1 0.00
480 1 0.00
481 1 0.00
483 1 0.00
484 1 0.00
485 1 0.00
486 32 0.06
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (474 bp):
GAGAAACAAGATTCACCGTCGTAGCTTCAATCTGCCTACACCGCCAGGGAAACAAGATTCACCAT
CCTAGCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTAATCC
ACTCCACTTCAGCTAATCTAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAAT
CTGCTCACCTATAACGTCAGAGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTGAATGCAAT
GCCAAAGAGATAGGATCCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTATTTCAAGTCTTA
ACGCCAAGGAAATAAGATTCACTACCCTCAGATTTAACTTACTCCGCTATAACGTCAGGGAAGTA
AGATTCACCATCGTTGCTTCAATCTATTCCACTACAACGCTAGGGAACCAAGATTCACCGCCATA
GCTTCAATCTGCAACGCTA
Found at i:29086444 original size:92 final size:92
Alignment explanation
Indices: 29086285--29086470 Score: 268
Period size: 92 Copynumber: 2.0 Consensus size: 92
29086275 ATCTATTTGA
* * *
29086285 CTGCAATGTAGGGGAACCAAGATTCACCGCCATAGCTTCAATCTGTTCCACTACACCGCTAGAGA
1 CTGCAATGTAGGAGAAACAAGATTCACCGCCATAGCTTCAATCTGTTCCACTACACCGCAAGAGA
29086350 AGTAAGATTCACCGTTGTGGCTTCAAT
66 AGTAAGATTCACCGTTGTGGCTTCAAT
* * *
29086377 CTGCAATGTTGGAGAAACAAGATTCGCCATCC-TAGCTTCAATCTGTTCCACTACACCGCCAAG-
1 CTGCAATGTAGGAGAAACAAGATTCACC-GCCATAGCTTCAATCTGTTCCACTACACCG-CAAGA
* *
29086440 GAAGTAAGATTCGCTGTTGTGGCTTCAAT
64 GAAGTAAGATTCACCGTTGTGGCTTCAAT
29086469 CT
1 CT
29086471 ATTCCACTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
92 79 0.94
93 5 0.06
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (92 bp):
CTGCAATGTAGGAGAAACAAGATTCACCGCCATAGCTTCAATCTGTTCCACTACACCGCAAGAGA
AGTAAGATTCACCGTTGTGGCTTCAAT
Found at i:29086488 original size:50 final size:50
Alignment explanation
Indices: 29086411--29086505 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
29086401 CGCCATCCTA
* * *
29086411 GCTTCAATCTGTTCCACTACACCGCCAAGGA-AGTAAGATTCGCTGTTGTG
1 GCTTCAATCTATTCCACTACAACGCCAAAGAGA-TAAGATTCGCTGTTGTG
* * *
29086461 GCTTCAATCTATTCCACTATAATGCCAAAGAGATAGGATTCGCTG
1 GCTTCAATCTATTCCACTACAACGCCAAAGAGATAAGATTCGCTG
29086506 CCTATAGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 37 0.97
51 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (50 bp):
GCTTCAATCTATTCCACTACAACGCCAAAGAGATAAGATTCGCTGTTGTG
Found at i:29087861 original size:11 final size:11
Alignment explanation
Indices: 29087847--29087899 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 11
29087837 TTGACCTCTC
29087847 CTTTTTCTTTT
1 CTTTTTCTTTT
29087858 CTTTTTCTCTTTT
1 C-TTTT-TCTTTT
29087871 CTTTTTCTTTT
1 CTTTTTCTTTT
29087882 -TTCTTTCTTTT
1 CTT-TTTCTTTT
29087893 ACTTTTT
1 -CTTTTT
29087900 TTAAAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.05
11 15 0.41
12 11 0.30
13 9 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:29087870 original size:13 final size:13
Alignment explanation
Indices: 29087848--29087887 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
29087838 TGACCTCTCC
29087848 TTTT-TCTTTTCT
1 TTTTCTCTTTTCT
29087860 TTTTCTCTTTTCT
1 TTTTCTCTTTTCT
*
29087873 TTTTCTTTTTTCT
1 TTTTCTCTTTTCT
29087886 TT
1 TT
29087888 CTTTTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTCTTTTCT
Found at i:29087872 original size:18 final size:17
Alignment explanation
Indices: 29087849--29087900 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
29087839 GACCTCTCCT
29087849 TTTTCTTTTCTTTTTCTC
1 TTTTCTTTTCTTTTT-TC
29087867 TTTTCTTTTTCTTTTTTC
1 TTTTC-TTTTCTTTTTTC
29087885 -TTTCTTTTACTTTTTT
1 TTTTCTTTT-CTTTTTT
29087901 TAAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.12
17 11 0.34
18 7 0.22
19 10 0.31
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:29087899 original size:7 final size:6
Alignment explanation
Indices: 29087847--29087899 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
29087837 TTGACCTCTC
* *
29087847 CTTTTT C-TTTT CTTTTT CTCTTTT CTTTTT CTTTTT -TCTTT CTTTTA
1 CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT
29087894 CTTTTT
1 CTTTTT
29087900 TTAAAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.22
6 25 0.62
7 6 0.15
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:29091588 original size:20 final size:20
Alignment explanation
Indices: 29091563--29091601 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29091553 AACAATAAAT
29091563 AAAATAAAT-AAAACTATACA
1 AAAATAAATGAAAA-TATACA
*
29091583 AAAATATATGAAAATATAC
1 AAAATAAATGAAAATATAC
29091602 GTATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAATGAAAATATACA
Found at i:29091811 original size:25 final size:25
Alignment explanation
Indices: 29091783--29091833 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
29091773 ATTTTAACAT
29091783 TATA-AAGCATAAAAAAATATGTATA
1 TATATAAGCAT-AAAAAATATGTATA
** *
29091808 TATATAATTATAAAATATATGTATA
1 TATATAAGCATAAAAAATATGTATA
29091833 T
1 T
29091834 GTTATAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
TATATAAGCATAAAAAATATGTATA
Found at i:29093072 original size:21 final size:22
Alignment explanation
Indices: 29093047--29093087 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
29093037 ATACATGAAT
*
29093047 ATATTTTATAA-AATTTAAAAA
1 ATATTTAATAATAATTTAAAAA
29093068 ATATTTAATAATAATTTAAA
1 ATATTTAATAATAATTTAAA
29093088 TTAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTTAATAATAATTTAAAAA
Found at i:29093114 original size:16 final size:15
Alignment explanation
Indices: 29093072--29093114 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
29093062 TAAAAAATAT
29093072 TTAATAATAATTTAAA
1 TTAATAA-AATTTAAA
*
29093088 TTAATTTAAATTGTAAA
1 TTAA-TAAAATT-TAAA
29093105 TTAATAAAAT
1 TTAATAAAAT
29093115 AACAATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAATAAAATTTAAA
Found at i:29096487 original size:13 final size:14
Alignment explanation
Indices: 29096464--29096494 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
29096454 CATTTAGGTA
29096464 AAGAGGTCCCATGT
1 AAGAGGTCCCATGT
29096478 AAGA-GTCCCATGT
1 AAGAGGTCCCATGT
29096491 AAGA
1 AAGA
29096495 CCATGTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (14 bp):
AAGAGGTCCCATGT
Found at i:29096543 original size:50 final size:50
Alignment explanation
Indices: 29096483--29096668 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 50
29096473 CATGTAAGAG
* * **
29096483 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * *
29096533 T-CCACCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATGAGAAC
1 TCCCA-CGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * *
29096583 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACA-GAAAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* * *
29096631 ATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
29096669 TGTTATTATC
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
48 6 0.05
49 38 0.33
50 67 0.59
51 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:29098240 original size:5 final size:5
Alignment explanation
Indices: 29098230--29098254 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29098220 TATTTTGGCA
29098230 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
29098255 CAATAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:29102569 original size:18 final size:17
Alignment explanation
Indices: 29102546--29102595 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
29102536 ATTTTTTATT
29102546 TTTTTATTTTTTAGTAAA
1 TTTTTATTTTTTAGT-AA
29102564 TTTTTAAATTTTTT-GTAA
1 TTTTT--ATTTTTTAGTAA
29102582 TTTTATATTTTTTA
1 TTTT-TATTTTTTA
29102596 TTTCCTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 7 0.25
18 11 0.39
19 3 0.11
20 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTTTAGTAA
Found at i:29102631 original size:19 final size:19
Alignment explanation
Indices: 29102562--29102641 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
29102552 TTTTTTAGTA
29102562 AATTTTTAAAT-TTTTTGT
1 AATTTTTAAATATTTTTGT
29102580 AA-TTTT--ATATTTTT-T
1 AATTTTTAAATATTTTTGT
*
29102595 -ATTTCCTTAATTATTTTTTGT
1 AATTT--TTAAATA-TTTTTGT
29102616 AATTTTTAAATATTTTTGT
1 AATTTTTAAATATTTTTGT
*
29102635 ACTTTTT
1 AATTTTT
29102642 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
14 1 0.02
15 5 0.10
16 5 0.10
17 6 0.12
18 2 0.04
19 15 0.30
20 11 0.22
21 1 0.02
22 4 0.08
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (19 bp):
AATTTTTAAATATTTTTGT
Found at i:29103838 original size:29 final size:30
Alignment explanation
Indices: 29103792--29103858 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
29103782 TCCGAAATTT
29103792 AAGAATTTAGTTCATGTAATTATA-TTTTA
1 AAGAATTTAGTTCATGTAATTATATTTTTA
* * *
29103821 AAGAATTTAG-TCTTTGTATTTGTATTTTTA
1 AAGAATTTAGTTC-ATGTAATTATATTTTTA
29103851 AA-AATTTA
1 AAGAATTTA
29103859 ATCTCTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 24 0.73
30 7 0.21
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (30 bp):
AAGAATTTAGTTCATGTAATTATATTTTTA
Found at i:29106343 original size:22 final size:23
Alignment explanation
Indices: 29106285--29106344 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
29106275 TCATCACTGT
*
29106285 CCCT-TCCCTCTCCCCCACCGTC
1 CCCTCTCCCTCTCCCTCACCGTC
*
29106307 CCCTCTCCCT-TCCCTCATCGT-
1 CCCTCTCCCTCTCCCTCACCGTC
* *
29106328 CTCTCTTCCTCTCCCTC
1 CCCTCTCCCTCTCCCTC
29106345 TTTGCTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.25
22 19 0.59
23 5 0.16
ACGTcount: A:0.03, C:0.62, G:0.03, T:0.32
Consensus pattern (23 bp):
CCCTCTCCCTCTCCCTCACCGTC
Found at i:29108718 original size:23 final size:24
Alignment explanation
Indices: 29108688--29108744 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
29108678 AATTAATTTT
29108688 AATATTTTATGATATAAAA-AAT-A
1 AATATTTTAT-ATATAAAATAATAA
*
29108711 AATATTTTATATTTAAAATAATAAA
1 AATATTTTATATATAAAATAAT-AA
29108736 AATATTTTA
1 AATATTTTA
29108745 AAGTTCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 7 0.23
23 13 0.43
25 10 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATTTTATATATAAAATAATAA
Found at i:29109950 original size:95 final size:96
Alignment explanation
Indices: 29109819--29110121 Score: 342
Period size: 96 Copynumber: 3.2 Consensus size: 96
29109809 TAAATAAGGG
* * ** * * * * *
29109819 ATTAGGGTTTAGTGTTTCTTAATTAAATTAATTATAATTTTTTTAAAATTAGATTAGAGATTCGT
1 ATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTTTAGT
* *
29109884 GTTTATGGTTTTTAAGGAAAAAATCAATTAA
66 GTTTAAGGTTTTTAAGGAAAAAATCAAATAA
* * * *
29109915 ATTAGGGTTTAGGGTTACTCGAGT-AATTAATTATAAATTTTTAAAAATCAAATTAGGGTTTAG-
1 ATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTTTAGT
* *
29109978 GGTTAAGAGGTTTTAAGG-AAAAATCAAATAA
66 GTTTAAG-GTTTTTAAGGAAAAAATCAAATAA
* * **
29110009 ATTAGAGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGAGTTACTCGAGTAAATTAATTAT-AATTTTTTAAAAATTAGATTAGGGTTTAG
* * *
29110074 TGTTTAAGGTTTTTAAGGACAAACTAAAATAA
65 TGTTTAAGGTTTTTAAGGAAAAAATCAAATAA
*
29110106 ATTAGGGTTTGGAGTT
1 ATTAGGGTTTAGAGTT
29110122 TATGGTTACT
Statistics
Matches: 171, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
94 38 0.22
95 51 0.30
96 52 0.30
97 30 0.18
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (96 bp):
ATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTTTAGT
GTTTAAGGTTTTTAAGGAAAAAATCAAATAA
Found at i:29110026 original size:94 final size:96
Alignment explanation
Indices: 29109893--29110121 Score: 302
Period size: 94 Copynumber: 2.4 Consensus size: 96
29109883 TGTTTATGGT
* *
29109893 TTTTAAGGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTCGAGT-AATTAATTATAAATTTT-
1 TTTTAAGG-AAAAATCAAATAAATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAAATTTTA
*
29109956 TAAAAATCAAATTAGGGTTTAG-GGTTAAGAGG
65 AAAAAATCAAATTAGGGTTTAGTGGTTAAG-GG
* *
29109988 TTTTAAGGAAAAATCAAATAAATTAGAGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAAATTTTAA
* * * *
29110053 AAAAATTAGATTAGGGTTTAGTGTTTAAGGT
66 AAAAATCAAATTAGGGTTTAGTGGTTAAGGG
* * *
29110084 TTTTAAGGACAAACTAAAATAAATTAGGGTTTGGAGTT
1 TTTTAAGGA-AAAATCAAATAAATTAGGGTTTAGAGTT
29110122 TATGGTTACT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
94 33 0.28
95 25 0.21
96 29 0.25
97 30 0.26
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (96 bp):
TTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTCGAGTAAATTAATTATAAATTTTAA
AAAAATCAAATTAGGGTTTAGTGGTTAAGGG
Found at i:29110135 original size:95 final size:94
Alignment explanation
Indices: 29109844--29110137 Score: 319
Period size: 95 Copynumber: 3.1 Consensus size: 94
29109834 TTCTTAATTA
* * * * * *
29109844 AATTAATTATAATTTTTTTAAAATTAGATTAGAGATTCGTGTTTATGGTTTTTAAGGAAAAAATC
1 AATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGG-AAAAATC
*
29109909 AATTAAATTAGGGTTTAGG-GTTACTCGAG-T
65 AAATAAATTAGGGTTT-GGAGTTACT-GAGTT
* * * *
29109939 AATTAATTATAAATTTTTAAAAATCAAATTAGGGTTTAG-GGTTAAGAGGTTTTAAGGAAAAATC
1 AATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGTGTTTAAG-GTTTTTAAGGAAAAATC
* * *
29110003 AAATAAATTAGAGTTTAGAGTTACTTGAGTA
65 AAATAAATTAGGGTTTGGAGTTAC-TGAGTT
* *
29110034 AATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGGACAAACT
1 AATTAATTATAAATTTT-TAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGGA-AAAAT
*
29110099 AAAATAAATTAGGGTTTGGAGTTTA-TG-GTT
64 CAAATAAATTAGGGTTTGGAG-TTACTGAGTT
*
29110129 ACTTAATTA
1 AATTAATTA
29110138 AATTATTTAT
Statistics
Matches: 166, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
93 1 0.01
94 34 0.20
95 69 0.42
96 31 0.19
97 28 0.17
98 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (94 bp):
AATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGGAAAAATCA
AATAAATTAGGGTTTGGAGTTACTGAGTT
Found at i:29110510 original size:126 final size:125
Alignment explanation
Indices: 29110161--29110570 Score: 685
Period size: 125 Copynumber: 3.3 Consensus size: 125
29110151 TTTAAAAAAT
*
29110161 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTATTGAAAAATAATTTCGAGAAGACGTTTCTGA
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAATAATTTCGAGAAGACGTTTCTGA
* * *
29110226 GCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTAAAAGAAG
66 GCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* * ** *
29110286 CTCCCATGTGGAAGCTCTTTTGCTACAGTAGTTCCAGAAAAATAATTTCAAGAAGACGTTTCTGA
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAATAATTTCGAGAAGACGTTTCTGA
*
29110351 GCAAATAGTGTTAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
66 GCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* *
29110411 CTCTCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACATTTCTG
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTG-AAAAATAATTTCGAGAAGACGTTTCTG
*
29110476 AGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAACAAAAGTACTGAAAGAAG
65 AGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
*
29110537 CTCCCACGTGAACGCTCTTTTGCTACAGTAGTTC
1 CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
29110571 CTATTTGGCC
Statistics
Matches: 263, Mismatches: 21, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
125 147 0.56
126 116 0.44
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (125 bp):
CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAATAATTTCGAGAAGACGTTTCTGA
GCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
Found at i:29113383 original size:7 final size:7
Alignment explanation
Indices: 29113373--29113405 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
29113363 TTATATACAT
29113373 AATACTA
1 AATACTA
29113380 AATACTA
1 AATACTA
29113387 AATACTA
1 AATACTA
*
29113394 AACACTA
1 AATACTA
29113401 AATAC
1 AATAC
29113406 GAATCGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (7 bp):
AATACTA
Found at i:29114185 original size:233 final size:230
Alignment explanation
Indices: 29113756--29114456 Score: 1152
Period size: 233 Copynumber: 3.0 Consensus size: 230
29113746 CTCCCGATAC
* *
29113756 AATGTTGCCAACACGACGGA-CCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAG
1 AATGTTGCCAACACGGCAGACCCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAG
* * * * *
29113820 TAGCCATCTCAGATGTATAAGGTTCTGTGACAAGTCCGACATTAAATAACCTCTAATAATCTCAA
66 TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCGACATCAAATAACCTCCAATGATCTCAA
*
29113885 GAATGTATGCCCGAGCATATCAAATTCTTTCTAGTTCGGTAGAATCATCATCCGGCTCCGAGAAT
131 GAATGTATG-CCGAGCATATC-AATTCTTTCTAGTTCGGTAGAATCATCATCCGGCTCAG-GAAT
* *
29113950 GTGTCTCATAACCAACCTATCTCGATCCGACCTCCGTT
193 GTGTCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
* *
29113988 AATGTTGCCAACATGGCAGACCCCTAACTAAATTCACTAGCTGCTCTAAAATCAACAAGTTTCAG
1 AATGTTGCCAACACGGCAGACCCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAG
29114053 TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCGACATCAAATAACCTCCAATGATCTCAA
66 TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCGACATCAAATAACCTCCAATGATCTCAA
*
29114118 GAATGTATGCCTGAGCATATCGAATTCTTTCTAGTTTGGTAGAATCATCATCCGGCTCTAGGAAT
131 GAATGTATGCC-GAGCATATC-AATTCTTTCTAGTTCGGTAGAATCATCATCCGGCTC-AGGAAT
29114183 GTGTCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
193 GTGTCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
*
29114221 AATGTTGCCAACACGGCAGACCCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAA
1 AATGTTGCCAACACGGCAGACCCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAG
*
29114286 TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCAACATCAAATAACCTCCAATGATCTCAA
66 TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCGACATCAAATAACCTCCAATGATCTCAA
* **
29114351 GAATGTATGCACGAGCATATCAGATTATTTCTAGTTCGGTAGAATCATCATCTAGCTCAGGGAAT
131 GAATGTATGC-CGAGCATATCA-ATTCTTTCTAGTTCGGTAGAATCATCATCCGGCTCA-GGAAT
29114416 GTGTCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
193 GTGTCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
29114454 AAT
1 AAT
29114457 ATTCTCCGGA
Statistics
Matches: 441, Mismatches: 22, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
232 21 0.05
233 418 0.95
234 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (230 bp):
AATGTTGCCAACACGGCAGACCCCTAACTAAATTCACCAGCTGCTCTAAAATCAACAAGTTTCAG
TAGCCATCTCAGATGTACAAGGTTCCGTGACAAGTCCGACATCAAATAACCTCCAATGATCTCAA
GAATGTATGCCGAGCATATCAATTCTTTCTAGTTCGGTAGAATCATCATCCGGCTCAGGAATGTG
TCTCGTAACCAGCCTATCTCGATCCGACCTCCGTT
Found at i:29115041 original size:11 final size:11
Alignment explanation
Indices: 29115025--29115054 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29115015 TAAATAGAGC
29115025 TTTAAGAGGAA
1 TTTAAGAGGAA
29115036 TTTAAGAGGAA
1 TTTAAGAGGAA
*
29115047 TTTGAGAG
1 TTTAAGAG
29115055 AAATATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (11 bp):
TTTAAGAGGAA
Found at i:29115763 original size:21 final size:21
Alignment explanation
Indices: 29115725--29115764 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29115715 CTCCCGGTAC
*
29115725 ATTTTCTTTCACCTCTTTCAA
1 ATTTTCTTTCACCCCTTTCAA
29115746 ATTTTCTTTTC-CCCCTTTC
1 ATTTTC-TTTCACCCCTTTC
29115765 GGTTGAGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTCTTTCACCCCTTTCAA
Found at i:29116057 original size:12 final size:12
Alignment explanation
Indices: 29116040--29116080 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
29116030 CATACATCAG
29116040 CTTTGTTTGCAT
1 CTTTGTTTGCAT
29116052 CTTTG-TTG-AT
1 CTTTGTTTGCAT
*
29116062 GGTTTGTTTGCAT
1 -CTTTGTTTGCAT
29116075 CTTTGT
1 CTTTGT
29116081 AATTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.08
11 7 0.29
12 13 0.54
13 2 0.08
ACGTcount: A:0.07, C:0.12, G:0.22, T:0.59
Consensus pattern (12 bp):
CTTTGTTTGCAT
Found at i:29117741 original size:27 final size:26
Alignment explanation
Indices: 29117678--29117750 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
29117668 AGTGGAAATG
*
29117678 GTTTCTGTATGTTTATATT-TTGTAT
1 GTTTCTGTATGTTTATATTCTTGTAC
*
29117703 GTTTCTATATGTTTATATTCAATT-TAC
1 GTTTCTGTATGTTTATATTC--TTGTAC
29117730 GTTTCTGTATGTTTATATTCT
1 GTTTCTGTATGTTTATATTCT
29117751 GTATGTCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.45
27 21 0.50
28 2 0.05
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.60
Consensus pattern (26 bp):
GTTTCTGTATGTTTATATTCTTGTAC
Found at i:29117752 original size:15 final size:15
Alignment explanation
Indices: 29117732--29117762 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29117722 CAATTTACGT
*
29117732 TTCTGTATGTTTATA
1 TTCTGTATGTCTATA
29117747 TTCTGTATGTCTATA
1 TTCTGTATGTCTATA
29117762 T
1 T
29117763 ATGTTTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (15 bp):
TTCTGTATGTCTATA
Found at i:29117775 original size:10 final size:10
Alignment explanation
Indices: 29117747--29117785 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
29117737 TATGTTTATA
29117747 TTCTGTATGT
1 TTCTGTATGT
* * *
29117757 CTATATATGT
1 TTCTGTATGT
29117767 TTCTGTATGT
1 TTCTGTATGT
29117777 TTCTGTATG
1 TTCTGTATG
29117786 GTATCCCACG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.18, T:0.56
Consensus pattern (10 bp):
TTCTGTATGT
Found at i:29118070 original size:17 final size:17
Alignment explanation
Indices: 29118044--29118079 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29118034 TTTGGTTATA
29118044 TTTTAGTTTCAATATGT
1 TTTTAGTTTCAATATGT
* *
29118061 TTTTATTTTCGATATGT
1 TTTTAGTTTCAATATGT
29118078 TT
1 TT
29118080 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTAGTTTCAATATGT
Found at i:29118225 original size:47 final size:48
Alignment explanation
Indices: 29118171--29118261 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
29118161 TTGGTCTTCA
* * *
29118171 AACAATGTTTTATATTAGTTAAATTTTTTGAT-TAAAAATTATATTTG
1 AACAATGTTTTATATTACTTAAATTGTTTGATAGAAAAATTATATTTG
*
29118218 AACAATGTTTTATATTACTTATATTGTTTGATAGAAAAATTATA
1 AACAATGTTTTATATTACTTAAATTGTTTGATAGAAAAATTATA
29118262 ATTAACACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 29 0.74
48 10 0.26
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (48 bp):
AACAATGTTTTATATTACTTAAATTGTTTGATAGAAAAATTATATTTG
Found at i:29118366 original size:45 final size:44
Alignment explanation
Indices: 29118315--29118515 Score: 299
Period size: 45 Copynumber: 4.6 Consensus size: 44
29118305 AAAAAGTTTT
29118315 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAA
1 TTAATCAAATGCTAC-AACATTATAATTATAATTAACACTAAAAA
29118360 TTAATCAAATGCTACAACAATTATAATTATAATTAACACTAAAAA
1 TTAATCAAATGCTACAAC-ATTATAATTATAATTAACACTAAAAA
* *
29118405 TT-AT--AAT--T--AACACTAAAATTATAATTAACACTAAAAA
1 TTAATCAAATGCTACAACATTATAATTATAATTAACACTAAAAA
29118442 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAA
1 TTAATCAAATGCTAC-AACATTATAATTATAATTAACACTAAAAA
29118487 TTAATCAAATGCTACAACAATTATAATTA
1 TTAATCAAATGCTACAAC-ATTATAATTA
29118516 ACATTACAAA
Statistics
Matches: 142, Mismatches: 4, Indels: 20
0.86 0.02 0.12
Matches are distributed among these distances:
37 26 0.18
38 5 0.04
40 4 0.03
42 4 0.03
44 8 0.06
45 95 0.67
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (44 bp):
TTAATCAAATGCTACAACATTATAATTATAATTAACACTAAAAA
Found at i:29118424 original size:18 final size:18
Alignment explanation
Indices: 29118384--29118440 Score: 105
Period size: 18 Copynumber: 3.1 Consensus size: 18
29118374 CAACAATTAT
29118384 AATTATAATTAACACTAAA
1 AATTATAATTAACACT-AA
29118403 AATTATAATTAACACTAA
1 AATTATAATTAACACTAA
29118421 AATTATAATTAACACTAA
1 AATTATAATTAACACTAA
29118439 AA
1 AA
29118441 ATTAATCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 22 0.58
19 16 0.42
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTATAATTAACACTAA
Found at i:29118429 original size:82 final size:82
Alignment explanation
Indices: 29118339--29118489 Score: 286
Period size: 82 Copynumber: 1.8 Consensus size: 82
29118329 CAAACATTAT
29118339 AATTATAATTAACACTAAAAATTAATCAAATGCTAC-AACAATTATAATTATAATTAACACTAAA
1 AATTATAATTAACACTAAAAATTAATCAAATGCTACAAAC-ATTATAATTATAATTAACACTAAA
29118403 AATTATAATTAACACTAA
65 AATTATAATTAACACTAA
29118421 AATTATAATTAACACTAAAAATTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAA
1 AATTATAATTAACACTAAAAATTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAA
29118486 ATTA
66 ATTA
29118490 ATCAAATGCT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
82 65 0.96
83 3 0.04
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (82 bp):
AATTATAATTAACACTAAAAATTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAA
ATTATAATTAACACTAA
Found at i:29118449 original size:127 final size:123
Alignment explanation
Indices: 29118315--29118545 Score: 401
Period size: 127 Copynumber: 1.8 Consensus size: 123
29118305 AAAAAGTTTT
29118315 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTAATCAAATGCTACAACAA
1 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTAATCAAATGCTACAACAA
29118380 TTATAATTATA-ATTAACACTAAAAATTATAATTAACACTAAAATTATAATTAACACTAAAAA
66 TTATAATTA-ACATT---AC-AAAAATTATAATTAACACTAAAATTATAATTAACACTAAAAA
29118442 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTAATCAAATGCTACAACAA
1 TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTAATCAAATGCTACAACAA
*
29118507 TTATAATTAACATTACAAAAATTATAATTATCACTAAAA
66 TTATAATTAACATTACAAAAATTATAATTAACACTAAAA
29118546 AAAGAAAGTA
Statistics
Matches: 102, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
123 22 0.22
124 2 0.02
126 1 0.01
127 77 0.75
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.32
Consensus pattern (123 bp):
TTAATCAAATGCTACAAACATTATAATTATAATTAACACTAAAAATTAATCAAATGCTACAACAA
TTATAATTAACATTACAAAAATTATAATTAACACTAAAATTATAATTAACACTAAAAA
Found at i:29118469 original size:26 final size:26
Alignment explanation
Indices: 29118440--29118516 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
29118430 TAACACTAAA
29118440 AATTAATCAAATGCTACAAACATTAT
1 AATTAATCAAATGCTACAAACATTAT
* * *
29118466 AATT-AT--AAT--TA-ACAC-TAAA
1 AATTAATCAAATGCTACAAACATTAT
29118485 AATTAATCAAATGCTAC-AACAATTAT
1 AATTAATCAAATGCTACAAAC-ATTAT
29118511 AATTAA
1 AATTAA
29118517 CATTACAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 2 0.05
22 3 0.08
23 3 0.08
24 4 0.11
25 2 0.05
26 12 0.32
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (26 bp):
AATTAATCAAATGCTACAAACATTAT
Found at i:29118547 original size:21 final size:21
Alignment explanation
Indices: 29118384--29118548 Score: 84
Period size: 21 Copynumber: 8.1 Consensus size: 21
29118374 CAACAATTAT
29118384 AATTATAATTAACACT--AAA
1 AATTATAATTAACACTAAAAA
29118403 AATTATAATTAACACT---AA
1 AATTATAATTAACACTAAAAA
29118421 AATTATAATTAACACTAAAAA
1 AATTATAATTAACACTAAAAA
* * ** *
29118442 TTAATCA-AATGCTACAAAC-ATTAT
1 --AATTATAAT--TA-ACACTAAAAA
29118466 AATTATAATTAACACT--AAA
1 AATTATAATTAACACTAAAAA
* * *
29118485 AA-T-TAATCAA-ATGCTACAAC
1 AATTATAATTAACA--CTAAAAA
* *
29118505 AATTATAATTAACATTACAAA
1 AATTATAATTAACACTAAAAA
*
29118526 AATTATAATTATCACTAAAAA
1 AATTATAATTAACACTAAAAA
29118547 AA
1 AA
29118549 GAAAGTAAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
16 1 0.01
17 6 0.05
18 21 0.19
19 19 0.17
20 7 0.06
21 30 0.27
22 13 0.12
23 8 0.07
24 4 0.04
25 3 0.03
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (21 bp):
AATTATAATTAACACTAAAAA
Found at i:29120600 original size:49 final size:49
Alignment explanation
Indices: 29120543--29120646 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
29120533 CCATGTGTTA
* *
29120543 TAATTTTATAAAGTGTTAAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTGAACTAAATTT
*
29120592 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTAAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTGAACTAAATTT
29120641 TAATTT
1 TAATTT
29120647 GTTTTTTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTGAACTAAATTT
Found at i:29122133 original size:15 final size:17
Alignment explanation
Indices: 29122100--29122134 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
29122090 TTTAGTAAAT
29122100 TTATATAAGAATATTTA
1 TTATATAAGAATATTTA
29122117 TTAT-TAAGAAT-TTTA
1 TTATATAAGAATATTTA
29122132 TTA
1 TTA
29122135 AATTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TTATATAAGAATATTTA
Found at i:29122140 original size:61 final size:61
Alignment explanation
Indices: 29122075--29122265 Score: 223
Period size: 61 Copynumber: 3.2 Consensus size: 61
29122065 ATTTTATAGT
29122075 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTATTATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTATTATTAAGAATTTTATTAA
* * * * * * * *
29122136 ATTATATATT-TTA-ATTA--AAATATATTTAATAATAATTATT-TTAAATTATATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTATTATT-AA-GA-ATTTTATTA-A
*
29122195 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTATTATTAAGAATTTTATTAA
29122256 ATTATATATT
1 ATTATATATT
29122266 TNNNNNNNNN
Statistics
Matches: 103, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
56 2 0.02
57 21 0.20
58 3 0.03
59 19 0.18
60 4 0.04
61 29 0.28
62 3 0.03
63 20 0.19
64 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTATTATTAAGAATTTTATTAA
Found at i:29122154 original size:18 final size:17
Alignment explanation
Indices: 29122126--29122160 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29122116 ATTATTAAGA
*
29122126 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
29122143 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
29122161 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:29122160 original size:16 final size:16
Alignment explanation
Indices: 29122126--29122179 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
29122116 ATTATTAAGA
29122126 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
29122143 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
29122159 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
29122173 ATTTTAA
1 ATTTTAA
29122180 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:29122168 original size:120 final size:120
Alignment explanation
Indices: 29122031--29122266 Score: 463
Period size: 120 Copynumber: 2.0 Consensus size: 120
29122021 AAGTAGATTA
29122031 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
29122096 AAATTTATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
29122151 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
29122216 AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTT
66 AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTT
29122267 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
Found at i:29122253 original size:15 final size:16
Alignment explanation
Indices: 29122225--29122254 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29122215 TAAATTCATA
29122225 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
29122241 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
29122255 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:29133336 original size:22 final size:22
Alignment explanation
Indices: 29133276--29133333 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
29133266 AATCTTCAAG
29133276 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
29133295 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
29133317 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
29133334 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:29133578 original size:23 final size:23
Alignment explanation
Indices: 29133534--29133578 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
29133524 TCTTATTTTG
* *
29133534 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
29133557 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
29133579 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:29133948 original size:39 final size:38
Alignment explanation
Indices: 29133865--29133948 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
29133855 CTATACATAC
*
29133865 ATATGTTTTATAATATATACATATACGTACACATTTTTT
1 ATATTTTTTATAATATATACATATAC-TACACATTTTTT
* *
29133904 A-ATTTTTTATAA-ATATATATATA-TACACATACTTTT
1 ATATTTTTTATAATATATACATATACTACACAT-TTTTT
*
29133940 ATATATTTT
1 ATATTTTTT
29133949 CAATGTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 7 0.18
36 5 0.13
37 16 0.41
38 10 0.26
39 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.51
Consensus pattern (38 bp):
ATATTTTTTATAATATATACATATACTACACATTTTTT
Found at i:29134078 original size:23 final size:22
Alignment explanation
Indices: 29134047--29134090 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
29134037 ATAATTCACA
* *
29134047 TACATATATATTTTTCTTATATG
1 TACACATATATATTT-TTATATG
29134070 TACACATATATATTTTTATAT
1 TACACATATATATTTTTATAT
29134091 TTTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (22 bp):
TACACATATATATTTTTATATG
Found at i:29139502 original size:44 final size:44
Alignment explanation
Indices: 29139429--29140808 Score: 2395
Period size: 44 Copynumber: 31.7 Consensus size: 44
29139419 CACAAAGCTT
* * * * * *
29139429 TATCTTCCTAGTCAGTAGTAGAATAGGTTGAACATTATAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
29139473 TACCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
* *
29139517 TATCTCCCTAGTCAGCAGCGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139561 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
* *
29139605 TATCTCCCTAGTCAGCAGCGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139649 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * **
29139693 TATCTCCTTGGTCAACAGTGGAATA-GATG-A-ATCCT---TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
29139731 TATCTCGCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
29139775 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139819 TATCTCCCTGGTCAGCAGTGGAATA----G--G--TG-AA-TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139853 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139897 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139941 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29139985 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140029 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140073 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140117 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140161 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140205 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140249 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140293 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140337 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140381 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140425 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140469 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140513 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140557 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140601 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140645 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140689 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
29140733 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
*
29140777 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
29140809 AATTACAGAT
Statistics
Matches: 1280, Mismatches: 34, Indels: 44
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.02
35 2 0.00
36 2 0.00
38 25 0.02
39 3 0.00
40 3 0.00
41 6 0.00
42 3 0.00
43 9 0.01
44 1192 0.93
45 7 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:29139859 original size:34 final size:34
Alignment explanation
Indices: 29139816--29139880 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
29139806 AAATTGTAAG
29139816 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAA
29139850 TCCTATCTCCCTGGTCAGCAGTGGAATAGGT
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGT
29139881 TGAAGATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (34 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAA
Found at i:29140863 original size:88 final size:88
Alignment explanation
Indices: 29140686--29141048 Score: 231
Period size: 88 Copynumber: 4.1 Consensus size: 88
29140676 AGATTGTAAG
* * * *
29140686 TCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTA-AG-TCCTATCTCCCT-GGTCA
1 TCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA-AAT-TACAGATCTTATCTCCCTAAG-CA
* ** * * * *
29140747 GCAGTGGAATAGGTTGAAGATTGTGAA
62 GTAGTGGAGCAGATCGAAGATGGCGAA
29140774 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
29140839 TGGAGCAAATCGAAGACGGCGAA
66 TGGAGCAGATCGAAGATGGCGAA
* * * * * ** * * *** * *
29140862 TCTTATCT-TCTCAAGGTAGTAG-GGAAACAGATT-TAAGCCACTAG-GCTTATCTCCCTGAGCA
1 TCCTATCTCCCT-GA-GCAGCAGTGG-AGTAGGTTGAAAATTAC-AGATCTTATCTCCCTAAGCA
* * * * **
29140923 GCAGTGGAGTAGGTTGAAGATTGTTGTAGA
62 GTAGTGGAGCAGATCGAAGA-TGGCG-A-A
* * *
29140953 -CCTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAAAATTACAGATCTTATCTCTCTAAGCAGTA
1 TCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
29141017 GTGGAGCAGATCGAAGATGGCGAA
65 GTGGAGCAGATCGAAGATGGCGAA
29141041 TCCTATCT
1 TCCTATCT
29141049 TCCCAAGGTA
Statistics
Matches: 200, Mismatches: 58, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
86 2 0.01
87 6 0.03
88 113 0.56
89 19 0.09
90 16 0.08
91 42 0.21
92 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGATGGCGAA
Found at i:29141002 original size:179 final size:176
Alignment explanation
Indices: 29140733--29141119 Score: 591
Period size: 179 Copynumber: 2.2 Consensus size: 176
29140723 TTGTAAGTCC
* * *
29140733 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGCAGTG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGCAATA
29140797 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAA
65 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAA
* * *
29140862 TCTTATCTTCTCAAGGTAGTAGGGAA-ACAGATTTAAGCCACTAGGCT
130 TCCTATCTTCCCAAGGTAGTAGGGAAGA-AGATTTAAACCACTAGGCT
29140909 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTTGTAGA-CCTTATCTCCCTGAGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG-TG-A-ATCC-TATCTCCCTGAGCAGCA
* * *
29140973 ATAGAGTAGGTTGAAAATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
62 ATAGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGC
*
29141038 GAATCCTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAGTCT
127 GAATCCTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAGGCT
* *
29141088 TATCTCCCTAAGTAGCAGTGGAGTAGGTTGAA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
29141120 AATTACAAAT
Statistics
Matches: 193, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
176 34 0.18
177 3 0.02
178 3 0.02
179 152 0.79
180 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGCAATAG
AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAAT
CCTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAGGCT
Found at i:29141004 original size:44 final size:46
Alignment explanation
Indices: 29140907--29141014 Score: 121
Period size: 47 Copynumber: 2.4 Consensus size: 46
29140897 AGCCACTAGG
* * * **
29140907 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTTGTAGAC
1 CTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAAGA-TATTACAGAC
*
29140954 CTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAA-A-ATTACAGAT
1 CTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAAGATATTACAGAC
* *
29140998 CTTATCTCTCTAAGCAG
1 CTTATCTCCCTGAGCAG
29141015 TAGTGGAGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 20 0.38
46 1 0.02
47 32 0.60
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (46 bp):
CTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAAGATATTACAGAC
Found at i:29141099 original size:88 final size:88
Alignment explanation
Indices: 29140818--29141110 Score: 231
Period size: 88 Copynumber: 3.3 Consensus size: 88
29140808 AAATTACAGA
* * * * *
29140818 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCTCAAGGTAGTA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCGAATCCTATCTTCCCAAGGTAGTA
*
29140883 GGGAA-ACAGATTTAAGCCACTAG
66 GGGAAGA-AGATTTAAACCACTAG
* * * * * ** *
29140906 GCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTTGTAGA-CCTTATC-TCCCTGAGC
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGA-TGGCG-A-ATCC-TATCTTCCC-AAG-
* * * * * **
29140969 AGCAATA--G-AGTAGGTTGAAAATTAC-AG
60 -GTAGTAGGGAAGAAGATT-TAAACCACTAG
* *
29140996 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCCTATCTTCCCAAGGTAGT
1 -TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCGAATCCTATCTTCCCAAGGTAGT
29141061 AGGGAAGAAGATTTAAACCACTAG
65 AGGGAAGAAGATTTAAACCACTAG
*
29141085 TCTTATCTCCCTAAGTAGCAGTGGAG
1 TCTTATCTCCCTAAGCAGCAGTGGAG
29141111 TAGGTTGAAA
Statistics
Matches: 148, Mismatches: 41, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
86 4 0.03
88 66 0.45
89 17 0.11
90 15 0.10
91 42 0.28
93 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCGAATCCTATCTTCCCAAGGTAGTA
GGGAAGAAGATTTAAACCACTAG
Found at i:29155586 original size:18 final size:18
Alignment explanation
Indices: 29155563--29155607 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
29155553 ATGGGTGAAT
29155563 ATTTTGTAATATTAGAAG
1 ATTTTGTAATATTAGAAG
* *
29155581 ATTTTGTAATCTTAGATG
1 ATTTTGTAATATTAGAAG
*
29155599 ATCTTGTAA
1 ATTTTGTAA
29155608 ATCCATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (18 bp):
ATTTTGTAATATTAGAAG
Found at i:29161015 original size:41 final size:43
Alignment explanation
Indices: 29160848--29161043 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 43
29160838 CCAAATCATG
* * * *
29160848 TATACTGGCACACACAGTGCATCATCGGATATATCGAAGCAAT
1 TATACTGGCACACACAGTGCATCATCAGATATCTCGAAGTAAC
* * ** *
29160891 TATACTGGTACACACAATGCAAAATCAGATATCTCGAAGCAAC
1 TATACTGGCACACACAGTGCATCATCAGATATCTCGAAGTAAC
* * * * *
29160934 TATACTGGCACAAATAGTGCATCATCGGATATCCCAAAGTAAC
1 TATACTGGCACACACAGTGCATCATCAGATATCTCGAAGTAAC
* * * *
29160977 TATATTAGCACACA-A-TGCATCATCAGATATTTTGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCAGATATCTCGAAGTAAC
29161018 TATACTGGCACACACAGTGCATCATC
1 TATACTGGCACACACAGTGCATCATC
29161044 GAATATACCA
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 33 0.27
42 2 0.02
43 89 0.72
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCAGATATCTCGAAGTAAC
Found at i:29161020 original size:84 final size:85
Alignment explanation
Indices: 29160848--29161055 Score: 267
Period size: 84 Copynumber: 2.4 Consensus size: 85
29160838 CCAAATCATG
* * *
29160848 TATACTGGCACACACAGTGCATCATCGGATATATCGAAGCAATTATACTGGTACACACAATGCAA
1 TATACTGGCACACACAGTGCATCATCGGATATACCAAAGCAACTATACT-GTACACACAATGCAA
29160913 AATCAGATATCTCGAAGCAAC
65 AATCAGATATCTCGAAGCAAC
* * * * *
29160934 TATACTGGCACAAATAGTGCATCATCGGATATCCCAAAGTAACTATA-T-TAGCACACAATGCAT
1 TATACTGGCACACACAGTGCATCATCGGATATACCAAAGCAACTATACTGTA-CACACAATGCAA
* * * *
29160997 CATCAGATATTTTGAAGTAAC
65 AATCAGATATCTCGAAGCAAC
*
29161018 TATACTGGCACACACAGTGCATCATCGAATATACCAAA
1 TATACTGGCACACACAGTGCATCATCGGATATACCAAA
29161056 ATATAACATG
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
83 2 0.02
84 62 0.59
85 1 0.01
86 40 0.38
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (85 bp):
TATACTGGCACACACAGTGCATCATCGGATATACCAAAGCAACTATACTGTACACACAATGCAAA
ATCAGATATCTCGAAGCAAC
Found at i:29161817 original size:9 final size:9
Alignment explanation
Indices: 29161794--29161829 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
29161784 TTGTTAGTTT
*
29161794 TTGAGTAAA
1 TTGATTAAA
29161803 -TGATTAAA
1 TTGATTAAA
29161811 TTGATTAAA
1 TTGATTAAA
29161820 TTGATTAAA
1 TTGATTAAA
29161829 T
1 T
29161830 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (9 bp):
TTGATTAAA
Found at i:29174068 original size:27 final size:27
Alignment explanation
Indices: 29174029--29174081 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
29174019 GTACAATGGT
29174029 TTATATGGAAAATATACCATAATTAAA
1 TTATATGGAAAATATACCATAATTAAA
* * * *
29174056 TTATGTGGCAAATATATCGTAATTAA
1 TTATATGGAAAATATACCATAATTAA
29174082 GTTAAAAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (27 bp):
TTATATGGAAAATATACCATAATTAAA
Found at i:29183105 original size:33 final size:33
Alignment explanation
Indices: 29183063--29183129 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
29183053 CGTAACAGTG
29183063 ATTTTGTAAAATCAGAGTGAAATAGAGAGAAAC
1 ATTTTGTAAAATCAGAGTGAAATAGAGAGAAAC
* *
29183096 ATTTTGTAAAATCAGAGTGGAATAGGGAGAAAC
1 ATTTTGTAAAATCAGAGTGAAATAGAGAGAAAC
29183129 A
1 A
29183130 ATGTGATCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.24
Consensus pattern (33 bp):
ATTTTGTAAAATCAGAGTGAAATAGAGAGAAAC
Found at i:29192338 original size:91 final size:91
Alignment explanation
Indices: 29192200--29192407 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
29192190 TTGATTTTAG
* *
29192200 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
29192265 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
29192292 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
29192357 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
29192383 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
29192408 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:29192376 original size:26 final size:28
Alignment explanation
Indices: 29192322--29192382 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
29192312 TATTATCAAG
* *
29192322 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
29192350 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
29192376 AATTATA
1 AATTATA
29192383 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:29192382 original size:44 final size:43
Alignment explanation
Indices: 29192240--29192382 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
29192230 GAATTTTATG
* *
29192240 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
29192284 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
29192331 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
29192375 AAATTATA
1 AAATTATA
29192383 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:29192500 original size:26 final size:27
Alignment explanation
Indices: 29192453--29192504 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
29192443 TTTAATTAAA
*
29192453 ATATATTTAATATTAATTATTTCAAATT
1 ATATATTTAATATTAATAATTT-AAATT
*
29192481 ATAT-TTTATTATTAA-AATTTAAAT
1 ATATATTTAATATTAATAATTTAAAT
29192505 AACAATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 10 0.45
28 4 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
ATATATTTAATATTAATAATTTAAATT
Found at i:29192680 original size:45 final size:44
Alignment explanation
Indices: 29192597--29192687 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
29192587 ACCTCTATTC
* *
29192597 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACATCTATTCCATTA
*** *
29192641 CATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACATCTATTCCATTA
29192686 CA
1 CA
29192688 CCTCCATTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACATCTATTCCATTA
Found at i:29192705 original size:16 final size:16
Alignment explanation
Indices: 29192664--29192723 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
29192654 AGTTGATTTG
* *
29192664 CTATTACACATCTATT
1 CTATTACACCTCCATT
*
29192680 CCATTACACCTCCATT
1 CTATTACACCTCCATT
*
29192696 CTATTACACC-CCTAAT
1 CTATTACACCTCC-ATT
*
29192712 CTAATACACCTC
1 CTATTACACCTC
29192724 TAATCCAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 2 0.06
16 33 0.92
17 1 0.03
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (16 bp):
CTATTACACCTCCATT
Found at i:29192726 original size:16 final size:16
Alignment explanation
Indices: 29192684--29192735 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
29192674 TCTATTCCAT
* * *
29192684 TACACCTCCATTCTAT
1 TACACCTCTAATCTAA
*
29192700 TACACCCCTAATCTAA
1 TACACCTCTAATCTAA
*
29192716 TACACCTCTAATCCAA
1 TACACCTCTAATCTAA
29192732 TACA
1 TACA
29192736 GCAAACCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCTAA
Found at i:29193613 original size:61 final size:61
Alignment explanation
Indices: 29193533--29193654 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
29193523 TGCAGCATTA
*
29193533 AGTGTAATGCTAAACCGGTCACTAATCATTGGGCAAACCAGGCATATTATTGGTTCTTTCT
1 AGTGTAAGGCTAAACCGGTCACTAATCATTGGGCAAACCAGGCATATTATTGGTTCTTTCT
* *
29193594 AGTGTAAGGCTGAACCGGTCGCTAATCATTGGGCAAACCAGGCATATTATTGGTTCTTTCT
1 AGTGTAAGGCTAAACCGGTCACTAATCATTGGGCAAACCAGGCATATTATTGGTTCTTTCT
29193655 CAATCCTCTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (61 bp):
AGTGTAAGGCTAAACCGGTCACTAATCATTGGGCAAACCAGGCATATTATTGGTTCTTTCT
Found at i:29195064 original size:1 final size:1
Alignment explanation
Indices: 29195058--29195090 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
29195048 ATAAAAGAAC
29195058 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
29195091 CCAATGTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:29195111 original size:73 final size:73
Alignment explanation
Indices: 29195028--29195174 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 73
29195018 ATCCCCACGT
* *
29195028 TTTTTTCCCCCAAACACACCATAAAAGAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACC
1 TTTTTCCCCCCAAACACACCAAAAAAGAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACC
29195093 AATGTTAG
66 AATGTTAG
* *
29195101 TTTTTCCCCCCAAACACACCAAAAAAGAACAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAACC
1 TTTTTCCCCCCAAACACACCAAAAAAGAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACC
29195166 AATGTTAG
66 AATGTTAG
29195174 T
1 T
29195175 GATAATTAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.65, C:0.18, G:0.04, T:0.13
Consensus pattern (73 bp):
TTTTTCCCCCCAAACACACCAAAAAAGAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACC
AATGTTAG
Found at i:29195125 original size:1 final size:1
Alignment explanation
Indices: 29195121--29195163 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
29195111 CAAACACACC
* * * *
29195121 AAAAAAGAACAAAAAAAAAAAAAAACAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
29195164 CCAATGTTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:29195142 original size:16 final size:16
Alignment explanation
Indices: 29195121--29195162 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
29195111 CAAACACACC
*
29195121 AAAAAAGAACAAAAAA
1 AAAAAAAAACAAAAAA
29195137 AAAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
29195153 ACAAAAAAAA
1 A-AAAAAAAA
29195163 ACCAATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.90, C:0.07, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:29201290 original size:12 final size:12
Alignment explanation
Indices: 29201273--29201300 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29201263 ATAATTCTTT
29201273 AGAGTAAAAGGG
1 AGAGTAAAAGGG
29201285 AGAGTAAAAGGG
1 AGAGTAAAAGGG
29201297 AGAG
1 AGAG
29201301 ATGTATGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (12 bp):
AGAGTAAAAGGG
Found at i:29205983 original size:25 final size:25
Alignment explanation
Indices: 29205954--29206001 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
29205944 ATTATAAGAT
29205954 AGGAGTACAAAATTCCTAAAAATAC
1 AGGAGTACAAAATTCCTAAAAATAC
29205979 AGGAGTACAAAATTCCTAAAAAT
1 AGGAGTACAAAATTCCTAAAAAT
29206002 TATGGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (25 bp):
AGGAGTACAAAATTCCTAAAAATAC
Found at i:29206317 original size:19 final size:19
Alignment explanation
Indices: 29206295--29206332 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
29206285 AAAATAAATG
*
29206295 GAAATAAAAAGAATAGAAA
1 GAAACAAAAAGAATAGAAA
*
29206314 GAAACGAAAAGAATAGAAA
1 GAAACAAAAAGAATAGAAA
29206333 TAATAGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (19 bp):
GAAACAAAAAGAATAGAAA
Found at i:29218861 original size:9 final size:9
Alignment explanation
Indices: 29218847--29218877 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29218837 GTTAAATGAA
29218847 TCGAGTTAT
1 TCGAGTTAT
*
29218856 TCGAGTTAA
1 TCGAGTTAT
29218865 TCGAGTTAT
1 TCGAGTTAT
29218874 TCGA
1 TCGA
29218878 ATCACCTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:29242427 original size:22 final size:19
Alignment explanation
Indices: 29242402--29242443 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
29242392 TGATAATAAC
29242402 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
29242424 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
29242443 T
1 T
29242444 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:29242434 original size:16 final size:15
Alignment explanation
Indices: 29242402--29242440 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
29242392 TGATAATAAC
29242402 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
29242418 TTATTATAATATATAT
1 TAATTATAAT-TATAT
29242434 TAATTAT
1 TAATTAT
29242441 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:29249548 original size:27 final size:27
Alignment explanation
Indices: 29249510--29249580 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
29249500 CTAATCGACT
29249510 TGTGTTTAATGTCCT-AGTGAACTACCC
1 TGTGTTTAATGTCCTGA-TGAACTACCC
*
29249537 TGTGTTTAATGTCCTGATGGACTACCC
1 TGTGTTTAATGTCCTGATGAACTACCC
* *
29249564 CGTGTTTAGTGTCCTGA
1 TGTGTTTAATGTCCTGA
29249581 CGGACTCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
TGTGTTTAATGTCCTGATGAACTACCC
Found at i:29251989 original size:27 final size:27
Alignment explanation
Indices: 29251903--29251988 Score: 145
Period size: 27 Copynumber: 3.2 Consensus size: 27
29251893 ATTCATGGGC
29251903 AATGACCGAAATACCCCCAAAGGGTAA
1 AATGACCGAAATACCCCCAAAGGGTAA
*
29251930 AATGACCGAAATACCCCTAAAGGGTAA
1 AATGACCGAAATACCCCCAAAGGGTAA
* *
29251957 AATGATCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCAAAGGGTAA
29251984 AATGA
1 AATGA
29251989 TTGTTATACC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (27 bp):
AATGACCGAAATACCCCCAAAGGGTAA
Found at i:29257380 original size:11 final size:11
Alignment explanation
Indices: 29257361--29257391 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29257351 ATACATTTTC
29257361 ATTATTTATTA
1 ATTATTTATTA
*
29257372 ATTAATTATTA
1 ATTATTTATTA
29257383 ATTATTTAT
1 ATTATTTAT
29257392 ATTTTTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTATTTATTA
Found at i:29263669 original size:46 final size:46
Alignment explanation
Indices: 29263616--29263972 Score: 475
Period size: 46 Copynumber: 8.2 Consensus size: 46
29263606 TTTGAGTACT
* * *
29263616 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTAGACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
29263662 TCTGATCAAGTGACAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
29263698 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
29263744 TCTGATCAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
29263780 TATGATCAAGAGACAAAGTGGTAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
29263826 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
29263872 TCTGATCAACTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
29263918 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
29263964 TCTGATCAA
1 TCTGATCAA
29263973 CCCAACAGGC
Statistics
Matches: 275, Mismatches: 16, Indels: 40
0.83 0.05 0.12
Matches are distributed among these distances:
36 58 0.21
37 5 0.02
40 4 0.01
42 4 0.01
45 5 0.02
46 199 0.72
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:29263698 original size:36 final size:36
Alignment explanation
Indices: 29263652--29263852 Score: 168
Period size: 36 Copynumber: 5.0 Consensus size: 36
29263642 GGTAGCTTTA
*
29263652 GCTAGACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
29263688 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
29263733 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * * *
29263770 ACTACACTTATATGATCAAGAGACAAAGTGGTAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGT-G--A-T--AAG---T
29263815 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
29263852 G
1 G
29263853 TTAGCTTTAG
Statistics
Matches: 134, Mismatches: 11, Indels: 40
0.72 0.06 0.22
Matches are distributed among these distances:
36 57 0.43
37 4 0.03
39 1 0.01
40 5 0.04
42 5 0.04
43 1 0.01
45 4 0.03
46 57 0.43
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:29263753 original size:82 final size:82
Alignment explanation
Indices: 29263616--29263944 Score: 496
Period size: 82 Copynumber: 3.9 Consensus size: 82
29263606 TTTGAGTACT
* *
29263616 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTAGACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
29263681 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
29263698 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
29263763 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
* *
29263780 TATGATCAAGAGACAAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
29263845 GATAAGTGTTAGCTTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
** *
29263872 TCTGATCAACTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
29263937 GATAAGTG
66 GATAAGTG
29263945 GTAGCCTTAG
Statistics
Matches: 226, Mismatches: 11, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
82 146 0.65
83 2 0.01
86 2 0.01
88 2 0.01
91 2 0.01
92 72 0.32
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:29272396 original size:22 final size:22
Alignment explanation
Indices: 29272364--29272428 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
29272354 TGCCTGTAGT
*
29272364 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATGGCTATA-AGCCATAAA
* *
29272386 CAGAATAGCTATAAGCTATAAA
1 CAGAATGGCTATAAGCCATAAA
*
29272408 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTATAAGCCATAA
29272429 GTACAGTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (22 bp):
CAGAATGGCTATAAGCCATAAA
Found at i:29272507 original size:32 final size:32
Alignment explanation
Indices: 29272420--29272686 Score: 204
Period size: 32 Copynumber: 8.4 Consensus size: 32
29272410 GAATGGCTAC
* ** *
29272420 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTAACATGATCGGCACA
* * * * *
29272451 AAGCCATCCGCAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAACATGATCGGCACA
* ** *
29272483 CAA-CTATCAGTAATGGTAACATGATCGACACA
1 -AAGCCATCAGTAACAGTAACATGATCGGCACA
* * * *
29272515 AAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAACAGTAACATGATCGGCACA
*
29272547 CAA-CCATCAATAACAGTGAA-ATGATCGGCACA
1 -AAGCCATCAGTAACAGT-AACATGATCGGCACA
* * * * *
29272579 CAGCCATCGGTAACGGTAATATCATCGGCACA
1 AAGCCATCAGTAACAGTAACATGATCGGCACA
* * *
29272611 AAGCCATCACTAACGGT-ACTATGACCGGCACA
1 AAGCCATCAGTAACAGTAAC-ATGATCGGCACA
29272643 AAGCCATCAGTAACAGT-ACTATGATCGGCACA
1 AAGCCATCAGTAACAGTAAC-ATGATCGGCACA
*
29272675 AAGCCATTAGTA
1 AAGCCATCAGTA
29272687 GCATCGCAGC
Statistics
Matches: 185, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
31 14 0.08
32 166 0.90
33 5 0.03
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAACATGATCGGCACA
Found at i:29272611 original size:96 final size:96
Alignment explanation
Indices: 29272446--29272686 Score: 254
Period size: 96 Copynumber: 2.5 Consensus size: 96
29272436 AATGTGATTG
*** * * * * *
29272446 GCACAAAGCCATCCGCAGCAGTGATATGATCGGCACACAACTATCAGTAATGGTAACATGATCGA
1 GCACAAAGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATCATCGA
* * *
29272511 CACAAAGCCATCAGTAGCAGTGA-TATGATCA
66 CACAAAGCCATCACTAACAGT-ACTATGACCA
* * *
29272542 GCACACAA-CCATCAATAACAGTGAAATGATCGGCACACAGCCATCGGTAACGGTAATATCATCG
1 GCACA-AAGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATCATCG
* * *
29272606 GCACAAAGCCATCACTAACGGTACTATGACCG
65 ACACAAAGCCATCACTAACAGTACTATGACCA
* * *
29272638 GCACAAAGCCATCAGTAACAGT-ACTATGATCGGCACAAAGCCATTAGTA
1 GCACAAAGCCATCAATAACAGTGA-TATGATCGGCACACAGCCATCAGTA
29272687 GCATCGCAGC
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 4 0.03
96 113 0.95
97 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (96 bp):
GCACAAAGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATCATCGA
CACAAAGCCATCACTAACAGTACTATGACCA
Found at i:29272681 original size:64 final size:64
Alignment explanation
Indices: 29272440--29272674 Score: 244
Period size: 64 Copynumber: 3.7 Consensus size: 64
29272430 TACAGTAATG
* * * * * * *
29272440 TGATTGGCACAAAGCCATCCGCAGCAGTGATATGATCGGCACACAACTATCAGTAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAATAACGGTAACA
* * * *
29272504 TGATCGACACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAATAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAATAACGGT-AACA
* * * * * *
29272568 TGATCGGCACACAGCCATCGGTAACGGTAATATCATCGGCACA-AAGCCATCACTAACGGT-ACT
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAA-CCATCAATAACGGTAAC-
29272631 A
64 A
*
29272632 TGACCGGCACAAAGCCATCAGTAACAGT-ACTATGATCGGCACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TATGATCGGCACA
29272675 AAGCCATTAG
Statistics
Matches: 142, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 136 0.96
65 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAATAACGGTAACA
Found at i:29273002 original size:27 final size:27
Alignment explanation
Indices: 29272945--29273656 Score: 749
Period size: 27 Copynumber: 26.5 Consensus size: 27
29272935 GGCAAAAATA
*
29272945 GTCA-TTTACCC-ATCA-GGGCATTACA
1 GTCATTTTACCCTA-CAGGGGCATTACG
29272970 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * *
29272997 ACCATTTTATCCTACAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29273024 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
29273051 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * *
29273078 ACCATTTTATCCTACAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29273105 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
29273132 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29273159 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * *
29273186 ACCATTTTATCCTACAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29273213 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
29273240 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * *
29273267 ACCATTTTATCCTACAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
29273294 GTCATTTTACTCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
29273321 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
29273348 ATCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
29273375 GTCATTTTACCTTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
29273402 GTCATTTTATCCTACAGGAGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
29273429 GTCATTTTACCCTACAGAGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29273456 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
29273483 ATCATTTTACCCTACAGGGGTATTAAG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
29273510 GTTATTTTACCCTATA-GGGCTATTTCG
1 GTCATTTTACCCTACAGGGGC-ATTACG
* * * * * *
29273537 AT-ATTCTACCTTAC-GAGGGTATTTCA
1 GTCATTTTACCCTACAG-GGGCATTACG
** *
29273563 GTCATTTTACCCTATGGGGGCATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
29273590 ATCATTTTA-CCTATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * * *
29273617 CTCATTTTACCC-ATAGAGGGTATTTCG
1 GTCATTTTACCCTACAG-GGGCATTACG
29273644 GTCATTTTACCCT
1 GTCATTTTACCCT
29273657 TCGAGGGTAT
Statistics
Matches: 577, Mismatches: 97, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.01
26 32 0.06
27 538 0.93
28 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:29273698 original size:27 final size:26
Alignment explanation
Indices: 29273525--29273700 Score: 187
Period size: 27 Copynumber: 6.5 Consensus size: 26
29273515 TTTACCCTAT
*
29273525 AGGGCTATTTCGAT-ATTCTACCTTACG
1 AGGG-TATTTCGATCATTTTACCTT-CG
29273552 AGGGTATTTC-AGTCATTTTACCCTAT-G
1 AGGGTATTTCGA-TCATTTTA-CCT-TCG
* *
29273579 GGGGCATTTCGATCATTTTACCTATCG
1 AGGGTATTTCGATCATTTTACCT-TCG
* * *
29273606 AGGGTATTTCGCTCATTTTACCCATAG
1 AGGGTATTTCGATCATTTTA-CCTTCG
*
29273633 AGGGTATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCGATCATTTTA-CCTTCG
29273660 AGGGTATTTCGATCATTTTACCATTCG
1 AGGGTATTTCGATCATTTTACC-TTCG
29273687 AGGGTATTTCGATC
1 AGGGTATTTCGATC
29273701 CAAATATTGA
Statistics
Matches: 129, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.01
26 14 0.11
27 107 0.83
28 6 0.05
29 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCGATCATTTTACCTTCG
Found at i:29275230 original size:12 final size:13
Alignment explanation
Indices: 29275213--29275241 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29275203 GGTTTTCTCC
29275213 AAAATGAAAAT-G
1 AAAATGAAAATGG
29275225 AAAATGAAAATGG
1 AAAATGAAAATGG
29275238 AAAA
1 AAAA
29275242 ATAGAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAATGG
Found at i:29297047 original size:20 final size:20
Alignment explanation
Indices: 29297018--29297065 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
29297008 GAACCACTCT
29297018 ATTT-CTTACTTATCATTCC
1 ATTTACTTACTTATCATTCC
* * *
29297037 GTTTACTTACTTTTCATTTC
1 ATTTACTTACTTATCATTCC
29297057 ATTTACTTA
1 ATTTACTTA
29297066 GCATAAGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTACTTACTTATCATTCC
Found at i:29311164 original size:20 final size:21
Alignment explanation
Indices: 29311111--29311168 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
29311101 TTGATTTTTC
*
29311111 AGGTGGTATCGATACCACTTAA
1 AGGTAGTATCGATACCAC-TAA
* * *
29311133 AGGAAATATCGATACCA-TAG
1 AGGTAGTATCGATACCACTAA
29311153 AGGTAGTATCGATACC
1 AGGTAGTATCGATACC
29311169 TACGTAAGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 16 0.53
22 14 0.47
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
AGGTAGTATCGATACCACTAA
Found at i:29311252 original size:12 final size:12
Alignment explanation
Indices: 29311235--29311259 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29311225 TTTATGTTTG
29311235 TTTGTCGTATGT
1 TTTGTCGTATGT
29311247 TTTGTCGTATGT
1 TTTGTCGTATGT
29311259 T
1 T
29311260 AGTATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTGTCGTATGT
Found at i:29338145 original size:40 final size:40
Alignment explanation
Indices: 29338090--29338165 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
29338080 CATATATACA
29338090 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATCAAAT
1 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATCAAAT
29338130 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATC
29338166 TCATTCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.20
Consensus pattern (40 bp):
CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATCAAAT
Found at i:29345629 original size:132 final size:132
Alignment explanation
Indices: 29345470--29346192 Score: 1275
Period size: 132 Copynumber: 5.5 Consensus size: 132
29345460 AGGTCGAAGA
* * * * *
29345470 CACCAAGCCTTGTCTCCTTGAGCAGCAGCAGAGTAGGTTGAAAATTGTAGACCTTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
29345535 GCAGTAGTGGAGCAGATCGAAGACAGAAAATCTTATCTTTCCTAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29345600 GC
131 GC
*
29345602 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAG
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* *
29345667 GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
29345732 GT
131 GC
* * * * * *
29345734 CACCAAGCCTTATCTCCCTGAGCAGCAGTGTAGTGGGTTGAAAATGGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
29345799 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29345864 GC
131 GC
29345866 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
29345931 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29345996 GC
131 GC
29345998 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
29346063 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29346128 GC
131 GC
29346130 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
1 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
29346193 CGCAACCAAG
Statistics
Matches: 566, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 566 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:29345832 original size:44 final size:44
Alignment explanation
Indices: 29345652--29346100 Score: 157
Period size: 44 Copynumber: 10.2 Consensus size: 44
29345642 AAAATTGTAG
* * *
29345652 ATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGACGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* ** * **
29345696 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGTCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAA
** * * * ** * * * * *
29345740 GCCTTATCTCCCTGAGCAGCAGTGTAGTGGGTTGAAA-ATGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAG-CAGATCAAAGACGGCAA
29345784 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* ** * **
29345828 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAA
** * * * * * * * * ** * *
29345872 GCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAA-ATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCAA
29345916 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* ** * **
29345960 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAA
** * * * * * * * * ** * *
29346004 GCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAA-ATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCAA
29346048 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
29346092 ATCTTATCT
1 ATCTTATCT
29346101 TTCCAAGATA
Statistics
Matches: 270, Mismatches: 111, Indels: 48
0.63 0.26 0.11
Matches are distributed among these distances:
42 12 0.04
43 33 0.12
44 189 0.70
45 29 0.11
46 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
Found at i:29346237 original size:66 final size:66
Alignment explanation
Indices: 29346131--29346258 Score: 231
Period size: 66 Copynumber: 1.9 Consensus size: 66
29346121 GATTTAAGCC
*
29346131 ACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTCGC
1 ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTCGC
29346196 A
66 A
29346197 ACCAAGCCTTGTCTCCCGGAGCT-GCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
1 ACCAAGCCTTGTCTCCCGGAG-TAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
29346259 AAGCAGTAGT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (66 bp):
ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTCGC
A
Found at i:29346296 original size:44 final size:44
Alignment explanation
Indices: 29346247--29346559 Score: 124
Period size: 44 Copynumber: 7.1 Consensus size: 44
29346237 AAATTGTAGA
*
29346247 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAC
* ** * **
29346291 TCTTATCTTTCC-AAG--GTAGTGGGAAGCAGATTTAAGCCACCAAGC
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA-C
* * * * * * * * ** *
29346336 -CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCA-AC
*
29346379 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAC
* * ** * **
29346423 TCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAGCCACCAAGC
1 TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA-C
* * * * * * * ** *
29346468 -CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCA-AC
* *
29346511 TCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAC
29346555 TCTTA
1 TCTTA
29346560 GCTTTCCAAG
Statistics
Matches: 184, Mismatches: 65, Indels: 40
0.64 0.22 0.14
Matches are distributed among these distances:
42 9 0.05
43 13 0.07
44 142 0.77
45 14 0.08
46 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAC
Found at i:29346337 original size:198 final size:198
Alignment explanation
Indices: 29345999--29346390 Score: 714
Period size: 198 Copynumber: 2.0 Consensus size: 198
29345989 GATTTAAGCC
*
29345999 ACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
29346064 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
29346129 CCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTC
131 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTC
29346194 GCA
196 GCA
29346197 ACCAAGCCTTGTCTCCCGGAGCT-GCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 ACCAAGCCTTGTCTCCCGGAG-TAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
29346261 GCAGTAGTGGAGCAGATCGAAGATGGCAACTCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTAA
65 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29346326 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
130 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
29346391 AAGCAGTAGT
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
198 186 0.99
199 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (198 bp):
ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTC
GCA
Found at i:29346468 original size:330 final size:330
Alignment explanation
Indices: 29345867--29346522 Score: 1188
Period size: 330 Copynumber: 2.0 Consensus size: 330
29345857 GATTTAAGCC
*
29345867 ACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
29345932 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
29345997 CCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
131 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
*
29346062 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
196 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
*
29346127 AGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
261 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
29346192 TCGCA
326 TCGCA
29346197 ACCAAGCCTTGTCTCCCGGAGCT-GCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 ACCAAGCCTTGTCTCCCGGAG-TAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
29346261 GCAGTAGTGGAGCAGATCGAAGATGGCAACTCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTAA
65 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29346326 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
130 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
* *
29346391 AAGCAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTT
195 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTT
* *
29346456 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATTTCC
260 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCC
29346521 CT
325 CT
29346523 AAGCAGTAGT
Statistics
Matches: 313, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
330 312 1.00
331 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (330 bp):
ACCAAGCCTTGTCTCCCGGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
TCGCA
Found at i:29346599 original size:462 final size:462
Alignment explanation
Indices: 29345735--29346612 Score: 1558
Period size: 462 Copynumber: 1.9 Consensus size: 462
29345725 GATTTAAGTC
* * * *
29345735 ACCAAGCCTTATCTCCCTGAGCAGCAGTGTAGTGGGTTGAAAATGGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTATCTCCCGGAGCAGCAGCGGAGTAGGTTGAAAATGGTAGATCTTATCTCCCTAAG
29345800 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
29345865 CCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
131 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
*
29345930 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
196 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
*
29345995 AGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
261 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* *
29346060 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
326 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAACAGATT
29346125 TAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTC
391 TAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTC
29346190 CCTCGCA
456 CCTCGCA
* * *
29346197 ACCAAGCCTTGTCTCCCGGAGCTGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTATCTCCCGGAGCAGCAGCGGAGTAGGTTGAAAATGGTAGATCTTATCTCCCTAAG
* * * *
29346262 CAGTAGTGGAGCAGATCGAAGATGGCAACTCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
29346327 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
131 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
* *
29346392 AGCAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
196 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
* *
29346457 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATTTCCC
261 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* *
29346522 TAAGCAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTAGCTTTCCAAGATAGTGGGAAACAGATT
326 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAACAGATT
29346587 TAAGCCACCAAGCCTTGTCTCCCTGA
391 TAAGCCACCAAGCCTTGTCTCCCTGA
29346613 AGTTGCAGTG
Statistics
Matches: 394, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
462 394 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (462 bp):
ACCAAGCCTTATCTCCCGGAGCAGCAGCGGAGTAGGTTGAAAATGGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTA
AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAACAGATT
TAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTC
CCTCGCA
Found at i:29346654 original size:132 final size:132
Alignment explanation
Indices: 29346197--29346612 Score: 751
Period size: 132 Copynumber: 3.2 Consensus size: 132
29346187 CTCCCTCGCA
* *
29346197 ACCAAGCCTTGTCTCCCGGAGCTGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
* * * *
29346262 CAGTAGTGGAGCAGATCGAAGATGGCAACTCTTATCTTTCCAAGGTAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAG
29346327 CC
131 CC
29346329 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
29346394 CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAG
29346459 CC
131 CC
* *
29346461 ACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATTTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
*
29346526 CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTAGCTTTCCAAGATAGTGGGAAACAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAG
29346591 CC
131 CC
29346593 ACCAAGCCTTGTCTCCCTGA
1 ACCAAGCCTTGTCTCCCTGA
29346613 AGTTGCAGTG
Statistics
Matches: 275, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 275 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (132 bp):
ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAG
CC
Found at i:29352147 original size:47 final size:47
Alignment explanation
Indices: 29352078--29352167 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
29352068 TGATAGTGTA
*
29352078 GATGACTTCGACTTCGCTGATCCCGAATCCGATAGCTGACGAATGTG
1 GATGACTTCGACTTCGCTGATCCCGAATCCGATAGCTAACGAATGTG
29352125 GATGACTTCGACTTCGCTGATCCCGAATCCGATAGCTAACGAA
1 GATGACTTCGACTTCGCTGATCCCGAATCCGATAGCTAACGAA
29352168 CAAAATCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (47 bp):
GATGACTTCGACTTCGCTGATCCCGAATCCGATAGCTAACGAATGTG
Found at i:29352599 original size:40 final size:40
Alignment explanation
Indices: 29352551--29352960 Score: 802
Period size: 40 Copynumber: 10.2 Consensus size: 40
29352541 GCAAACACAT
* *
29352551 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352591 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352631 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352671 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352711 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352751 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352791 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352831 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352871 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352911 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29352951 TTGCCTTCGG
1 TTGCCTTCGG
29352961 TCCTTCCCTT
Statistics
Matches: 368, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 368 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.