Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 102 of 373
Found at i:33131127 original size:44 final size:42
Alignment explanation
Indices: 33130989--33131183 Score: 198
Period size: 44 Copynumber: 4.5 Consensus size: 42
33130979 CAATGCAAAC
* * * * *
33130989 GTCCTAGACGTGGTCTTACATGT-AATCAAATATCAATGCCACT
1 GTCC-AGACATGGTCTTACACGTAAATCTAA-ATCGATGCCAAT
*
33131032 GTCCCAGACAGGGTCTTACACG-AAATC-AAATACGATGCCAAT
1 GT-CCAGACATGGTCTTACACGTAAATCTAAAT-CGATGCCAAT
*
33131074 GTCCTAGACATGGTCTTACACGTAAATCTTAAATCGATGCCAAC
1 GTCC-AGACATGGTCTTACACGTAAATC-TAAATCGATGCCAAT
* *
33131118 ATCTCAGACATGGTCTTACACGTAAATCTCAAATCGGTGCCAAT
1 GTC-CAGACATGGTCTTACACGTAAATCT-AAATCGATGCCAAT
*
33131162 GTCCCAGACGTGGTCTTACACG
1 GT-CCAGACATGGTCTTACACG
33131184 ATAACACATA
Statistics
Matches: 130, Mismatches: 12, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
41 4 0.03
42 28 0.22
43 26 0.20
44 66 0.51
45 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCAGACATGGTCTTACACGTAAATCTAAATCGATGCCAAT
Found at i:33131183 original size:88 final size:85
Alignment explanation
Indices: 33130989--33131183 Score: 234
Period size: 86 Copynumber: 2.3 Consensus size: 85
33130979 CAATGCAAAC
* *
33130989 GTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCTAGACGTGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGACAGGGTCTTACACG
33131054 AAATCAAATACGATGCCAAT
66 AAATCAAATACGATGCCAAT
* * * * *
33131074 GTCCTAGACATGGTCTTACACGTAAATCTTAA-ATCGATGCCAAC-ATCTCAGACATGGTCTTAC
1 GTCCTAGACGTGGTCTTACACGT-AATC-AAATATCAATGCC-ACTATCCCAGACAGGGTCTTAC
*
33131137 ACGTAAATCTCAAAT-CGGTGCCAAT
63 ACG-AAA--TCAAATACGATGCCAAT
*
33131162 GTCCCAGACGTGGTCTTACACG
1 GTCCTAGACGTGGTCTTACACG
33131184 ATAACACATA
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
85 21 0.22
86 31 0.33
87 7 0.07
88 29 0.31
89 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
GTCCTAGACGTGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGACAGGGTCTTACACG
AAATCAAATACGATGCCAAT
Found at i:33133390 original size:41 final size:40
Alignment explanation
Indices: 33133320--33133481 Score: 128
Period size: 41 Copynumber: 4.0 Consensus size: 40
33133310 GTCGAATACT
*
33133320 TTATATTTTGCACACTAAGTGGTAATACATAGCCGAAGCTA
1 TTATATTTTGCACACTAAGTGCT-ATACATAGCCGAAGCTA
33133361 TTATACTTTTGCACACTAAGTGCCT-TACATAGCCGAAGCTA
1 TTATA-TTTTGCACACTAAGTG-CTATACATAGCCGAAGCTA
*** * * * * *
33133402 TCTCGGTCTCGCACAATAAGTGCCATATATAGCCGAAGCTA
1 T-TATATTTTGCACACTAAGTGCTATACATAGCCGAAGCTA
** ** * * * *
33133443 TTCCAAATCGCACACTAAGTGCCATATATAGCCAAAGCT
1 TTATATTTTGCACACTAAGTGCTATACATAGCCGAAGCT
33133482 TTCTTGAATC
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
40 33 0.32
41 51 0.50
42 17 0.17
43 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (40 bp):
TTATATTTTGCACACTAAGTGCTATACATAGCCGAAGCTA
Found at i:33133465 original size:40 final size:40
Alignment explanation
Indices: 33133371--33133512 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
33133361 TTATACTTTT
* * * **
33133371 GCACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTC
1 GCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAATC
* *
33133412 GCACAATAAGTGCCATATATAGCCGAAGCTATTCCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATC
* *
33133452 GCACACTAAGTGCCATATATAGCCAAAGCT-TTCTTGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTC-CGAATC
* *
33133492 ACACATTAAGTGCCATATATA
1 GCACACTAAGTGCCATATATA
33133513 TATCCGAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.03
40 55 0.63
41 29 0.33
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATC
Found at i:33135748 original size:68 final size:67
Alignment explanation
Indices: 33135701--33135858 Score: 271
Period size: 68 Copynumber: 2.3 Consensus size: 67
33135691 ATACTATATA
*
33135701 GTAGCTAGGTCACATGTGTGATGCGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
33135766 AAT
65 AAT
33135769 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
33135834 AAT
65 AAT
* *
33135837 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
33135859 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:33135932 original size:66 final size:67
Alignment explanation
Indices: 33135735--33135932 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
33135725 GGGATGTATC
* * *
33135735 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
33135797 TGTATC-
62 AGGA-CA
*
33135803 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
33135868 AGGACA
62 AGGACA
* *
33135874 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
33135933 TTCACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:33143382 original size:62 final size:67
Alignment explanation
Indices: 33143271--33143422 Score: 242
Period size: 62 Copynumber: 2.3 Consensus size: 67
33143261 ATACTATATA
33143271 GTAGCTAGGTCACATGTGTGATACTGGATGTATCCCATGTAGACAAGAGAGCTACGT-GAGAT-A
1 GTAGCTAGGTCACATGTGTGATACTGGATGTATCCCATGTAGACAAGAGAGCTACGTAGAGATAA
33143334 AT
66 AT
33143336 GTAGCTA-GTCACATGTGTGATAC-GGATGTAT-CCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACTGGATGTATCCCATGTAGACAAGAGAGCTACGT-AGAGATA
33143398 AAT
65 AAT
* *
33143401 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
33143423 TCCAAGTGAA
Statistics
Matches: 81, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
62 23 0.28
63 8 0.10
64 21 0.26
65 17 0.21
66 12 0.15
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACTGGATGTATCCCATGTAGACAAGAGAGCTACGTAGAGATAA
AT
Found at i:33148384 original size:27 final size:27
Alignment explanation
Indices: 33148354--33148444 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
33148344 ATTACCAAAG
*
33148354 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
33148381 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
33148408 TACCTTCGA-TTGT-GAAATTACTGTTT
1 TACCCTCGATTTATAG-AATTACTGTTT
33148434 TACCCTCGATT
1 TACCCTCGATT
33148445 GTGAAATTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.02
26 20 0.38
27 31 0.60
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:33148426 original size:26 final size:26
Alignment explanation
Indices: 33148397--33148456 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
33148387 TGATTTACAG
*
33148397 AATTACTATTTTACCTTCGATTGTGA
1 AATTACTATTTTACCCTCGATTGTGA
*
33148423 AATTACTGTTTTACCCTCGATTGTGA
1 AATTACTATTTTACCCTCGATTGTGA
33148449 AATTACTA
1 AATTACTA
33148457 AAATACCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (26 bp):
AATTACTATTTTACCCTCGATTGTGA
Found at i:33148463 original size:26 final size:26
Alignment explanation
Indices: 33148434--33148597 Score: 100
Period size: 27 Copynumber: 6.1 Consensus size: 26
33148424 ATTACTGTTT
* *
33148434 TACCCTCGATTGTGAAATTACTAAAA
1 TACCCTCGATTGTAAAATTACCAAAA
* *
33148460 TACCC-CTATAGGGTAAAATTACCAAAA
1 TACCCTCGAT--TGTAAAATTACCAAAA
* * *
33148487 TACCCCTAGTTTATAAAATTACCAAAA
1 TA-CCCTCGATTGTAAAATTACCAAAA
* * * ** *
33148514 TACCACTAGTTTGTGAAATTTTCGAAA
1 TACC-CTCGATTGTAAAATTACCAAAA
*
33148541 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGA-TTGTAAAATTACCAAAA
*
33148568 TACCC-CTGATT-TACAAAATTACAAAAA
1 TACCCTC-GATTGT--AAAATTACCAAAA
33148595 TAC
1 TAC
33148598 TCTTGACTTT
Statistics
Matches: 106, Mismatches: 23, Indels: 17
0.73 0.16 0.12
Matches are distributed among these distances:
25 4 0.04
26 12 0.11
27 86 0.81
28 3 0.03
29 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
TACCCTCGATTGTAAAATTACCAAAA
Found at i:33148503 original size:27 final size:27
Alignment explanation
Indices: 33148473--33148597 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
33148463 CCCTATAGGG
33148473 TAAAATTACCAAAATACCCCTAGTTTA
1 TAAAATTACCAAAATACCCCTAGTTTA
* *
33148500 TAAAATTACCAAAATACCACTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTA
* ** * * *
33148527 TGAAATTTTCGAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-AGTTTA
33148554 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACCAAAATACCCCTAG-TTTA
* *
33148581 CAAAATTACAAAAATAC
1 TAAAATTACCAAAATAC
33148598 TCTTGACTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.04
27 72 0.91
28 4 0.05
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTA
Found at i:33148514 original size:54 final size:54
Alignment explanation
Indices: 33148448--33148574 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 54
33148438 CTCGATTGTG
* *
33148448 AAATTACTAAAATACCCCTA-TAGGGTAAAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCCTAGT-GGGTAAAATTACCAAAATACCCTC-AATTTATA
* ** * ** * *
33148502 AAATTACCAAAATACCACTAGTTTGTGAAATTTTCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCTCAATTTATA
33148556 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
33148575 GATTTACAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 58 0.97
55 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCTCAATTTATA
Found at i:33148746 original size:27 final size:26
Alignment explanation
Indices: 33148716--33148807 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 26
33148706 ACCCCTATTA
*
33148716 GGTAAAAAGACCGTACAACCCCTGTAG
1 GGTAAAATGACCGTA-AACCCCTGTAG
* *
33148743 GGTAAAGTGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAA-CCCCTGTAG
* * *
33148770 GGTAAAGTGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAA-ACCCCTGTAG
33148797 GGTAAAATGAC
1 GGTAAAATGAC
33148808 GAATATGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.04
27 53 0.95
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
GGTAAAATGACCGTAAACCCCTGTAG
Found at i:33149733 original size:25 final size:26
Alignment explanation
Indices: 33149610--33149757 Score: 201
Period size: 26 Copynumber: 5.8 Consensus size: 26
33149600 GAGGAAGTGC
* * *
33149610 AAAAGGGCTTATTCCCTAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
33149636 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
33149662 AAAAGGGCTTATGCCCCAATTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33149688 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
33149714 AAAAGGTCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33149739 AAAAGGGCTT-TGCCCCAGT
1 AAAAGGGCTTATGCCCCAGT
33149758 AATTAAAGAG
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.28
26 80 0.72
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33149968 original size:42 final size:42
Alignment explanation
Indices: 33149909--33149991 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
33149899 CTCCAAATAG
* ** *
33149909 GCTTGCATACATTCATTGGTATTTCATATGATATTGAAATGC
1 GCTTGCATACATCCATTGACATTACATATGATATTGAAATGC
*
33149951 GCTTGCATACATCCATTGACATTACATGTGATATTGAAATG
1 GCTTGCATACATCCATTGACATTACATATGATATTGAAATG
33149992 GGCCTGTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (42 bp):
GCTTGCATACATCCATTGACATTACATATGATATTGAAATGC
Found at i:33150053 original size:31 final size:31
Alignment explanation
Indices: 33150018--33150096 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
33150008 CGTTTACAGT
* *
33150018 AAAGGCTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
*
33150049 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
33150080 AAAGGCTTTGGCCCAGT
1 AAAGGCTTTGGCCCAGT
33150097 AACTATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGAAATGATTTATGA
Found at i:33152382 original size:27 final size:27
Alignment explanation
Indices: 33152352--33152417 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
33152342 ATTACCAAAG
*
33152352 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTACAGAATTACTGTCT
* *
33152379 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTCT
33152406 TACCCTCGATTT
1 TACCCTCGATTT
33152418 TGAAATTACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTCT
Found at i:33152431 original size:26 final size:26
Alignment explanation
Indices: 33152352--33152437 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
33152342 ATTACCAAAG
*
33152352 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTT-TAGAATTACTGTTT
* *
33152379 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTT-TAGAATTACTGTTT
*
33152406 TACCCTCGATTTT-GAAATTACCGTTT
1 TACCCTCGATTTTAG-AATTACTGTTT
33152432 TACCCT
1 TACCCT
33152438 TAGTTGTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 1 0.02
26 16 0.31
27 35 0.67
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (26 bp):
TACCCTCGATTTTAGAATTACTGTTT
Found at i:33152447 original size:26 final size:26
Alignment explanation
Indices: 33152395--33152452 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
33152385 TGATTTACAG
* * *
33152395 AATTACTGTTTTACCCTCGATTTTGA
1 AATTACCGTTTTACCCTAGATTGTGA
33152421 AATTACCGTTTTACCCTTAG-TTGTGA
1 AATTACCGTTTTACCC-TAGATTGTGA
33152447 AATTAC
1 AATTAC
33152453 TGAAATACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (26 bp):
AATTACCGTTTTACCCTAGATTGTGA
Found at i:33152624 original size:110 final size:109
Alignment explanation
Indices: 33152507--33152850 Score: 458
Period size: 110 Copynumber: 3.1 Consensus size: 109
33152497 AAAATTACCA
33152507 AAATACCATTAGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 AAATACCATTAGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCCTG
33152572 ATTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATGG
65 ATTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATGG
* *** *** * * * *
33152617 AAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACC-AAATACCATTA
1 AAATACCATTAGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTGA
* ** ***
33152681 GTTTACAAAATTACTGAAATACCCTTGTAGATT-TACAAAATTACCA
66 -TTTACAAAATTACAGAAATACCCTTG-ACTTTCTA-AAAATTATGG
**
33152727 AAATACCATTAGTTTGTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTGA
1 AAATACCATTAGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTGA
33152792 TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATGG
66 TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATGG
*
33152836 AAATACCATTGGTTT
1 AAATACCATTAGTTT
33152851 ACAAAATTAC
Statistics
Matches: 192, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
108 4 0.02
109 56 0.29
110 123 0.64
111 9 0.05
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (109 bp):
AAATACCATTAGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTGA
TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATGG
Found at i:33152789 original size:27 final size:27
Alignment explanation
Indices: 33152432--33152897 Score: 255
Period size: 27 Copynumber: 17.2 Consensus size: 27
33152422 ATTACCGTTT
* **
33152432 TACCCTTAG-TTGTGAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* **
33152458 TACCCATA-TAGGT-AAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* *
33152483 TGCCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* * **
33152510 TACCATTAGTTTGTGAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* *
33152537 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* **
33152564 TACCCCT-GATTTACAAAATTA-CAGAAA
1 TACCCTTAG-TTTGTAAAATTACCA-AAA
* * ***
33152591 TACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTT-AGTTTGT-AAAATTACCAAAA
* * ** **
33152620 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* * *
33152647 TACCCTTGGTTTGTAGATTTACC-AAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* ** **
33152673 TACCATTAGTTTACAAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
**
33152700 TACCCTTGTAGATTTACAAAATTACCAAAA
1 TACCC-T-TAG-TTTGTAAAATTACCAAAA
* *
33152730 TACCATTAGTTTGTGAAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* *
33152757 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* **
33152784 TACCCTGA-TTTACAAAATTA-CAGAAA
1 TACCCTTAGTTTGTAAAATTACCA-AAA
* * ***
33152810 TACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTT-AGTTTGT-AAAATTACCAAAA
* * **
33152839 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
* * * *
33152866 CACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTAGTTTGTAAAATTACCAAAA
*
33152893 CACCC
1 TACCC
33152898 CTGTAGGGTA
Statistics
Matches: 337, Mismatches: 85, Indels: 35
0.74 0.19 0.08
Matches are distributed among these distances:
25 18 0.05
26 52 0.15
27 195 0.58
28 16 0.05
29 36 0.11
30 20 0.06
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTAGTTTGTAAAATTACCAAAA
Found at i:33152952 original size:27 final size:27
Alignment explanation
Indices: 33152894--33152968 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
33152884 TTACCAAAAC
*
33152894 ACCCCTGTAGGGTAAAGTGA-TAGTAA
1 ACCCCTGTAGGGTAAAGTGACCAGTAA
33152920 AGCCCCTGTAGGGTAAAGTGACCA-TAA
1 A-CCCCTGTAGGGTAAAGTGACCAGTAA
* *
33152947 TACCCCTGTATGGTAAAATGAC
1 -ACCCCTGTAGGGTAAAGTGAC
33152969 GAATATGCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 40 0.93
28 2 0.05
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAGTGACCAGTAA
Found at i:33153791 original size:26 final size:26
Alignment explanation
Indices: 33153762--33153936 Score: 264
Period size: 26 Copynumber: 6.8 Consensus size: 26
33153752 GAGGAAGTGC
33153762 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
33153788 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
33153814 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
33153840 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
***
33153866 AAAAGGGCTTATGCCCCAGTTTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
33153892 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
33153917 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
33153937 ATTAAAGAGG
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 30 0.22
26 105 0.78
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:33153896 original size:78 final size:77
Alignment explanation
Indices: 33153762--33153936 Score: 298
Period size: 78 Copynumber: 2.3 Consensus size: 77
33153752 GAGGAAGTGC
33153762 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TG
33153827 CCCCAGTTTACCA
65 CCCCAGTTTACCA
* *
33153840 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATTTAAAAGGGCTTTGC
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGC
* *
33153905 CCTAGTTTACCG
66 CCCAGTTTACCA
33153917 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
33153937 ATTAAAGAGG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 10 0.11
77 23 0.25
78 60 0.65
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (77 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGC
CCCAGTTTACCA
Found at i:33154146 original size:42 final size:42
Alignment explanation
Indices: 33154081--33154168 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
33154071 TAGTCTCCCC
* * * *
33154081 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
33154123 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
33154165 AAAT
1 AAAT
33154169 GGGCCTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:33154234 original size:31 final size:31
Alignment explanation
Indices: 33154196--33154274 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
33154186 TGTTTACAGT
*
33154196 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
33154227 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
33154258 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
33154275 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:33156365 original size:28 final size:28
Alignment explanation
Indices: 33156302--33156399 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
33156292 ATATTAAGTC
*
33156302 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33156329 CGCACACTTAGTGCTATATTATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
33156357 CGCACACTTTGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33156386 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33156400 CAATCTCATG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 21 0.35
28 21 0.35
29 18 0.30
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33173845 original size:19 final size:19
Alignment explanation
Indices: 33173821--33173859 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33173811 AAATGATGAT
*
33173821 GAAAAA-AAGAAAAGAGAAA
1 GAAAAAGAA-AAAAAAGAAA
33173840 GAAAAAGAAAAAAAAGAAA
1 GAAAAAGAAAAAAAAGAAA
33173859 G
1 G
33173860 GCTCTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
GAAAAAGAAAAAAAAGAAA
Found at i:33208070 original size:47 final size:47
Alignment explanation
Indices: 33207998--33208133 Score: 218
Period size: 47 Copynumber: 2.9 Consensus size: 47
33207988 TTAGGATTTT
* *
33207998 AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33208045 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
33208092 AATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
33208134 CGAAATGTGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:33208243 original size:46 final size:46
Alignment explanation
Indices: 33208107--33208243 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
33208097 GAACATGTAT
* *
33208107 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
33208153 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
33208199 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
33208244 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:33217160 original size:40 final size:40
Alignment explanation
Indices: 33217101--33217328 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
33217091 GAGCACTGGA
*
33217101 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33217141 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33217181 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33217221 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33217261 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33217301 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
33217329 ATGTGTTTGC
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:33225837 original size:40 final size:40
Alignment explanation
Indices: 33225778--33226004 Score: 375
Period size: 40 Copynumber: 5.7 Consensus size: 40
33225768 GAGCACTGGA
*
33225778 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33225818 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33225858 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33225898 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33225937 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33225977 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
33226005 ATGTGTTTGC
Statistics
Matches: 180, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 37 0.21
40 143 0.79
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:33225996 original size:119 final size:120
Alignment explanation
Indices: 33225778--33226004 Score: 375
Period size: 119 Copynumber: 1.9 Consensus size: 120
33225768 GAGCACTGGA
* *
33225778 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
* *
33225843 CAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
66 CAATTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33225898 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCAAGTTGATATATCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
* *
33225962 CAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
66 CAATTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
33226005 ATGTGTTTGC
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 82 0.83
120 17 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGATATATCCGGGCTAAGACCCGAAGG
CAATTATGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:33226030 original size:79 final size:80
Alignment explanation
Indices: 33225778--33226004 Score: 375
Period size: 79 Copynumber: 2.9 Consensus size: 80
33225768 GAGCACTGGA
* *
33225778 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGATATATCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
*
33225843 CAATTATGCGAGTTG
66 CAATTATGCAAGTTG
*
33225858 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA-CCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
33225922 CAATTATGCAAGTTG
66 CAATTATGCAAGTTG
* * * *
33225937 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
33226002 CAA
66 CAA
33226005 ATGTGTTTGC
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
79 73 0.53
80 64 0.47
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CAATTATGCAAGTTG
Found at i:33232196 original size:188 final size:187
Alignment explanation
Indices: 33231875--33232256 Score: 591
Period size: 188 Copynumber: 2.0 Consensus size: 187
33231865 TCTAGCTTAT
*
33231875 TTTGAGTTCTGAAATTGGATTGGAGTCCTAATTTTGTTCTCCCAGTTTTTCTGCTTCACTTGCTT
1 TTTGAG-TCTGAAATGGGATTGGAGTCCTAATTTTGTTCTCCCAGTTTTTCTGCTTCACTTGCTT
33231940 TGTCTCTAATTGCTCCGCCATATCTCGTTAGTGCTTGCAATGATTTCACTCAAGCTCAAACTAGT
65 TGTCTCTAATTGCTCCGCCATATCTCGTTAGTGCTTGCAATGATTTCACTCAAGCTCAAACTAGT
*
33232005 TACAT-TG-CTCTATTTTTTATCTGAGCAGATGATTGGTTCCCATGCATTCATGCACCTC
130 TACATGTGCCTCTATTCTTT-TCTGAGCAGATGATTGGTTCCC-TGCATTCATGCACCTC
*
33232063 TTTGAGTCTGAATATGGGATTGGCGTCC-AATTTTG-TCT-CCAG-TTTTCTGCTTCACTTGCTT
1 TTTGAGTCTGAA-ATGGGATTGGAGTCCTAATTTTGTTCTCCCAGTTTTTCTGCTTCACTTGCTT
*
33232124 TGTTCTCTAATTGCTCCGCCATATCTCTGTTAGTTGCTTGCAATGATTTCAACTCAAGCTTC-AG
65 TG-TCTCTAATTGCTCCGCCATATCTC-GTTAG-TGCTTGCAATGATTTC-ACTCAAGC-TCAAA
33232188 CTAGTTACATGTGCCTCTATTCTTTTCTGAGCAGATGATTGGTTCCCTGCATTCATGCACCTC
125 CTAGTTACATGTGCCTCTATTCTTTTCTGAGCAGATGATTGGTTCCCTGCATTCATGCACCTC
33232251 -TTGAGT
1 TTTGAGT
33232257 GTCAAAAGTT
Statistics
Matches: 182, Mismatches: 4, Indels: 17
0.90 0.02 0.08
Matches are distributed among these distances:
184 21 0.12
185 28 0.15
186 8 0.04
187 35 0.19
188 54 0.30
189 26 0.14
190 10 0.05
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (187 bp):
TTTGAGTCTGAAATGGGATTGGAGTCCTAATTTTGTTCTCCCAGTTTTTCTGCTTCACTTGCTTT
GTCTCTAATTGCTCCGCCATATCTCGTTAGTGCTTGCAATGATTTCACTCAAGCTCAAACTAGTT
ACATGTGCCTCTATTCTTTTCTGAGCAGATGATTGGTTCCCTGCATTCATGCACCTC
Found at i:33234164 original size:38 final size:39
Alignment explanation
Indices: 33234092--33234165 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
33234082 CAGTTGCATG
* *
33234092 TACTTTACCGGGAAACTTATGTGCATGGATTCTTGTACA
1 TACTTTACCCGGAAACTTATGTGCATGAATTCTTGTACA
*
33234131 TACTTTACCCGGACACTTAT-TGCATGAATTCTTGT
1 TACTTTACCCGGAAACTTATGTGCATGAATTCTTGT
33234166 GTGAGCTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 14 0.44
39 18 0.56
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (39 bp):
TACTTTACCCGGAAACTTATGTGCATGAATTCTTGTACA
Found at i:33249162 original size:40 final size:40
Alignment explanation
Indices: 33249118--33249260 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
33249108 TACTCACTCG
* *
33249118 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
33249158 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
33249198 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
33249238 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
33249261 TTATCATCGA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:33250548 original size:11 final size:10
Alignment explanation
Indices: 33250518--33250556 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
33250508 ACCTGAGAGC
33250518 CTTTCTTTTT
1 CTTTCTTTTT
*
33250528 TTTTCTTTTT
1 CTTTCTTTTT
33250538 CTTTCTCTTTT
1 CTTTCT-TTTT
33250549 CTTT-TTTT
1 CTTTCTTTT
33250557 CATCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:33266359 original size:30 final size:31
Alignment explanation
Indices: 33266309--33266370 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
33266299 CCATGGAGAA
33266309 AATATGGAATGCGCATGGGTAATAATTCCAT
1 AATATGGAATGCGCATGGGTAATAATTCCAT
33266340 AATATGGAATGCG-ATGGGTAATAATTCCAT
1 AATATGGAATGCGCATGGGTAATAATTCCAT
33266370 A
1 A
33266371 TTGATCCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (31 bp):
AATATGGAATGCGCATGGGTAATAATTCCAT
Found at i:33267791 original size:20 final size:21
Alignment explanation
Indices: 33267753--33267791 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
33267743 TTATATTTTG
33267753 AAAATGTTTAATATTTTATTT
1 AAAATGTTTAATATTTTATTT
33267774 AAAAT-TTTAA-ATTATTAT
1 AAAATGTTTAATATT-TTAT
33267792 ATAATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 9 0.53
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
AAAATGTTTAATATTTTATTT
Found at i:33275220 original size:46 final size:46
Alignment explanation
Indices: 33275083--33275265 Score: 174
Period size: 46 Copynumber: 3.9 Consensus size: 46
33275073 TCTCTTACGT
* * **
33275083 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-GATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GACAA
* * * *
33275129 GAGCCAGTGTAAGACCATGTCTAGGATATGGCATC-GACATTGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGACAA
* *
33275177 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACATA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACA-A
* * * *
33275224 -AGCCAATGTAGGACATGTCTGGGACATGCATCGGCTACGAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGA
33275266 TGTGTCAGTC
Statistics
Matches: 112, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
46 60 0.54
47 31 0.28
48 19 0.17
49 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACAA
Found at i:33282251 original size:46 final size:44
Alignment explanation
Indices: 33282184--33282303 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 44
33282174 TGTGTGAGCT
*
33282184 AGTGTAAGACATGTCTGGGACATGCATCAGCTTCAAGACGTAATCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGT-AT-C
* * * * *
33282230 AGTGTAAGACATGTATGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGTATC
33282274 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
33282304 GGCACCTGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 10 0.15
45 14 0.22
46 41 0.63
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGTATC
Found at i:33283387 original size:20 final size:21
Alignment explanation
Indices: 33283348--33283387 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33283338 GAATTAATGG
*
33283348 CTACACGGGTGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
33283369 CTACACGGGCGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
33283388 GTTCCAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.30, T:0.28
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:33286970 original size:19 final size:19
Alignment explanation
Indices: 33286941--33286986 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
33286931 CAATGCACAT
* *
33286941 GCCCCTGTGCTTGGGATAC
1 GCCCGTGTGCTTGGGACAC
*
33286960 GTCCGTGTGCTTGGGACAC
1 GCCCGTGTGCTTGGGACAC
33286979 GCCCGTGT
1 GCCCGTGT
33286987 CCCTTACCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.35, T:0.26
Consensus pattern (19 bp):
GCCCGTGTGCTTGGGACAC
Found at i:33287080 original size:13 final size:13
Alignment explanation
Indices: 33287062--33287086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33287052 CCAAGTACAC
33287062 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
33287075 GCCCGTGTCCCT
1 GCCCGTGTCCCT
33287087 CACATGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:33304276 original size:47 final size:47
Alignment explanation
Indices: 33304197--33304599 Score: 652
Period size: 47 Copynumber: 8.6 Consensus size: 47
33304187 TATTTGAATA
33304197 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
33304246 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGTCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33304293 AATGTGAAAGTGTATATAT-TGATAA-G-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
33304337 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33304384 AATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
33304432 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33304479 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
33304526 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33304573 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33304600 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
44 36 0.11
45 7 0.02
46 23 0.07
47 211 0.63
48 29 0.09
49 28 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:33306063 original size:43 final size:43
Alignment explanation
Indices: 33306015--33306160 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
33306005 TTGGTTTTCA
33306015 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33306058 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33306101 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33306144 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
33306161 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:33306177 original size:29 final size:29
Alignment explanation
Indices: 33306142--33306215 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33306132 GTTGTGAGAT
* *
33306142 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33306171 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33306200 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33306216 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33306651 original size:40 final size:40
Alignment explanation
Indices: 33306528--33306763 Score: 192
Period size: 40 Copynumber: 5.9 Consensus size: 40
33306518 TTGAATGATG
** *
33306528 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * * *
33306568 TCCGGACTAAGAT-CCGAAG-GCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
33306608 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
** *
33306648 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
33306688 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
33306728 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
33306764 CGTGTATTCG
Statistics
Matches: 158, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 140 0.89
41 17 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:33311114 original size:47 final size:47
Alignment explanation
Indices: 33311035--33311441 Score: 706
Period size: 47 Copynumber: 8.6 Consensus size: 47
33311025 TATTTAAATA
33311035 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311084 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311131 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311178 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311225 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311274 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33311321 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
33311368 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33311415 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33311442 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
47 287 0.83
49 59 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:33311358 original size:190 final size:190
Alignment explanation
Indices: 33311035--33311441 Score: 737
Period size: 190 Copynumber: 2.2 Consensus size: 190
33311025 TATTTAAATA
33311035 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
33311100 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * * *
33311165 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
33311225 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
33311290 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* *
33311355 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
33311415 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
33311442 TCCCGAAGGG
Statistics
Matches: 210, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
188 10 0.05
189 1 0.00
190 199 0.95
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:33319296 original size:13 final size:13
Alignment explanation
Indices: 33319278--33319303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33319268 AAGTAATCAA
33319278 ACACGGGCGTGTC
1 ACACGGGCGTGTC
33319291 ACACGGGCGTGTC
1 ACACGGGCGTGTC
33319304 CCTGCCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:33340351 original size:39 final size:39
Alignment explanation
Indices: 33340307--33340543 Score: 393
Period size: 39 Copynumber: 6.1 Consensus size: 39
33340297 ATGCAAGACA
*
33340307 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33340346 CTGGAAATGTATCCAGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33340385 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
33340424 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33340463 CTGGAAATGTATCCGGCCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33340502 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
33340541 CTG
1 CTG
33340544 ATAATTTAAT
Statistics
Matches: 183, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 183 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:33351329 original size:40 final size:40
Alignment explanation
Indices: 33351270--33351447 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
33351260 CGGATGATAA
*
33351270 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33351310 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33351350 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33351390 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TATAT
*
33351430 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33351448 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 18 0.14
40 111 0.86
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33359347 original size:40 final size:40
Alignment explanation
Indices: 33359289--33359466 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
33359279 CGGATGATAA
*
33359289 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
33359329 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTTCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
33359369 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
33359409 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
*
33359449 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33359467 TACTTTGTTT
Statistics
Matches: 126, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 15 0.12
40 111 0.88
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:33360946 original size:14 final size:14
Alignment explanation
Indices: 33360929--33360959 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33360919 ATGTTTTATA
33360929 TTATAATATAACAT
1 TTATAATATAACAT
*
33360943 TTATAATATAATAT
1 TTATAATATAACAT
33360957 TTA
1 TTA
33360960 ATTTACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAATATAACAT
Found at i:33364756 original size:22 final size:22
Alignment explanation
Indices: 33364731--33364775 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
33364721 GGGTACGCAT
*
33364731 AGTATCCTGCACTTAGTACTAC
1 AGTAGCCTGCACTTAGTACTAC
*
33364753 AGTAGCCTGCACTTAGTATTAC
1 AGTAGCCTGCACTTAGTACTAC
33364775 A
1 A
33364776 CATGCGACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (22 bp):
AGTAGCCTGCACTTAGTACTAC
Found at i:33364815 original size:71 final size:73
Alignment explanation
Indices: 33364680--33364824 Score: 204
Period size: 71 Copynumber: 2.0 Consensus size: 73
33364670 TGATACACGT
* * * * *
33364680 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTATCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCGGTACACATAGTAGCCTGCACTT
33364745 AGTACTAC
66 AGTACTAC
* * *
33364753 AGTAGCCTGCACTTAGTATTACACATGCGA-CCAA-TTATCCGGTACACGTAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCGGTACACATAGTAGCCTGCACTT
33364816 AGTACTAC
66 AGTACTAC
33364824 A
1 A
33364825 CATGTGACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 34 0.53
72 3 0.05
73 27 0.42
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (73 bp):
AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCGGTACACATAGTAGCCTGCACTT
AGTACTAC
Found at i:33365100 original size:27 final size:27
Alignment explanation
Indices: 33365060--33365113 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33365050 AGGTACAACC
* *
33365060 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
33365087 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
33365114 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:33366104 original size:25 final size:25
Alignment explanation
Indices: 33366070--33366164 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
33366060 CTCTTTTAAT
*
33366070 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33366095 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33366120 AACTAGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33366145 AACTGAGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33366165 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33366414 original size:54 final size:54
Alignment explanation
Indices: 33366368--33366595 Score: 264
Period size: 54 Copynumber: 4.2 Consensus size: 54
33366358 GGGTAAAATG
* * * * * *
33366368 GTAATTTTACCCCACAAAATTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTAATTTA
*
33366422 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGT-ATTTCA
1 GTAATTCTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTAATTT-A
* *
33366476 GTAATTCTATCCTACAGGAGTATTTCGGTAATTCTACCCTACAGGGGT-ATTTCA
1 GTAATTCTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTAATTT-A
* * * * * *
33366530 ATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGT-ATTTC
1 GTAATTCTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTAATTTA
*
33366583 GATAATTTTACCC
1 G-TAATTCTACCC
33366596 CACAGGGGTA
Statistics
Matches: 154, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.02
54 151 0.98
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTAATTTA
Found at i:33366612 original size:27 final size:27
Alignment explanation
Indices: 33366396--33366613 Score: 305
Period size: 27 Copynumber: 8.1 Consensus size: 27
33366386 ATTATCTCGG
*
33366396 TAATTCTACCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
33366422 GTAATTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
33366450 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
33366476 GTAATTCTATCCTACAGGAGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
33366504 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
33366531 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
33366558 TAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
33366585 TAATTTTACCCCACAGGGGTATTACGA
1 TAATTCTACCCTACAGGGGTATTTCGA
33366612 TA
1 TA
33366614 TTTTACAAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:33366659 original size:27 final size:27
Alignment explanation
Indices: 33366439--33366754 Score: 144
Period size: 27 Copynumber: 11.7 Consensus size: 27
33366429 TACCCTACAA
* **
33366439 GGGTATTTCGGTAATTCTACCCTA-CAG
1 GGGTATTTCGGTAATTTTA-CAAACCAG
* * **
33366466 GGGTATTTCAGTAATTCTATCCTA-CAG
1 GGGTATTTCGGTAATTTTA-CAAACCAG
* * **
33366493 GAGTATTTCGGTAATTCTACCCTA-CAG
1 GGGTATTTCGGTAATTTTA-CAAACCAG
** * **
33366520 GGGTATTTCAATAATTCTACCCTA-CAG
1 GGGTATTTCGGTAATTTTA-CAAACCAG
* * ** *
33366547 GGGTATTTCGATAATTCTACCCTA-CAA
1 GGGTATTTCGGTAATTTTA-CAAACCAG
* **
33366574 GGGTATTTCGATAATTTTAC-CCCACAG
1 GGGTATTTCGGTAATTTTACAAAC-CAG
* * *
33366601 GGGTATTACGAT-ATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAACCAG
* * * *
33366626 AGAGTATTTCGTTAATTTCACAAATCAG
1 -GGGTATTTCGGTAATTTTACAAACCAG
* * *
33366654 GGGTATTTTGGTAATTTTATAAGCCAG
1 GGGTATTTCGGTAATTTTACAAACCAG
*
33366681 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAACCAG
** *
33366708 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTCGGTAATTTTACAAACCAG
* * *
33366735 AGGTATTTTGATAATTTTAC
1 GGGTATTTCGGTAATTTTAC
33366755 TGATCGAGGG
Statistics
Matches: 247, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 18 0.07
27 227 0.92
28 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACCAG
Found at i:33366696 original size:54 final size:54
Alignment explanation
Indices: 33366629--33366778 Score: 176
Period size: 54 Copynumber: 2.8 Consensus size: 54
33366619 CAAATCGAGA
* * * * * * **
33366629 GTATTTCGTTAATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAGCCAGGG
1 GTATTTTGATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAAG
* *
33366683 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAAG
1 GTATTTTGATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAAG
**
33366737 GTATTTTGATAATTTTACTGATC-GAGGGTATTTTAGTAATTT
1 GTATTTTGATAATTTTACAAATCAG-GGGTATTTTAGTAATTT
33366779 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 81 0.99
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GTATTTTGATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAAG
Found at i:33372719 original size:27 final size:27
Alignment explanation
Indices: 33372679--33372732 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33372669 AGGTACAACC
* *
33372679 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
33372706 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
33372733 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:33376610 original size:46 final size:47
Alignment explanation
Indices: 33376575--33376678 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 47
33376565 ATGTGTGCGA
* *
33376575 GTAAGACCATGTTTTATACGATAGTAGCATCG-ATATGTGATGACAT
1 GTAAGACCACGTTTTATACGACAGTAGCATCGAATATGTGATGACAT
* * *
33376621 GTAAGACCACGTTTTGTACGACAGTGGCATC-AATATGTGATTACAT
1 GTAAGACCACGTTTTATACGACAGTAGCATCGAATATGTGATGACAT
33376667 GTAAGACCACGT
1 GTAAGACCACGT
33376679 CTGGAACGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (47 bp):
GTAAGACCACGTTTTATACGACAGTAGCATCGAATATGTGATGACAT
Found at i:33378827 original size:45 final size:45
Alignment explanation
Indices: 33378762--33378887 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
33378752 TCGTACAGTA
* *
33378762 ATATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTCAAAT-
1 ATATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTCAAATG
*
33378806 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATG
1 A-TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTCAAATG
* *
33378852 ATATT-GGG-CTTCAAGCCTAGCAGGCGA-AATGCCGGT
1 ATATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT
33378888 GAATGAACTC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
42 9 0.12
43 17 0.23
44 4 0.05
45 44 0.59
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
ATATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTCAAATG
Found at i:33378912 original size:41 final size:41
Alignment explanation
Indices: 33378824--33378930 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
33378814 GGCCTTCGAG
* * *
33378824 CCTAGCAGGCTATAATGCCGGTGAAATGATATTGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGATATCGGGCTTAAAA
* *
33378867 CCTAGCAGGCGAAATGCCGGTGAATGA-ACTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGATA-TCGGGCTTAAAA
*
33378908 CCTAGCAGGCTAAATGCCAGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
33378931 TTTGATAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.02
41 34 0.61
42 10 0.18
43 11 0.20
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGATATCGGGCTTAAAA
Found at i:33379438 original size:16 final size:18
Alignment explanation
Indices: 33379407--33379439 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33379397 AACTCGCCAC
33379407 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
33379425 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
33379440 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:33384186 original size:23 final size:22
Alignment explanation
Indices: 33384130--33384187 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
33384120 AAATATAAAC
*
33384130 TATTAATATAATTATATATTTA
1 TATTAATATAATGATATATTTA
33384152 TATTATATATAATGATATAGTATTA
1 TATTA-ATATAATGATATA-T-TTA
33384177 TA-TAATATAAT
1 TATTAATATAAT
33384188 AAGAGGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 5 0.16
23 19 0.59
24 3 0.09
25 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
TATTAATATAATGATATATTTA
Found at i:33386083 original size:51 final size:51
Alignment explanation
Indices: 33386021--33386124 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
33386011 ATTCTCTAGT
* *
33386021 CAATATGGCGTTAAAATTAACTTTTTTTAATGAAAATAGATAAGCAATTTA
1 CAATATAGCGTTAAAATTAACTTTTTTTAATGAAAATAGAGAAGCAATTTA
*
33386072 CAATATAGCGTTAAAATTAACTTTTTTTAATGAAAATAGCGAAGCAATTTA
1 CAATATAGCGTTAAAATTAACTTTTTTTAATGAAAATAGAGAAGCAATTTA
33386123 CA
1 CA
33386125 CTTATTTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (51 bp):
CAATATAGCGTTAAAATTAACTTTTTTTAATGAAAATAGAGAAGCAATTTA
Found at i:33390254 original size:5 final size:5
Alignment explanation
Indices: 33390244--33390305 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
33390234 ATTCTTTAAT
33390244 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
33390294 TATAA TATAA TA
1 TATAA TATAA TA
33390306 ATTTTTTCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:33391608 original size:26 final size:26
Alignment explanation
Indices: 33391550--33391609 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
33391540 ATCCCGATAT
33391550 ATGGCTCTTCGTGAGCTTTTCGATTA
1 ATGGCTCTTCGTGAGCTTTTCGATTA
** *
33391576 AAAGCTCTTTGTGAGC-TTTCTGATTA
1 ATGGCTCTTCGTGAGCTTTTC-GATTA
33391602 ATGGCTCT
1 ATGGCTCT
33391610 CCAGAGTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTTTCGATTA
Found at i:33391785 original size:25 final size:25
Alignment explanation
Indices: 33391739--33391792 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
33391729 CTTATGAGCT
* *
33391739 TCCCGTTATACAGCCTAGATAAGCC
1 TCCCATTATACAGCCTACATAAGCC
*
33391764 TCCCATTATACAG-CTCACATAAGCT
1 TCCCATTATACAGCCT-ACATAAGCC
33391789 TCCC
1 TCCC
33391793 GTTTATGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.26
Consensus pattern (25 bp):
TCCCATTATACAGCCTACATAAGCC
Found at i:33399331 original size:26 final size:26
Alignment explanation
Indices: 33399308--33399377 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
33399298 GTCTCGATAT
33399308 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
** * *
33399334 AAAGCTCTTTGTGAGCATT-CTGATTA
1 ATGGCTCTTCGTGAGC-TTCCCGATTA
33399360 ATGGCTCTTCG-GAGCTTC
1 ATGGCTCTTCGTGAGCTTC
33399378 TTGATACGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.06
25 4 0.11
26 27 0.77
27 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCCCGATTA
Found at i:33401525 original size:82 final size:82
Alignment explanation
Indices: 33401439--33401635 Score: 232
Period size: 82 Copynumber: 2.4 Consensus size: 82
33401429 ACTCAGGGGA
* * * * *
33401439 ACCAAAGTACAAATAGGGGCACATATGCGCAATCCAGGGATACCGAAGTACAAATAGGGGCACGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCAATCCAGGGATACCGAAGTACAAACAAGGGCACGT
*
33401504 ATGTGTATTTTAGAGGT
66 ATGTGCATTTTAGAGGT
** ** * * * *
33401521 ACCAAAGTACAAACAGATGTGCGTATGTACAGTTCAGGGGTACCGAAGTACAAACAAGGGCACGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCAATCCAGGGATACCGAAGTACAAACAAGGGCACGT
*
33401586 ATGTGCATTTTAGGGGT
66 ATGTGCATTTTAGAGGT
* * *
33401603 GCCGAAGTATAAACAGGGGCACGTATGTGCAAT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCAAT
33401636 TCATCATTAT
Statistics
Matches: 91, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (82 bp):
ACCAAAGTACAAACAGGGGCACGTATGTGCAATCCAGGGATACCGAAGTACAAACAAGGGCACGT
ATGTGCATTTTAGAGGT
Found at i:33401529 original size:41 final size:41
Alignment explanation
Indices: 33401420--33401638 Score: 204
Period size: 41 Copynumber: 5.3 Consensus size: 41
33401410 ACATGAGCAT
** * * *
33401420 GTATGTGCAACTCAGGGGAACCAAAGTACAAATAGGGGCAC
1 GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * * * *
33401461 ATATGCGCAATCCAGGGATACCGAAGTACAAATAGGGGCAC
1 GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * * ** **
33401502 GTATGTGTATTTTAGAGGTACCAAAGTACAAACAGATGTGC
1 GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * *
33401543 GTATGTACAGTTCAGGGGTACCGAAGTACAAACAAGGGCAC
1 GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * *
33401584 GTATGTGCATTTTAGGGGTGCCGAAGTATAAACAGGGGCAC
1 GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
*
33401625 GTATGTGCAATTCA
1 GTATGTGCATTTCA
33401639 TCATTATTAT
Statistics
Matches: 138, Mismatches: 40, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
GTATGTGCATTTCAGGGGTACCGAAGTACAAACAGGGGCAC
Found at i:33402834 original size:21 final size:21
Alignment explanation
Indices: 33402801--33402858 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
33402791 ATGTGAGATT
33402801 AAAATTAACTTTTTAAAGAATA
1 AAAATTAA-TTTTTAAAGAATA
* *
33402823 AAAATTATTTTTTAAAGAATT
1 AAAATTAATTTTTAAAGAATA
33402844 AAAATTAATTTTTAA
1 AAAATTAATTTTTAA
33402859 TAAAAATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (21 bp):
AAAATTAATTTTTAAAGAATA
Found at i:33403382 original size:22 final size:22
Alignment explanation
Indices: 33403352--33403395 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33403342 TAGTAAATGT
*
33403352 GGGATTAAAATTAAATTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
**
33403374 GGGAGTAAAATTATTTTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
33403396 AGAAAATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (22 bp):
GGGAGTAAAATTAAATTTTTAA
Found at i:33407561 original size:13 final size:13
Alignment explanation
Indices: 33407543--33407567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33407533 CGACTGAGCA
33407543 CCGTGTTAGAGAC
1 CCGTGTTAGAGAC
33407556 CCGTGTTAGAGA
1 CCGTGTTAGAGA
33407568 TTGTCCACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (13 bp):
CCGTGTTAGAGAC
Found at i:33414185 original size:184 final size:185
Alignment explanation
Indices: 33413868--33414273 Score: 602
Period size: 184 Copynumber: 2.2 Consensus size: 185
33413858 CCAGATATTG
*
33413868 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGCGAAAAAAATGGCAATCGATA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAATCGATA
* *
33413933 GTGGGGGAAAAAACCAATGATTTTAAGATGAAAGTGTGGTGTGGGTTTACAAAAATTACACGAAA
66 GTGGGGGAAAAAACCAATGATTTTAAGATAAAAGTGTGGTGTGGGTTTACAAAAATTACACAAAA
* * * * * * *
33413998 GCATGATTATAGTCATGGTAATGGAAATTTTTGTAGATGAAATGGGCCAACTATA
131 GCATGATTATAATCACGGTAATGGAAATTATTGTAGATAAAATGAGACAACCATA
* * * * *
33414053 TGTTTTGAAGAAGAAAAATAGTGTTCGGCAATAGAGAAAATGAGAGAAAAAAATTGC-AGCTGAT
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAATC-GAT
* *
33414117 AGTGGGGTG-AAAAA-CAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAGAATTACACAA
65 AGTGGGG-GAAAAAACCAATGATTTTAAGATAAAAGTGTGGTGTGGGTTTACAAAAATTACACAA
*
33414180 AAGCATGATTATAATCACGGTAATGGAAATTATTGTAGATAAAATGAGACAACCATG
129 AAGCATGATTATAATCACGGTAATGGAAATTATTGTAGATAAAATGAGACAACCATA
*
33414237 TGTGTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGA
33414274 CTATAAGAAT
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
184 129 0.65
185 67 0.34
186 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (185 bp):
TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAATCGATA
GTGGGGGAAAAAACCAATGATTTTAAGATAAAAGTGTGGTGTGGGTTTACAAAAATTACACAAAA
GCATGATTATAATCACGGTAATGGAAATTATTGTAGATAAAATGAGACAACCATA
Found at i:33414637 original size:18 final size:20
Alignment explanation
Indices: 33414610--33414659 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
33414600 AAATATAAAA
*
33414610 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTAAAAATTAT
33414630 TTTG-ATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
33414649 TTTGAATTTTT
1 TTTGAATTTTT
33414660 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:33414790 original size:7 final size:7
Alignment explanation
Indices: 33414773--33414820 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
33414763 ATTCAACTCG
33414773 ACTCG-A
1 ACTCGAA
33414779 ACTCGAA
1 ACTCGAA
33414786 ACTCGAA
1 ACTCGAA
33414793 ACTCGAA
1 ACTCGAA
33414800 ACTCGAA
1 ACTCGAA
*
33414807 ACTTGAA
1 ACTCGAA
33414814 ACTCGAA
1 ACTCGAA
33414821 TTACTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.17
Consensus pattern (7 bp):
ACTCGAA
Found at i:33417074 original size:22 final size:22
Alignment explanation
Indices: 33417049--33417093 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33417039 GTTGAGAGAA
*
33417049 TTATTTAATTTAAA-AAATTAAT
1 TTATCTAA-TTAAACAAATTAAT
*
33417071 TTATCTAATTAAACTAATTAAT
1 TTATCTAATTAAACAAATTAAT
33417093 T
1 T
33417094 AATAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATCTAATTAAACAAATTAAT
Found at i:33417953 original size:24 final size:26
Alignment explanation
Indices: 33417907--33417955 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
33417897 ATGTTTTAGG
*
33417907 TTATATATGTGAATAAATTTATTTTA
1 TTATATATGTGAATAAATGTATTTTA
*
33417933 TTATATATTTG-ATAAA-GTATTTT
1 TTATATATGTGAATAAATGTATTTT
33417956 TTCCAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 5 0.24
26 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (26 bp):
TTATATATGTGAATAAATGTATTTTA
Found at i:33422897 original size:40 final size:40
Alignment explanation
Indices: 33422853--33423181 Score: 633
Period size: 40 Copynumber: 8.2 Consensus size: 40
33422843 ATAACCACAA
*
33422853 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33422893 GCACAAATGCCTTCGGGTCTTAGCCC-GATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33422932 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33422972 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33423012 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33423052 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
33423092 TCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33423132 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33423172 GCACAAATGC
1 GCACAAATGC
33423182 TCATGCACAT
Statistics
Matches: 285, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
39 39 0.14
40 246 0.86
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33430805 original size:40 final size:40
Alignment explanation
Indices: 33430761--33430890 Score: 251
Period size: 40 Copynumber: 3.2 Consensus size: 40
33430751 ATAACCACAA
*
33430761 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33430801 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33430841 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33430881 GCACAAATGC
1 GCACAAATGC
33430891 TCATGCACAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33446685 original size:25 final size:25
Alignment explanation
Indices: 33446657--33446714 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 25
33446647 GGTGTGAGTT
*
33446657 ATATTGATTTGGCTTCGTGCCATGCA
1 ATATTGATTTGGCTTCGGGCCATG-A
33446683 TATCAGTTGATTTGGCTTCGGGCCATG-
1 -AT-A-TTGATTTGGCTTCGGGCCATGA
33446710 ATATT
1 ATATT
33446715 AGTATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 2 0.07
25 1 0.04
26 2 0.07
27 2 0.07
28 1 0.04
29 20 0.71
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (25 bp):
ATATTGATTTGGCTTCGGGCCATGA
Found at i:33453008 original size:31 final size:31
Alignment explanation
Indices: 33452958--33453016 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
33452948 ATCGTTTCTT
33452958 TATATATATATCATCCATTTCAATATATCAA
1 TATATATATATCATCCATTTCAATATATCAA
* *
33452989 TATATCATGTATCAT-CATTTCCATATAT
1 TATAT-ATATATCATCCATTTCAATATAT
33453017 TTCATGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (31 bp):
TATATATATATCATCCATTTCAATATATCAA
Found at i:33454617 original size:50 final size:50
Alignment explanation
Indices: 33454491--33454773 Score: 275
Period size: 50 Copynumber: 5.6 Consensus size: 50
33454481 ATCTGGTACG
* **
33454491 CATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACA
* *
33454540 CGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATATA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACA
* * * * *** *** *
33454590 CATAGTAGCCTGCACTTCGTACTACACACGTGATCGAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTAATACA
* * * * *
33454641 CATAGTAGCCTACACTTAGTACTACACATGCGACCTAGCTATCTACTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACA
* ** *
33454691 CGTAGTAATCTGCACTTAGTAC-ACACACGTGACCTAAAACCATCTTAA-ACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATC-TAATACA
*
33454742 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
33454774 TTCTCACAAT
Statistics
Matches: 183, Mismatches: 45, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
49 45 0.25
50 67 0.37
51 61 0.33
52 10 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACA
Found at i:33454670 original size:101 final size:100
Alignment explanation
Indices: 33454542--33454722 Score: 263
Period size: 101 Copynumber: 1.8 Consensus size: 100
33454532 CCGATACACG
* * * *
33454542 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATATACATAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACCATCTAATACACATAGTAACCTGCACTT
*
33454607 CGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
66 AGTAC-ACACACGTGATCGAAGTTGTCGGGTACGCA
* * * * *
33454643 TAGTAGCCTACACTTAGTACTACACATGCGACCTAGCTATCTACTACACGTAGTAATCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACCATCTAATACACATAGTAACCTGCACTT
33454708 AGTACACACACGTGA
66 AGTACACACACGTGA
33454723 CCTAAAACCA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
100 10 0.14
101 60 0.86
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCTAACCATCTAATACACATAGTAACCTGCACTT
AGTACACACACGTGATCGAAGTTGTCGGGTACGCA
Found at i:33454717 original size:150 final size:151
Alignment explanation
Indices: 33454485--33454769 Score: 407
Period size: 150 Copynumber: 1.9 Consensus size: 151
33454475 GAAGCTATCT
* * *
33454485 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCCGATACACGTAGTAACC
* * * *
33454550 TGCACTTAGTACTACACATGTGACCT-AACCATC-TAATATACATAGTAGCCTGCACTTCGTACT
66 TGCACTTAGTACTACACACGTGACCTAAACCATCTTAA-ACACATAGTAGCCTGCACATAGTACT
33454613 ACACACGTGATCGAAGTTGTCG
130 ACACACGTGATCGAAGTTGTCG
* * *
33454635 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAGCTAT-CTACTACACGTAGTAA
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCCGA-TACACGTAGTAA
*
33454699 TCTGCACTTAGTAC-ACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTA
64 CCTGCACTTAGTACTACACACGTGACCT-AAACCATCTTAAACACATAGTAGCCTGCACATAGTA
33454763 CTACACA
128 CTACACA
33454770 TGTGTTCTCA
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
150 53 0.45
151 28 0.24
152 35 0.29
153 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCCGATACACGTAGTAACC
TGCACTTAGTACTACACACGTGACCTAAACCATCTTAAACACATAGTAGCCTGCACATAGTACTA
CACACGTGATCGAAGTTGTCG
Found at i:33463748 original size:18 final size:19
Alignment explanation
Indices: 33463715--33463755 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
33463705 AAGAGAATTT
33463715 AAAATGGCAAAGAAGAGAG
1 AAAATGGCAAAGAAGAGAG
*
33463734 AAAATGG-AGAGAAGAGAG
1 AAAATGGCAAAGAAGAGAG
33463752 AAAA
1 AAAA
33463756 GATGTGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.61, C:0.02, G:0.32, T:0.05
Consensus pattern (19 bp):
AAAATGGCAAAGAAGAGAG
Found at i:33469678 original size:39 final size:40
Alignment explanation
Indices: 33469573--33469757 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
33469563 TTGAATGATG
* * *
33469573 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
33469612 ATCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33469653 TCCGGGCTAAG-CCCGAAGGCCTTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33469692 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33469731 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33469758 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33469710 original size:79 final size:81
Alignment explanation
Indices: 33469573--33469757 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
33469563 TTGAATGATG
* * *
33469573 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCATATCCGGACTAAGATTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
33469637 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33469652 TTCCGGGCTAAG-CCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33469714 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
33469732 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCCTTTG
33469758 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:33469779 original size:79 final size:79
Alignment explanation
Indices: 33469627--33469790 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
33469617 GACTAAGATT
* * * **
33469627 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCCTTTGTGCGAGTTACTAAA
1 CGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
33469692 TCCGGGTTAAGTCC
66 TCCGGGTTAAATCC
* *
33469706 CGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
33469769 ATATCC-GGTTAAATTC
63 AAATCCGGGTTAAATCC
33469785 CGAAGG
1 CGAAGG
33469791 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGGTTAAATCC
Found at i:33476256 original size:41 final size:41
Alignment explanation
Indices: 33476199--33476538 Score: 504
Period size: 41 Copynumber: 8.2 Consensus size: 41
33476189 ACATAAAATT
* *
33476199 TGCTAGGC-ATAAAGCCT-AGTACAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
33476240 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
*
33476283 TGCTAGGCAATAAGCCTGATATAATACACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
33476324 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * * *
33476365 TGCTAGGCAATAAGCCTAATTTAATACACAGGCACAAAGGC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
33476406 TGCTAGGCAATAAGCCTAATTTAAAACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
33476447 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
33476488 TGCTAGGCAATAAGCCTGATATAATACACCGGTACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
33476529 TGCTAGGCAA
1 TGCTAGGCAA
33476539 CAAAGCCCGA
Statistics
Matches: 276, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
41 235 0.85
42 3 0.01
43 38 0.14
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:33482052 original size:28 final size:28
Alignment explanation
Indices: 33482009--33482071 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
33481999 GTGTCCCTAA
* *
33482009 CCCGTGTCCCTAACACAGCTTGGACACG
1 CCCGTGTCCCTAACACAGCCTAGACACG
* * *
33482037 CCCGTGTCCCTCACACGGCCTAGACATG
1 CCCGTGTCCCTAACACAGCCTAGACACG
33482065 CCCGTGT
1 CCCGTGT
33482072 GATCCCCCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (28 bp):
CCCGTGTCCCTAACACAGCCTAGACACG
Found at i:33485682 original size:30 final size:30
Alignment explanation
Indices: 33485624--33485682 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33485614 GTCTTTTGAA
* * *
33485624 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
33485654 AATATTTACAAAAAGA-ACAACCACATTTT
1 AATATTTACAAAAAGAGACAACCA-ATTTT
33485683 GAAAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:33487529 original size:43 final size:43
Alignment explanation
Indices: 33487384--33487609 Score: 235
Period size: 43 Copynumber: 5.3 Consensus size: 43
33487374 TTATGTAAAA
* * * * *
33487384 AAACGCCACTAAAGAACATGACTTTTAGCAGCGCTTTCAAG-A-
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTC-TGTAC
* * *
33487426 AAACGCCGCTAAAGAACGTGACGTTTAGCAGCGCTTTCAAG-A-
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTC-TGTAC
* *
33487468 AAACGCCGCTAAAGAACGTGACTTTTAGCGGCACTTTCTGTAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTCTGTAC
* * *
33487511 AAACGCTGCTAAAGAACGTGGCCTTTAGCGACGCTTTCTGTAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTCTGTAC
* * * * * *
33487554 AAACGTCGCTAAAGAACGTGGCCTTTAGCGGCACTTTTTATGC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTCTGTAC
33487597 AAACGCCGCTAAA
1 AAACGCCGCTAAA
33487610 TGTATGTTCT
Statistics
Matches: 162, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 75 0.46
43 86 0.53
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTCTGTAC
Found at i:33487756 original size:47 final size:47
Alignment explanation
Indices: 33487702--33487795 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
33487692 AATTCTTCTT
*
33487702 GCAACATCAAATCCAACCAATAATAGCAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
33487749 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
33487796 AAATTCAACG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.49, C:0.24, G:0.06, T:0.20
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
Found at i:33488022 original size:21 final size:21
Alignment explanation
Indices: 33487998--33488037 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33487988 CTTCCCTCGC
*
33487998 TGCTGCCTCCTCTTTAAGTGA
1 TGCTGCCTCCGCTTTAAGTGA
33488019 TGCTGCCTCCGCTTTAAGT
1 TGCTGCCTCCGCTTTAAGT
33488038 TGAGCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (21 bp):
TGCTGCCTCCGCTTTAAGTGA
Found at i:33490664 original size:25 final size:25
Alignment explanation
Indices: 33490626--33490673 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33490616 TTATAATATG
** *
33490626 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
*
33490651 AAAATGACCATTTTACCCTTAGG
1 AAAATGACCATTTTACCCCTAGG
33490674 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:33490860 original size:24 final size:25
Alignment explanation
Indices: 33490784--33490853 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33490774 GAGGAAGTGC
* * * *
33490784 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
33490809 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
33490834 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
33490854 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:33490866 original size:24 final size:24
Alignment explanation
Indices: 33490783--33490880 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 24
33490773 GGAGGAAGTG
* * *
33490783 CAAAAG-GGCTATGCCCTAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
33490807 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
33490832 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
33490856 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
33490881 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 20 0.32
25 43 0.68
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:33491135 original size:31 final size:31
Alignment explanation
Indices: 33491074--33491182 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
33491064 CGTTTACAGG
*
33491074 AAAGGCTTCGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
* *
33491104 AAAGGCTTCGGCCTAGAGACATGAATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
*
33491135 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
33491166 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
33491183 ATATGTTGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 20 0.28
31 52 0.72
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGACATGAATAATGA
Found at i:33495468 original size:25 final size:25
Alignment explanation
Indices: 33495439--33495486 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33495429 TTACAATATG
** *
33495439 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
33495464 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
33495487 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:33495942 original size:31 final size:31
Alignment explanation
Indices: 33495881--33495985 Score: 158
Period size: 31 Copynumber: 3.4 Consensus size: 31
33495871 TGTTTACAGT
* *
33495881 AAAGGCTTCGGCCCAATGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
*
33495911 AAAGGCTTCGGCCTAGTGACATGAATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
* *
33495942 AAAGGCTTTGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
33495973 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
33495986 TAGTATATGT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 20 0.30
31 47 0.70
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGACATGAATAATGA
Found at i:33498622 original size:13 final size:13
Alignment explanation
Indices: 33498604--33498630 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33498594 GAAGTAATCC
33498604 CACACGGGCGTGT
1 CACACGGGCGTGT
33498617 CACACGGGCGTGT
1 CACACGGGCGTGT
33498630 C
1 C
33498631 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33507769 original size:12 final size:12
Alignment explanation
Indices: 33507754--33507779 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33507744 ATCATCCTCT
33507754 TCATCAGATTCA
1 TCATCAGATTCA
33507766 TCATCAGATTCA
1 TCATCAGATTCA
33507778 TC
1 TC
33507780 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:33509613 original size:9 final size:9
Alignment explanation
Indices: 33509595--33509750 Score: 83
Period size: 9 Copynumber: 17.6 Consensus size: 9
33509585 TATTTATGTA
33509595 TTATGTAAG
1 TTATGTAAG
*
33509604 TTAAGTAAG
1 TTATGTAAG
*
33509613 TTTTGTAAG
1 TTATGTAAG
33509622 TTATGTAAG
1 TTATGTAAG
*
33509631 ATATG--A-
1 TTATGTAAG
33509637 -TATGATAA-
1 TTATG-TAAG
* *
33509645 ATATTTAAG
1 TTATGTAAG
33509654 TATTATGTAAG
1 --TTATGTAAG
33509665 TTATGTAAG
1 TTATGTAAG
*
33509674 TTATGATATG
1 TTATG-TAAG
* ** *
33509684 ATACAT-AT
1 TTATGTAAG
33509692 TTATGTAAG
1 TTATGTAAG
*
33509701 TCATGTAAG
1 TTATGTAAG
*
33509710 TTATGATATG
1 TTATG-TAAG
* * *
33509720 ATATAT-AT
1 TTATGTAAG
33509728 TTATGTAAG
1 TTATGTAAG
33509737 TTATGTAAG
1 TTATGTAAG
33509746 TTATG
1 TTATG
33509751 ATATGATATA
Statistics
Matches: 108, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
5 4 0.04
7 1 0.01
8 11 0.10
9 74 0.69
10 11 0.10
11 7 0.06
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:33509667 original size:43 final size:41
Alignment explanation
Indices: 33509609--33509765 Score: 165
Period size: 36 Copynumber: 4.0 Consensus size: 41
33509599 GTAAGTTAAG
33509609 TAAGTTT-TGTAAGTTATGTAAGATATGATATGATAAATATT
1 TAAGTTTATGTAAGTTATGTAAGATATGATATGAT-AATATT
* *
33509650 TAAGTATTATGTAAGTTATGTAAGTTATGATATGAT-ACA--
1 TAAGT-TTATGTAAGTTATGTAAGATATGATATGATAATATT
* *
33509689 T-A-TTTATGTAAGTCATGTAAGTTATGATATGAT-ATA--
1 TAAGTTTATGTAAGTTATGTAAGATATGATATGATAATATT
*
33509725 T-A-TTTATGTAAGTTATGTAAGTTATGATATGATATATATT
1 TAAGTTTATGTAAGTTATGTAAGATATGATATGATA-ATATT
33509765 T
1 T
33509766 TTATTATTTT
Statistics
Matches: 105, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
36 63 0.60
37 1 0.01
38 4 0.04
39 1 0.01
40 1 0.01
41 7 0.07
42 2 0.02
43 26 0.25
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (41 bp):
TAAGTTTATGTAAGTTATGTAAGATATGATATGATAATATT
Found at i:33509698 original size:36 final size:36
Alignment explanation
Indices: 33509656--33509765 Score: 202
Period size: 36 Copynumber: 3.1 Consensus size: 36
33509646 TATTTAAGTA
*
33509656 TTATGTAAGTTATGTAAGTTATGATATGATACATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
33509692 TTATGTAAGTCATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
33509728 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
33509764 TT
1 TT
33509766 TTATTATTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.46
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:33512761 original size:13 final size:13
Alignment explanation
Indices: 33512743--33512767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33512733 GGAGTAATCG
33512743 CACACGGGCGTGT
1 CACACGGGCGTGT
33512756 CACACGGGCGTG
1 CACACGGGCGTG
33512768 CCCCTGCCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33517584 original size:23 final size:23
Alignment explanation
Indices: 33517552--33517722 Score: 118
Period size: 23 Copynumber: 7.4 Consensus size: 23
33517542 AGTTGATGGA
33517552 CAGTAAGCTCTATTGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
* * * *
33517575 CGGTAAGCTCCAATGAGCTAAAAT
1 CAGTAAGCTCTATTGAGCT-GAAT
* * *
33517599 -AGTAAACTCCATCGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
* *
33517621 CGGTAAGCTCCGA-TGAGCTGAAAT
1 CAGTAAGCT-CTATTGAGCTG-AAT
**
33517645 -AGTAAGCTCTATCAAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
** * *
33517667 TGGTAAGCTGCAATT-AGCTGAAA
1 CAGTAAGCT-CTATTGAGCTGAAT
*
33517690 CAGTAAGCTCT-TACGAGCTGAAT
1 CAGTAAGCTCTAT-TGAGCTGAAT
33517713 CAGTAAGCTC
1 CAGTAAGCTC
33517723 ATACAAGCTG
Statistics
Matches: 113, Mismatches: 26, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
21 1 0.01
22 9 0.08
23 92 0.81
24 11 0.10
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAT
Found at i:33517732 original size:46 final size:46
Alignment explanation
Indices: 33517551--33517722 Score: 220
Period size: 46 Copynumber: 3.7 Consensus size: 46
33517541 AAGTTGATGG
* *
33517551 ACAGTAAGCTCTATTGAGCTGAATCGGTAAGCTCCAATGAGCTAAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* * * *
33517597 ATAGTAAACTCCATCGAGCTGAATCGGTAAGCTCCGATGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* * * * *
33517643 ATAGTAAGCTCTATCAAGCTGAATTGGTAAGCTGCAATTAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
*
33517689 ACAGTAAGCTCT-TACGAGCTGAATCAGTAAGCTC
1 ACAGTAAGCTCTAT-CGAGCTGAATCGGTAAGCTC
33517723 ATACAAGCTG
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 1 0.01
46 106 0.99
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (46 bp):
ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
Found at i:33530712 original size:18 final size:18
Alignment explanation
Indices: 33530685--33530720 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33530675 TTAACAATTT
*
33530685 CATTAGTTTAGAGAGCAA
1 CATTAATTTAGAGAGCAA
*
33530703 CATTAATTTAGATAGCAA
1 CATTAATTTAGAGAGCAA
33530721 AACCAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
CATTAATTTAGAGAGCAA
Found at i:33544904 original size:96 final size:94
Alignment explanation
Indices: 33544774--33545381 Score: 1002
Period size: 96 Copynumber: 6.4 Consensus size: 94
33544764 TTAGGATTCT
* *
33544774 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
33544838 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
33544868 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
33544933 AGTGTATATATGTGATAAGGCCTAATGGCCG
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
*
33544964 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33545029 AGTGTATATATATGTGATAAGGCCCAATGGCCG
64 AGTG--TATATATGTGATAAGGCCTAATGGCCG
33545062 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
33545127 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
*
33545158 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
33545223 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
33545252 ATTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 A-TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * *
33545317 GTGTATATATGTGACAGGGCCGAGTGGCCA
65 GTGTATATATGTGATAAGGCCTAATGGCCG
* * *
33545347 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33545382 TCCCGAAGGG
Statistics
Matches: 492, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 76 0.15
95 88 0.18
96 281 0.57
98 46 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:33544913 original size:49 final size:47
Alignment explanation
Indices: 33544774--33545381 Score: 1002
Period size: 47 Copynumber: 12.7 Consensus size: 47
33544764 TTAGGATTCT
* *
33544774 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
33544821 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33544868 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
33544917 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
33544964 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
33545013 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
33545062 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33545109 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
33545158 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33545205 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33545252 ATTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 A-TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
33545300 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
33545347 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33545382 TCCCGAAGGG
Statistics
Matches: 537, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 301 0.56
48 47 0.09
49 188 0.35
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:33545556 original size:37 final size:37
Alignment explanation
Indices: 33545500--33545578 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33545490 CCGAGCTCTA
* * *
33545500 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33545537 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33545574 AAGAC
1 AAGAC
33545579 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.