Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 87 of 106
Found at i:33121038 original size:54 final size:54
Alignment explanation
Indices: 33120863--33121036 Score: 224
Period size: 54 Copynumber: 3.2 Consensus size: 54
33120853 TAGTTCGTGG
* * * *
33120863 TCAAGACCAAGTCGCCAAGACACTTGAAGCGAAGATCTTAAATCGAGGTCATGA
1 TCAAGACCAAGTCACCAAGACACTTGAAGCGAAGATCTCAAGTCTAGGTCATGA
* *
33120917 TCAAGACCAAGGCACCAAGACGCTTGAAGCGAAGATCTCAAGTCTAGGTCATGA
1 TCAAGACCAAGTCACCAAGACACTTGAAGCGAAGATCTCAAGTCTAGGTCATGA
* * * * *
33120971 TCAAAACTAAGTTC-CCAAGACCCTTGAAGTGAAGATCTCAAGTCTAGTTCATGA
1 TCAAGACCAAG-TCACCAAGACACTTGAAGCGAAGATCTCAAGTCTAGGTCATGA
*
33121025 TCAAGATCAAGT
1 TCAAGACCAAGT
33121037 TCGAGTTTGT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 102 0.98
55 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (54 bp):
TCAAGACCAAGTCACCAAGACACTTGAAGCGAAGATCTCAAGTCTAGGTCATGA
Found at i:33124460 original size:19 final size:19
Alignment explanation
Indices: 33124436--33124473 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33124426 ACTTCTTAAC
33124436 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
33124455 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
33124474 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:33124944 original size:20 final size:20
Alignment explanation
Indices: 33124919--33124959 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33124909 TTATATATAG
*
33124919 TATATAATAGTATATTGTTA
1 TATATAATAGTAAATTGTTA
33124939 TATATAATAGTAAATTGTTA
1 TATATAATAGTAAATTGTTA
33124959 T
1 T
33124960 TGACTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TATATAATAGTAAATTGTTA
Found at i:33131594 original size:50 final size:48
Alignment explanation
Indices: 33131512--33131630 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 48
33131502 AATCCACTAT
* * ** * **
33131512 CAAGGATTTTTACTTTTTAATAGGAAGTGATAA-CCTTCACACAATTCA
1 CAAGGATTCTTACTTTTTAATAAGAAACGATAACCCAT-ACACAAGCCA
33131560 CAAAGGAATTCTTACTTTTTAATAAGAAACGATAACCCATACACAAGCCA
1 C-AAGG-ATTCTTACTTTTTAATAAGAAACGATAACCCATACACAAGCCA
*
33131610 CAAGGGATTCTTGCTTTTTAA
1 CAA-GGATTCTTACTTTTTAA
33131631 CGAGATCAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.02
49 20 0.34
50 35 0.59
51 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (48 bp):
CAAGGATTCTTACTTTTTAATAAGAAACGATAACCCATACACAAGCCA
Found at i:33132358 original size:72 final size:72
Alignment explanation
Indices: 33132238--33132405 Score: 221
Period size: 72 Copynumber: 2.3 Consensus size: 72
33132228 ATGCTTCTTT
* * * * *
33132238 TATAGTCGACTATGGTTGTGTAATCTTAACTTTTTCTAGCCTTTGACTTATTAAGGTCGACTATG
1 TATAGTCAACTATGGCTATGTAATCTTAACTTTTTCTAGCCTTTGACTTATCAAGGTCAACTATG
33132303 CCTCATC
66 CCTCATC
* * *
33132310 TATAGTCAACTATGGCTATGTAATCTTGAC-TTTTCTTGCTTTTAGACTTATCAAGGTCAACTAT
1 TATAGTCAACTATGGCTATGTAATCTTAACTTTTTCTAGCCTTT-GACTTATCAAGGTCAACTAT
* *
33132374 GCTTCCTC
65 GCCTCATC
*
33132382 TATAGTCAATTATGGCTATGTAAT
1 TATAGTCAACTATGGCTATGTAAT
33132406 TTTCAAGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 11 0.13
72 73 0.87
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (72 bp):
TATAGTCAACTATGGCTATGTAATCTTAACTTTTTCTAGCCTTTGACTTATCAAGGTCAACTATG
CCTCATC
Found at i:33134973 original size:15 final size:16
Alignment explanation
Indices: 33134949--33134981 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33134939 TCAATCCACC
33134949 AAGTATCATTAATTTT
1 AAGTATCATTAATTTT
*
33134965 AAGTA-CATTGATTTT
1 AAGTATCATTAATTTT
33134980 AA
1 AA
33134982 AAATCATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
AAGTATCATTAATTTT
Found at i:33135456 original size:18 final size:18
Alignment explanation
Indices: 33135429--33135467 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
33135419 TCATTCTTTC
33135429 AATTTCATGTAATTGTTA
1 AATTTCATGTAATTGTTA
*
33135447 AATTTTATGTAATTGTTA
1 AATTTCATGTAATTGTTA
33135465 AAT
1 AAT
33135468 ACTAGGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (18 bp):
AATTTCATGTAATTGTTA
Found at i:33139706 original size:17 final size:15
Alignment explanation
Indices: 33139681--33139719 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
33139671 ACATGTTGGC
33139681 AATAAATATAAATTAT
1 AATAAATATAAATT-T
*
33139697 AATCAAATATCAATTT
1 AAT-AAATATAAATTT
33139713 AATAAAT
1 AATAAAT
33139720 GATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 7 0.33
17 10 0.48
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAATATAAATTT
Found at i:33144386 original size:74 final size:74
Alignment explanation
Indices: 33144265--33144481 Score: 217
Period size: 74 Copynumber: 3.0 Consensus size: 74
33144255 GTTCAAAAGC
* *
33144265 AGATTACAAAACAGATAAGACTTACTCAACCAAGAAGAATGGTTAGTCGACTAAGAGCCTACTGC
1 AGATTACAAAACAGAAAAGACTTAATCAACCAAGAAGAATGGTTAGTCGACTAAGAGCCTACTGC
33144330 CAGAAATTT
66 CAGAAATTT
* ** * * *
33144339 AGATTACAAAACA-AAAAGAACTTAATCGATTAAGAAGCATTGTTAGTCGACTAAGAGCTTACTG
1 AGATTACAAAACAGAAAAG-ACTTAATCAACCAAGAAGAATGGTTAGTCGACTAAGAGCCTACTG
*
33144403 CCAGAAATTG
65 CCAGAAATTT
* * * *** * * *
33144413 GGTTTA-GAAACAGAGGCGACTTAATCAACTAAGACGTATGG-TAGTCGACTAAGAGCAC-ACTG
1 AGATTACAAAACAGAAAAGACTTAATCAACCAAGAAGAATGGTTAGTCGACTAAGAGC-CTACTG
*
33144475 TCAGAAA
65 CCAGAAA
33144482 ATTTGAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
72 25 0.21
73 27 0.23
74 66 0.56
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (74 bp):
AGATTACAAAACAGAAAAGACTTAATCAACCAAGAAGAATGGTTAGTCGACTAAGAGCCTACTGC
CAGAAATTT
Found at i:33144915 original size:35 final size:34
Alignment explanation
Indices: 33144875--33144984 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 34
33144865 ATTGATCCCA
* *
33144875 TGAAAAACCATTGTTGTAGGTTGTGGTTAAGCCTT
1 TGAAAAACCATTGTTG-AGGTTGTGGTTGAGCATT
* *
33144910 TGAAAAACCACT-TTG-GGTTTTGGTTGAGCATGT
1 TGAAAAACCATTGTTGAGGTTGTGGTTGAGCAT-T
* *
33144943 T-AAAAACCATTGTGGAAGGTTGTGGTTGAGCTTT
1 TGAAAAACCATTGTTG-AGGTTGTGGTTGAGCATT
33144977 TGAAAAAC
1 TGAAAAAC
33144985 TACTTTGGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
32 22 0.35
33 4 0.06
34 5 0.08
35 31 0.50
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (34 bp):
TGAAAAACCATTGTTGAGGTTGTGGTTGAGCATT
Found at i:33144948 original size:32 final size:32
Alignment explanation
Indices: 33144909--33145003 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 32
33144899 GGTTAAGCCT
33144909 TTGAAAAACCACTTTGGGTTTTGGTTGAGCATG
1 TTGAAAAACCACTTTGGGTTTTGGTTGAGC-TG
* *
33144942 TT-AAAAACCA-TTGTGGAAGGTTGTGGTTGAGCTT
1 TTGAAAAACCACTT-T-G--GGTTTTGGTTGAGCTG
* *
33144976 TTGAAAAACTACTTTGGGTTTTAGTTGA
1 TTGAAAAACCACTTTGGGTTTTGGTTGA
33145004 TCCCGATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
31 2 0.04
32 19 0.37
33 3 0.06
34 4 0.08
35 21 0.41
36 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.38
Consensus pattern (32 bp):
TTGAAAAACCACTTTGGGTTTTGGTTGAGCTG
Found at i:33144948 original size:67 final size:67
Alignment explanation
Indices: 33144877--33145042 Score: 215
Period size: 67 Copynumber: 2.5 Consensus size: 67
33144867 TGATCCCATG
* * * *
33144877 AAAAACCATTGTTGTAGGTTGTGGTTAAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCATG
1 AAAAACCATTGTGGAAGGTTGTGGTTAAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCACG
*
33144942 TT
66 AT
* * * * *
33144944 AAAAACCATTGTGGAAGGTTGTGGTTGAGCTTTTGAAAAACTACTTTGGGTTTTAGTTGATCCCG
1 AAAAACCATTGTGGAAGGTTGTGGTTAAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCACG
33145009 AT
66 AT
* * *
33145011 AAAAACCATTGTGAAAGGTTTTGGCTAAGCCT
1 AAAAACCATTGTGGAAGGTTGTGGTTAAGCCT
33145043 GGTAAAAGCC
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (67 bp):
AAAAACCATTGTGGAAGGTTGTGGTTAAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCACG
AT
Found at i:33147112 original size:43 final size:42
Alignment explanation
Indices: 33146994--33147115 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
33146984 TGACTTGGCT
* ****
33146994 ATGTGCGAGTAGGGAGTGCGCATAGGCCGATGATGAACCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATA-GCCGGTGATGAACCAACC
* * * *
33147037 AAGTGCGAGTAGGGAGTGTGCATAACCCGGTGATGACCCAACC
1 ATGTGCGAGTAGGGAGTGCGCAT-AGCCGGTGATGAACCAACC
*
33147080 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCAT-AGCCGGTGATGA
33147116 TGAGATGGTG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.39, T:0.20
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAGCCGGTGATGAACCAACC
Found at i:33147145 original size:23 final size:23
Alignment explanation
Indices: 33147111--33147165 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
33147101 ATGAGCTGGT
33147111 GATGATGAGATGGTGTGCATGAA
1 GATGATGAGATGGTGTGCATGAA
* *
33147134 GATGATGGGATGGTGTGCATGAT
1 GATGATGAGATGGTGTGCATGAA
33147157 GATGATGAG
1 GATGATGAG
33147166 TATATGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.42, T:0.27
Consensus pattern (23 bp):
GATGATGAGATGGTGTGCATGAA
Found at i:33156938 original size:21 final size:21
Alignment explanation
Indices: 33156912--33156962 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
33156902 CTAGAAAAAC
*
33156912 ACCTAAAATGCTACAATTCGA
1 ACCTAAAATGCTACAATCCGA
33156933 ACCTAAAATGCTACAATCCGA
1 ACCTAAAATGCTACAATCCGA
33156954 ACCTAAAAT
1 ACCTAAAAT
33156963 ATCAAAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (21 bp):
ACCTAAAATGCTACAATCCGA
Found at i:33161299 original size:2 final size:2
Alignment explanation
Indices: 33161294--33161328 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
33161284 CTAAACCATT
33161294 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33161329 GTAATNAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33162858 original size:19 final size:20
Alignment explanation
Indices: 33162816--33162874 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
33162806 TTAACAAAGC
33162816 AAATATAAATATTTATAATT
1 AAATATAAATATTTATAATT
*
33162836 AAATAT-AAT-TTTATTATTT
1 AAATATAAATATTTA-TAATT
* *
33162855 AAATTTAAA-ATCTATAATT
1 AAATATAAATATTTATAATT
33162874 A
1 A
33162875 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 4 0.12
19 17 0.53
20 11 0.34
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATAAATATTTATAATT
Found at i:33167724 original size:18 final size:18
Alignment explanation
Indices: 33167703--33167752 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
33167693 TTTTGAAAAG
*
33167703 TTTTTAAAAAAAAATAAC
1 TTTTTAAAAAAAAATAAA
***
33167721 TTTTTTTTAAAAAATAAA
1 TTTTTAAAAAAAAATAAA
*
33167739 ATTTTAAAAAAAAA
1 TTTTTAAAAAAAAA
33167753 ACTTTTCTTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTTTAAAAAAAAATAAA
Found at i:33167753 original size:14 final size:16
Alignment explanation
Indices: 33167725--33167758 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33167715 AATAACTTTT
33167725 TTTTAAAAAATAAAA-
1 TTTTAAAAAATAAAAC
33167740 TTTTAAAAAA-AAAAC
1 TTTTAAAAAATAAAAC
33167755 TTTT
1 TTTT
33167759 CTTTCTNNNN
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTTAAAAAATAAAAC
Found at i:33178472 original size:18 final size:18
Alignment explanation
Indices: 33178449--33178486 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33178439 TTCGGTCCAT
* *
33178449 TTGATTTGATTAATTTGA
1 TTGATTCGATTAAATTGA
33178467 TTGATTCGATTAAATTGA
1 TTGATTCGATTAAATTGA
33178485 TT
1 TT
33178487 AAAAAGTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (18 bp):
TTGATTCGATTAAATTGA
Found at i:33180141 original size:28 final size:29
Alignment explanation
Indices: 33180108--33180163 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
33180098 TTTTAGAATC
*
33180108 AAAAGATGAGTTAAGGAAAAAA-GAAAAG
1 AAAAGATGAGCTAAGGAAAAAAGGAAAAG
33180136 AAAAGATGAGCTAAGGAAAAAAGGAAAA
1 AAAAGATGAGCTAAGGAAAAAAGGAAAA
33180164 AAGAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.25, T:0.09
Consensus pattern (29 bp):
AAAAGATGAGCTAAGGAAAAAAGGAAAAG
Found at i:33180276 original size:7 final size:7
Alignment explanation
Indices: 33180259--33180291 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
33180249 TAAGTTAAGG
33180259 GAAAAAA
1 GAAAAAA
33180266 -AAAAAA
1 GAAAAAA
33180272 GAAAAAA
1 GAAAAAA
*
33180279 GAGAAAA
1 GAAAAAA
33180286 GAAAAA
1 GAAAAA
33180292 TAATTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:33180611 original size:44 final size:45
Alignment explanation
Indices: 33180550--33180637 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
33180540 TACTATGTAA
33180550 TTATATACTAATTATAT-ATAATAAATATTAATACAATATATATATT
1 TTATATAC-AATTATATAAT-ATAAATATTAATACAATATATATATT
* * *
33180596 TTATATAC-ATTATATAATATATATCTTAATACACTATATATA
1 TTATATACAATTATATAATATAAATATTAATACAATATATATA
33180638 GTATACTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 28 0.74
45 2 0.05
46 8 0.21
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (45 bp):
TTATATACAATTATATAATATAAATATTAATACAATATATATATT
Found at i:33180795 original size:18 final size:17
Alignment explanation
Indices: 33180763--33180796 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33180753 TATTATATTA
*
33180763 TTAAATAAATTAAAAAG
1 TTAAAAAAATTAAAAAG
33180780 TTAAAAAAAGTTAAAAA
1 TTAAAAAAA-TTAAAAA
33180797 ATTCAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAAAAAAATTAAAAAG
Found at i:33180807 original size:18 final size:18
Alignment explanation
Indices: 33180762--33180808 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
33180752 TTATTATATT
33180762 ATTAAATAAA-TTAAAAA
1 ATTAAATAAAGTTAAAAA
* *
33180779 GTTAAAAAAAGTTAAAAA
1 ATTAAATAAAGTTAAAAA
*
33180797 ATTCAATAAAGT
1 ATTAAATAAAGT
33180809 CGGTTAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
ATTAAATAAAGTTAAAAA
Found at i:33203362 original size:20 final size:21
Alignment explanation
Indices: 33203323--33203364 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
33203313 TTGAGAATGA
33203323 TAAATGATGCTCGATGATATT
1 TAAATGATGCTCGATGATATT
*
33203344 TAAATGATG-TCGTTGATATT
1 TAAATGATGCTCGATGATATT
33203364 T
1 T
33203365 GATGATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (21 bp):
TAAATGATGCTCGATGATATT
Found at i:33205552 original size:28 final size:30
Alignment explanation
Indices: 33205511--33205570 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
33205501 GTCTATGGGC
*
33205511 AATTTTTCAATTTT-T-GGGGTAAAAATGT
1 AATTTTTCAATTTTATAGGGGCAAAAATGT
* * *
33205539 AATTTTTGACTTTTATAGGGGCAAAAGTGT
1 AATTTTTCAATTTTATAGGGGCAAAAATGT
33205569 AA
1 AA
33205571 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 1 0.04
30 13 0.50
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (30 bp):
AATTTTTCAATTTTATAGGGGCAAAAATGT
Found at i:33206739 original size:17 final size:17
Alignment explanation
Indices: 33206717--33206754 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
33206707 AAAAATATGA
33206717 AATTATAAAATAAATGG
1 AATTATAAAATAAATGG
*
33206734 AATTATAAAATAAATTG
1 AATTATAAAATAAATGG
33206751 AATT
1 AATT
33206755 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
AATTATAAAATAAATGG
Found at i:33207595 original size:213 final size:210
Alignment explanation
Indices: 33207230--33207650 Score: 781
Period size: 213 Copynumber: 2.0 Consensus size: 210
33207220 AGCCTTGGCG
33207230 GACTTGGTTGAATACCCCTGGTCCAAGTGTCCTCGAGTACAGGATTTGGCATGAGCCAAGTTTTG
1 GACTTGGTTGAATACCCCTGGTCCAAGTGTCCTCGAGTACAGGATTTGGCATGAGCCAAGTTTTG
33207295 AGAAATTCACGAGCCATATTGATTATTTGGTTGAAATGAATATTTTTGTTGTGAAAAATTTGCTG
66 AGAAATTCACGAGCCATATTGATTATTTGGTTGAAATGAATATTTTTGTTGTGAAAAATTTGCTG
33207360 AAATGAATTATTTTTAATTGTCTCCATTTACTCGCCTTTAGATTATTTTAGATGGTGTTTGTTTA
131 AAATGAATTATTTTTAATTGTCTCCATTTACTCGCCTTTAGATTATTTTAGATGGTGTTTGTTTA
33207425 CTCACTGAGATTTTA
196 CTCACTGAGATTTTA
*
33207440 NGACTTGGTTGAATACCCCTGGTCCAAGTGTCCTCGGGTACAGGATTTGGCATGAGCCAAGTTTT
1 -GACTTGGTTGAATACCCCTGGTCCAAGTGTCCTCGAGTACAGGATTTGGCATGAGCCAAG-TTT
*
33207505 TGAGAAAATTCACGAGCCATATTGTTTATTTGGTTGAAATGAATATTTTTGTTGTGAAAAA-TTG
64 TGAG-AAATTCACGAGCCATATTGATTATTTGGTTGAAATGAATATTTTTGTTGTGAAAAATTTG
33207569 CTGAAATGAATTATTTTTTAATTGTCTCCATTTACTCGCCTTTAGATTATTTTAGATGGTGTTTG
128 CTGAAATGAATTA-TTTTTAATTGTCTCCATTTACTCGCCTTTAGATTATTTTAGATGGTGTTTG
33207634 TTTACTCACTGAGATTT
192 TTTACTCACTGAGATTT
33207651 AATAATCTCA
Statistics
Matches: 205, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
211 59 0.29
212 23 0.11
213 123 0.60
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (210 bp):
GACTTGGTTGAATACCCCTGGTCCAAGTGTCCTCGAGTACAGGATTTGGCATGAGCCAAGTTTTG
AGAAATTCACGAGCCATATTGATTATTTGGTTGAAATGAATATTTTTGTTGTGAAAAATTTGCTG
AAATGAATTATTTTTAATTGTCTCCATTTACTCGCCTTTAGATTATTTTAGATGGTGTTTGTTTA
CTCACTGAGATTTTA
Found at i:33211299 original size:3 final size:3
Alignment explanation
Indices: 33211291--33211315 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33211281 AATGAGATCA
33211291 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
33211316 TTTGCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33220631 original size:5 final size:5
Alignment explanation
Indices: 33220618--33220714 Score: 57
Period size: 5 Copynumber: 20.6 Consensus size: 5
33220608 CCATCCCGAT
* *
33220618 TTTTT TTTTA TTTT- TTTTA -TTTA -TTTA -TTTA TTTTA -TTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * * *
33220663 TAATTA TATTTA -TTTA -TTTA ATTTA ATTTA ATTTA ATTT- TTTTA TTTTA
1 T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
33220712 TTT
1 TTT
33220715 GAGTGTCTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
4 31 0.38
5 42 0.52
6 8 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:33220633 original size:9 final size:9
Alignment explanation
Indices: 33220619--33220656 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
33220609 CATCCCGATT
33220619 TTTTTTTTA
1 TTTTTTTTA
33220628 TTTTTTTTA
1 TTTTTTTTA
*
33220637 -TTTATTTA
1 TTTTTTTTA
*
33220645 TTTATTTTA
1 TTTTTTTTA
33220654 TTT
1 TTT
33220657 AATTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:33220635 original size:13 final size:13
Alignment explanation
Indices: 33220617--33220656 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
33220607 GCCATCCCGA
33220617 TTTTTTTTTTATT
1 TTTTTTTTTTATT
*
33220630 TTTTTTATTTATT
1 TTTTTTTTTTATT
* *
33220643 TATTTATTTTATT
1 TTTTTTTTTTATT
33220656 T
1 T
33220657 AATTTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:33220640 original size:4 final size:4
Alignment explanation
Indices: 33220633--33220714 Score: 67
Period size: 5 Copynumber: 18.8 Consensus size: 4
33220623 TTTTATTTTT
*
33220633 TTTA TTTA TTTA TTTA TTTTA TTTAA TTTA -TAA TTATA TTTA TTTA TTTAA
1 TTTA TTTA TTTA TTTA -TTTA TTT-A TTTA TTTA TT-TA TTTA TTTA TTT-A
*
33220684 TTTAA TTTAA TTTAA TTTT TTTA TTTTA TTT
1 TTT-A TTT-A TTT-A TTTA TTTA -TTTA TTT
33220715 GAGTGTCTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
3 2 0.03
4 32 0.47
5 34 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:33220657 original size:9 final size:9
Alignment explanation
Indices: 33220623--33220714 Score: 89
Period size: 9 Copynumber: 9.9 Consensus size: 9
33220613 CCGATTTTTT
*
33220623 TTTTATTTT
1 TTTTATTTA
33220632 TTTTATTTA
1 TTTTATTTA
33220641 -TTTATTTA
1 TTTTATTTA
33220649 TTTTATTTAA
1 TTTTATTT-A
*
33220659 TTTATAATTA
1 TTT-TATTTA
33220669 TATTTATTTA
1 T-TTTATTTA
*
33220679 TTTAATTTAA
1 TTTTATTT-A
*
33220689 TTTAATTTAA
1 TTTTATTT-A
33220699 TTTT-TTTA
1 TTTTATTTA
33220707 TTTTATTT
1 TTTTATTT
33220715 GAGTGTCTAC
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
8 13 0.18
9 27 0.38
10 26 0.36
11 6 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:33220675 original size:30 final size:29
Alignment explanation
Indices: 33220639--33220714 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 29
33220629 TTTTTTTATT
33220639 TATTTATTTATTTTATTTAATTTATAATTA
1 TATTTATTTATTTTATTTAATTTA-AATTA
* *
33220669 TATTTATTTATTTAATTTAATTTAATTTA
1 TATTTATTTATTTTATTTAATTTAAATTA
*
33220698 -ATTTTTTTATTTTATTT
1 TATTTATTTATTTTATTT
33220715 GAGTGTCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 15 0.36
29 4 0.10
30 23 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TATTTATTTATTTTATTTAATTTAAATTA
Found at i:33232518 original size:6 final size:6
Alignment explanation
Indices: 33232507--33232536 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
33232497 ACGTGGGACG
33232507 TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC
1 TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC
33232537 GCATTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCTC
Found at i:33236863 original size:20 final size:20
Alignment explanation
Indices: 33236838--33236878 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33236828 ACACTGCAAA
33236838 CTATTTACTCAACTTAGCTT
1 CTATTTACTCAACTTAGCTT
33236858 CTATTTACTCAACTTAGCTT
1 CTATTTACTCAACTTAGCTT
33236878 C
1 C
33236879 AACTAGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (20 bp):
CTATTTACTCAACTTAGCTT
Found at i:33237035 original size:17 final size:16
Alignment explanation
Indices: 33236993--33237035 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
33236983 GCATATGAAA
*
33236993 ATTTATTTAGTATTTT
1 ATTTATTTAGGATTTT
*
33237009 AGTTAGTTTAGGATTTT
1 ATTTA-TTTAGGATTTT
33237026 ATTTTATTTA
1 A-TTTATTTA
33237036 TTTAGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (16 bp):
ATTTATTTAGGATTTT
Found at i:33249302 original size:2 final size:2
Alignment explanation
Indices: 33249295--33249333 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
33249285 TGTGAAATTC
* * *
33249295 AT AT AT AT AT AT AT AT AT AT AT AT AC AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33249334 ACAAATTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33252691 original size:2 final size:2
Alignment explanation
Indices: 33252684--33252717 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33252674 CGTTAAACAC
33252684 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33252718 ANTTAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:33252768 original size:2 final size:2
Alignment explanation
Indices: 33252761--33252789 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33252751 CGTAACCTAC
33252761 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
33252790 CATTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:33253007 original size:30 final size:30
Alignment explanation
Indices: 33252952--33253008 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33252942 TAATTAATTT
* *
33252952 TTTATATTTTTATTTTAAATTAAATAAATA
1 TTTAAATTTTTATTTTAAATCAAATAAATA
* *
33252982 TTTAAATTTTTATTTTGAGTCAAATAA
1 TTTAAATTTTTATTTTAAATCAAATAA
33253009 GTTCTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTAAATTTTTATTTTAAATCAAATAAATA
Found at i:33253114 original size:33 final size:33
Alignment explanation
Indices: 33253072--33253137 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
33253062 CACGTGACAT
33253072 TAATATGATATATTAAAATATAATAATTGATGA
1 TAATATGATATATTAAAATATAATAATTGATGA
* * * *
33253105 TAATATGATATGTTGACATATCATAATTGATGA
1 TAATATGATATATTAAAATATAATAATTGATGA
33253138 CGATGACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (33 bp):
TAATATGATATATTAAAATATAATAATTGATGA
Found at i:33263809 original size:34 final size:34
Alignment explanation
Indices: 33263771--33263877 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
33263761 TAAGAGTAAA
*
33263771 CACAACCCATACAATGCCTTTTACCGAAAGCAAG
1 CACAACCCATACAATACCTTTTACCGAAAGCAAG
* *
33263805 CACAACCCGTGCAATACCTTTTACCAGAAA-CAAG
1 CACAACCCATACAATACCTTTTACC-GAAAGCAAG
* * * **
33263839 TACAAACCATACAATACCTTTTATCGGGAGCAAG
1 CACAACCCATACAATACCTTTTACCGAAAGCAAG
33263873 CACAA
1 CACAA
33263878 TCCGTATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 2 0.03
34 54 0.90
35 4 0.07
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (34 bp):
CACAACCCATACAATACCTTTTACCGAAAGCAAG
Found at i:33267653 original size:24 final size:25
Alignment explanation
Indices: 33267620--33267667 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
33267610 TATTTAAAAA
*
33267620 AAGACAAAATAAAATAAAAAAGAAT
1 AAGACAAAATAAAAGAAAAAAGAAT
*
33267645 AAGA-AAAATAAAGGAAAAAAGAA
1 AAGACAAAATAAAAGAAAAAAGAA
33267668 AGAAAGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (25 bp):
AAGACAAAATAAAAGAAAAAAGAAT
Found at i:33271952 original size:35 final size:36
Alignment explanation
Indices: 33271894--33271993 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
33271884 AGTATTCGTA
* * *
33271894 TGGTGTAACGTCCCACATCTGGCCCTTGT-CACATG
1 TGGTATAACATCCCACATCTGGCCCTTATACACATG
* * *
33271929 TGGTATAACATCCCACATTTGGCCTTTATACACGTG
1 TGGTATAACATCCCACATCTGGCCCTTATACACATG
* * * *
33271965 TGGTATGATACCCCACATCTGGCCTTTAT
1 TGGTATAACATCCCACATCTGGCCCTTAT
33271994 GCACTCGAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 24 0.44
36 30 0.56
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (36 bp):
TGGTATAACATCCCACATCTGGCCCTTATACACATG
Found at i:33271980 original size:36 final size:35
Alignment explanation
Indices: 33271905--33271993 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
33271895 GGTGTAACGT
* * *
33271905 CCCACATCTGGCCCTTGTCACATGTGGTATAACAT
1 CCCACATCTGGCCTTTATCACATGTGGTATAACAC
* * * *
33271940 CCCACATTTGGCCTTTATACACGTGTGGTATGATAC
1 CCCACATCTGGCCTTTAT-CACATGTGGTATAACAC
33271976 CCCACATCTGGCCTTTAT
1 CCCACATCTGGCCTTTAT
33271994 GCACTCGAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 15 0.33
36 30 0.67
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.31
Consensus pattern (35 bp):
CCCACATCTGGCCTTTATCACATGTGGTATAACAC
Found at i:33275187 original size:24 final size:23
Alignment explanation
Indices: 33275140--33275187 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
33275130 TTTGAATAAT
*
33275140 AAATTCATATTTTTATTTTTAAA
1 AAATTCATATTTTTATTTTGAAA
33275163 AAATATCATATTTTT-TATTTGAAA
1 AAAT-TCATATTTTTAT-TTTGAAA
33275187 A
1 A
33275188 TTTCAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTCATATTTTTATTTTGAAA
Found at i:33275677 original size:72 final size:73
Alignment explanation
Indices: 33275577--33275717 Score: 167
Period size: 72 Copynumber: 1.9 Consensus size: 73
33275567 TTATATATAG
* * * ** *
33275577 GAAATAAAATAACTGTTGAAAATTATTAAATACATCTTACCGTTAGTTGTTTGGAAATAAAAGAA
1 GAAATAAAATAACTGTTGAAAATCATTAAATACATATTACCGTTAATTGAATGAAAATAAAAGAA
33275642 ATAGGTAA
66 ATAGGTAA
* * * * * *
33275650 GAAA-AAAATAATTGTTGGAGATCATTAAATATATATTACTGTTAATTGAATGAAAATAAGAGAA
1 GAAATAAAATAACTGTTGAAAATCATTAAATACATATTACCGTTAATTGAATGAAAATAAAAGAA
33275714 ATAG
66 ATAG
33275718 TTGAATTAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
72 52 0.93
73 4 0.07
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (73 bp):
GAAATAAAATAACTGTTGAAAATCATTAAATACATATTACCGTTAATTGAATGAAAATAAAAGAA
ATAGGTAA
Found at i:33280624 original size:3 final size:3
Alignment explanation
Indices: 33280616--33280641 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33280606 CCCCACGACA
33280616 ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC AC
33280642 AACACTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:33289370 original size:3 final size:3
Alignment explanation
Indices: 33289362--33289411 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
33289352 GTAATAGTTC
33289362 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33289410 AT
1 AT
33289412 AAGCCATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:33294658 original size:19 final size:21
Alignment explanation
Indices: 33294613--33294658 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
33294603 GTTTCATGCC
*
33294613 AAAGAGAAAAGAGAGAAAAGA
1 AAAGAGAAAAAAGAGAAAAGA
*
33294634 AGAAGA-AAAAAAG-GAAAGGA
1 A-AAGAGAAAAAAGAGAAAAGA
33294654 AAAGA
1 AAAGA
33294659 TAGAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 7 0.32
22 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAAGAGAAAAAAGAGAAAAGA
Found at i:33297415 original size:2 final size:2
Alignment explanation
Indices: 33297408--33297438 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33297398 TCAATAAATT
33297408 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33297439 TTTATGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33307446 original size:4 final size:5
Alignment explanation
Indices: 33307421--33307453 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
33307411 TTTTTCTTAT
33307421 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT
33307454 CTAACAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:33308513 original size:17 final size:16
Alignment explanation
Indices: 33308484--33308522 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
33308474 ATTAATATTT
33308484 ATTATAAATATTTTAAA
1 ATTA-AAATATTTTAAA
*
33308501 ATTAAAATAATTTTAAT
1 ATTAAAAT-ATTTTAAA
33308518 ATTAA
1 ATTAA
33308523 TNTCATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAAAATATTTTAAA
Found at i:33320154 original size:9 final size:9
Alignment explanation
Indices: 33320140--33320178 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
33320130 ACACGATTAA
*
33320140 TAACACGTT
1 TAACACGAT
33320149 TAACACGAT
1 TAACACGAT
33320158 TAACAC-AT
1 TAACACGAT
33320166 TAAACACGAT
1 T-AACACGAT
33320176 TAA
1 TAA
33320179 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 3 0.11
9 21 0.78
10 3 0.11
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
TAACACGAT
Found at i:33320163 original size:18 final size:18
Alignment explanation
Indices: 33320140--33320178 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
33320130 ACACGATTAA
* *
33320140 TAACACGTTTAACACGAT
1 TAACACATTAAACACGAT
33320158 TAACACATTAAACACGAT
1 TAACACATTAAACACGAT
33320176 TAA
1 TAA
33320179 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.26
Consensus pattern (18 bp):
TAACACATTAAACACGAT
Found at i:33320406 original size:18 final size:19
Alignment explanation
Indices: 33320383--33320431 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
33320373 ACGTGTCATT
33320383 TATACACGTTTAAACAC-A
1 TATACACGTTTAAACACGA
*
33320401 TATACATGTTTAAACACGA
1 TATACACGTTTAAACACGA
*
33320420 TA-ACACGATTAA
1 TATACACGTTTAA
33320432 GTAAACGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (19 bp):
TATACACGTTTAAACACGA
Found at i:33320668 original size:26 final size:26
Alignment explanation
Indices: 33320634--33320704 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
33320624 AACCAACTCG
*
33320634 AAGAAATAAGGAAGAGTCAAACACCA
1 AAGAGATAAGGAAGAGTCAAACACCA
**
33320660 AAGAGATAAGGAAGAGTCAAATGCCA
1 AAGAGATAAGGAAGAGTCAAACACCA
*
33320686 GAGAGATAAGGAAGAGTCA
1 AAGAGATAAGGAAGAGTCA
33320705 GACAAGAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.52, C:0.11, G:0.27, T:0.10
Consensus pattern (26 bp):
AAGAGATAAGGAAGAGTCAAACACCA
Found at i:33327235 original size:49 final size:50
Alignment explanation
Indices: 33327155--33327252 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
33327145 ATTATGTTAT
33327155 GATGCCAATAGAGTGTAAAATGGGGAAAGCAAGAAAACAAACAGGAGGAA
1 GATGCCAATAGAGTGTAAAATGGGGAAAGCAAGAAAACAAACAGGAGGAA
* * *
33327205 GATGCCAATTGA-TCGT-AAATGGTGAAAGCAAGAAAACAAAGAGGAGGA
1 GATGCCAATAGAGT-GTAAAATGGGGAAAGCAAGAAAACAAACAGGAGGA
33327253 GAGTACAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 31 0.70
50 13 0.30
ACGTcount: A:0.48, C:0.10, G:0.30, T:0.12
Consensus pattern (50 bp):
GATGCCAATAGAGTGTAAAATGGGGAAAGCAAGAAAACAAACAGGAGGAA
Found at i:33332748 original size:26 final size:26
Alignment explanation
Indices: 33332698--33332748 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
33332688 TTACAACATT
* *
33332698 CATCCACTTTTGGTGGTAACATTATC
1 CATCCACTTCTGGTGGAAACATTATC
33332724 CATCCACTTCTGGTGGCAAAC-TTAT
1 CATCCACTTCTGGTGG-AAACATTAT
33332749 TCTTAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (26 bp):
CATCCACTTCTGGTGGAAACATTATC
Found at i:33332800 original size:51 final size:51
Alignment explanation
Indices: 33332711--33332808 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
33332701 CCACTTTTGG
* * *
33332711 TGGTAACATTATCCATCCACTTCTGGTGGCAAACTTATTCTTA-AATTCTTA
1 TGGTAAAATTATCCATCCACTTCTGGTAGCAAAATTATT-TTAGAATTCTTA
* * *
33332762 TGGTAAAATTATCCATTCACTTTTGGTAGTAAAATTATTTTAGAATT
1 TGGTAAAATTATCCATCCACTTCTGGTAGCAAAATTATTTTAGAATT
33332809 AAAATAGTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (51 bp):
TGGTAAAATTATCCATCCACTTCTGGTAGCAAAATTATTTTAGAATTCTTA
Found at i:33333365 original size:12 final size:12
Alignment explanation
Indices: 33333348--33333373 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33333338 TAAGAGATCA
33333348 GAGAATCGTGCT
1 GAGAATCGTGCT
33333360 GAGAATCGTGCT
1 GAGAATCGTGCT
33333372 GA
1 GA
33333374 TAACATGTTA
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:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (12 bp):
GAGAATCGTGCT
Found at i:33344646 original size:17 final size:17
Alignment explanation
Indices: 33344624--33344662 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33344614 GAGAATATAT
*
33344624 AAATAATAAAGAATAA-A
1 AAATAAAAAAG-ATAATA
33344641 AAATAAAAAAGATAATA
1 AAATAAAAAAGATAATA
33344658 AAATA
1 AAATA
33344663 TTCTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAGATAATA
Found at i:33345160 original size:14 final size:14
Alignment explanation
Indices: 33345109--33345160 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
33345099 ACTCAATAAA
*
33345109 AATAATAAATAAAT
1 AATAATAAAAAAAT
* *
33345123 AACAATAGATAAAAAA
1 AATAATA-A-AAAAAT
*
33345139 AATGATAAAAAAAT
1 AATAATAAAAAAAT
33345153 AATAATAA
1 AATAATAA
33345161 TTCAAATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 18 0.62
15 2 0.07
16 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (14 bp):
AATAATAAAAAAAT
Found at i:33345454 original size:22 final size:22
Alignment explanation
Indices: 33345426--33345481 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
33345416 GAATATAAAA
33345426 AAAAAATAAAATATAGGAGAAT
1 AAAAAATAAAATATAGGAGAAT
* *
33345448 AAAAAATAGAAA-ATATGATAAT
1 AAAAAATA-AAATATAGGAGAAT
**
33345470 ATGAAATAAAAT
1 AAAAAATAAAAT
33345482 GAAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (22 bp):
AAAAAATAAAATATAGGAGAAT
Found at i:33347039 original size:14 final size:15
Alignment explanation
Indices: 33347017--33347054 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
33347007 TAAAATTATG
33347017 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
*
33347032 AAAA-AAATAAAAAA
1 AAAATAAATAAAAAT
33347046 AAGAATAAA
1 AA-AATAAA
33347055 GAATTAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 11 0.55
15 6 0.30
16 3 0.15
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:33352563 original size:81 final size:80
Alignment explanation
Indices: 33352431--33352590 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
33352421 ACAATCGATC
* ** *
33352431 AAAAAAAAAAGAAAAAAAAAGTAAGTGTGAAAGATGAAGCTCTAGGGTGAAAACCCGAAAG-GAC
1 AAAAAAAAAAAAAAAAAAAAGTAAGTGAAAAAGATAAAGCTCTAGGGTGAAAACCCGAAAGAG-C
*
33352495 AGTCTAGAGCGAAGAA
65 AGTCTAGAGCAAAGAA
* * * * *
33352511 AAAAAAAAAAAAAAAGAAAAAGTGAGTGAAAAAGATAAATCTCTGGGGTGAAAATCTGAAAGAGC
1 AAAAAAAAAAAAAAA-AAAAAGTAAGTGAAAAAGATAAAGCTCTAGGGTGAAAACCCGAAAGAGC
33352576 AGTCTAGAGCAAAGA
65 AGTCTAGAGCAAAGA
33352591 TGTGAATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 14 0.21
81 53 0.78
82 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.24, T:0.12
Consensus pattern (80 bp):
AAAAAAAAAAAAAAAAAAAAGTAAGTGAAAAAGATAAAGCTCTAGGGTGAAAACCCGAAAGAGCA
GTCTAGAGCAAAGAA
Found at i:33353825 original size:20 final size:21
Alignment explanation
Indices: 33353800--33353842 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33353790 GAGCCACATT
*
33353800 TTCTAAA-TCCTCCGGGTGCA
1 TTCTAAAGTCCTCCGGGTACA
33353820 TTCTAAAGTCCTCCGGGTACA
1 TTCTAAAGTCCTCCGGGTACA
33353841 TT
1 TT
33353843 ATTCTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (21 bp):
TTCTAAAGTCCTCCGGGTACA
Found at i:33353951 original size:142 final size:142
Alignment explanation
Indices: 33353752--33354143 Score: 588
Period size: 142 Copynumber: 2.8 Consensus size: 142
33353742 TAATTAGTAG
* *
33353752 CAAGATTTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTTCTAAATCCTCCGGGT
1 CAAGA-TTTTTAAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCCTCCGGGT
* * *
33353817 GCATTCTAAAGTCCTCCGGGTACATTATTCTCTTAAATCCTCCAGATGCATCTTTTAAAACCTTC
65 ACATTCTAAAGACCTCCGGGTACATTATTCTCTTAAATCCTCCAGATGCATCTTCTAAAACCTTC
33353882 GGGTAACTAATGT
130 GGGTAACTAATGT
* * *
33353895 CAATATTTTTCAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATGTCCTAAATCCTCCGGGTA
1 CAAGATTTTTAAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCCTCCGGGTA
* * **
33353960 CATTCTCAAGACCTCCGGGCACATTATTCTCTTAAATCCTCTGGATGCATCTTCTAAAACCTTCG
66 CATTCTAAAGACCTCCGGGTACATTATTCTCTTAAATCCTCCAGATGCATCTTCTAAAACCTTCG
*
33354025 GGTAATTAATGT
131 GGTAACTAATGT
* * *
33354037 CAAGATTTTTAAAAGTTACATTGCCTCAGTTTTCAAGGAGCCACATTTCCTAAATCCTCCGAGTA
1 CAAGATTTTTAAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCCTCCGGGTA
* **
33354102 CATTCTGAAGACCTCTAGGTACATTATTCTCTTATAA-CCTCC
66 CATTCTAAAGACCTCCGGGTACATTATTCTCTTA-AATCCTCC
33354144 GGGTAATTAG
Statistics
Matches: 225, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
142 219 0.97
143 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (142 bp):
CAAGATTTTTAAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCCTCCGGGTA
CATTCTAAAGACCTCCGGGTACATTATTCTCTTAAATCCTCCAGATGCATCTTCTAAAACCTTCG
GGTAACTAATGT
Found at i:33354269 original size:37 final size:37
Alignment explanation
Indices: 33354180--33354318 Score: 165
Period size: 38 Copynumber: 3.7 Consensus size: 37
33354170 GTTTCGATCG
* *
33354180 TTGCCTCAATTTTAAGGAGTTTATTTTTAAAAGTGTTG
1 TTGCCTCAATTTTGAGGAGTTTATTTTTAAAAGT-TTC
33354218 TTGCCTCAATTTTGAGGAG-TTACTTTTTAAAA-TTTC
1 TTGCCTCAATTTTGAGGAGTTTA-TTTTTAAAAGTTTC
* *
33354254 TCTGCCTCAATTTTGAGCAGTTTATTCTTAAAAGTTTC
1 T-TGCCTCAATTTTGAGGAGTTTATTTTTAAAAGTTTC
* * *
33354292 ATTGCCTCAACTTTGAAGAGTTCATTT
1 -TTGCCTCAATTTTGAGGAGTTTATTT
33354319 AATAATAAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
36 3 0.03
37 29 0.33
38 54 0.62
39 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (37 bp):
TTGCCTCAATTTTGAGGAGTTTATTTTTAAAAGTTTC
Found at i:33355794 original size:17 final size:17
Alignment explanation
Indices: 33355772--33355810 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33355762 GAGAATACAG
*
33355772 AAATAATAAAGAATAA-A
1 AAATAAAAAAG-ATAATA
33355789 AAATAAAAAAGATAATA
1 AAATAAAAAAGATAATA
33355806 AAATA
1 AAATA
33355811 TTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAGATAATA
Found at i:33356272 original size:14 final size:14
Alignment explanation
Indices: 33356246--33356326 Score: 65
Period size: 14 Copynumber: 5.7 Consensus size: 14
33356236 AAAATTACTC
33356246 AATAAA-AATAATA
1 AATAAATAATAATA
*
33356259 AATAAATAACAATA
1 AATAAATAATAATA
* * *
33356273 GATAAAAAATGATA
1 AATAAATAATAATA
*
33356287 AAAAAATAATAATA
1 AATAAATAATAATA
* *
33356301 ATTCAAATATATAGTA
1 AAT-AAATA-ATAATA
*
33356317 AATAATTAAT
1 AATAAATAAT
33356327 TTGTGAAAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
13 6 0.12
14 29 0.57
15 9 0.18
16 7 0.14
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
AATAAATAATAATA
Found at i:33356604 original size:27 final size:27
Alignment explanation
Indices: 33356555--33356627 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
33356545 AAGAACTTAG
*
33356555 AATAAAAAATGTAAAGTATGAAAAAATAAT
1 AATAAAAAA--TAAAATA-GAAAAAATAAT
* * *
33356585 AATAAGAAATAAAATAGAAAATATGAT
1 AATAAAAAATAAAATAGAAAAAATAAT
33356612 AATAAAAAATAAAATA
1 AATAAAAAATAAAATA
33356628 ATAATAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 24 0.63
28 6 0.16
30 8 0.21
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (27 bp):
AATAAAAAATAAAATAGAAAAAATAAT
Found at i:33356606 original size:12 final size:12
Alignment explanation
Indices: 33356576--33356649 Score: 64
Period size: 12 Copynumber: 6.0 Consensus size: 12
33356566 TAAAGTATGA
33356576 AAAAATAATAAT
1 AAAAATAATAAT
33356588 AAGAAATAA-AAT
1 AA-AAATAATAAT
33356600 AGAAAATATGATAAT
1 A-AAAATA--ATAAT
33356615 AAAAAATAA-AAT
1 -AAAAATAATAAT
*
33356627 AATAATAATAAT
1 AAAAATAATAAT
*
33356639 -TAAATAATAAT
1 AAAAATAATAAT
33356650 GAATGACAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
11 16 0.31
12 17 0.33
13 8 0.15
14 1 0.02
15 9 0.17
16 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:33356623 original size:7 final size:8
Alignment explanation
Indices: 33356610--33356648 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
33356600 AGAAAATATG
33356610 ATAATAAA
1 ATAATAAA
33356618 A-AATAAA
1 ATAATAAA
33356625 ATAATAATA
1 ATAATAA-A
*
33356634 ATAATTAA
1 ATAATAAA
33356642 ATAATAA
1 ATAATAA
33356649 TGAATGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAATAAA
Found at i:33370734 original size:7 final size:7
Alignment explanation
Indices: 33370702--33370733 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33370692 AGGAAATTAG
33370702 TTCTTCT
1 TTCTTCT
33370709 TTCTTCT
1 TTCTTCT
33370716 TTCTTCT
1 TTCTTCT
*
33370723 TTCTACT
1 TTCTTCT
33370730 TTCT
1 TTCT
33370734 AAATCGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (7 bp):
TTCTTCT
Found at i:33372115 original size:15 final size:15
Alignment explanation
Indices: 33372097--33372125 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33372087 TCAAAACCAA
33372097 TTGATTCTCCCTCTC
1 TTGATTCTCCCTCTC
33372112 TTGATTCTCCCTCT
1 TTGATTCTCCCTCT
33372126 TCAGCTGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.38, G:0.07, T:0.48
Consensus pattern (15 bp):
TTGATTCTCCCTCTC
Found at i:33377392 original size:100 final size:101
Alignment explanation
Indices: 33377212--33377392 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 101
33377202 AAAGACAACC
* *
33377212 AAGTGATTTATTCCCAAGGCTATTTAGAACAAAAATAAACAATTTAGCATATATTCAACTTAAGA
1 AAGTGATTTATTCCCAAGGCTATTTAGAACAAAAATAAACAATTCAGCATATATTCAACCTAAGA
33377277 CTACAACCTAGGCTCACAATAATAATGCAGAGCGCT
66 CTACAACCTAGGCTCACAATAATAATGCAGAGCGCT
* * ** * *
33377313 AAGTGATTTATTCCCAAGGCTATTTAGACCAAACAT-AACCGTTCAGCTTCTATTCAACCTAAGA
1 AAGTGATTTATTCCCAAGGCTATTTAGAACAAAAATAAACAATTCAGCATATATTCAACCTAAGA
*
33377377 CTACAGCCTAGGCTCA
66 CTACAACCTAGGCTCA
33377393 AGTACTCTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 37 0.52
101 34 0.48
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (101 bp):
AAGTGATTTATTCCCAAGGCTATTTAGAACAAAAATAAACAATTCAGCATATATTCAACCTAAGA
CTACAACCTAGGCTCACAATAATAATGCAGAGCGCT
Found at i:33380568 original size:43 final size:43
Alignment explanation
Indices: 33380507--33380593 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
33380497 TATCAAGAGT
*
33380507 AAGAAAAGTGTTGTATTCTTTTAACATAAAAACTTTAGTTCCC
1 AAGAAAAGTGTTGTATTCTTTTAACATAAAAACCTTAGTTCCC
33380550 AAGAAAAGTGTTGTATTCTTTTAACATAAAAACCTTAGTTCCC
1 AAGAAAAGTGTTGTATTCTTTTAACATAAAAACCTTAGTTCCC
33380593 A
1 A
33380594 CCAATTACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (43 bp):
AAGAAAAGTGTTGTATTCTTTTAACATAAAAACCTTAGTTCCC
Found at i:33397854 original size:27 final size:27
Alignment explanation
Indices: 33397816--33397871 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
33397806 CCTCAAATTG
* *
33397816 TAATCATAATTACACGCGTGGGTCCAT
1 TAATCATAATTACACACGCGGGTCCAT
*
33397843 TAATCATAATTACACACGCGGGTCTAT
1 TAATCATAATTACACACGCGGGTCCAT
33397870 TA
1 TA
33397872 GTTTTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (27 bp):
TAATCATAATTACACACGCGGGTCCAT
Found at i:33398375 original size:96 final size:96
Alignment explanation
Indices: 33398250--33398533 Score: 489
Period size: 96 Copynumber: 3.0 Consensus size: 96
33398240 TGTTGGTATG
33398250 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
33398315 AAAATCTTACATAACTAAAAACAAAAATGTA
66 AAAATCTTACATAACTAAAAACAAAAATGTA
* *
33398346 TTTTATCCTTAAATTTGATTAATAGAATTCTAACATCAATTACTTTTTCAAGAGTTATAATGAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
33398411 AAAATCTTACATAACTAAAAAC-AAAATGTA
66 AAAATCTTACATAACTAAAAACAAAAATGTA
* * * *
33398441 TTTTATCCTTAAATTTGATTAACATAATTCTAACATTAGTTACTTTTTCAAGAGTTATAATTAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
* *
33398506 AAAATCTGATATAACTAAAAACAAAAAT
66 AAAATCTTACATAACTAAAAACAAAAAT
33398534 ATTGAATGAA
Statistics
Matches: 178, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 88 0.49
96 90 0.51
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (96 bp):
TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
AAAATCTTACATAACTAAAAACAAAAATGTA
Found at i:33398501 original size:95 final size:95
Alignment explanation
Indices: 33398250--33398531 Score: 483
Period size: 95 Copynumber: 3.0 Consensus size: 95
33398240 TGTTGGTATG
33398250 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
33398315 AAAATCTTACATAACTAAAAACAAAAATGTA
66 AAAATCTTACATAACTAAAAAC-AAAATGTA
* *
33398346 TTTTATCCTTAAATTTGATTAATAGAATTCTAACATCAATTACTTTTTCAAGAGTTATAATGAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
33398411 AAAATCTTACATAACTAAAAACAAAATGTA
66 AAAATCTTACATAACTAAAAACAAAATGTA
* * * *
33398441 TTTTATCCTTAAATTTGATTAACATAATTCTAACATTAGTTACTTTTTCAAGAGTTATAATTAAT
1 TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
* *
33398506 AAAATCTGATATAACTAAAAACAAAA
66 AAAATCTTACATAACTAAAAACAAAA
33398532 ATATTGAATG
Statistics
Matches: 177, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
95 92 0.52
96 85 0.48
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (95 bp):
TTTTATCCTTAAATTTGATTAATACAATTCTAACATCAATTACTTTTTCAAGAGTTATAATTAAT
AAAATCTTACATAACTAAAAACAAAATGTA
Found at i:33402565 original size:102 final size:102
Alignment explanation
Indices: 33402375--33402584 Score: 357
Period size: 102 Copynumber: 2.1 Consensus size: 102
33402365 TGGCTGTGTG
* * *
33402375 AATGTAAGTCCGTCAAAAATAAGAAGAGTTTCACTGGTTAAGCAGCAGAAGGAGACCAGTCAGTC
1 AATGAAAGTCCGTCAAAAATAAGAAGAGTTTCACTGGTTAAGCAACAGAAGGAGACAAGTCAGTC
*
33402440 ACCAAGATACAAGAAGAACATTGATAGCTGGAAAGAT
66 ACCAAAATACAAGAAGAACATTGATAGCTGGAAAGAT
33402477 AATGAAAGTCCGTCAAAAATAAGAAGAGTTTCACTGGTTAAGCAACAGAAGGAGACAAGTCAGTC
1 AATGAAAGTCCGTCAAAAATAAGAAGAGTTTCACTGGTTAAGCAACAGAAGGAGACAAGTCAGTC
** *
33402542 ACCAAAATACAATCAGAAGATTGATAGCTGGAAAGAT
66 ACCAAAATACAAGAAGAACATTGATAGCTGGAAAGAT
33402579 AATGAA
1 AATGAA
33402585 GATGACGTTG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (102 bp):
AATGAAAGTCCGTCAAAAATAAGAAGAGTTTCACTGGTTAAGCAACAGAAGGAGACAAGTCAGTC
ACCAAAATACAAGAAGAACATTGATAGCTGGAAAGAT
Found at i:33407395 original size:18 final size:17
Alignment explanation
Indices: 33407369--33407415 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
33407359 AAAATATTTT
*
33407369 TTAATATTTTTATGATAA
1 TTAAAATTTTTATGAT-A
*
33407387 TTAAAATTTAT-TGATA
1 TTAAAATTTTTATGATA
*
33407403 TTAAATTTTTTAT
1 TTAAAATTTTTAT
33407416 ATTTGGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.42
17 5 0.21
18 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTAAAATTTTTATGATA
Found at i:33407829 original size:38 final size:38
Alignment explanation
Indices: 33407787--33407860 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
33407777 GACCAGATCT
* * * *
33407787 AATCAAATTAAATGGCTTCATCTCTTTGCTTACATTCC
1 AATCAAATGAAAAGGCTGCATCTCTTTGCTCACATTCC
33407825 AATCAAATGAAAAGGCTGCATCTCTTTGCTCACATT
1 AATCAAATGAAAAGGCTGCATCTCTTTGCTCACATT
33407861 TAAAAAAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (38 bp):
AATCAAATGAAAAGGCTGCATCTCTTTGCTCACATTCC
Found at i:33410497 original size:81 final size:82
Alignment explanation
Indices: 33410248--33410562 Score: 487
Period size: 82 Copynumber: 3.9 Consensus size: 82
33410238 TTATCCCTTG
* * * *
33410248 AGATAATTTAAAAATAATATTTA-A-ATTGGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
1 AGATAATTTAGAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
33410311 TATCTCTAAATAAATCA
66 TATCTCTAAATAAATCA
* *
33410328 AGATAATTTAAAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATCCAATT
1 AGATAATTTAGAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
*
33410393 TATCTCTAAACAAATCA
66 TATCTCTAAATAAATCA
*
33410410 AGATAATTTAGAGATAATATTCATATTTTTGACCAATC-AAAAATTAGTTATTGGTCATTCAATT
1 AGATAATTTAGAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
33410474 TATCTCTAAATAAATCA
66 TATCTCTAAATAAATCA
* * * *
33410491 AAATAATTTAGAGATAATATTTATA-TTTTGACCAATC-AAAATTTAATTATTGGTCATTTAATT
1 AGATAATTTAGAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
33410554 TATCTCTAA
66 TATCTCTAA
33410563 TAATTATATT
Statistics
Matches: 219, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
80 66 0.30
81 65 0.30
82 88 0.40
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (82 bp):
AGATAATTTAGAGATAATATTTATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATTCAATT
TATCTCTAAATAAATCA
Found at i:33410564 original size:55 final size:51
Alignment explanation
Indices: 33410505--33410947 Score: 278
Period size: 55 Copynumber: 8.1 Consensus size: 51
33410495 AATTTAGAGA
*
33410505 TAATATTTATATTTTGACCAATCAAAATTTAATTATTGGTCATTTAATTTATCTC
1 TAATAATTATATTTT-A--AAT-AAAATTTAATTATTGGTCATTTAATTTATCTC
* * *
33410560 TAATAATTATATTAATTTAAAGATAAAACTCAA--ATTGGATTATTTAATTTATCTC
1 TAATAATTATA-T--TTT-AA-ATAAAATTTAATTATTGG-TCATTTAATTTATCTC
* *
33410615 TAATAAATTGAGATAATTTAGA-AAAATTTAATTATTGGTCATTTAATTTATCTC
1 TAAT-AATT---ATATTTTAAATAAAATTTAATTATTGGTCATTTAATTTATCTC
* * *
33410669 TAATAATTATATTAATTTAAAGATAAAACTCAA--ATTGGATTATTTAATTTATCTC
1 TAATAATTATA-T--TTT-AA-ATAAAATTTAATTATTGG-TCATTTAATTTATCTC
* *
33410724 TAATAAATTGAGATAATTTAGA-AAAATTTAATTATTGGTCATTTAATTTATCTC
1 TAAT-AATT---ATATTTTAAATAAAATTTAATTATTGGTCATTTAATTTATCTC
* * *
33410778 TAATAATTATATTAATTTAAAGATAAAACTCAA--ATTGGATTATTTAATTTATCTC
1 TAATAATTATA-T--TTT-AA-ATAAAATTTAATTATTGG-TCATTTAATTTATCTC
* *
33410833 TAATAAATTGAGATAATTTAGA-AAAATTTAATTATTGGTCATTTAATTTATCTC
1 TAAT-AATT---ATATTTTAAATAAAATTTAATTATTGGTCATTTAATTTATCTC
* * *
33410887 TAATAATTATATTAATTTAAAGATAAAACTCAA--ATTGGATTATTTAATTTATCTC
1 TAATAATTATA-T--TTT-AA-ATAAAATTTAATTATTGG-TCATTTAATTTATCTC
33410942 TAATAA
1 TAATAA
33410948 ATTGAGATAA
Statistics
Matches: 309, Mismatches: 35, Indels: 88
0.72 0.08 0.20
Matches are distributed among these distances:
50 9 0.03
53 42 0.14
54 83 0.27
55 109 0.35
56 51 0.17
57 2 0.01
58 4 0.01
59 9 0.03
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (51 bp):
TAATAATTATATTTTAAATAAAATTTAATTATTGGTCATTTAATTTATCTC
Found at i:33410719 original size:109 final size:109
Alignment explanation
Indices: 33410528--33410963 Score: 872
Period size: 109 Copynumber: 4.0 Consensus size: 109
33410518 TTGACCAATC
33410528 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
1 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
33410593 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
66 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
33410637 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
1 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
33410702 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
66 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
33410746 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
1 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
33410811 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
66 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
33410855 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
1 AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
33410920 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
66 ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
33410964 GATAATACCT
Statistics
Matches: 327, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 327 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (109 bp):
AAAATTTAATTATTGGTCATTTAATTTATCTCTAATAATTATATTAATTTAAAGATAAAACTCAA
ATTGGATTATTTAATTTATCTCTAATAAATTGAGATAATTTAGA
Found at i:33411187 original size:17 final size:17
Alignment explanation
Indices: 33411165--33411204 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
33411155 TCATTCAGAG
*
33411165 GCATTTGAAGATTGGGA
1 GCATTTGAAGATTGAGA
33411182 GCATTTGAAGATTGAGA
1 GCATTTGAAGATTGAGA
33411199 GCATTT
1 GCATTT
33411205 TAGAGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (17 bp):
GCATTTGAAGATTGAGA
Found at i:33411268 original size:23 final size:22
Alignment explanation
Indices: 33411241--33411319 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
33411231 TTGAAGTGAA
*
33411241 GATCAAGCAACAACGAAGTTTGT
1 GATCAAG-AACAACGAAGTTCGT
**
33411264 GATCAAGTGGCAACGAAGTTCGT
1 GATCAAG-AACAACGAAGTTCGT
33411287 GATCAAGATATCAAGCGAAGTTCGT
1 GATCAAGA-A-CAA-CGAAGTTCGT
33411312 GATCAAGA
1 GATCAAGA
33411320 TTAAGTCGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 26 0.55
24 3 0.06
25 18 0.38
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (22 bp):
GATCAAGAACAACGAAGTTCGT
Found at i:33411310 original size:25 final size:24
Alignment explanation
Indices: 33411251--33411320 Score: 97
Period size: 23 Copynumber: 2.9 Consensus size: 24
33411241 GATCAAGCAA
* *
33411251 CAACGAAGTTTGTGATCAAG-TGG
1 CAACGAAGTTCGTGATCAAGATAG
*
33411274 CAACGAAGTTCGTGATCAAGATAT
1 CAACGAAGTTCGTGATCAAGATAG
33411298 CAAGCGAAGTTCGTGATCAAGAT
1 CAA-CGAAGTTCGTGATCAAGAT
33411321 TAAGTCGTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 19 0.45
24 4 0.10
25 19 0.45
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (24 bp):
CAACGAAGTTCGTGATCAAGATAG
Found at i:33411368 original size:49 final size:49
Alignment explanation
Indices: 33411306--33411524 Score: 339
Period size: 49 Copynumber: 4.4 Consensus size: 49
33411296 ATCAAGCGAA
*
33411306 GTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGT
* *
33411355 GTTGGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGT
* *
33411404 GTTCGTGATCAAGATTAAGTCGTGAAGGCCCTTGAAGCGAAGATCAAGT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGT
* ** *
33411453 GTTCGTGATCAAAACTAAGTCGTGAAGACCCTTGACTCGAAGATCAAGCAC
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG--T
33411504 GTTCGTGATCAAGACTAAGTC
1 GTTCGTGATCAAGACTAAGTC
33411525 CAAGTTTGCG
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 134 0.87
51 20 0.13
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGT
Found at i:33418749 original size:62 final size:61
Alignment explanation
Indices: 33418672--33418859 Score: 253
Period size: 62 Copynumber: 3.1 Consensus size: 61
33418662 AAACTGCATC
* *
33418672 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAAGACGACTTAGGCAAAATTTAAGGCA
1 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGACGATTTAGGCAAAA-TTAAGGCA
*
33418734 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGATGATTTAGGC-AAA--AA---A
1 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGACGATTTAGGCAAAATTAAGGCA
* * * *
33418789 AAAAAAAAACGCTTGCTAAGTTAAAAATCCTTAACAGGACAATTTAGGCAAAAGTTAAGGCA
1 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGACGATTTAGGCAAAA-TTAAGGCA
33418851 AAAAAAAAA
1 AAAAAAAAA
33418860 TATGAACTAC
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
55 45 0.41
56 3 0.03
58 2 0.02
59 2 0.02
61 3 0.03
62 56 0.50
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (61 bp):
AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGACGATTTAGGCAAAATTAAGGCA
Found at i:33418807 original size:55 final size:54
Alignment explanation
Indices: 33418733--33418841 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 54
33418723 AATTTAAGGC
* **
33418733 AAAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAGGATGATTTAGGCAAAA
1 AAAAAAAAAAAGCCTGCTAAGTTAAAAATCCTTAACAGGACAATTTAGGCAAAA
*
33418787 AAAAAAAAAAACGCTTGCTAAGTTAAAAATCCTTAACAGGACAATTTAGGCAAAA
1 AAAAAAAAAAA-GCCTGCTAAGTTAAAAATCCTTAACAGGACAATTTAGGCAAAA
33418842 GTTAAGGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 11 0.22
55 39 0.78
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (54 bp):
AAAAAAAAAAAGCCTGCTAAGTTAAAAATCCTTAACAGGACAATTTAGGCAAAA
Found at i:33419266 original size:36 final size:35
Alignment explanation
Indices: 33419226--33419436 Score: 192
Period size: 36 Copynumber: 5.7 Consensus size: 35
33419216 ATTAAATTGT
*
33419226 GTGCTATTTTAAAGAGCA-CCTCCCAAGGATTAACAA
1 GTGCTATTATAAAGAGCACCCT-CCAAGGATTAA-AA
*
33419262 GTGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTGT
1 GTGCTATTATAAAGAGCACCCTCCAAGGAT--TAAA---A
** *
33419302 GTGCTAGAATAAAGAGCA-CCTCCCAAGGATCAATAA
1 GTGCTATTATAAAGAGCACCCT-CCAAGGATTAA-AA
* *
33419338 GTGCTATTATAAAGAGCACCCTCCGAGGATAATAAATTGT
1 GTGCTATTATAAAGAGCACCCTCCAAGGAT--TAAA---A
*
33419378 GTGCTATTATGAAGAGCACCCTCCAAGGATTAATAA
1 GTGCTATTATAAAGAGCACCCTCCAAGGATTAA-AA
*
33419414 GTGCTATGATAAAGAGCACCCTC
1 GTGCTATTATAAAGAGCACCCTC
33419437 GAGGAAAATA
Statistics
Matches: 144, Mismatches: 16, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
36 69 0.48
37 8 0.06
38 10 0.07
39 5 0.03
40 52 0.36
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (35 bp):
GTGCTATTATAAAGAGCACCCTCCAAGGATTAAAA
Found at i:33419317 original size:40 final size:39
Alignment explanation
Indices: 33419262--33419470 Score: 188
Period size: 40 Copynumber: 5.5 Consensus size: 39
33419252 GGATTAACAA
*
33419262 GTGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTG
1 GTGCTAGTATAAAGAGCACCCTCCAAGGATAATAAATTG
*
33419301 TGTGCTAGAATAAAGAGCA-CCTCCCAAGGATCAAT-AA---
1 -GTGCTAGTATAAAGAGCACCCT-CCAAGGAT-AATAAATTG
* *
33419338 GTGCTATTATAAAGAGCACCCTCCGAGGATAATAAATTG
1 GTGCTAGTATAAAGAGCACCCTCCAAGGATAATAAATTG
* *
33419377 TGTGCTATTATGAAGAGCACCCTCCAAGGATTAAT-AA---
1 -GTGCTAGTATAAAGAGCACCCTCCAAGGA-TAATAAATTG
* *
33419414 GTGCTA-TGATAAAGAGCACCCT-CGAGGAAAATAAATTG
1 GTGCTAGT-ATAAAGAGCACCCTCCAAGGATAATAAATTG
* *
33419452 CGTGCTATTATAAAAAGCA
1 -GTGCTAGTATAAAGAGCA
33419471 TCACTTTAAA
Statistics
Matches: 142, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
34 3 0.02
35 11 0.08
36 44 0.31
37 3 0.02
39 18 0.13
40 56 0.39
41 7 0.05
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (39 bp):
GTGCTAGTATAAAGAGCACCCTCCAAGGATAATAAATTG
Found at i:33419344 original size:76 final size:76
Alignment explanation
Indices: 33419218--33419470 Score: 384
Period size: 76 Copynumber: 3.3 Consensus size: 76
33419208 ATGGTGAAAT
* *
33419218 TAAATTGTGTGCTATTTTAAAGAGCACCTCCCAAGGATTAACAAGTGCTATTATAAAGAGCACCC
1 TAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATTAATAAGTGCTATTATAAAGAGCACCC
*
33419283 TCCAAGGATAA
66 TCCGAGGATAA
** *
33419294 TAAATTGTGTGCTAGAATAAAGAGCACCTCCCAAGGATCAATAAGTGCTATTATAAAGAGCACCC
1 TAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATTAATAAGTGCTATTATAAAGAGCACCC
33419359 TCCGAGGATAA
66 TCCGAGGATAA
* *
33419370 TAAATTGTGTGCTATTATGAAGAGCACC-CTCCAAGGATTAATAAGTGCTATGATAAAGAGCACC
1 TAAATTGTGTGCTATTATAAAGAGCACCTC-CCAAGGATTAATAAGTGCTATTATAAAGAGCACC
*
33419434 CT-CGAGGAAAA
65 CTCCGAGGATAA
* *
33419445 TAAATTGCGTGCTATTATAAAAAGCA
1 TAAATTGTGTGCTATTATAAAGAGCA
33419471 TCACTTTAAA
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
75 32 0.20
76 129 0.80
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (76 bp):
TAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATTAATAAGTGCTATTATAAAGAGCACCC
TCCGAGGATAA
Found at i:33420482 original size:61 final size:61
Alignment explanation
Indices: 33420387--33420503 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
33420377 TGTAATCCTA
* * *
33420387 ATTGCAATATACTTCTTTAAATAGTTTTATTGCAATATACCTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
* *
33420448 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATGTACATCTTCCAAGATTATA
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATA
33420504 ATTCTTTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (61 bp):
ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
Found at i:33420493 original size:28 final size:28
Alignment explanation
Indices: 33420387--33420493 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 28
33420377 TGTAATCCTA
*
33420387 ATTGCAATATACTTCTTTAAATAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
* **
33420415 ATTGCAATATACCTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTC-TTC--AA--ATAGTTTT
33420448 ATTGCAATATACTTCTTCAAATAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
* *
33420476 ATTGCAATGTACATCTTC
1 ATTGCAATATACTTCTTC
33420494 CAAGATTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 36 0.55
29 2 0.03
30 2 0.03
31 2 0.03
32 3 0.05
33 20 0.31
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (28 bp):
ATTGCAATATACTTCTTCAAATAGTTTT
Found at i:33420949 original size:82 final size:81
Alignment explanation
Indices: 33420851--33421137 Score: 468
Period size: 82 Copynumber: 3.5 Consensus size: 81
33420841 ATTTAAATTG
33420851 GACCAATCAAAAAATTAGTTATTGGTCATTTAATTTATCTCTAAATAAATCAAGATAATTTAGAG
1 GACCAATC-AAAAATTAGTTATTGGTCATTTAATTTATCTCTAAATAAATCAAGATAATTTAGAG
33420916 ATAATATTCATATTTTT
65 ATAATATTCATATTTTT
* * *
33420933 GACCAATCAAAAAATTAGTTATTGGTTATCTAATTTATCTCTAAATAAATCAAGATAATTTAAAG
1 GACCAATC-AAAAATTAGTTATTGGTCATTTAATTTATCTCTAAATAAATCAAGATAATTTAGAG
33420998 ATAATATTCATATTTTT
65 ATAATATTCATATTTTT
* *
33421015 GACCAATCAAAAATTAGTTATTGGTCATTCAATTTATCTCTAAATAAATCAAAATAATTTAGAGA
1 GACCAATCAAAAATTAGTTATTGGTCATTTAATTTATCTCTAAATAAATCAAGATAATTTAGAGA
*
33421080 TAATATTTATA-TTTT
66 TAATATTCATATTTTT
* * *
33421095 GACCAATCAAAATTTAATTATTGATCATTTAATTTATCTCTAA
1 GACCAATCAAAAATTAGTTATTGGTCATTTAATTTATCTCTAA
33421138 TAATTATATT
Statistics
Matches: 192, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 43 0.22
81 62 0.32
82 87 0.45
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (81 bp):
GACCAATCAAAAATTAGTTATTGGTCATTTAATTTATCTCTAAATAAATCAAGATAATTTAGAGA
TAATATTCATATTTTT
Found at i:33421428 original size:18 final size:18
Alignment explanation
Indices: 33421405--33421470 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
33421395 ATTTTCATTC
33421405 ATTCAGAAGCATTTGAAG
1 ATTCAGAAGCATTTGAAG
* *
33421423 ATTCAGAGGCATTCGAAG
1 ATTCAGAAGCATTTGAAG
* *
33421441 ATT-GGGAGCATTTGAAG
1 ATTCAGAAGCATTTGAAG
*
33421458 ATTGAGAA-CATTT
1 ATTCAGAAGCATTT
33421471 CAGAGATCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
17 18 0.46
18 21 0.54
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.29
Consensus pattern (18 bp):
ATTCAGAAGCATTTGAAG
Found at i:33421457 original size:17 final size:17
Alignment explanation
Indices: 33421412--33421470 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
33421402 TTCATTCAGA
*
33421412 AGCATTTGAAGATTCAG
1 AGCATTTGAAGATTGAG
* *
33421429 AGGCATTCGAAGATTGGG
1 A-GCATTTGAAGATTGAG
33421447 AGCATTTGAAGATTGAG
1 AGCATTTGAAGATTGAG
*
33421464 AACATTT
1 AGCATTT
33421471 CAGAGATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (17 bp):
AGCATTTGAAGATTGAG
Found at i:33421542 original size:26 final size:23
Alignment explanation
Indices: 33421507--33421559 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
33421497 TTGAAGTGAA
**
33421507 GATCAAGCAACAACGAAGTTCGT
1 GATCAAGCGGCAACGAAGTTCGT
*
33421530 GATCAAGCGGCAACGAAGTTTGT
1 GATCAAGCGGCAACGAAGTTCGT
33421553 GATCAAG
1 GATCAAG
33421560 ATATTGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (23 bp):
GATCAAGCGGCAACGAAGTTCGT
Found at i:33421629 original size:49 final size:49
Alignment explanation
Indices: 33421565--33421827 Score: 362
Period size: 49 Copynumber: 5.5 Consensus size: 49
33421555 TCAAGATATT
*
33421565 GTGTTCGTGATCAAGATTAAGTCGTGAA-AGCCCTTGAAGCGAAGATCAA
1 GTGTTCGTGATCAAGACTAAGTCGTGAAGA-CCCTTGAAGCGAAGATCAA
* *
33421614 GTGTTTGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG----A
1 GTGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
*
33421659 ---TTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAA
1 GTGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
*
33421705 GTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
1 GTGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
* **
33421754 GTGTTCGTGATCAAAACTAAGTCGTGAAGACCCTTGACTCGAAGATCAA
1 GTGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
*
33421803 GCACGTTCGTGATCAAGACTAAGTC
1 G--TGTTCGTGATCAAGACTAAGTC
33421828 CAAGTTTGCG
Statistics
Matches: 192, Mismatches: 12, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
42 38 0.20
45 1 0.01
46 1 0.01
49 131 0.68
50 1 0.01
51 20 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
GTGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAA
Found at i:33421723 original size:91 final size:93
Alignment explanation
Indices: 33421567--33421827 Score: 366
Period size: 91 Copynumber: 2.8 Consensus size: 93
33421557 AAGATATTGT
* * *
33421567 GTTCGTGATCAAGATTAAGTCGTGAA-AGCCCTTGAAGCGAAGATCAAGTGTTTGTGATCAAGAT
1 GTTCGTGATCAAGACTAAGTCGTGAAGA-CCCTTGACGCGAAGATCAAGTGTTCGTGATCAAGAT
33421631 TAAGTCGTGAAGACCCTTGAAGCGAAG-A
65 TAAGTCGTGAAGACCCTTGAAGCGAAGAA
33421659 -TTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGTGTTCGTGATCAAGATT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGTGTTCGTGATCAAGATT
33421723 AAGTCGTGAAGACCCTTGAAGCGAAGATCAA
66 AAGTCGTGAAGACCCTTGAAGCGAAG---AA
* * *
33421754 GTGTTCGTGATCAAAACTAAGTCGTGAAGACCCTTGACTCGAAGATCAAGCACGTTCGTGATCAA
1 --GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAG--TGTTCGTGATCAA
*
33421819 GACTAAGTC
62 GATTAAGTC
33421828 CAAGTTTGCG
Statistics
Matches: 152, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
91 85 0.56
92 1 0.01
95 1 0.01
98 45 0.30
100 20 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (93 bp):
GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGTGTTCGTGATCAAGATT
AAGTCGTGAAGACCCTTGAAGCGAAGAA
Found at i:33421970 original size:2 final size:2
Alignment explanation
Indices: 33421965--33422009 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
33421955 TTGTGTGTAC
33421965 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
33422008 AT
1 AT
33422010 GCATCATATG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33423961 original size:23 final size:23
Alignment explanation
Indices: 33423930--33423977 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
33423920 GTGTATGTCA
33423930 AGAGATATTCATGGATTGGATCG
1 AGAGATATTCATGGATTGGATCG
* * *
33423953 AGAGGTATTGATGGGTTGGATCG
1 AGAGATATTCATGGATTGGATCG
33423976 AG
1 AG
33423978 CCTGTGGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.38, T:0.29
Consensus pattern (23 bp):
AGAGATATTCATGGATTGGATCG
Found at i:33428315 original size:53 final size:54
Alignment explanation
Indices: 33428258--33428368 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 54
33428248 AAAAACCATG
* * * **
33428258 AATGTCCATTCCTTGAAGTGAATGTGACAAACAAGCTACTAAT-AAAAATTATA
1 AATGTCCATTCCCTAAAGTAAATGCAACAAACAAGCTACTAATAAAAAATTATA
* * **
33428311 AATGTTCATTCCCTAAAGTAAATGCAATAAACGGGCTACTAATAAAAAAATTATA
1 AATGTCCATTCCCTAAAGTAAATGCAACAAACAAGCTACTAAT-AAAAAATTATA
33428366 AAT
1 AAT
33428369 CTATCTATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 34 0.72
55 13 0.28
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (54 bp):
AATGTCCATTCCCTAAAGTAAATGCAACAAACAAGCTACTAATAAAAAATTATA
Found at i:33428537 original size:26 final size:25
Alignment explanation
Indices: 33428505--33428593 Score: 74
Period size: 26 Copynumber: 3.5 Consensus size: 25
33428495 TATTTTAATT
33428505 ATAATTTTACCACAAGAAATGGATGA
1 ATAATTTTACCAC-AGAAATGGATGA
* * ** *
33428531 ATAATTTTATCATCTG-AATTTAAGA
1 ATAATTTTACCA-CAGAAATGGATGA
*
33428556 ATAATTTTACCACTAGAAGTGGAT-A
1 ATAATTTTACCAC-AGAAATGGATGA
33428581 GATAATTTTACCA
1 -ATAATTTTACCA
33428594 TCAAAAGTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
24 1 0.02
25 19 0.40
26 27 0.56
27 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (25 bp):
ATAATTTTACCACAGAAATGGATGA
Found at i:33432696 original size:37 final size:37
Alignment explanation
Indices: 33432646--33432721 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
33432636 AACATTTGAA
33432646 AAGTTGAAATGCATCATTTTAAAGATCTCTATAATGC
1 AAGTTGAAATGCATCATTTTAAAGATCTCTATAATGC
*
33432683 AAGTTGGAATGCATCATTTTAAAGATCTCTATAATGC
1 AAGTTGAAATGCATCATTTTAAAGATCTCTATAATGC
33432720 AA
1 AA
33432722 TCATCAGGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (37 bp):
AAGTTGAAATGCATCATTTTAAAGATCTCTATAATGC
Found at i:33439143 original size:38 final size:36
Alignment explanation
Indices: 33439087--33439158 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
33439077 CCATGCTCGT
*
33439087 GTGTGGGCATAACAATCCACACT-TACATACTCATAA
1 GTGTAGGCATAACAATCCAC-CTCTACATACTCATAA
*
33439123 GTGTAGGCATCAACATATCCACGTCTACATACTCAT
1 GTGTAGGCAT-AACA-ATCCACCTCTACATACTCAT
33439159 TGTATGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.29
37 5 0.16
38 17 0.55
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (36 bp):
GTGTAGGCATAACAATCCACCTCTACATACTCATAA
Found at i:33463527 original size:36 final size:36
Alignment explanation
Indices: 33463480--33463564 Score: 170
Period size: 36 Copynumber: 2.4 Consensus size: 36
33463470 TATCGGCATG
33463480 TGCACTCCCACACAGCACACCATTGACACCGTCACA
1 TGCACTCCCACACAGCACACCATTGACACCGTCACA
33463516 TGCACTCCCACACAGCACACCATTGACACCGTCACA
1 TGCACTCCCACACAGCACACCATTGACACCGTCACA
33463552 TGCACTCCCACAC
1 TGCACTCCCACAC
33463565 CACATGTGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (36 bp):
TGCACTCCCACACAGCACACCATTGACACCGTCACA
Found at i:33465653 original size:2 final size:2
Alignment explanation
Indices: 33465558--33465645 Score: 108
Period size: 2 Copynumber: 43.5 Consensus size: 2
33465548 TTAGTAGGTG
*
33465558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TNG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
**
33465601 T- TA GT- TA GG TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33465643 TA T
1 TA T
33465646 GAATATATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.03
2 70 0.92
3 4 0.05
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33465735 original size:37 final size:38
Alignment explanation
Indices: 33465680--33465801 Score: 169
Period size: 37 Copynumber: 3.3 Consensus size: 38
33465670 TAATGTTGTG
* *
33465680 TGATGATG-TTGAACTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
*
33465717 TGATGATGATAG-AGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
33465754 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCATAAA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
33465791 TGATGATGATA
1 TGATGATGATA
33465802 TTGCATTGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.03
37 69 0.93
38 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.25
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:33488082 original size:82 final size:80
Alignment explanation
Indices: 33487950--33488115 Score: 305
Period size: 82 Copynumber: 2.0 Consensus size: 80
33487940 ATTTAATGAG
33487950 AAGGTCAGTTATGTTGCAATAATATGCATCAATGTGGACATTGAAAAAAAAAAATATCACTTGAA
1 AAGGTCAGTTATGTTGCAATAATATGCATCAATGTGGACATTG-AAAAAAAAAA-ATCACTTGAA
33488015 TAGGAAAGAAGGAAAAC
64 TAGGAAAGAAGGAAAAC
*
33488032 AAGGTGAGTTATGTTGCAATAATATGCATCAATGTGGACATTGAAAAAAAAAAATCACTTGAATA
1 AAGGTCAGTTATGTTGCAATAATATGCATCAATGTGGACATTGAAAAAAAAAAATCACTTGAATA
33488097 GGAAAGAAGGAAAAC
66 GGAAAGAAGGAAAAC
33488112 AAGG
1 AAGG
33488116 CAGATATTTG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
80 31 0.37
81 10 0.12
82 42 0.51
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (80 bp):
AAGGTCAGTTATGTTGCAATAATATGCATCAATGTGGACATTGAAAAAAAAAAATCACTTGAATA
GGAAAGAAGGAAAAC
Found at i:33488594 original size:3 final size:3
Alignment explanation
Indices: 33488584--33488616 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
33488574 TCTCTTCTTT
*
33488584 ATA A-A ATA ATA ATA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33488617 ACGAAGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:33492425 original size:2 final size:2
Alignment explanation
Indices: 33492418--33492456 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
33492408 AGGTACTGCT
33492418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33492457 TAAACTAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33500818 original size:2 final size:2
Alignment explanation
Indices: 33500811--33500844 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33500801 TTCCTTGCCG
33500811 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
33500845 CATGAGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.