Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 47 of 187
Found at i:13842870 original size:19 final size:18
Alignment explanation
Indices: 13842840--13842887 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
13842830 GATTTACATC
*
13842840 TCATTTCATCATTTCGTATT
1 TCATTTC-TCATCTCGTA-T
13842860 TCATTTCTCATCTCGTAT
1 TCATTTCTCATCTCGTAT
13842878 TCATTTCTCA
1 TCATTTCTCA
13842888 ACTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATCTCGTAT
Found at i:13860070 original size:20 final size:20
Alignment explanation
Indices: 13860045--13860090 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13860035 TAGTAAAGCT
*
13860045 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
13860065 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
13860085 TAACAA
1 TAACAA
13860091 AATATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:13860096 original size:20 final size:20
Alignment explanation
Indices: 13860053--13860096 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
13860043 CTTAACAACC
* **
13860053 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
13860073 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
13860093 TATT
1 TATT
13860097 AATAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:13864523 original size:20 final size:20
Alignment explanation
Indices: 13864498--13864536 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13864488 TAGTAAAGCT
13864498 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAG
*
13864518 TAACAACCTATTTGAATAA
1 TAACAACCTATTTAAATAA
13864537 AAAACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAG
Found at i:13864542 original size:20 final size:20
Alignment explanation
Indices: 13864499--13864543 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13864489 AGTAAAGCTT
**
13864499 AACAACCTATTTAAATAAGT
1 AACAACCTATTTAAATAAAA
*
13864519 AACAACCTATTTGAATAAAA
1 AACAACCTATTTAAATAAAA
13864539 AACAA
1 AACAA
13864544 AATGTTAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (20 bp):
AACAACCTATTTAAATAAAA
Found at i:13875698 original size:16 final size:15
Alignment explanation
Indices: 13875678--13875724 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
13875668 TATAATAATT
*
13875678 TTAAATTATATAAAA
1 TTAAAATATATAAAA
*
13875693 TATAAAATATATATAA
1 T-TAAAATATATAAAA
13875709 TTAAAAATATATAAAA
1 TT-AAAATATATAAAA
13875725 AGGCTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAATATATAAAA
Found at i:13880553 original size:28 final size:28
Alignment explanation
Indices: 13880522--13880581 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
13880512 TCAACGGACT
13880522 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
1 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
13880550 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
1 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
13880578 TTCC
1 TTCC
13880582 TCTTCTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (28 bp):
TTCCGTTAAAGGTAGTCCTAGGCAGAAC
Found at i:13899765 original size:21 final size:21
Alignment explanation
Indices: 13899741--13899783 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13899731 TCATTCACAA
*
13899741 CTTCAAC-ACGAACGTCTTCCT
1 CTTCAACAAC-AACGTCCTCCT
*
13899762 CTTCCACAACAACGTCCTCCT
1 CTTCAACAACAACGTCCTCCT
13899783 C
1 C
13899784 AACAGCAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.44, G:0.07, T:0.26
Consensus pattern (21 bp):
CTTCAACAACAACGTCCTCCT
Found at i:13901546 original size:5 final size:5
Alignment explanation
Indices: 13901522--13901583 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
13901512 TTATTCTGCA
* * * *
13901522 AAAAT AAAA- ATAAAT AAAAAT AAAAC AAACTT GAAAC AAAAT AAAAT
1 AAAAT AAAAT A-AAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT
13901569 AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT
13901584 TACATAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
4 1 0.02
5 37 0.82
6 6 0.13
7 1 0.02
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:13901590 original size:15 final size:15
Alignment explanation
Indices: 13901522--13901583 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
13901512 TTATTCTGCA
13901522 AAAATAAAA-ATAAAT
1 AAAATAAAATA-AAAT
* *
13901537 AAAAATAAAACAAACTT
1 -AAAATAAAATAAA-AT
* *
13901554 GAAACAAAATAAAAT
1 AAAATAAAATAAAAT
13901569 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
13901584 TACATAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.38
16 21 0.57
17 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:13911550 original size:12 final size:12
Alignment explanation
Indices: 13911533--13911563 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13911523 ACATTGAGGG
13911533 TAATGTGTAATT
1 TAATGTGTAATT
13911545 TAATGTGTAATT
1 TAATGTGTAATT
13911557 TAA-GTGT
1 TAATGTGT
13911564 GGGAAGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TAATGTGTAATT
Found at i:13914843 original size:16 final size:15
Alignment explanation
Indices: 13914824--13914853 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13914814 CTAAAATGTA
13914824 TAAATAAAATTAAATG
1 TAAATAAAA-TAAATG
13914840 TAAATAAAATAAAT
1 TAAATAAAATAAAT
13914854 TTTAAGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAATAAAATAAATG
Found at i:13916707 original size:50 final size:50
Alignment explanation
Indices: 13916630--13916761 Score: 117
Period size: 50 Copynumber: 2.6 Consensus size: 50
13916620 TCATCTTGCT
* * *
13916630 CCACTGCAACTT-TAGGGAGATAAGATTTGGTA-TAATAAATTCAATCCAAC
1 CCACTGCAACTTCAAGGG-TATATGATTT-GTAGTAATAAATTCAATCCAAC
** ** *
13916680 CCACTAG-AACTTCAAGGGTATATGATTTGTAGTTGTAGCTTCATTCCAAC
1 CCACT-GCAACTTCAAGGGTATATGATTTGTAGTAATAAATTCAATCCAAC
* * *
13916730 TCACTGCAACTTCAAGGGTATAGGAATTGTAG
1 CCACTGCAACTTCAAGGGTATATGATTTGTAG
13916762 CTTCATCTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.06
50 58 0.87
51 5 0.07
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (50 bp):
CCACTGCAACTTCAAGGGTATATGATTTGTAGTAATAAATTCAATCCAAC
Found at i:13916806 original size:188 final size:189
Alignment explanation
Indices: 13916498--13916846 Score: 449
Period size: 188 Copynumber: 1.9 Consensus size: 189
13916488 GCTCCATTGC
* ** *
13916498 AACTTCAAGGTGATAAGATTTGTTGTTGTAGCTTCATTGTAACCCACTACAACCTTAGGGGGTAT
1 AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
* * * *
13916563 AGGAATTGTAGTTTCAATCCAATCCACTGCAACTTCAGATATATAGGAGTTGTAGCTTC-ATCT-
66 AGGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
* *
13916626 TGCTCCACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
131 T--TCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
* * *
13916687 AACTTCAAGG-GTATATGATTTGTAGTTGTAGCTTCATTCCAACTCACTGCAA-CTTCA-AGGGT
1 AACTTCAAGGTG-ATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTT-AGAGGGT
*** * *
13916749 ATAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
64 ATAGGAATTGTAGCTTCAATC-CAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAAT
13916813 CTATTCCACTGCAACTTCAAGGAGATAAGATTTG
128 CTATTCCACTGCAACTTCAAGGAGATAAGATTTG
13916847 CTATGGTAGA
Statistics
Matches: 137, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
187 3 0.02
188 84 0.61
189 49 0.36
190 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (189 bp):
AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
AGGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
TTCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
Found at i:13916898 original size:138 final size:139
Alignment explanation
Indices: 13916570--13917224 Score: 593
Period size: 138 Copynumber: 4.7 Consensus size: 139
13916560 TATAGGAATT
* * ** * *
13916570 GTAGTTTCAATCCAATCCACTGCAACTTC-AGATATATAGGAGTTGTAGCTTC-ATCTTGCTCCA
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAG-GGTATAGGAATTGTAGCTTCAATCTTGATCCA
* ** * **
13916633 CTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG-AACTTCAAGG
65 CTGCAACTTCAGGGAGATAAGATTT-G-----TAGCTTCAATCTATTCCACT-GCAACTTCAAGG
* * *
13916697 -GTATATGATTTG-TAGTT
123 AG-ATAAGATTTGCCA-TA
* * *
13916714 GTAGCTTCATTCCAACTCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCAC
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
13916778 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
66 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
* *
13916843 TTTGCTATG
131 TTTGCCATA
* ** *** * * * *
13916852 GTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCAAT-TTGTTCCA
1 GTAGTTTC-ATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCA
* **
13916915 CTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGAGAGATAA
65 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAG-GAGATAA
*
13916979 GATTCGCCATA
129 GATTTGCCATA
*
13916990 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATA-GAGATTGTAGCTTCAATC-TGATCCA
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGA-ATTGTAGCTTCAATCTTGATCCA
* * * * * * * *
13917053 CTGCAACTTCATGGATATAGGATTCGTCA-CTTC-ATCT-TTCCCCACTGTAACTTTAGGGAGAC
65 CTGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTATT--CCACTGCAACTTCAAGGAGAT
* *
13917115 AAGATTTTCCATC
127 AAGATTTGCCATA
* * * *
13917128 GTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC-TGATCCAC
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
* * *
13917192 TGCAACTTCAGGGATATAGGATTTGAAGCTTCA
66 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCA
13917225 TTTTGCTCTA
Statistics
Matches: 432, Mismatches: 62, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
136 1 0.00
137 13 0.03
138 327 0.76
139 11 0.03
143 1 0.00
144 77 0.18
145 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (139 bp):
GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
TTTGCCATA
Found at i:13917042 original size:276 final size:275
Alignment explanation
Indices: 13916714--13917254 Score: 660
Period size: 276 Copynumber: 2.0 Consensus size: 275
13916704 ATTTGTAGTT
* * *
13916714 GTAGCTTCATTCCAACTCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCAC
1 GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGAATTGTAGCTTCAATC-TGATCCAC
* *
13916778 TGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTATT-CCACTGCAACTTCAAGGAGATAA
65 TGCAACTTCAGGGAGATAAGATTCGTCA-CTTC-ATCT-TTCCCACTGCAACTTCAAGGAGACAA
* * ** ** * * * **
13916841 GATTTGCTATGGTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCA
127 GATTTGCCATCGTAGATTC-ATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCA
* * *
13916905 ATTTGTTCCACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTCA
191 ATCTGATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCA
13916970 GAGAGATAAGATTCGCCATA
256 GAGAGATAAGATTCGCCATA
*
13916990 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATA-GAGATTGTAGCTTCAATCTGATCCAC
1 GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGA-ATTGTAGCTTCAATCTGATCCAC
* * * * * *
13917054 TGCAACTTCATGGATATAGGATTCGTCACTTCATCTTTCCCCACTGTAACTTTAGGGAGACAAGA
65 TGCAACTTCAGGGAGATAAGATTCGTCACTTCATCTTT-CCCACTGCAACTTCAAGGAGACAAGA
* *
13917119 TTTTCCATCGTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC
129 TTTGCCATCGTAGATTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC
* * * * * * * *
13917184 TGATCCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAG
194 TGATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCAGAG
13917249 AGATAA
259 AGATAA
13917255 AATTTGCAGT
Statistics
Matches: 223, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
274 2 0.01
275 9 0.04
276 208 0.93
277 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (275 bp):
GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTGATCCACT
GCAACTTCAGGGAGATAAGATTCGTCACTTCATCTTTCCCACTGCAACTTCAAGGAGACAAGATT
TGCCATCGTAGATTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTG
ATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCAGAGAG
ATAAGATTCGCCATA
Found at i:13917200 original size:182 final size:182
Alignment explanation
Indices: 13917006--13917441 Score: 522
Period size: 182 Copynumber: 2.4 Consensus size: 182
13916996 TCATTCCAAC
* *
13917006 CCACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATCTGATCCACTGCAACTTCATG-GA
1 CCACTGCAACTTC-AGGGATATAG-GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCA-GAGA
* ** * * * * *
13917068 TATAGGATTCGTCA-CTTCATCTTTCCCCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAG
63 GATAAAATTCG-CAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAG
* * *
13917132 TTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTGAT
127 TTTCATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
* * * * * *
13917188 CCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * * * *
13917253 AAAATTTGCAGTTTCATCTTGCTCCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTC
66 AAAATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTC
* * * *
13917318 ATTCCAACCCACTGTAACTTCAAGGGTATGGAAATTATTGCTTCAATCTGAT
131 ATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
*
13917370 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGAAAGA
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGAGAGA
*
13917434 TAAGATTC
65 TAAAATTC
13917442 ATTATGGTGA
Statistics
Matches: 212, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
181 10 0.05
182 202 0.95
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (182 bp):
CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAAATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTC
ATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
Found at i:13917215 original size:94 final size:94
Alignment explanation
Indices: 13917094--13917397 Score: 259
Period size: 94 Copynumber: 3.3 Consensus size: 94
13917084 TCATCTTTCC
* * * *
13917094 CCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGCAACTTCAG
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
*
13917159 GGGTATAGAAAGTGTAGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* * * * *** *
13917188 CCACTGCAACTTCAGGGATATAGGA--TT---T-GAAGCTTCATT-TTGCTCTACTGTAACTTTA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAAC-CTACTGTAACTTCA
* * * *
13917246 GAGAG-ATA-AAATTTGCAGTTTC-ATCTTGCT
65 G-GGGTATAGAAA-TTGTAGCTTCAATC-TGAT
* * * * *
13917276 CCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAACCCACTGTAACTTCAA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
* * *
13917341 GGGTATGGAAATTATTGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* *
13917370 CCACTGCAACTTCAGGGATATAGGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
13917398 GTAGCTTCAT
Statistics
Matches: 156, Mismatches: 40, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
87 7 0.04
88 57 0.37
89 3 0.02
90 1 0.01
92 2 0.01
93 2 0.01
94 77 0.49
95 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
GGGTATAGAAATTGTAGCTTCAATCTGAT
Found at i:13917428 original size:44 final size:44
Alignment explanation
Indices: 13916731--13917428 Score: 300
Period size: 44 Copynumber: 15.3 Consensus size: 44
13916721 CATTCCAACT
*
13916731 CACTGCAACTTCAAGGG-TATAGGAATTGTAGCTTCATCTTGCTC
1 CACTGCAACTTC-AGGGATATAGGATTTGTAGCTTCATCTTGCTC
* *
13916775 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTAT--TC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCT-TGCTC
* * * * * *
13916819 CACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAAT-TTGATT
1 CACTGCAACTTCAGGGATATAGGA--T--T-T-GTAGCTTC-ATCTTGCTC
* * *
13916869 TACTGCAACTTTATGGG-TATAGGATTTGTAGCTTCAAT-TTGTTC
1 CACTGCAACTTCA-GGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* * *
13916913 CACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATC-TGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* * * * ***
13916957 CACTGCAACTTCAGAGAGATAAGATTCGCCATAGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGATATAGGATT-----T-GTAGCTTCA-TCTTGCTC
* *
13917007 CACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATC-TGATC
1 CACTGCAACTTC-AGGGATATAG-GATTTGTAGCTTC-ATCTTGCTC
* * * *
13917051 CACTGCAACTTCATGGATATAGGATTCGTCA-CTTCATCTTTCCC
1 CACTGCAACTTCAGGGATATAGGATTTGT-AGCTTCATCTTGCTC
* * * * * * * *
13917095 CACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCA--TTCCAAC
1 CACTGCAACTTCAGGGATATAGGA--TT---T-GTAGCTTCATCTTGC-TC
* * ** *
13917144 CTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC-TGATC
1 C-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* *
13917189 CACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
* * * * * ** * *
13917233 TACTGTAACTTTAGAGAGATAAAATTTGCAGTTTCATCTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
** * * ***
13917277 CACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGATATAGGATTT------GTAGCTTCA-TCTTGCTC
* * * * *
13917327 CACTGTAACTTCAAGGG-TAT-GGAAATTATTGCTTCAATC-TGATC
1 CACTGCAACTTC-AGGGATATAGG-ATTTGTAGCTTC-ATCTTGCTC
13917371 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
13917415 CACTGCAACTTCAG
1 CACTGCAACTTCAG
13917429 AAAGATAAGA
Statistics
Matches: 493, Mismatches: 104, Indels: 114
0.69 0.15 0.16
Matches are distributed among these distances:
43 24 0.05
44 320 0.65
45 15 0.03
46 6 0.01
48 6 0.01
49 8 0.02
50 99 0.20
51 15 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
Found at i:13920820 original size:43 final size:43
Alignment explanation
Indices: 13920759--13920847 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
13920749 ATCCTAGCAG
* *
13920759 TTTTCCCTACGTGGCCCCGAAGGTACATTTTGCTGGATTCAGC
1 TTTTCCCTACATGGCCCCGAAGGTACATTTTGCTGGATTCAAC
* *
13920802 TTTTCCCTACATGTCCCCGAAGGTACATTTTGTTGGATTCAAC
1 TTTTCCCTACATGGCCCCGAAGGTACATTTTGCTGGATTCAAC
13920845 TTT
1 TTT
13920848 AGCTGGAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (43 bp):
TTTTCCCTACATGGCCCCGAAGGTACATTTTGCTGGATTCAAC
Found at i:13929135 original size:21 final size:19
Alignment explanation
Indices: 13929093--13929137 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
13929083 TAACTATAAT
*
13929093 AAAATAAAATAACTACATA
1 AAAATAAAAAAACTACATA
*
13929112 AAAATAAATAAAACATAGATA
1 AAAATAAA-AAAAC-TACATA
13929133 AAAAT
1 AAAAT
13929138 TTGAAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAAACTACATA
Found at i:13934823 original size:21 final size:21
Alignment explanation
Indices: 13934797--13934838 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13934787 AACATCAAAT
13934797 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
13934818 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
13934839 AAGCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TAAACATAAAATCATGTACTA
Found at i:13935268 original size:22 final size:22
Alignment explanation
Indices: 13935243--13935285 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13935233 TTTAACACAT
*
13935243 AAACATTCAATTATATTGGCAC
1 AAACAATCAATTATATTGGCAC
13935265 AAACAATCAATTATATTGGCA
1 AAACAATCAATTATATTGGCA
13935286 TAATACATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
AAACAATCAATTATATTGGCAC
Found at i:13937884 original size:17 final size:19
Alignment explanation
Indices: 13937837--13937886 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
13937827 AAAAGAATAG
*
13937837 AAAAGAAATAAAAAGAGAT
1 AAAAGAATTAAAAAGAGAT
*
13937856 -AAATAATGTAAAAA-A-AT
1 AAAAGAAT-TAAAAAGAGAT
13937873 AAAAGAATTAAAAA
1 AAAAGAATTAAAAA
13937887 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (19 bp):
AAAAGAATTAAAAAGAGAT
Found at i:13941920 original size:33 final size:34
Alignment explanation
Indices: 13941868--13941935 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
13941858 TAAACTAATT
*
13941868 TTTATTTTTAATTTAATTTAATACTTAATGTATA
1 TTTATTTTTAATTTAATTTAATACTTAATATATA
* * *
13941902 TTTA-TTTTATTTTTATTTAATGCTTAATATATA
1 TTTATTTTTAATTTAATTTAATACTTAATATATA
13941935 T
1 T
13941936 GCATTATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (34 bp):
TTTATTTTTAATTTAATTTAATACTTAATATATA
Found at i:13945833 original size:3 final size:3
Alignment explanation
Indices: 13945827--13945861 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13945817 AAAAGAAAAA
13945827 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
13945862 TGGAAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13952977 original size:103 final size:104
Alignment explanation
Indices: 13952798--13953062 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
13952788 AACCGTTATT
* * * *
13952798 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
13952863 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
13952901 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
13952965 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
13953005 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
13953063 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:13953424 original size:30 final size:29
Alignment explanation
Indices: 13953390--13953454 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13953380 TAATCCACCA
13953390 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
13953420 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
13953450 CCCAA
1 CCCAA
13953455 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:13953428 original size:31 final size:30
Alignment explanation
Indices: 13953397--13953454 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13953387 CCACCCAACT
13953397 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
13953427 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
13953455 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:13960470 original size:103 final size:104
Alignment explanation
Indices: 13960291--13960555 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
13960281 AACCGTTATT
* * * *
13960291 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
13960356 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
13960394 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
13960458 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
13960498 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
13960556 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:13960917 original size:30 final size:29
Alignment explanation
Indices: 13960883--13960947 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13960873 TAATCCACCA
13960883 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
13960913 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
13960943 CCCAA
1 CCCAA
13960948 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:13960921 original size:31 final size:30
Alignment explanation
Indices: 13960890--13960947 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13960880 CCACCCAACT
13960890 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
13960920 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
13960948 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:13964541 original size:12 final size:15
Alignment explanation
Indices: 13964511--13964544 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
13964501 GCTTCTCACC
13964511 TATTAATTACAATAT
1 TATTAATTACAATAT
13964526 TATTAATTACAATAT
1 TATTAATTACAATAT
13964541 TATT
1 TATT
13964545 TAGTCACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTACAATAT
Found at i:13966043 original size:12 final size:12
Alignment explanation
Indices: 13966026--13966050 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13966016 CAGAGGCTAT
13966026 TAACAATATTTA
1 TAACAATATTTA
13966038 TAACAATATTTA
1 TAACAATATTTA
13966050 T
1 T
13966051 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:13973275 original size:45 final size:45
Alignment explanation
Indices: 13973219--13973313 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
13973209 TACTATGTGA
* *
13973219 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
13973264 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
13973309 ACCGA
1 ACCGA
13973314 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:13999142 original size:13 final size:13
Alignment explanation
Indices: 13999124--13999153 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13999114 GGATTGGAAC
13999124 AAGCAACAACAAG
1 AAGCAACAACAAG
*
13999137 AAGCAACAATAAG
1 AAGCAACAACAAG
13999150 AAGC
1 AAGC
13999154 GATGGTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (13 bp):
AAGCAACAACAAG
Found at i:14003641 original size:19 final size:18
Alignment explanation
Indices: 14003595--14003643 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14003585 GATAGAATTT
*
14003595 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
14003614 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
14003632 TTGTATTAAAAT
1 TTGTA-TAAAAT
14003644 TTTGGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:14003771 original size:19 final size:18
Alignment explanation
Indices: 14003725--14003773 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14003715 GATAGAATTT
*
14003725 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
14003744 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
14003762 TTGTATTAAAAT
1 TTGTA-TAAAAT
14003774 TTTGGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:14003901 original size:19 final size:18
Alignment explanation
Indices: 14003855--14003903 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14003845 GATAGAATTT
*
14003855 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
14003874 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
14003892 TTGTATTAAAAT
1 TTGTA-TAAAAT
14003904 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:14003954 original size:130 final size:130
Alignment explanation
Indices: 14003520--14003907 Score: 753
Period size: 130 Copynumber: 3.0 Consensus size: 130
14003510 ATTTAAGTTT
*
14003520 GGGGTTTGGAAACAC--AGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
1 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
14003583 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
66 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
14003648 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
1 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
14003713 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
66 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
14003778 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
1 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
14003843 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
66 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
14003908 AACATGTTAA
Statistics
Matches: 257, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
128 14 0.05
130 243 0.95
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (130 bp):
GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
Found at i:14004536 original size:14 final size:14
Alignment explanation
Indices: 14004513--14004542 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14004503 CATCCCTCAT
*
14004513 TCACATCTCTTCTC
1 TCACAACTCTTCTC
14004527 TCACAACTCTTCTC
1 TCACAACTCTTCTC
14004541 TC
1 TC
14004543 CTCTCTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:14005341 original size:137 final size:138
Alignment explanation
Indices: 14005094--14005366 Score: 327
Period size: 137 Copynumber: 2.0 Consensus size: 138
14005084 CTGTAAAATA
* * * *
14005094 GGTCTACTCACACAAGCTATCGGTCGGAACGTAAGCTACACGATGCTACTTACACAAGCTATCGA
1 GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
** * * ** *
14005159 GTATCCGCAACTAATGTCGAACCTCATCCACTTGTAGGACATTCAAGACCAGTACCCA-AAACAT
66 GTATCCGCAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCA-CCAGAAACAT
*
14005223 GGTAACCTT
130 CGTAACCTT
* * * * *
14005232 GGTCTACTCATACAAGCTATCAGTCGAAACGT-AGCTACACGGTGTTACTCACATAAGCTGTCAA
1 GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
* * *
14005296 GTATCTGCAAC-ACATACCGAAACTTAGCCACCGGTAGGACATTCAAGACTAGCACCAGAAACAT
66 GTATCCGCAACTA-ATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACAT
14005360 CGTAACC
130 CGTAACC
14005367 CTAATGACAT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
136 4 0.04
137 80 0.71
138 29 0.26
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (138 bp):
GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
GTATCCGCAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACATC
GTAACCTT
Found at i:14012714 original size:25 final size:27
Alignment explanation
Indices: 14012666--14012722 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
14012656 TAGCTCGTTA
*
14012666 AAAATTGTCAAAAATTTTACT-GGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
*
14012692 AAAATCGTC-AAAATTTTATTGGGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
14012718 AAAAT
1 AAAAT
14012723 ATAGATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (27 bp):
AAAATCGTCAAAAATTTTACTGGGGGT
Found at i:14019079 original size:31 final size:31
Alignment explanation
Indices: 14019013--14019079 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
14019003 ATTTTTTTAT
* *
14019013 TTAATTGTGATATATTAACTAATGTAATAAT
1 TTAATTGGGATATATTAACTAATGTAATAAC
* * **
14019044 TTAATTGGGATGTATTAACTATTGTGGTAAC
1 TTAATTGGGATATATTAACTAATGTAATAAC
14019075 TTAAT
1 TTAAT
14019080 ATGGTCAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (31 bp):
TTAATTGGGATATATTAACTAATGTAATAAC
Found at i:14023025 original size:13 final size:13
Alignment explanation
Indices: 14023007--14023031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14022997 TTATGAAAAT
14023007 TTAAAAATTTTGC
1 TTAAAAATTTTGC
14023020 TTAAAAATTTTG
1 TTAAAAATTTTG
14023032 AAGGAATTAA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTAAAAATTTTGC
Found at i:14027436 original size:42 final size:42
Alignment explanation
Indices: 14027377--14027464 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
14027367 GATCAACCGA
14027377 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
1 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
* **
14027419 AGAAGTATTGGACTGAGATTGCACCAAATCAATATCTGGTGG
1 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
14027461 AGAA
1 AGAA
14027465 CCTAGTAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (42 bp):
AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
Found at i:14029414 original size:18 final size:18
Alignment explanation
Indices: 14029391--14029427 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14029381 TGACCATCAG
14029391 CTGCATAGTAACCTTGAC
1 CTGCATAGTAACCTTGAC
14029409 CTGCATAGTAACCTTGAC
1 CTGCATAGTAACCTTGAC
14029427 C
1 C
14029428 ATAAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (18 bp):
CTGCATAGTAACCTTGAC
Found at i:14033323 original size:5 final size:5
Alignment explanation
Indices: 14033313--14033347 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
14033303 TCATTTTCAA
14033313 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
14033348 CCTAATCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:14038159 original size:17 final size:16
Alignment explanation
Indices: 14038133--14038166 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
14038123 TTTTTCTCAC
14038133 AAAAAAAAAAGGAAAA
1 AAAAAAAAAAGGAAAA
14038149 AAAAAAGAAAAGGAAAA
1 AAAAAA-AAAAGGAAAA
14038166 A
1 A
14038167 CAATTCAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGGAAAA
Found at i:14043970 original size:69 final size:69
Alignment explanation
Indices: 14043859--14043997 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
14043849 AGAGTCAAAA
*
14043859 CGAAAATATGGGTTATCGATTAACATTAATAGGTTAATCAAGAAAAGGTGTGTTAGGCTCAATGG
1 CGAAAATATGGGTTATCGATTAACATTAACAGGTTAATCAAGAAAAGGTGTGTTAGGCTCAATGG
14043924 GGTT
66 GGTT
*
14043928 CGAAAATATGGGTTATC-AGTTAACATTAACGGGTTAATCAAGAAAAGGTGTGTTAGGCTCAATG
1 CGAAAATATGGGTTATCGA-TTAACATTAACAGGTTAATCAAGAAAAGGTGTGTTAGGCTCAATG
14043992 GGGTT
65 GGGTT
14043997 C
1 C
14043998 ACTAAGGGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 1 0.01
69 66 0.99
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (69 bp):
CGAAAATATGGGTTATCGATTAACATTAACAGGTTAATCAAGAAAAGGTGTGTTAGGCTCAATGG
GGTT
Found at i:14046522 original size:21 final size:20
Alignment explanation
Indices: 14046496--14046549 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
14046486 ATAAATACTA
*
14046496 AAAATAAAATAAATGAAAGAC
1 AAAATAAAATAAATCAAA-AC
*
14046517 AAAATAAAATAAATCAAAAT
1 AAAATAAAATAAATCAAAAC
14046537 AAAAGTAAAATAA
1 AAAA-TAAAATAA
14046550 TAAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (20 bp):
AAAATAAAATAAATCAAAAC
Found at i:14046536 original size:15 final size:16
Alignment explanation
Indices: 14046516--14046545 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14046506 AAATGAAAGA
14046516 CAAAATAAAA-TAAAT
1 CAAAATAAAAGTAAAT
14046531 CAAAATAAAAGTAAA
1 CAAAATAAAAGTAAA
14046546 ATAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (16 bp):
CAAAATAAAAGTAAAT
Found at i:14046558 original size:21 final size:20
Alignment explanation
Indices: 14046496--14046560 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
14046486 ATAAATACTA
* *
14046496 AAAATAAAATAAATGAAAGAC
1 AAAATAAAATAAAT-AAAAAT
*
14046517 AAAATAAAATAAATCAAAAT
1 AAAATAAAATAAATAAAAAT
14046537 AAAAGTAAAAT-AATAAATAAT
1 AAAA-TAAAATAAATAAA-AAT
14046558 AAA
1 AAA
14046561 TAGATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.32
21 26 0.68
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAAATAAAAAT
Found at i:14056551 original size:41 final size:41
Alignment explanation
Indices: 14056506--14057399 Score: 1754
Period size: 41 Copynumber: 21.8 Consensus size: 41
14056496 TGATTCAGTA
14056506 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056547 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056588 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056629 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056670 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056711 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056752 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056793 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056834 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056875 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056916 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056957 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14056998 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057039 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057080 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057121 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057162 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057203 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057244 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057285 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
14057326 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
14057367 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
14057400 TATTACATTC
Statistics
Matches: 850, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
40 2 0.00
41 848 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:14064690 original size:30 final size:32
Alignment explanation
Indices: 14064630--14064693 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
14064620 CATTTATTTT
14064630 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* * *
14064663 CACCTATGCTGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
14064694 ACATATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:14064953 original size:41 final size:41
Alignment explanation
Indices: 14064908--14065063 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
14064898 ACCGGCTCTT
*
14064908 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
14064949 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGACATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14064990 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
14065031 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
14065064 TAACGATAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 96 0.91
42 2 0.02
43 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:14071828 original size:33 final size:33
Alignment explanation
Indices: 14071759--14071856 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
14071749 CTATACCCAT
* * *
14071759 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
14071796 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
14071829 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
14071857 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:14072116 original size:41 final size:41
Alignment explanation
Indices: 14072071--14072463 Score: 777
Period size: 41 Copynumber: 9.6 Consensus size: 41
14072061 ACCGGCTCTT
*
14072071 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072112 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072153 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072194 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072235 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072276 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072317 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072358 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072399 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
14072440 AGCCTGCTAGACTTATAGTCTGAA
1 AGCCTGCTAGACTTATAGTCTGAA
14072464 CATTTTACAC
Statistics
Matches: 351, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 351 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:14081418 original size:13 final size:13
Alignment explanation
Indices: 14081381--14081424 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
14081371 TAATTGAAAA
* *
14081381 TAAATTCAAGTAC
1 TAAATTCAAATAT
14081394 TAAATT-AAATAT
1 TAAATTCAAATAT
14081406 TAAATTCAAATAT
1 TAAATTCAAATAT
*
14081419 CAAATT
1 TAAATT
14081425 AGAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (13 bp):
TAAATTCAAATAT
Found at i:14081423 original size:25 final size:26
Alignment explanation
Indices: 14081381--14081430 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
14081371 TAATTGAAAA
*
14081381 TAAATTCAAGTACTAAATTA-AATAT
1 TAAATTCAAATACTAAATTAGAATAT
14081406 TAAATTCAAATA-TCAAATTAGAATA
1 TAAATTCAAATACT-AAATTAGAATA
14081431 AAAAACTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 17 0.77
26 4 0.18
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
TAAATTCAAATACTAAATTAGAATAT
Found at i:14084955 original size:21 final size:19
Alignment explanation
Indices: 14084938--14085038 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 19
14084928 ACCAAAAATT
14084938 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATT-AAAAAA
*
14084958 GTATTTTTAAAATATTTTAAAAA
1 -TA-TTTTAAAA-A-TTAAAAAA
14084981 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
* * *
14084999 -AATTAAAAAGTATTTTAAAAA
1 TATTTTAAAA--A-TTAAAAAA
14085020 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
14085038 T
1 T
14085039 TTAAAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
17 3 0.05
18 18 0.28
19 2 0.03
20 4 0.06
21 16 0.25
22 13 0.20
23 6 0.09
24 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTTTAAAAATTAAAAAA
Found at i:14084975 original size:10 final size:10
Alignment explanation
Indices: 14084962--14085030 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 10
14084952 AAAAAAGTAT
14084962 TTTTAAAATA
1 TTTTAAAATA
14084972 TTTTAAAAATA
1 TTTT-AAAATA
14084983 TTTT-AAA-A
1 TTTTAAAATA
* *
14084991 -TTAAAAAAA
1 TTTTAAAATA
* *
14085000 ATTAAAAAGTA
1 TTTTAAAA-TA
14085011 TTTTAAAAATA
1 TTTT-AAAATA
14085022 TTTTAAAAT
1 TTTTAAAAT
14085031 TAAAAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 4 0.08
10 16 0.33
11 19 0.39
12 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:14084975 original size:11 final size:11
Alignment explanation
Indices: 14084954--14084991 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14084944 AAAAATTAAA
14084954 AAAAGTATTTTT
1 AAAA-TATTTTT
*
14084966 AAAATATTTTA
1 AAAATATTTTT
14084977 AAAATA-TTTT
1 AAAATATTTTT
14084987 AAAAT
1 AAAAT
14084992 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 8 0.33
11 12 0.50
12 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:14085040 original size:16 final size:17
Alignment explanation
Indices: 14084974--14085058 Score: 64
Period size: 17 Copynumber: 4.8 Consensus size: 17
14084964 TTAAAATATT
*
14084974 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
* *
14084991 TTAAAAAAAATTAAAAAGTA
1 TT-AAAAATATTTAAAA--A
*
14085011 TTTTAAAAATATTTTAAAA
1 --TTAAAAATATTTAAAAA
14085030 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
14085046 ATAAATATATTTA
1 TTAAAAATATTTA
14085059 TTATATCGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
16 13 0.25
17 14 0.26
18 11 0.21
19 1 0.02
20 1 0.02
21 11 0.21
22 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:14085046 original size:39 final size:38
Alignment explanation
Indices: 14084938--14085045 Score: 137
Period size: 39 Copynumber: 2.7 Consensus size: 38
14084928 ACCAAAAATT
*
14084938 TATTTTAAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAAA
1 TATTTT-AAAATTAAAAAAA--A--TTAAAAATATTTTAAAAA
14084981 TATTTTAAAATTAAAAAAAATTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAA-TATTTTAAAAA
*
14085020 TATTTTAAAATT-AAAAAATTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAA
14085046 ATAAATATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
38 19 0.31
39 23 0.37
40 1 0.02
42 13 0.21
43 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (38 bp):
TATTTTAAAATTAAAAAAAATTAAAAATATTTTAAAAA
Found at i:14085058 original size:17 final size:16
Alignment explanation
Indices: 14085016--14085058 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14085006 AAGTATTTTA
* *
14085016 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
*
14085032 AAAAAATTTAAAAAAT
1 AAAATATTTAAAAAAT
14085048 AAATATATTTA
1 AAA-ATATTTA
14085059 TTATATCGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATTTAAAAAAT
Found at i:14085075 original size:5 final size:5
Alignment explanation
Indices: 14085065--14085095 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
14085055 TTTATTATAT
14085065 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC
14085096 TAAAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:14088777 original size:27 final size:29
Alignment explanation
Indices: 14088726--14088789 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
14088716 CATTAAACCT
* *
14088726 ATATATGTGTGGGTTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATATA
*
14088755 ATATATGCGTGGATTTTGTTATATATACA
1 ATATATGCGTGGATTTTGTTATATATATA
14088784 ATATAT
1 ATATAT
14088790 ATGCGTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.48
Consensus pattern (29 bp):
ATATATGCGTGGATTTTGTTATATATATA
Found at i:14088780 original size:31 final size:29
Alignment explanation
Indices: 14088725--14088796 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
14088715 ACATTAAACC
* * *
14088725 TATATATGTGTGGGTTTTGTTATATA-TA
1 TATATATGCGTGGATTTTGTTATATACAA
14088753 TAATATATGCGTGGATTTTGTTATATATACAA
1 T-ATATATGCGTGGATTTTG-T-TATATACAA
14088785 TATATATGCGTG
1 TATATATGCGTG
14088797 TAGGGTCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 1 0.03
29 16 0.43
30 1 0.03
31 17 0.46
32 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.47
Consensus pattern (29 bp):
TATATATGCGTGGATTTTGTTATATACAA
Found at i:14089565 original size:17 final size:17
Alignment explanation
Indices: 14089543--14089589 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
14089533 TATGGTATAG
*
14089543 ATGAACTGTTA-TATTGT
1 ATGAACTGTTATTA-TGC
*
14089560 ATGAACTATTATTATGC
1 ATGAACTGTTATTATGC
14089577 ATGAACTGTTATT
1 ATGAACTGTTATT
14089590 TTATGTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (17 bp):
ATGAACTGTTATTATGC
Found at i:14089632 original size:18 final size:17
Alignment explanation
Indices: 14089578--14089650 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
14089568 TTATTATGCA
* *
14089578 TGAACTGTTATTTTATG
1 TGAACTGTTAATTTGTG
* *
14089595 TGAATTGTCT-ATTCTATG
1 TGAACTGT-TAATT-TGTG
14089613 TGAACTGTTTAATTTGTG
1 TGAACTG-TTAATTTGTG
*
14089631 TGAACTGTTATTTTGTG
1 TGAACTGTTAATTTGTG
14089648 TGA
1 TGA
14089651 GTTGTGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 21 0.45
18 22 0.47
19 4 0.09
ACGTcount: A:0.22, C:0.07, G:0.21, T:0.51
Consensus pattern (17 bp):
TGAACTGTTAATTTGTG
Found at i:14092398 original size:27 final size:27
Alignment explanation
Indices: 14092355--14092714 Score: 445
Period size: 27 Copynumber: 13.4 Consensus size: 27
14092345 CCCTAAAATA
*
14092355 GGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
14092382 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
14092409 GGTAAAATGACCAAAATAACCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
14092436 GGTAAAATAACTAAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
14092463 GATAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
14092490 GGTAAAATGACTAAAATA--CCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
** *
14092515 GGTAAAATGACTGAAATACCCCGATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
14092542 GGTAAAATAACCGAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
14092569 GGTAGAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
**
14092596 GGTAAAATGATTAAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* ** *
14092623 GGTAAAATAACTGAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* *
14092650 GATAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
14092677 GGTAAAATGACCAAAATACTCTCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
14092704 GGTAAAATGAC
1 GGTAAAATGAC
14092715 TATTATACCC
Statistics
Matches: 289, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
25 24 0.08
27 265 0.92
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCCATAG
Found at i:14096620 original size:19 final size:18
Alignment explanation
Indices: 14096571--14096638 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
14096561 ACTAAAGTTT
14096571 TTTAT-TATTTAAATATTA
1 TTTATATATTTAAAT-TTA
*
14096589 TTTATTTATTTTAAATTTA
1 TTTATATA-TTTAAATTTA
*
14096608 TTTATAATATTTATATTTA
1 TTTAT-ATATTTAAATTTA
14096627 TATT-TATATTTA
1 T-TTATATATTTA
14096639 GATGTTAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.27
19 21 0.48
20 11 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATTTAAATTTA
Found at i:14096623 original size:6 final size:6
Alignment explanation
Indices: 14096591--14096638 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
14096581 AAATATTATT
*
14096591 TATTTA T-TTTA AATTTA T-TTATAA TATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATT-T-A TATTTA TATTTA TATTTA TATTTA
14096639 GATGTTAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 6 0.17
6 25 0.69
7 3 0.08
8 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:14099839 original size:16 final size:18
Alignment explanation
Indices: 14099812--14099844 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14099802 TTAATTTAAA
14099812 TAAATAAATTTT-TCAAT
1 TAAATAAATTTTCTCAAT
14099829 TAAAT-AATTTTCTCAA
1 TAAATAAATTTTCTCAA
14099845 CCTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATAAATTTTCTCAAT
Found at i:14100437 original size:17 final size:17
Alignment explanation
Indices: 14100415--14100448 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14100405 AAGTCATTCA
14100415 TCACAAAGACGAACGAC
1 TCACAAAGACGAACGAC
14100432 TCACAAAGACGAACGAC
1 TCACAAAGACGAACGAC
14100449 CCATGGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.29, G:0.18, T:0.06
Consensus pattern (17 bp):
TCACAAAGACGAACGAC
Found at i:14101599 original size:5 final size:5
Alignment explanation
Indices: 14101589--14101621 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14101579 TGAGCATTCG
*
14101589 ATCGA ATCGA ATCTA ATCGA ATCGA ATCGA ATC
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATC
14101622 AAAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (5 bp):
ATCGA
Found at i:14102424 original size:27 final size:27
Alignment explanation
Indices: 14102382--14102433 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14102372 TGGAGTGAGA
*
14102382 AGGGAATAAAAGTTTTAGGGAAAAAGT
1 AGGGAATAAAAATTTTAGGGAAAAAGT
* *
14102409 AGGGAGTAAAAATTTTGGGGAAAAA
1 AGGGAATAAAAATTTTAGGGAAAAA
14102434 TAAAAAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (27 bp):
AGGGAATAAAAATTTTAGGGAAAAAGT
Found at i:14102660 original size:9 final size:9
Alignment explanation
Indices: 14102646--14102682 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14102636 TATAGTTTGA
14102646 TATTCGAAT
1 TATTCGAAT
14102655 TATTCGAAT
1 TATTCGAAT
*
14102664 TATTCGAGT
1 TATTCGAAT
14102673 TATTCGAAT
1 TATTCGAAT
14102682 T
1 T
14102683 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14102753 original size:9 final size:9
Alignment explanation
Indices: 14102736--14102775 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
14102726 TCGAGTTGAT
*
14102736 TCGAATAAC
1 TCGATTAAC
14102745 TCGATTAAC
1 TCGATTAAC
14102754 TCGATTAAC
1 TCGATTAAC
*
14102763 TCAATTAAC
1 TCGATTAAC
14102772 TCGA
1 TCGA
14102776 GTTGTTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (9 bp):
TCGATTAAC
Found at i:14115612 original size:107 final size:107
Alignment explanation
Indices: 14115317--14115592 Score: 295
Period size: 107 Copynumber: 2.6 Consensus size: 107
14115307 TCTTGACCGG
* * ** * * * ***
14115317 TTCACGAAGCTGCTCACAAAAGCTAACGAGAATCCGCAACGTATGCAGGATCTCAGTCATTATAA
1 TTCACGATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGTAGGATCTCAGCCATCGGAA
* * * * * ***
14115382 TGATCCATTTCATCAGTACAGAGTATTAATTC-ATTTCACCAA
66 CGATCTATATCATCAGAATAGAGTAGCCATTCTA-TTCACCAA
* * *
14115424 TTCACGATGCTGCTCACACAAGCTGTTGAGAATCTGCAACATGTGTAGGATCTCAGCCATCGGAA
1 TTCACGATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGTAGGATCTCAGCCATCGGAA
* *
14115489 CGATCTATGTCATCAGAATAGAGTAGCCATTCTATTCACCAG
66 CGATCTATATCATCAGAATAGAGTAGCCATTCTATTCACCAA
* *
14115531 TTCACGATGCTGCTCATACAAGCTGTCGAGAATCCG-AGACATATGTAGGATGTCAGCCATCG
1 TTCACGATGCTGCTCACACAAGCTGTCGAGAATCCGCA-ACATATGTAGGATCTCAGCCATCG
14115593 TGATGGTGTA
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 138 0.99
108 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (107 bp):
TTCACGATGCTGCTCACACAAGCTGTCGAGAATCCGCAACATATGTAGGATCTCAGCCATCGGAA
CGATCTATATCATCAGAATAGAGTAGCCATTCTATTCACCAA
Found at i:14117894 original size:13 final size:13
Alignment explanation
Indices: 14117878--14117907 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14117868 AGTGCTGCAA
14117878 AAAAATGCTTATG
1 AAAAATGCTTATG
*
14117891 AAAAATGCTTTTG
1 AAAAATGCTTATG
14117904 AAAA
1 AAAA
14117908 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:14119746 original size:18 final size:17
Alignment explanation
Indices: 14119720--14119754 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14119710 AATATTAAGA
*
14119720 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14119737 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14119755 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14119974 original size:44 final size:45
Alignment explanation
Indices: 14119911--14120007 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
14119901 CTATTACCCC
*
14119911 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
14119955 TCCATTACATTGAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
14120000 TCCATTAC
1 TCCATTAC
14120008 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:14120008 original size:16 final size:16
Alignment explanation
Indices: 14119987--14120019 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14119977 TTGATTTGCT
14119987 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
14120003 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
14120019 A
1 A
14120020 ATATAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:14129927 original size:24 final size:25
Alignment explanation
Indices: 14129881--14129927 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14129871 AAGGTTTTAT
*
14129881 ATTATATTATTTATAACATATAAAA
1 ATTATATTATTTATAACACATAAAA
*
14129906 ATTATATT-TTTATAATACATAA
1 ATTATATTATTTATAACACATAA
14129928 TACTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATATTATTTATAACACATAAAA
Found at i:14129935 original size:26 final size:25
Alignment explanation
Indices: 14129879--14129937 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
14129869 GTAAGGTTTT
*
14129879 ATATTATATTATTTATAACATATAA
1 ATATTATATTATTTATAACACATAA
* *
14129904 AAATTATATT-TTTATAATACATAA
1 ATATTATATTATTTATAACACATAA
14129928 TACTATTATA
1 -A-TATTATA
14129938 ATGTAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.43
25 10 0.36
26 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTATATTATTTATAACACATAA
Found at i:14140827 original size:14 final size:14
Alignment explanation
Indices: 14140808--14140837 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14140798 AGATTACAAG
14140808 TGTATTCTTAAAAT
1 TGTATTCTTAAAAT
14140822 TGTATTCTTAAAAT
1 TGTATTCTTAAAAT
14140836 TG
1 TG
14140838 GCTGCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (14 bp):
TGTATTCTTAAAAT
Found at i:14141041 original size:29 final size:29
Alignment explanation
Indices: 14140999--14141058 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
14140989 CCTTTTTTTC
14140999 CATTGATTGCAGAGGAGACATAGATATTT
1 CATTGATTGCAGAGGAGACATAGATATTT
14141028 CATTGATTGCAGAGGAGACATAGATATTT
1 CATTGATTGCAGAGGAGACATAGATATTT
14141057 CA
1 CA
14141059 GGTAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (29 bp):
CATTGATTGCAGAGGAGACATAGATATTT
Found at i:14144258 original size:21 final size:21
Alignment explanation
Indices: 14144234--14144276 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
14144224 TATAAAGTAG
14144234 ATTATATATTATT-TTTATAGT
1 ATTATATATTATTATTT-TAGT
14144255 ATTATATATTATTATTTTAGT
1 ATTATATATTATTATTTTAGT
14144276 A
1 A
14144277 AATTCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTATATATTATTATTTTAGT
Found at i:14144285 original size:24 final size:22
Alignment explanation
Indices: 14144229--14144286 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 22
14144219 TACATTATAA
14144229 AGTAGATTATATATTATTTTTAT
1 AGTA-ATTATATATTATTTTTAT
14144252 AGT-ATTATATATTATTATTT-T
1 AGTAATTATATATTATT-TTTAT
14144273 AGTAAATTCATATA
1 AGT-AATT-ATATA
14144287 AGAATAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 17 0.55
22 3 0.10
23 6 0.19
24 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
AGTAATTATATATTATTTTTAT
Found at i:14144318 original size:17 final size:18
Alignment explanation
Indices: 14144293--14144338 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14144283 TATAAGAATA
*
14144293 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
14144310 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
14144328 ATTAAATTATA
1 ATTAAATTATA
14144339 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:14144414 original size:59 final size:59
Alignment explanation
Indices: 14144241--14144414 Score: 176
Period size: 59 Copynumber: 2.9 Consensus size: 59
14144231 TAGATTATAT
* * *
14144241 ATTAT-TTTTATAGTATTATATATTATTATTTTAGTAAATTCATATAAGAATA-ATTAT
1 ATTATATTTTATAGTATTATATATTATTATTTTATTAAATTCATATAAGAATATTTTAG
* * * ** * * *
14144298 ATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAG
1 ATT-A-TATTTTA-TAGTATTATATATTATTATTTTATTAAATTCATATAAGAA-TATTTTAG
*
14144359 ATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTT
1 ATTATATTTTATAGTATTATATATTATTATTTTATTAAATTCATATAAGAATATTT
14144415 AATATTAAGA
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 39 0.44
60 36 0.40
61 8 0.09
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (59 bp):
ATTATATTTTATAGTATTATATATTATTATTTTATTAAATTCATATAAGAATATTTTAG
Found at i:14144433 original size:102 final size:102
Alignment explanation
Indices: 14144324--14144543 Score: 386
Period size: 102 Copynumber: 2.2 Consensus size: 102
14144314 AATTATATAT
* *
14144324 TTTTATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATACTATTATATATTATGAT
*
14144389 TTTATTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
14144426 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATACTATTATATATTTTGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATACTATTATATATTATGAT
*
14144491 TTTAGTAAATTCATATAAGAATATTTCATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
14144528 TTTTATCAAATTATAT
1 TTTTATTAAATTATAT
14144544 ATTTTTATTA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 112 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATACTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:14144441 original size:59 final size:57
Alignment explanation
Indices: 14144259--14144442 Score: 187
Period size: 64 Copynumber: 3.1 Consensus size: 57
14144249 TATAGTATTA
*
14144259 TATATTATTATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATATTA-TATTTTATTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
* * * *
14144317 TATA-TAT-TTTTATTAAATT-ATATTTAATAATAATTATTTTAGATTATATTTTA-TAGTATT
1 TATATTATATTTTATTAAATTCATA--TAAGAATAATTATATTA-A-GA-ATTTTATTA--AAT
*
14144377 ATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATTAT-ATTTTATTAAATTCATATAAGAATAATT-ATATTAAGAATTTTATTAAAT
14144437 TATATT
1 TATATT
14144443 TAATAATAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 27
0.73 0.07 0.19
Matches are distributed among these distances:
54 3 0.03
55 11 0.11
56 16 0.16
57 3 0.03
58 7 0.07
59 12 0.12
60 4 0.04
61 10 0.10
62 6 0.06
63 10 0.10
64 17 0.17
65 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
TATATTATATTTTATTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
Found at i:14144485 original size:119 final size:119
Alignment explanation
Indices: 14144234--14144460 Score: 345
Period size: 119 Copynumber: 1.9 Consensus size: 119
14144224 TATAAAGTAG
* *
14144234 ATTATATATTAT-TTTTATAGTATTATATATTATTATTTTAGTAAATTCATATAAGAATAATTAT
1 ATTATAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAT
** *
14144298 ATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
66 ATTAAGAATTTTATTAAATTATATATTAATAATAAATTATATTTAATAATAATT
* * *
14144352 ATTTTAGATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAA
1 ATTATAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-A
14144417 TATTAAGAATTTTATTAAATTATAT-TTAATAAT-AATTAT-TTTAA
65 TATTAAGAATTTTATTAAATTATATATTAATAATAAATTATATTTAA
14144461 ATTATATTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
117 5 0.05
118 16 0.16
119 52 0.53
120 26 0.26
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (119 bp):
ATTATAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAT
ATTAAGAATTTTATTAAATTATATATTAATAATAAATTATATTTAATAATAATT
Found at i:14144806 original size:45 final size:44
Alignment explanation
Indices: 14144720--14144812 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
14144710 ATTACAACAT
14144720 CATTCCATTCAACCAAATACAAGAATACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAATACAAGAATACTATTACGCCTCTATTC
14144764 CATTCCATTCAACC-AA-ACAATTGAATTACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAATACAA--GAA-TACTATTACGCCTCTATTC
14144809 CATT
1 CATT
14144813 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 17 0.37
45 23 0.50
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAATACAAGAATACTATTACGCCTCTATTC
Found at i:14144819 original size:16 final size:16
Alignment explanation
Indices: 14144794--14144831 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14144784 TTGAATTACT
*
14144794 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
14144810 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
14144826 ATTACA
1 ATTACA
14144832 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:14144895 original size:16 final size:16
Alignment explanation
Indices: 14144874--14144916 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
14144864 GGTTGAATGA
*
14144874 AATGGAATAGAGGTGT
1 AATGGAATAGAGCTGT
14144890 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
14144906 AATGGAATAGA
1 AATGGAATAGA
14144917 TGCGTAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.23
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:14144923 original size:16 final size:15
Alignment explanation
Indices: 14144874--14144924 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 15
14144864 GGTTGAATGA
*
14144874 AATGGAATAGAGGTGT
1 AATGGAATAGA-GCGT
14144890 AATGGAATAGAGCTGT
1 AATGGAATAGAGC-GT
14144906 AATGGAATAGATGCGT
1 AATGGAATAGA-GCGT
14144922 AAT
1 AAT
14144925 AGTAATCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.91
17 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.25
Consensus pattern (15 bp):
AATGGAATAGAGCGT
Found at i:14144957 original size:45 final size:44
Alignment explanation
Indices: 14144906--14144998 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
14144896 ATAGAGCTGT
*
14144906 AATGGAATAGATGCGTAATAGTAATCCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-ATCC-ATGTGTTTGGTTGAATGG
* *
14144951 AATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGTATCCATGTGTTTGGTTGAATGG
14144995 AATG
1 AATG
14144999 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGTATCCATGTGTTTGGTTGAATGG
Found at i:14145571 original size:24 final size:24
Alignment explanation
Indices: 14145544--14145592 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
14145534 ATAAAGTATC
*
14145544 TATCACCTCAAATGTGATTTGGGT
1 TATCACCTCAAATGTGATTTAGGT
14145568 TATCACCTCAAATGTGATTTAGGT
1 TATCACCTCAAATGTGATTTAGGT
14145592 T
1 T
14145593 CAAATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
TATCACCTCAAATGTGATTTAGGT
Found at i:14146653 original size:25 final size:26
Alignment explanation
Indices: 14146595--14146655 Score: 90
Period size: 24 Copynumber: 2.4 Consensus size: 26
14146585 AGCACTCACA
*
14146595 AATTGAAAACTACAGAAACCATTTTC
1 AATTGAAAACTACAGAAACCAATTTC
*
14146621 AA--GAAAAATACAGAAACCAATTTC
1 AATTGAAAACTACAGAAACCAATTTC
14146645 AATTGAAAACT
1 AATTGAAAACT
14146656 TCAACAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 22 0.73
26 8 0.27
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.23
Consensus pattern (26 bp):
AATTGAAAACTACAGAAACCAATTTC
Found at i:14149957 original size:24 final size:23
Alignment explanation
Indices: 14149898--14149958 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
14149888 ATATTTTTGC
*
14149898 TATTA-ATTA-ATTTATTATTAT
1 TATTATATTATATTTATTATCAT
* *
14149919 TTTTATATTACTATTTATTATCGT
1 TATTATATTA-TATTTATTATCAT
14149943 TATTACTATTATATTT
1 TATTA-TATTATATTT
14149959 GATAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
24 19 0.59
25 5 0.16
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTATATTATATTTATTATCAT
Found at i:14152446 original size:18 final size:16
Alignment explanation
Indices: 14152416--14152449 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
14152406 ACCTAAAATT
14152416 TTTTATTACTTTTAAA
1 TTTTATTACTTTTAAA
14152432 TTTTATCTACATTTTAAA
1 TTTTAT-TAC-TTTTAAA
14152450 AAATTTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTATTACTTTTAAA
Found at i:14154548 original size:12 final size:11
Alignment explanation
Indices: 14154531--14154580 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
14154521 CTTTTCTTTA
14154531 TTTTTTATTAAT
1 TTTTTTATT-AT
14154543 TTTTTTATTAT
1 TTTTTTATTAT
*
14154554 TATTTTTATT-C
1 T-TTTTTATTAT
14154565 TTTTTTATATAT
1 TTTTTTAT-TAT
14154577 TTTT
1 TTTT
14154581 CGTATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.21
11 5 0.15
12 21 0.64
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:14154553 original size:22 final size:22
Alignment explanation
Indices: 14154528--14154580 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14154518 CCCCTTTTCT
14154528 TTATTTTTTATTAAT-TTTTTTA
1 TTATTTTTT-TTAATCTTTTTTA
* *
14154550 TTATTATTTTTATTCTTTTTTA
1 TTATTTTTTTTAATCTTTTTTA
14154572 TATATTTTT
1 T-TATTTTT
14154581 CGTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTATTTTTTTTAATCTTTTTTA
Found at i:14154586 original size:23 final size:22
Alignment explanation
Indices: 14154543--14154586 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14154533 TTTTATTAAT
*
14154543 TTTTTTATTATTATTTTTATTC
1 TTTTTTATTATTATTTGTATTC
14154565 TTTTTTATATATT-TTTCGTATT
1 TTTTTTAT-TATTATTT-GTATT
14154587 TATTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTATTATTATTTGTATTC
Found at i:14166557 original size:44 final size:45
Alignment explanation
Indices: 14166499--14166791 Score: 155
Period size: 45 Copynumber: 6.7 Consensus size: 45
14166489 TCGCATCTAG
* *
14166499 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGACAAA
* * *
14166543 TCTTATTTTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGACAAA
* ** * ** *
14166588 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGCCGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACAAA
* * * * ** * *
14166632 CCCTATCTTCCTGAAGTTGCAGTGAAGTGGA-TTAA-AA-ACCTTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGA-C--AAA
* * * * * *
14166677 TCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T--CGCAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACAAA
* * *
14166717 TCTTAT-TCTCCTAAAGTTGCAGT-GAGTCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTGAAGAAGACAAA
*
14166762 TCTTATCTCCCCGAAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
14166792 GTTAAAGTCG
Statistics
Matches: 184, Mismatches: 46, Indels: 37
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.01
40 20 0.11
41 5 0.03
42 2 0.01
43 6 0.03
44 63 0.34
45 79 0.43
46 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGACAAA
Found at i:14166607 original size:45 final size:44
Alignment explanation
Indices: 14166413--14166791 Score: 164
Period size: 44 Copynumber: 8.7 Consensus size: 44
14166403 CATAACCGAT
* * ** * *
14166413 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
* * * * *
14166455 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-ATCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
* *
14166497 AGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
* * * *
14166541 AGTCTTATTTTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAG-CA
* ** *
14166586 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGC-CG-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA
* * * * ** * * * *
14166629 TAACCCTATCTTCCTGAAGTTGCAGTGAAGTGGATTAA-AAACCTTG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC--A
* * * *
14166675 AATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T-CGC-AGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
* * *
14166715 AGTCTTAT-TCTCCTAAAGTTGCAGT-GAGTCAGACTGAAG-ATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGCA-AGCA
*
14166760 AATCTTATCTCCCCGAAGTTGCAGTGGAGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
14166792 GTTAAAGTCG
Statistics
Matches: 249, Mismatches: 59, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
39 2 0.01
40 40 0.16
41 12 0.05
42 8 0.03
43 14 0.06
44 87 0.35
45 79 0.32
46 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
Found at i:14166610 original size:89 final size:87
Alignment explanation
Indices: 14166499--14166967 Score: 341
Period size: 89 Copynumber: 5.4 Consensus size: 87
14166489 TCGCATCTAG
*
14166499 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATTTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGC-AGCAAGTCTTATTTTCCTGAAGTTGCA
* *
14166564 GTGAGGCAGACTGAAGATGACAAA
64 GTGAGGCAGATTGAAGATGGCAAA
* * * ** * *
14166588 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGCCG-ATAACCCTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-AAGCAGCA-AGTCTTATTTTCCTGAAGTTGC
* ** * * *
14166652 AGTGAAGTGGATTAAAAACCTTG--AA
63 AGTGAGGCAGATTGAAGA--TGGCAAA
* * * * * *
14166677 TCTTATCTCTCTGAAGTTACAG-AGAGCAGAT-CGCAGCAAGTCTTATTCTCCTAAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAGCAAGTCTTATTTTCCTGAAGTTGCAGT
* *
14166740 GAGTCAGACTGAAGATGGCAAA
66 GAGGCAGATTGAAGATGGCAAA
* * * * *
14166762 TCTTATCTCCCCGAAGTTGCAGTGGAGCAGGTTAA--AGTCGATAATCCTATCTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAAGCAG-C-A-AGTCTTATTTTCCTGAAGTTG
*** * *
14166825 CAGTGAAATAGATTAAAAACCTTGG---A
62 CAGTGAGGCAGATTGAAGA---TGGCAAA
* ** ** * * *
14166851 TTTTATCTCTTTGAAGTTGCA-AAGAGTAGAT-CGCAGCAAGTCTTATTCTCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAGCAAGTCTTATTTTCCTGAAGTTGCAGT
14166914 GAGGCAGATTGAAGATGGCAAA
66 GAGGCAGATTGAAGATGGCAAA
*
14166936 TCTTATCTCCATGAAGTTGCAGTGGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
14166968 TAAAACCAAT
Statistics
Matches: 279, Mismatches: 78, Indels: 49
0.69 0.19 0.12
Matches are distributed among these distances:
82 3 0.01
83 2 0.01
85 101 0.36
86 16 0.06
87 8 0.03
88 12 0.04
89 128 0.46
90 5 0.02
91 1 0.00
92 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAGCAAGTCTTATTTTCCTGAAGTTGCAGT
GAGGCAGATTGAAGATGGCAAA
Found at i:14166750 original size:174 final size:174
Alignment explanation
Indices: 14166499--14167092 Score: 778
Period size: 174 Copynumber: 3.4 Consensus size: 174
14166489 TCGCATCTAG
* * * * *
14166499 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATTTTCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-AGCAAGTCTTATTCTCCTGAAGTTGCA
* *
14166564 GTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGCCGA
62 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGA
* *
14166629 TAACCCTATCTTCCTGAAGTTGCAGTGAAGTGGATTAAAAACCTTGAA
127 TAATCCTATCTTCCTGAAGTTGCAGTGAAGTGGATTAAAAACCTTGGA
* *
14166677 TCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAGCAAGTCTTATTCTCCTAAAGTTGCAGTGA
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAGCAAGTCTTATTCTCCTGAAGTTGCAGTGA
* * *
14166742 GTCAGACTGAAGATGGCAAATCTTATCTCCCCGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAAT
66 GGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAAT
* *
14166807 CCTATCTTCCTGAAGTTGCAGTGAAATAGATTAAAAACCTTGGA
131 CCTATCTTCCTGAAGTTGCAGTGAAGTGGATTAAAAACCTTGGA
* * * *
14166851 TTTTATCTCTTTGAAGTTGCAAAGAGTAGATCGCAGCAAGTCTTATTCTCCTGAAGTTGCAGTGA
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAGCAAGTCTTATTCTCCTGAAGTTGCAGTGA
* * * * *
14166916 GGCAGATTGAAGATGGCAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTAAAACCAATAAT
66 GGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAAT
* * * **
14166981 CCTATC-TCCTTGAAGTTGCAATGGAGCGGATTGGAACCACAAATTTTGGA
131 CCTATCTTCC-TGAAGTTGCAGTGAAGTGGATT---A--A-AAACCTTGGA
* *
14167031 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA-TCTCCCTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAGCAAGTCTTATTCT-CCTGAAGTTGCAG
14167093 AGGAGTAGAT
Statistics
Matches: 365, Mismatches: 43, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
173 3 0.01
174 268 0.73
175 2 0.01
176 1 0.00
177 8 0.02
178 19 0.05
179 4 0.01
180 60 0.16
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (174 bp):
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAGCAAGTCTTATTCTCCTGAAGTTGCAGTGA
GGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAAT
CCTATCTTCCTGAAGTTGCAGTGAAGTGGATTAAAAACCTTGGA
Found at i:14168474 original size:14 final size:13
Alignment explanation
Indices: 14168455--14168484 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
14168445 TTTTTCTTTA
14168455 TTTTTTATTAATTT
1 TTTTTTATT-ATTT
14168469 TTTTTTATTATTT
1 TTTTTTATTATTT
14168482 TTT
1 TTT
14168485 GTTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTATTT
Found at i:14169080 original size:19 final size:20
Alignment explanation
Indices: 14169039--14169080 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14169029 ATTGTTATGC
* *
14169039 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
14169059 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
14169078 CAT
1 CAT
14169081 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:14171616 original size:16 final size:17
Alignment explanation
Indices: 14171595--14171626 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14171585 GATTGAGTTG
14171595 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
14171611 AGAAAATTAATTTAAT
1 AGAAAATTAATTTAAT
14171627 AAATAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:14176250 original size:22 final size:20
Alignment explanation
Indices: 14176222--14176266 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
14176212 CTTATAAAAA
*
14176222 TAATTAAAAGTAAAAAGTACAT
1 TAATTAAAAATAAAAA-TA-AT
14176244 TAATTAAAAATAAAAATAAT
1 TAATTAAAAATAAAAATAAT
14176264 TAA
1 TAA
14176267 AAATATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 15 0.68
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATTAAAAATAAAAATAAT
Found at i:14180143 original size:168 final size:169
Alignment explanation
Indices: 14179877--14180188 Score: 423
Period size: 168 Copynumber: 1.8 Consensus size: 169
14179867 AAACACATTC
* * * * *
14179877 TAAAATTTGTTAATGTTCTGCATAAAGGATGCAACTTCACTTGTTTTTGTTTAGGAATTCTCAGT
1 TAAAATTTGTTAATGTTCTGCATAAA-GAGGCAACTGCACTTGTTTTTATTGAGGAATTCTCAGC
* **
14179942 ATGTGACAGATAACAAATCAATCATACAAATAACTTGTATTGTTAGTAATCAATTCTATTTTTGA
65 ATGTGACAGATAACAAATCAATCATACAAATAACTTG--TCGTTAGTAATCAATTCTATCGTTGA
* *
14180007 TTTCAAGACAGTTAACCAAAGGCAATATCACTGACTTCGTTT
128 TTACAAGACACTTAACCAAAGGCAATATCACTGACTTCGTTT
* *
14180049 TAAAATTTGTTAATGTTCTGCA-AAA-AGGCAACTGCACTTGTTTTTATTGA-GAATTCTTAGCG
1 TAAAATTTGTTAATGTTCTGCATAAAGAGGCAACTGCACTTGTTTTTATTGAGGAATTCTCAGCA
* ** * *
14180111 TGTGACAGCTTTCAGATCAATCATATAAATAACTTGTCGTTAGTAATCAATTCTATCGTTGATTA
66 TGTGACAGATAACAAATCAATCATACAAATAACTTGTCGTTAGTAATCAATTCTATCGTTGATTA
14180176 CAAGACACTTAAC
131 CAAGACACTTAAC
14180189 TGTGTCTCAT
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
166 37 0.30
168 40 0.33
169 21 0.17
171 3 0.02
172 22 0.18
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (169 bp):
TAAAATTTGTTAATGTTCTGCATAAAGAGGCAACTGCACTTGTTTTTATTGAGGAATTCTCAGCA
TGTGACAGATAACAAATCAATCATACAAATAACTTGTCGTTAGTAATCAATTCTATCGTTGATTA
CAAGACACTTAACCAAAGGCAATATCACTGACTTCGTTT
Found at i:14189120 original size:14 final size:14
Alignment explanation
Indices: 14189103--14189137 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14189093 TTTTCAAAAG
14189103 CACTTTTTTTACAA
1 CACTTTTTTTACAA
*
14189117 CACTTTTTTTATAA
1 CACTTTTTTTACAA
*
14189131 CAATTTT
1 CACTTTT
14189138 CAAAAGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (14 bp):
CACTTTTTTTACAA
Found at i:14190726 original size:19 final size:20
Alignment explanation
Indices: 14190681--14190726 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
14190671 TAATGTGTCT
14190681 AATTAAGTTTCAATTAGATGA
1 AATT-AGTTTCAATTAGATGA
*
14190702 ATTTAGTTT-AATTAAGA-GA
1 AATTAGTTTCAATT-AGATGA
14190721 AATTAG
1 AATTAG
14190727 AAAAAATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.50
20 8 0.36
21 3 0.14
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (20 bp):
AATTAGTTTCAATTAGATGA
Found at i:14191212 original size:5 final size:6
Alignment explanation
Indices: 14191195--14191219 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14191185 AGGAGAAAGG
14191195 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
14191220 CTAAGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Done.