Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 87 of 182
Found at i:27494763 original size:100 final size:100
Alignment explanation
Indices: 27494590--27494776 Score: 286
Period size: 100 Copynumber: 1.9 Consensus size: 100
27494580 TCTTCATTTC
* * *
27494590 ATAAAGTCATGTATTGTGTAACTCTCATATTAGTTAAGTATACATCATAAATAATGACATGCATT
1 ATAAAGACATGCATTATGTAACTCTCATATTAGTTAAGTATACATCATAAATAATGACATGCATT
27494655 ATGTAACTCTC-ATATTAGTTAAGTATAAATTATCA
66 ATGTAACTC-CAATATTAGTTAAGTATAAATTATCA
* * * *
27494690 ATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTTCATCATAAATCATGACATGCATT
1 ATAAAGACATGCATTATGTAACTCTCATATTAGTTAAGTATACATCATAAATAATGACATGCATT
*
27494755 ATGTAACTCCAATGTTAGTTAA
66 ATGTAACTCCAATATTAGTTAA
27494777 AGTTTGCATC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 1 0.01
100 77 0.99
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (100 bp):
ATAAAGACATGCATTATGTAACTCTCATATTAGTTAAGTATACATCATAAATAATGACATGCATT
ATGTAACTCCAATATTAGTTAAGTATAAATTATCA
Found at i:27498735 original size:49 final size:49
Alignment explanation
Indices: 27498643--27499030 Score: 251
Period size: 49 Copynumber: 7.9 Consensus size: 49
27498633 CTTTAACCTA
* * * ** ** *
27498643 TCCCTCTTTGGTTTTAAGGTGTAAGATCTACCGTTATGGCTTCAATCTT
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCTT
* * * * *
27498692 TCCTTATTTGGTTTTAAGGTGTTAGATCCACCGTTGCAACTTCAATCTA
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCTT
* * * * * * * * *
27498741 TCCCTCTTCGATTTTAAGGTATTAGGTCCGCCATTGTGGCTTCAACCTA
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCTT
* * * * * * *
27498790 TCCCTATTAGGTTTTAAGGTATAAGATCTGTCATTGCGACTTTAATCTT
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCTT
* * ** * * * ** * *
27498839 TCCTTCTTCAATTTTAGGGTGTTAGGTCTGCTATTGC-AGCTTCAACCTA
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGA-CTTCAATCTT
* * * * *
27498888 TCCCTATTCAGTTTTAAGGTGTAAGATCCGTCGTTAC-AGTTTCAATCTT
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGA-CTTCAATCTT
* * * **
27498937 TCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGCGACTTCAATCTAT
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCT-T
* * *
27498987 T-CCTATTTGGTTTTAAGGTGTTAGGTCCGTCGTTGCGACTTCAA
1 TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAA
27499031 CATATCCCTT
Statistics
Matches: 261, Mismatches: 75, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
48 1 0.00
49 257 0.98
50 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (49 bp):
TCCCTATTCGGTTTTAAGGTGTTAGATCCGCCGTTGCGACTTCAATCTT
Found at i:27498837 original size:147 final size:146
Alignment explanation
Indices: 27498623--27499044 Score: 382
Period size: 147 Copynumber: 2.9 Consensus size: 146
27498613 TTTTAAGTTT
* * * * ** *
27498623 GCCATTAC-GACTTTAACCTATCCCTCTTTGGTTTTAAGGTGTAAGATCTACCGTTATGGCTTCA
1 GCCATTACAG-CTTCAACCTATCCCTATTAGGTTTTAAGGTGTAAGATCTATCGTTGCGACTTCA
* * *
27498687 ATCTTTCCTTATTTGGTTTTAAGGTGTTAGATCCACCGTTGCAACTTCAATCTATCCCTCTTC-G
65 ATCTTTCCTTATTTGGTTTTAAGGTGTTAGGTCCGCCGTTGCAACTTCAA-CTATCCCTATTCAG
* *
27498751 ATTTTAAGGTATTAGGTCC
129 -TTTTAAGGTATAAGATCC
*** * * * *
27498770 GCCATTGTGGCTTCAACCTATCCCTATTAGGTTTTAAGGTATAAGATCTGTCATTGCGACTTTAA
1 GCCATTACAGCTTCAACCTATCCCTATTAGGTTTTAAGGTGTAAGATCTATCGTTGCGACTTCAA
* *** * * ** *
27498835 TCTTTCCTTCTTCAATTTTAGGGTGTTAGGTCTGCTATTGCAGCTTCAACCTATCCCTATTCAGT
66 TCTTTCCTTATTTGGTTTTAAGGTGTTAGGTCCGCCGTTGCAACTTCAA-CTATCCCTATTCAGT
*
27498900 TTTAAGGTGTAAGATCC
130 TTTAAGGTATAAGATCC
* * * * * * * * * * *
27498917 GTCGTTACAGTTTCAATCTTTCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGCGACTTCAA
1 GCCATTACAGCTTCAACCTATCCCTATTAGGTTTTAAGGTGTAAGATCTATCGTTGCGACTTCAA
* * *
27498982 TCTATTCC-TATTTGGTTTTAAGGTGTTAGGTCCGTCGTTGCGACTTCAACATATCCCTTTTCA
66 TCT-TTCCTTATTTGGTTTTAAGGTGTTAGGTCCGCCGTTGCAACTTCAAC-TATCCCTATTCA
27499045 ACTCTAGGAT
Statistics
Matches: 212, Mismatches: 59, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
146 1 0.00
147 205 0.97
148 6 0.03
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (146 bp):
GCCATTACAGCTTCAACCTATCCCTATTAGGTTTTAAGGTGTAAGATCTATCGTTGCGACTTCAA
TCTTTCCTTATTTGGTTTTAAGGTGTTAGGTCCGCCGTTGCAACTTCAACTATCCCTATTCAGTT
TTAAGGTATAAGATCC
Found at i:27499040 original size:98 final size:98
Alignment explanation
Indices: 27498526--27499043 Score: 388
Period size: 98 Copynumber: 5.3 Consensus size: 98
27498516 TAAGATTCAC
* * *
27498526 CGTTGCGGCTTTAATCTATTCCCTTTTCGATTTTAGGGTGTTAGATTCATCGTTGTGGCTTCAAT
1 CGTTGCGACTTCAATCTA-TCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGTGGCTTCAAT
* * * * ** *
27498591 C-AATCCATCTTTGGTTTTAGGGTTTTA-AGTTTGC
65 CTATTCC-TATTTGGTTTTAAGGTGTTAGA-TCCGT
* * * * * * * * * *
27498625 CATTACGACTTTAACCTATCCCTCTTT-GGTTTTAAGGTGTAAGATCTACCGTTATGGCTTCAAT
1 CGTTGCGACTTCAATCTATCCCT-TTTCGATTTTAGGGTGTTAGATCCATCGTTGTGGCTTCAAT
**
27498689 CT-TTCCTTATTTGGTTTTAAGGTGTTAGATCCAC
65 CTATTCC-TATTTGGTTTTAAGGTGTTAGATCCGT
* * * * * ** * *
27498723 CGTTGCAACTTCAATCTATCCCTCTTCGATTTTAAGGTATTAGGTCCGCCATTGTGGCTTCAACC
1 CGTTGCGACTTCAATCTATCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGTGGCTTCAATC
* * * * *
27498788 TATCCCTATTAGGTTTTAAGGTATAAGATCTGT
66 TATTCCTATTTGGTTTTAAGGTGTTAGATCCGT
* * * * * * **
27498821 CATTGCGACTTTAATCT-TTCCTTCTTCAATTTTAGGGTGTTAGGT-C-TGCTATTGCAGCTTCA
1 CGTTGCGACTTCAATCTATCCCTT-TTCGATTTTAGGGTGTTAGATCCAT-C-GTTGTGGCTTCA
* * ** *
27498883 ACCTATCCCTATTCAGTTTTAAGGTGTAAGATCCGT
63 ATCTATTCCTATTTGGTTTTAAGGTGTTAGATCCGT
* * * * *
27498919 CGTTAC-AGTTTCAATCTTTCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGCGACTTCAAT
1 CGTTGCGA-CTTCAATCTATCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGTGGCTTCAAT
*
27498983 CTATTCCTATTTGGTTTTAAGGTGTTAGGTCCGT
65 CTATTCCTATTTGGTTTTAAGGTGTTAGATCCGT
27499017 CGTTGCGACTTCAA-CATATCCCTTTTC
1 CGTTGCGACTTCAATC-TATCCCTTTTC
27499044 AACTCTAGGA
Statistics
Matches: 330, Mismatches: 75, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
97 10 0.03
98 290 0.88
99 29 0.09
100 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (98 bp):
CGTTGCGACTTCAATCTATCCCTTTTCGATTTTAGGGTGTTAGATCCATCGTTGTGGCTTCAATC
TATTCCTATTTGGTTTTAAGGTGTTAGATCCGT
Found at i:27503804 original size:50 final size:50
Alignment explanation
Indices: 27503745--27503847 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
27503735 TTCTTCTTTC
*
27503745 TTTGAGCCGCCGTTTCAGGTTTTCAACTCAAATTTTTGGATTTTGATTTT
1 TTTGAGCCGCCGTTTCAGGTTTTCAACTCAAACTTTTGGATTTTGATTTT
*
27503795 TTTGAGCCGCCGTTTCAGGTTTTCAACTCAAACTTTTGGATTTTTATTTT
1 TTTGAGCCGCCGTTTCAGGTTTTCAACTCAAACTTTTGGATTTTGATTTT
27503845 TTT
1 TTT
27503848 AAGCAAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (50 bp):
TTTGAGCCGCCGTTTCAGGTTTTCAACTCAAACTTTTGGATTTTGATTTT
Found at i:27510667 original size:3 final size:3
Alignment explanation
Indices: 27510659--27510687 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
27510649 TTACCAAAGA
27510659 TGT TGT TGT TGT TGT TGT TGT TGT T-T TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
27510688 AGATCGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TGT
Found at i:27513935 original size:24 final size:25
Alignment explanation
Indices: 27513890--27513940 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
27513880 ATACACGATA
*
27513890 TTACAATCCTTTTTGCATATTTGAT
1 TTACAATCCTTTTTGCAGATTTGAT
**
27513915 TTACAAT-CTTTTTGTGGATTTGAT
1 TTACAATCCTTTTTGCAGATTTGAT
27513939 TT
1 TT
27513941 CCTTTCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.55
Consensus pattern (25 bp):
TTACAATCCTTTTTGCAGATTTGAT
Found at i:27519279 original size:19 final size:21
Alignment explanation
Indices: 27519225--27519279 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
27519215 ATCTTAAAAT
*
27519225 AGTTTAGGAATAATCAGAGAC
1 AGTTTAGGAAAAATCAGAGAC
*
27519246 TAGTTTA-AAACAAATCAGA-A-
1 -AGTTTAGGAA-AAATCAGAGAC
27519266 AGTTTAGGAAAAAT
1 AGTTTAGGAAAAAT
27519280 TGAAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 3 0.11
22 13 0.46
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (21 bp):
AGTTTAGGAAAAATCAGAGAC
Found at i:27520796 original size:6 final size:6
Alignment explanation
Indices: 27520780--27520809 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
27520770 TCACATGTAT
*
27520780 ATCTCA GTCTCA ATCTCA ATCTCA ATCTCA
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
27520810 TGATATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (6 bp):
ATCTCA
Found at i:27521468 original size:21 final size:21
Alignment explanation
Indices: 27521442--27521498 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
27521432 TCTTAGAAAA
* * *
27521442 AGTCAACGGTCAATGATCGAC
1 AGTCAACGGTCAACGACCAAC
*
27521463 AGTCAACGATCAACGACCAAC
1 AGTCAACGGTCAACGACCAAC
*
27521484 AATCAACGGTCAACG
1 AGTCAACGGTCAACG
27521499 GTTCGGTTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.28, G:0.19, T:0.14
Consensus pattern (21 bp):
AGTCAACGGTCAACGACCAAC
Found at i:27521497 original size:14 final size:14
Alignment explanation
Indices: 27521444--27521498 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
27521434 TTAGAAAAAG
*
27521444 TCAACGGTCAATGA
1 TCAACGGTCAACGA
* *
27521458 TCGACAGTCAACGA
1 TCAACGGTCAACGA
** *
27521472 TCAACGACCAACAA
1 TCAACGGTCAACGA
27521486 TCAACGGTCAACG
1 TCAACGGTCAACG
27521499 GTTCGGTTCG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (14 bp):
TCAACGGTCAACGA
Found at i:27521604 original size:18 final size:18
Alignment explanation
Indices: 27521581--27521616 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27521571 ATTGAGCTAA
27521581 GGTTTGGGTGTT-GGGTTT
1 GGTTTGGGT-TTAGGGTTT
27521599 GGTTTGGGTTTAGGGTTT
1 GGTTTGGGTTTAGGGTTT
27521617 TGGTCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (18 bp):
GGTTTGGGTTTAGGGTTT
Found at i:27522653 original size:15 final size:15
Alignment explanation
Indices: 27522635--27522666 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27522625 CACATTAGAT
27522635 ATATATTCATTCAAC
1 ATATATTCATTCAAC
*
27522650 ATATATTCATTTAAC
1 ATATATTCATTCAAC
27522665 AT
1 AT
27522667 TCCACATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATTCATTCAAC
Found at i:27527071 original size:16 final size:16
Alignment explanation
Indices: 27527050--27527082 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27527040 TTTTACTTCA
*
27527050 CCTGCTAGGCTCAAAG
1 CCTGCTAAGCTCAAAG
27527066 CCTGCTAAGCTCAAAG
1 CCTGCTAAGCTCAAAG
27527082 C
1 C
27527083 TTGATTCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.18
Consensus pattern (16 bp):
CCTGCTAAGCTCAAAG
Found at i:27550709 original size:20 final size:20
Alignment explanation
Indices: 27550661--27550736 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 20
27550651 AACTTGTATG
**
27550661 AAAATCATTTTGAAGT-GTT
1 AAAATCATTTTGACTTGGTT
*
27550680 AAAATGATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
* * *
27550700 GAAATCATTTTTACTTGTTT
1 AAAATCATTTTGACTTGGTT
* *
27550720 AAAATTATTTTAACTTG
1 AAAATCATTTTGACTTG
27550737 ATTTTAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:27551231 original size:31 final size:33
Alignment explanation
Indices: 27551196--27551267 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 33
27551186 AACAATGAAT
27551196 TAAAGAAATCAA-T-TGTATCTAAAAATACCAA
1 TAAAGAAATCAAGTATGTATCTAAAAATACCAA
*
27551227 TAAAGCAATCAAGTTCAATGTATCTAAAAATACCAA
1 TAAAGAAATCAAG-T--ATGTATCTAAAAATACCAA
27551263 TAAAG
1 TAAAG
27551268 CCCCTCATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 11 0.31
33 1 0.03
36 23 0.66
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (33 bp):
TAAAGAAATCAAGTATGTATCTAAAAATACCAA
Found at i:27557083 original size:16 final size:15
Alignment explanation
Indices: 27557036--27557086 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
27557026 ATTATAATTT
*
27557036 ATTATTAATATTTTA
1 ATTATAAATATTTTA
27557051 ATATATGAAATA--TTA
1 AT-TAT-AAATATTTTA
27557066 ATTATAAATATTTCTA
1 ATTATAAATATTT-TA
27557082 ATTAT
1 ATTAT
27557087 TTATAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 8 0.27
16 10 0.33
17 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTATAAATATTTTA
Found at i:27557161 original size:14 final size:14
Alignment explanation
Indices: 27557124--27557165 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27557114 CTATATTTTA
27557124 AATATTTAAATA-T
1 AATATTTAAATATT
27557137 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
27557151 TATATTTAAATATT
1 AATATTTAAATATT
27557165 A
1 A
27557166 GCACAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:27559063 original size:16 final size:16
Alignment explanation
Indices: 27559042--27559073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27559032 AGTAATTTTT
*
27559042 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
27559058 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
27559074 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:27562610 original size:72 final size:72
Alignment explanation
Indices: 27562414--27562581 Score: 276
Period size: 72 Copynumber: 2.4 Consensus size: 72
27562404 TTTTATAGCC
* *
27562414 AAAATCAAATATAAACAACTATTGATAAAACT--A--A-A-ATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
27562473 ATATCCA
66 ATATCCA
27562480 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
27562545 ATATCCA
66 ATATCCA
27562552 AAAACCAAACATAAACAACTATTGATAAAA
1 AAAACCAAACATAAACAACTATTGATAAAA
27562582 TTAGTTTAGC
Statistics
Matches: 94, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
66 30 0.32
68 1 0.01
70 1 0.01
71 1 0.01
72 61 0.65
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:27564060 original size:39 final size:40
Alignment explanation
Indices: 27563957--27564197 Score: 218
Period size: 40 Copynumber: 6.1 Consensus size: 40
27563947 GTTAGATTCG
* * * * *
27563957 GTGTTAATGTTCAAGCTTCGACTTAGTAGGCTATGAGCTA
1 GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
* *
27563997 GTGTTAATATTCAAGCTTCAGCTTAGTAGGCCATGAGCCA
1 GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
* * ***
27564037 GTG-TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGTTG
1 GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
** * *
27564076 GTGTTAATATTCAAGCTTTAGCTTAGCAAGCCATGAGCCG
1 GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
* * * * **
27564116 GTG-TAACATTCAAGCTTCGGCTTAGCAAGCTAAGAGCTG
1 GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
* * * *
27564155 GTGTTAAAATAT-AAGCTACGGCTTAGCAAGCTATGAGCCA
1 GTGTTAATAT-TCAAGCTTCGGCTTAGCAGGCCATGAGCCA
27564195 GTG
1 GTG
27564198 AATTCATAAG
Statistics
Matches: 168, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 65 0.39
40 102 0.61
41 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (40 bp):
GTGTTAATATTCAAGCTTCGGCTTAGCAGGCCATGAGCCA
Found at i:27564092 original size:79 final size:79
Alignment explanation
Indices: 27563961--27564197 Score: 314
Period size: 79 Copynumber: 3.0 Consensus size: 79
27563951 GATTCGGTGT
* * * * *
27563961 TAATGTTCAAGCTTCGACTTAGTAGGCTATGAGCTAGTGTTAATATTCAAGCTTCAGCTTAGTAG
1 TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGCTGGTGTTAATATTCAAGCTTCAGCTTAGCAA
27564026 GCCATGAGCCAGTG
66 GCCATGAGCCAGTG
* *
27564040 TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGTTGGTGTTAATATTCAAGCTTTAGCTTAGCAA
1 TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGCTGGTGTTAATATTCAAGCTTCAGCTTAGCAA
*
27564105 GCCATGAGCCGGTG
66 GCCATGAGCCAGTG
** * * * * *
27564119 TAACATTCAAGCTTCGGCTTAGCAAGCTAAGAGCTGGTGTTAAAATAT-AAGCTACGGCTTAGCA
1 TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGCTGGTGTTAATAT-TCAAGCTTCAGCTTAGCA
*
27564183 AGCTATGAGCCAGTG
65 AGCCATGAGCCAGTG
27564198 AATTCATAAG
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
79 137 0.99
80 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (79 bp):
TAATGTTCAAGCTTCGGCTTAGCAGGCTATGAGCTGGTGTTAATATTCAAGCTTCAGCTTAGCAA
GCCATGAGCCAGTG
Found at i:27565145 original size:18 final size:18
Alignment explanation
Indices: 27565116--27565167 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
27565106 CGTTTCCATC
*
27565116 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTAA
27565134 AAT-TTGAACATCATTTAA
1 AATGTT-AACATCATTTAA
27565152 AATGTTAACATCATTT
1 AATGTTAACATCATTT
27565168 CCTGCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 2 0.06
18 27 0.87
19 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (18 bp):
AATGTTAACATCATTTAA
Found at i:27581293 original size:26 final size:26
Alignment explanation
Indices: 27581257--27581401 Score: 127
Period size: 26 Copynumber: 5.6 Consensus size: 26
27581247 GAGATAAATG
27581257 AGCAGGCTTCGAGCCAGTGTATATTT
1 AGCAGGCTTCGAGCCAGTGTATATTT
* *
27581283 AGCAGGCTTCGAGCCGGTGTATATGT
1 AGCAGGCTTCGAGCCAGTGTATATTT
* * **
27581309 AGTAGGCTTTGAGCTGGTGTATATTT
1 AGCAGGCTTCGAGCCAGTGTATATTT
** * * *
27581335 AATAGGCTTCGAG-TAGGTGAATGTTT
1 AGCAGGCTTCGAGCCA-GTGTATATTT
*
27581361 AGCAAGCCTT-GAGCCAGTG-A-ATGTT
1 AGC-AGGCTTCGAGCCAGTGTATAT-TT
27581386 AGCAGGCTTCGAGCCA
1 AGCAGGCTTCGAGCCA
27581402 ATGAACGTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
24 6 0.06
25 13 0.13
26 72 0.74
27 6 0.06
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (26 bp):
AGCAGGCTTCGAGCCAGTGTATATTT
Found at i:27596252 original size:26 final size:25
Alignment explanation
Indices: 27596213--27596307 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 25
27596203 GAGATAAATG
27596213 AGCAGGCTTCGAGCCGGTGTATATTT
1 AGCAGGCTTCGAGCCGGTG-ATATTT
* *
27596239 AGCAGGCTTTGAGCCGGTGAATGTTT
1 AGCAGGCTTCGAGCCGGTG-ATATTT
27596265 AGCAGGCCTT-GAGCCGGTGA-ATGTT
1 AGCAGG-CTTCGAGCCGGTGATAT-TT
*
27596290 AGCAGACTTCGAGCCGGT
1 AGCAGGCTTCGAGCCGGT
27596308 AAATGTTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
24 4 0.07
25 16 0.26
26 38 0.62
27 3 0.05
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (25 bp):
AGCAGGCTTCGAGCCGGTGATATTT
Found at i:27596313 original size:51 final size:52
Alignment explanation
Indices: 27596213--27596319 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
27596203 GAGATAAATG
* * *
27596213 AGCAGGCTTCGAGCCGGTGTATATTTAGCAGGCTTTGAGCCGGTGAATGTTT
1 AGCAGGCTTCGAGCCGGTGTATATTTAGCAGACTTCGAGCCGGTAAATGTTT
27596265 AGCAGGCCTT-GAGCCGGTG-A-ATGTTAGCAGACTTCGAGCCGGTAAATGTTT
1 AGCAGG-CTTCGAGCCGGTGTATAT-TTAGCAGACTTCGAGCCGGTAAATGTTT
27596316 AGCA
1 AGCA
27596320 AGTACTATCT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
50 2 0.04
51 30 0.60
52 15 0.30
53 3 0.06
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (52 bp):
AGCAGGCTTCGAGCCGGTGTATATTTAGCAGACTTCGAGCCGGTAAATGTTT
Found at i:27597178 original size:49 final size:49
Alignment explanation
Indices: 27597105--27597199 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
27597095 TGTGACACGG
* * * *
27597105 GCTGTCACACGGTTGTGTGTCATTTTAGAATGCAGTGCATGTTACAGGA
1 GCTGTCACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACAGGA
*
27597154 GCTGTCACACGGCTGTGTGCCATTTTAAAATGCAGTGTAGGTTACA
1 GCTGTCACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACA
27597200 TGGGCTAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (49 bp):
GCTGTCACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACAGGA
Found at i:27597212 original size:49 final size:49
Alignment explanation
Indices: 27597110--27597214 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
27597100 CACGGGCTGT
* * * * **
27597110 CACACGGTTGTGTGTCATTTTAGAATGCAGTGCATGTTACAGGAGCTGT
1 CACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACAGGAGCTAA
*
27597159 CACACGGCTGTGTGCCATTTTAAAATGCAGTGTAGGTTACATGG-GCTAA
1 CACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACA-GGAGCTAA
27597208 CACACGG
1 CACACGG
27597215 GCTTGGACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 46 0.96
50 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
CACACGGCTGTGTGCCATTTTAAAATGCAGTGCAGGTTACAGGAGCTAA
Found at i:27611921 original size:25 final size:26
Alignment explanation
Indices: 27611893--27611957 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
27611883 CAGATAACAC
* *
27611893 GCCACAAGGGCTTTT-CATAAGATTA
1 GCCACAAAGGCTTTTCCACAAGATTA
***
27611918 GCCACAAAATTTTTTCCACAAGATTA
1 GCCACAAAGGCTTTTCCACAAGATTA
27611944 GCCACAAAGGCTTT
1 GCCACAAAGGCTTT
27611958 CCAAGTAACC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (26 bp):
GCCACAAAGGCTTTTCCACAAGATTA
Found at i:27617400 original size:60 final size:61
Alignment explanation
Indices: 27617307--27617674 Score: 314
Period size: 62 Copynumber: 6.1 Consensus size: 61
27617297 GGAAAAAAAG
*
27617307 TTTTGGTGTTGGCCATGC-AT-GACCGACACCCCTTTTTAATCTGATAAAAAAA-TT-AAA-T
1 TTTTGGTGTTGGCCATGCAATAG-CCGACACCCCTTTTT-ATCAGATAAAAAAATTTAAAATT
* *
27617365 TTTTGGATGTTGGCCACGCAATAGCCGACACCCCTTTTTTTCAGATAAAAAAAATTTAAAATT
1 TTTTGG-TGTTGGCCATGCAATAGCCGACACCCCTTTTTATCAGAT-AAAAAAATTTAAAATT
* * * *
27617428 TTTTGGTGTTAGCCATGCAATGGCCGACACTCCTTTTTTTCAGATAAAAAAATTTTAAAATT
1 TTTTGGTGTTGGCCATGCAATAGCCGACACCCCTTTTTATCAGATAAAAAAA-TTTAAAATT
* * ** **
27617490 TTTTGGTGTTGGCCATGCCATAGCCGACACCTCC--TTTGTCAGAT-AAAAAATTCGATTTT
1 TTTTGGTGTTGGCCATGCAATAGCCGACACC-CCTTTTTATCAGATAAAAAAATTTAAAATT
* * * * * *
27617549 TTTTTGTGTTGACCATGCCAT-GACCAACACCCCTTTTTTATCTGATAAAAAAA-TT-AATTT
1 TTTTGGTGTTGGCCATGCAATAG-CCGACACCCC-TTTTTATCAGATAAAAAAATTTAAAATT
* * * * * * *
27617609 TTTTTGTGTTGGTCATGCAAT-GACCGACACTTCCTTTTTGTGAAAT-AAAAAA-TTCAAATT
1 TTTTGGTGTTGGCCATGCAATAG-CCGACAC-CCCTTTTTATCAGATAAAAAAATTTAAAATT
27617669 TTTTGG
1 TTTTGG
27617675 CCAACACCAA
Statistics
Matches: 260, Mismatches: 34, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
58 9 0.03
59 55 0.21
60 77 0.30
61 30 0.12
62 80 0.31
63 9 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (61 bp):
TTTTGGTGTTGGCCATGCAATAGCCGACACCCCTTTTTATCAGATAAAAAAATTTAAAATT
Found at i:27617474 original size:121 final size:115
Alignment explanation
Indices: 27617307--27617674 Score: 355
Period size: 121 Copynumber: 3.1 Consensus size: 115
27617297 GGAAAAAAAG
*
27617307 TTTTGGTGTTGGCCATGCATGACCGACACCCCTTTTTAATCTGATAAAAAAATTAAATTTTTGGA
1 TTTTGGTGTT-GCCATGCATGACCGACACCCCTTTTT-TTCTGATAAAAAAATTAAATTTTTGG-
* *
27617372 TGTTGGCCACGCAATAGCCGACACC-CCTTTTTTTCAGATAAAAAAAATTTAAAATT
63 TGTTGGCCACGCAATAGCCGACACCTCC--TTTGTCAGAT--AAAAAATTCAAAATT
* * *
27617428 TTTTGGTGTTAGCCATGCAATGGCCGACACTCCTTTTTTTCAGATAAAAAAATTTTAAAATTTTT
1 TTTTGGTGTT-GCCATGC-ATGACCGACACCCCTTTTTTTCTGATAAAAAAA--TT-AAA-TTTT
* * * **
27617493 TGGTGTTGGCCATGCCATAGCCGACACCTCCTTTGTCAGATAAAAAATTCGATTTT
60 TGGTGTTGGCCACGCAATAGCCGACACCTCCTTTGTCAGATAAAAAATTCAAAATT
* * * *
27617549 TTTTTGTGTTGACCATGCCATGACCAACACCCCTTTTTTATCTGATAAAAAAATTAATTTTTTTT
1 TTTTGGTGTTG-CCATG-CATGACCGACACCCCTTTTTT-TCTGATAAAAAAATTAA-ATTTTTG
* * * * *
27617614 GTGTTGGTCATGCAAT-GACCGACACTTCCTTTTTGTGAAATAAAAAATTC-AAATT
62 GTGTTGGCCACGCAATAG-CCGACACCTCC--TTTGTCAGATAAAAAATTCAAAATT
27617669 TTTTGG
1 TTTTGG
27617675 CCAACACCAA
Statistics
Matches: 207, Mismatches: 27, Indels: 27
0.79 0.10 0.10
Matches are distributed among these distances:
118 1 0.00
119 31 0.15
120 11 0.05
121 88 0.43
122 30 0.14
123 11 0.05
124 26 0.13
125 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (115 bp):
TTTTGGTGTTGCCATGCATGACCGACACCCCTTTTTTTCTGATAAAAAAATTAAATTTTTGGTGT
TGGCCACGCAATAGCCGACACCTCCTTTGTCAGATAAAAAATTCAAAATT
Found at i:27617579 original size:59 final size:59
Alignment explanation
Indices: 27617307--27617672 Score: 223
Period size: 60 Copynumber: 6.1 Consensus size: 59
27617297 GGAAAAAAAG
* * * *
27617307 TTTTGGTGTTGGCCATG-CATGACCGACACC-CCTTTTTAATCTGATAAAAAAATT-AA-AT
1 TTTTTGTGTTGGCCATGCCATGACCGACACCTCC-TTTT-GTCAGAT-AAAAAATTCAATTT
* * * * * *
27617365 TTTTGGATGTTGGCCACGCAAT-AGCCGACACC-CCTTTTTTTCAGATAAAAAAAATTTAAAATT
1 TTTTTG-TGTTGGCCATGCCATGA-CCGACACCTCC-TTTTGTCAGAT--AAAAAA-TTCAATTT
* * * * * * *
27617428 TTTTGGTGTTAGCCATGCAATGGCCGACA-CTCCTTTTTTTCAGATAAAAAAATTTTAAAATT
1 TTTTTGTGTTGGCCATGCCATGACCGACACCTCC-TTTTGTCAGAT-AAAAAA--TTCAATTT
* *
27617490 TTTTGGTGTTGGCCATGCCAT-AGCCGACACCTCC-TTTGTCAGATAAAAAATTCGATTTT
1 TTTTTGTGTTGGCCATGCCATGA-CCGACACCTCCTTTTGTCAGATAAAAAATTC-AATTT
* * * *
27617549 TTTTTGTGTTGACCATGCCATGACCAACACC-CCTTTTTTATCTGATAAAAAAATT-AATTT
1 TTTTTGTGTTGGCCATGCCATGACCGACACCTCC--TTTTGTCAGAT-AAAAAATTCAATTT
* * * * * *
27617609 TTTTTGTGTTGGTCATGCAATGACCGACACTTCCTTTTTGTGAAATAAAAAATTCAAATT
1 TTTTTGTGTTGGCCATGCCATGACCGACACCTCC-TTTTGTCAGATAAAAAATTCAATTT
27617669 TTTT
1 TTTT
27617673 GGCCAACACC
Statistics
Matches: 257, Mismatches: 31, Indels: 38
0.79 0.10 0.12
Matches are distributed among these distances:
58 10 0.04
59 53 0.21
60 77 0.30
61 29 0.11
62 77 0.30
63 11 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (59 bp):
TTTTTGTGTTGGCCATGCCATGACCGACACCTCCTTTTGTCAGATAAAAAATTCAATTT
Found at i:27627690 original size:21 final size:21
Alignment explanation
Indices: 27627659--27627716 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
27627649 AACAATGTAG
* *
27627659 ACTTATACCGATACTTGAGTA
1 ACTTCTACCGATACTAGAGTA
* * *
27627680 AGTTCTACCGATACAAGTGTA
1 ACTTCTACCGATACTAGAGTA
27627701 ACTTCTACCGATACTA
1 ACTTCTACCGATACTA
27627717 AAAACTCCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (21 bp):
ACTTCTACCGATACTAGAGTA
Found at i:27629173 original size:13 final size:13
Alignment explanation
Indices: 27629155--27629179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27629145 TTTAGTACAT
27629155 TGACATTTAACTC
1 TGACATTTAACTC
27629168 TGACATTTAACT
1 TGACATTTAACT
27629180 TTGAATGCAT
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:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
TGACATTTAACTC
Found at i:27630055 original size:52 final size:52
Alignment explanation
Indices: 27629972--27630314 Score: 472
Period size: 52 Copynumber: 6.6 Consensus size: 52
27629962 ATTTTATTGA
* *
27629972 ATACTCACGATGATACATAGTCATC-GAACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAG-ACCTCATAATCCGTAAAGGATTCAT
* *
27630024 ATACTCACGATGACACATAGCCTTCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * * * *
27630076 ATACTCACAACGACACATAGTCGTCAAACGTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * * *
27630128 ATACTCACGATGACACATAGTCGTCGGACCTTATAATCTGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
27630180 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * *
27630232 ATACTTACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTGAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
27630284 ATACTCACAATGACACATAATCATCGGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
27630315 TTCATTTATG
Statistics
Matches: 261, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
52 260 1.00
53 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:27648842 original size:20 final size:21
Alignment explanation
Indices: 27648798--27648844 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
27648788 TAATGGTTAT
27648798 ATTTTA-ATATTTAAAATATA
1 ATTTTACATATTTAAAATATA
*
27648818 A-TTTACATATTTAAATTA-A
1 ATTTTACATATTTAAAATATA
27648837 ATTTTACA
1 ATTTTACA
27648845 AATAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTACATATTTAAAATATA
Found at i:27649935 original size:30 final size:31
Alignment explanation
Indices: 27649860--27649935 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
27649850 TTAGTCCAAT
* *
27649860 TTGGTACTCAAACTTGACACTTTTTCCTAAT
1 TTGGTACTTAAACTTGACACTTTTTCCTAAG
* * *
27649891 TTGATACCTAAACTTGACACTTTTT-TTAAG
1 TTGGTACTTAAACTTGACACTTTTTCCTAAG
27649921 TTGGTACTTAAACTT
1 TTGGTACTTAAACTT
27649936 TTTGGGGTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 16 0.42
31 22 0.58
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (31 bp):
TTGGTACTTAAACTTGACACTTTTTCCTAAG
Found at i:27650186 original size:29 final size:29
Alignment explanation
Indices: 27650134--27650298 Score: 115
Period size: 29 Copynumber: 5.6 Consensus size: 29
27650124 ATTTAATAAA
27650134 TTTAGGTACCAAATT--GAATCTAAAAAAAG
1 TTTAGGTACCAAATTAGGAA--TAAAAAAAG
*
27650163 CTTAGGTACCAAATTAGGAATAAAATGACAAG
1 TTTAGGTACCAAATTAGGAATAAAA--A-AAG
* * * *
27650195 TTTAAGTATCAAATTAGGTACAAAAAAAG
1 TTTAGGTACCAAATTAGGAATAAAAAAAG
* **
27650224 TTTAGATACCAAATTAGGAA-AAAGTGTCAAG
1 TTTAGGTACCAAATTAGGAATAAA---AAAAG
* * * *
27650255 TTCAAGTACCCAATT-GG-GTAAAAAAAG
1 TTTAGGTACCAAATTAGGAATAAAAAAAG
27650282 TTTAGGTACCAAATTAG
1 TTTAGGTACCAAATTAG
27650299 AAAAATATAT
Statistics
Matches: 104, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
27 15 0.14
28 4 0.04
29 38 0.37
30 6 0.06
31 18 0.17
32 23 0.22
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (29 bp):
TTTAGGTACCAAATTAGGAATAAAAAAAG
Found at i:27650292 original size:58 final size:58
Alignment explanation
Indices: 27650154--27650326 Score: 213
Period size: 58 Copynumber: 2.9 Consensus size: 58
27650144 AAATTGAATC
* * * *
27650154 TAAAAAAAGCTTAGGTACCAAATTAGGAATAAAATGACAAGTTTAAGTATCAAATTAGG
1 TAAAAAAAGTTTAGGTACCAAATTAGGAA-AAAATGTCAAGTTCAAGTACCAAATTAGG
* * * *
27650213 TACAAAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTCAAGTACCCAATTGGG
1 T--AAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTAGG
* *
27650273 TAAAAAAAGTTTAGGTACCAAATTA-GAAAAATATATCAAGTTCAAATACCAAAT
1 TAAAAAAAGTTTAGGTACCAAATTAGGAAAAA-ATGTCAAGTTCAAGTACCAAAT
27650327 ATTATATTAA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 6 0.06
58 41 0.42
59 1 0.01
60 24 0.24
61 26 0.27
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (58 bp):
TAAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTAGG
Found at i:27670223 original size:186 final size:184
Alignment explanation
Indices: 27669924--27670549 Score: 637
Period size: 191 Copynumber: 3.3 Consensus size: 184
27669914 GTGGGTTCGT
* * * * *
27669924 TTAAAACAACAAAGTAAATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGTTC
1 TTAAAACAACGAAGCAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTACCAGATC
* * * * * * * *
27669989 CTATACCCCTGGACTGTAGTGGGTCGAATTAAAA-AAATGAAGCAGATCTCAATGTTCC-TAATG
66 CTATATCCCTGAAGT-TAGTGGATCGAATTAAAATGAGT-AA-CAGATCTCAATG-TCCGTGAGG
* *
27670052 TTATAGTGGAATAGAGTGAAGCATCAGATCCTATACCCCTGAATTGCAGTGGGTCGGA
127 TTACAGTGGAATAGAGTGAAGCATCAAATCCTATACCCCTGAATTGCAGTGGGTCGGA
* * ** *
27670110 TTAAAATAACGAAGCAGATCTCAATGTCCCTAAGGTTACAGTGGAATAAAGTAAAGTACCAGATC
1 TTAAAACAACGAAGCAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTACCAGATC
* *
27670175 TTATATCCCTGAAGTTACAGTGGATCGAATTAAAATGAGTAACAGATCTTAATGTCCGTGAGGTT
66 CTATATCCCTGAAGTT--AGTGGATCGAATTAAAATGAGTAACAGATCTCAATGTCCGTGAGGTT
* * * * * *
27670240 ACAGTGGAATGGAGTGAAGTTGCAACACTAATCCTATAGCCTTGAGTTGCAGTGGGTCAGA
129 ACAGTGGAATAGAGTGAA---GCATCA--AATCCTATACCCCTGAATTGCAGTGGGTCGGA
** * * * **
27670301 TTAAAACAACGAAGCAGGTCTCAATGTCCTTGAGGTTACAATGGACCGGAGTGAAGCT-CCAGAT
1 TTAAAACAACGAAGCAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAG-TACCAGAT
* *
27670365 CCTATATCCCTGAAGTTGTAGTAGATCGAATTAAAATGAGTAACAGATCTCAATGTCCTTGAGGT
65 CCTATATCCCTGAAG-T-TAGTGGATCGAATTAAAATGAGTAACAGATCTCAATGTCCGTGAGGT
* * * * * *
27670430 TACAATGGAATGGAGTGAAGTTGCAGCACCAAATCCTATACCCTTGAGTTGCAGTGGGTTGGA
128 TACAGTGGAAT--A--G-AG-TGAAGCATCAAATCCTATACCCCTGAATTGCAGTGGGTCGGA
* * *
27670493 TCAAAACAACGAAGCAAATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTTAAGT
1 TTAAAACAACGAAGCAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGT
27670550 TACAACACCA
Statistics
Matches: 365, Mismatches: 57, Indels: 31
0.81 0.13 0.07
Matches are distributed among these distances:
185 4 0.01
186 98 0.27
187 18 0.05
188 2 0.01
189 5 0.01
191 147 0.40
192 79 0.22
193 1 0.00
194 5 0.01
195 1 0.00
196 2 0.01
197 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (184 bp):
TTAAAACAACGAAGCAAATCTCAATGTCCCTAAGGTTACAGTGGAATGGAGTGAAGTACCAGATC
CTATATCCCTGAAGTTAGTGGATCGAATTAAAATGAGTAACAGATCTCAATGTCCGTGAGGTTAC
AGTGGAATAGAGTGAAGCATCAAATCCTATACCCCTGAATTGCAGTGGGTCGGA
Found at i:27670339 original size:191 final size:192
Alignment explanation
Indices: 27670079--27670539 Score: 665
Period size: 191 Copynumber: 2.4 Consensus size: 192
27670069 GAAGCATCAG
* * * *
27670079 ATCCTATACCCCTGAATTGCAGTGGGTCGGATTAAAATAACGAAGCAGATCTCAATGTCCCTAAG
1 ATCCTATACCCTTGAGTTGCAGTGGGTCGGATTAAAACAACGAAGCAGATCTCAATGTCCCTGAG
* *
27670144 GTTACAGTGGAATAAAGTAAAG-TACCAGATCTTATATCCCTGAAGTTACAGTGGATCGAATTAA
66 GTTACAGTGGAATAAAGTAAAGCT-CCAGATCCTATATCCCTGAAGTTACAGTAGATCGAATTAA
* * *
27670208 AATGAGTAACAGATCTTAATGTCCGTGAGGTTACAGTGGAATGGAGTGAAGTTGCAACA-CTA
130 AATGAGTAACAGATCTCAATGTCCGTGAGGTTACAATGGAATGGAGTGAAGTTGCAACACCAA
* * * *
27670270 ATCCTATAGCCTTGAGTTGCAGTGGGTCAGATTAAAACAACGAAGCAGGTCTCAATGTCCTTGAG
1 ATCCTATACCCTTGAGTTGCAGTGGGTCGGATTAAAACAACGAAGCAGATCTCAATGTCCCTGAG
* **** * **
27670335 GTTACAATGGACCGGAGTGAAGCTCCAGATCCTATATCCCTGAAGTTGTAGTAGATCGAATTAAA
66 GTTACAGTGGAATAAAGTAAAGCTCCAGATCCTATATCCCTGAAGTTACAGTAGATCGAATTAAA
* *
27670400 ATGAGTAACAGATCTCAATGTCCTTGAGGTTACAATGGAATGGAGTGAAGTTGCAGCACCAA
131 ATGAGTAACAGATCTCAATGTCCGTGAGGTTACAATGGAATGGAGTGAAGTTGCAACACCAA
* * *
27670462 ATCCTATACCCTTGAGTTGCAGTGGGTTGGATCAAAACAACGAAGCAAATCTCAATGTCCCTGAG
1 ATCCTATACCCTTGAGTTGCAGTGGGTCGGATTAAAACAACGAAGCAGATCTCAATGTCCCTGAG
27670527 GTTACAGTGGAAT
66 GTTACAGTGGAAT
27670540 GGAGTTAAGT
Statistics
Matches: 235, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
191 164 0.70
192 71 0.30
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (192 bp):
ATCCTATACCCTTGAGTTGCAGTGGGTCGGATTAAAACAACGAAGCAGATCTCAATGTCCCTGAG
GTTACAGTGGAATAAAGTAAAGCTCCAGATCCTATATCCCTGAAGTTACAGTAGATCGAATTAAA
ATGAGTAACAGATCTCAATGTCCGTGAGGTTACAATGGAATGGAGTGAAGTTGCAACACCAA
Found at i:27670531 original size:99 final size:99
Alignment explanation
Indices: 27669924--27670665 Score: 531
Period size: 93 Copynumber: 7.7 Consensus size: 99
27669914 GTGGGTTCGT
* * * * *
27669924 TTAAAACAACAAAGTAAATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAG-----CACC
1 TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTCAACACC
** * * * * *
27669984 AGTTCCTATACCCCTGGA-CTGTAGTGGGTCGAA
66 AAATCCTATATCCCTTGAGTTGCAGTGGGTCGGA
* * * * * * * *
27670017 TTAAAAAAATGAAGCAGATCTCAATGTTCCTAATGTTATAGTGGAATAGAGTGAAG-----CATC
1 TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTCAACACC
* * *
27670077 AGATCCTATA-CCCCTGAATTGCAGTGGGTCGGA
66 AAATCCTATATCCCTTGAGTTGCAGTGGGTCGGA
* * ** *
27670110 TTAAAATAACGAAGCAGATCTCAATGTCCCTAAGGTTACAGTGGAATAAAGTAAAG-T----ACC
1 TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTCAACACC
* * * * *
27670170 AGATCTTATATCCC-TGAAGTTACAGTGGATCGAA
66 AAATCCTATATCCCTTG-AGTTGCAGTGGGTCGGA
** * *
27670204 TTAAAATGA-GTAA-CAGATCTTAATGTCCGTGAGGTTACAGTGGAATGGAGTGAAGTTGCAACA
1 TTAAAACAACG-AAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTT-CAACA
* * *
27670267 -CTAATCCTATA-GCCTTGAGTTGCAGTGGGTCAGA
64 CCAAATCCTATATCCCTTGAGTTGCAGTGGGTCGGA
* * * ** *
27670301 TTAAAACAACGAAGCAGGTCTCAATGTCCTTGAGGTTACAATGGACCGGAGTGAAG-----CTCC
1 TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTCAACACC
* * * * *
27670361 AGATCCTATATCCC-TGAAGTTGTAGTAGATCGAA
66 AAATCCTATATCCCTTG-AGTTGCAGTGGGTCGGA
** * * *
27670395 TTAAAATGA-GTAA-CAGATCTCAATGTCCTTGAGGTTACAATGGAATGGAGTGAAGTTGCAGCA
1 TTAAAACAACG-AAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTT-CAACA
*
27670458 CCAAATCCTATA-CCCTTGAGTTGCAGTGGGTTGGA
64 CCAAATCCTATATCCCTTGAGTTGCAGTGGGTCGGA
* * *
27670493 TCAAAACAACGAAGCAAATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTTAAGTTACAACAC
1 TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTT-CAACAC
* ** * * *
27670558 CAAATCCTATACCCCTAAAGTTACAAAT-GGTCGGG
65 CAAATCCTATATCCCTTGAGTTGC-AGTGGGTCGGA
* * * * *
27670593 TTAAAACATCAAAAGCAGATCTCAATGTCCCTGAGGTTACACTGGAATAGAGAGAAGCTTCAACA
1 TTAAAACAAC-GAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-TTCAACA
27670658 CCAAATCC
64 CCAAATCC
27670666 CATCTTTCGA
Statistics
Matches: 523, Mismatches: 95, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
92 6 0.01
93 222 0.42
94 50 0.10
97 24 0.05
98 70 0.13
99 72 0.14
100 22 0.04
101 55 0.11
102 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (99 bp):
TTAAAACAACGAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTCAACACC
AAATCCTATATCCCTTGAGTTGCAGTGGGTCGGA
Found at i:27670898 original size:15 final size:15
Alignment explanation
Indices: 27670878--27670914 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
27670868 GGGCCCAATC
* *
27670878 AAATAAACAAATACA
1 AAATAAAAAAATAAA
27670893 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
27670908 AAATAAA
1 AAATAAA
27670915 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:27672552 original size:11 final size:11
Alignment explanation
Indices: 27672536--27672560 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27672526 TTTAACCCCA
27672536 TTTTTTTGTTT
1 TTTTTTTGTTT
27672547 TTTTTTTGTTT
1 TTTTTTTGTTT
27672558 TTT
1 TTT
27672561 ACCTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:27679765 original size:18 final size:17
Alignment explanation
Indices: 27679726--27679762 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27679716 ACTATAATGC
27679726 AAATGTACTAACAAATA
1 AAATGTACTAACAAATA
* *
27679743 AAATGTAGTGACAAATA
1 AAATGTACTAACAAATA
27679760 AAA
1 AAA
27679763 ATGCAATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (17 bp):
AAATGTACTAACAAATA
Found at i:27680248 original size:15 final size:15
Alignment explanation
Indices: 27680228--27680259 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27680218 TCTTCAATTT
*
27680228 CCTTCTTCTTCTCAG
1 CCTTCTCCTTCTCAG
27680243 CCTTCTCCTTCTCAG
1 CCTTCTCCTTCTCAG
27680258 CC
1 CC
27680260 GTGTCTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.47, G:0.06, T:0.41
Consensus pattern (15 bp):
CCTTCTCCTTCTCAG
Found at i:27697516 original size:4 final size:4
Alignment explanation
Indices: 27697507--27697532 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
27697497 ATCACTTGAA
27697507 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
27697533 TAGAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:27740640 original size:20 final size:19
Alignment explanation
Indices: 27740599--27740646 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
27740589 ATTTTTTATA
* *
27740599 TTTACTTTT-TTTATTTTG
1 TTTACTTTTAATTATTTTC
27740617 TTTACTTTTAATTAGTTTTC
1 TTTACTTTTAATTA-TTTTC
*
27740637 TTTAGTTTTA
1 TTTACTTTTA
27740647 TGCAGGAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 3 0.12
20 13 0.52
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTACTTTTAATTATTTTC
Found at i:27742790 original size:16 final size:17
Alignment explanation
Indices: 27742769--27742809 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
27742759 GTTAGTTGCA
27742769 TGCATTTTT-TTGTCAT
1 TGCATTTTTATTGTCAT
*
27742785 TGCATTTTTATTGTCCT
1 TGCATTTTTATTGTCAT
*
27742802 TACATTTT
1 TGCATTTT
27742810 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:27752035 original size:24 final size:25
Alignment explanation
Indices: 27752007--27752060 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
27751997 GGGAAATGCA
*
27752007 TGGAAAATTATTGAAAATGTTAAT-
1 TGGAAAATTATTGAAAATGCTAATG
27752031 TGGAAAATTATTGAAAATGCTAATG
1 TGGAAAATTATTGAAAATGCTAATG
27752056 TGGAA
1 TGGAA
27752061 GTGGAAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGAAAATTATTGAAAATGCTAATG
Found at i:27752404 original size:16 final size:16
Alignment explanation
Indices: 27752385--27752419 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27752375 TGAAGAGTAT
27752385 TAATCTAAATTAAAAC
1 TAATCTAAATTAAAAC
*
27752401 TAATCTAAGTTAAAAC
1 TAATCTAAATTAAAAC
27752417 TAA
1 TAA
27752420 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATCTAAATTAAAAC
Found at i:27752941 original size:109 final size:109
Alignment explanation
Indices: 27752750--27752969 Score: 361
Period size: 109 Copynumber: 2.0 Consensus size: 109
27752740 AGATTAAATT
* *
27752750 CAACAATTTCTCAAGAATTGTTGTCGCGTTCTTCTCCATTTTTGCTCGATTCTTTCCATATTGAG
1 CAACAATTTCTCAAGAATCGTTCTCGCGTTCTTCTCCATTTTTGCTCGATTCTTTCCATATTGAG
*
27752815 GTTTCTGATGAACACCCAATGAAGCAATTTTCAAGGCTTAATAC
66 GTTTCTGATGAACACCCAATGAAGCAATATTCAAGGCTTAATAC
* *
27752859 CAACAATTTTTCAAGAATCGTTCTCGCGTTCTT-TGCCATTTTTGCTCGATTCTTTTCATATTGA
1 CAACAATTTCTCAAGAATCGTTCTCGCGTTCTTCT-CCATTTTTGCTCGATTCTTTCCATATTGA
* *
27752923 GGTTTCTGATGAATACCCAATGAAGTAATATTCAAGGCTTAATAC
65 GGTTTCTGATGAACACCCAATGAAGCAATATTCAAGGCTTAATAC
27752968 CA
1 CA
27752970 CTTTTTCCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 1 0.01
109 102 0.99
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (109 bp):
CAACAATTTCTCAAGAATCGTTCTCGCGTTCTTCTCCATTTTTGCTCGATTCTTTCCATATTGAG
GTTTCTGATGAACACCCAATGAAGCAATATTCAAGGCTTAATAC
Found at i:27761219 original size:13 final size:14
Alignment explanation
Indices: 27761194--27761225 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
27761184 GACTAACCCA
27761194 TTGACCGTTGACTG
1 TTGACCGTTGACTG
27761208 TTGACC-TTGACTG
1 TTGACCGTTGACTG
27761221 TTGAC
1 TTGAC
27761226 TTTGTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (14 bp):
TTGACCGTTGACTG
Found at i:27767576 original size:21 final size:22
Alignment explanation
Indices: 27767546--27767587 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27767536 ATTAACATGT
27767546 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
27767568 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
27767588 CTTTTTGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:27778308 original size:15 final size:15
Alignment explanation
Indices: 27778288--27778322 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
27778278 AACGAGAAAT
27778288 CTAAAGTAAATTCTA
1 CTAAAGTAAATTCTA
27778303 CTAAAGTAAATTCTA
1 CTAAAGTAAATTCTA
27778318 CTAAA
1 CTAAA
27778323 ACATAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (15 bp):
CTAAAGTAAATTCTA
Found at i:27817618 original size:30 final size:30
Alignment explanation
Indices: 27817575--27817646 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
27817565 GCCAAAACAT
**
27817575 AATTTTTAAAAAGTCCAAGGGCCAAATCTA
1 AATTTTTGGAAAGTCCAAGGGCCAAATCTA
*** * *
27817605 AATTTTTGGAAAGTTTGAGGGTCAAATTTA
1 AATTTTTGGAAAGTCCAAGGGCCAAATCTA
27817635 AATTTTTAGGAA
1 AATTTTT-GGAA
27817647 GTACGAGGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (30 bp):
AATTTTTGGAAAGTCCAAGGGCCAAATCTA
Found at i:27817660 original size:30 final size:29
Alignment explanation
Indices: 27817597--27817678 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
27817587 GTCCAAGGGC
* ** *
27817597 CAAATCTAAATTTTTGGAAAGTTTGAGGGT
1 CAAATTTAAATTTTTGG-AAGTACGAGGAT
27817627 CAAATTTAAATTTTTAGGAAGTACGAGGAT
1 CAAATTTAAATTTTT-GGAAGTACGAGGAT
**
27817657 CAAATTTGGATTTTTGGGAAGT
1 CAAATTTAAATTTTT-GGAAGT
27817679 TCAGGTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 42 0.95
31 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (29 bp):
CAAATTTAAATTTTTGGAAGTACGAGGAT
Found at i:27821656 original size:20 final size:20
Alignment explanation
Indices: 27821607--27821712 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 20
27821597 GATAAGTTTG
* *
27821607 AAATAATTTAAAATCAAGTTA
1 AAATAATTTTAAA-CAAGTCA
* *
27821628 AAATGATTTTAAACATGTCA
1 AAATAATTTTAAACAAGTCA
*
27821648 AAATAA-TTTGAACTAAGTCA
1 AAATAATTTTAAAC-AAGTCA
* **
27821668 AAATCATTTT-AACACTTCA
1 AAATAATTTTAAACAAGTCA
** *
27821687 AAATGTTTTTCAAACAAATCA
1 AAATAATTTT-AAACAAGTCA
27821708 AAATA
1 AAATA
27821713 GCTCTAGGCC
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 18 0.27
20 23 0.35
21 25 0.38
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTCA
Found at i:27826546 original size:51 final size:57
Alignment explanation
Indices: 27826434--27826537 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
27826424 ATAAATTTAA
* *
27826434 TATATATAAATAAATAAATATGGTTGATAAGAAATAATAATATATAAATTTTAAAAT
1 TATATATAAATAAATAAATATGGTTCATAAGAAATAATAACATATAAATTTTAAAAT
*
27826491 TATATA-AAATAAATAAATAT-TTTCA-AA-AAAT-ATAACA-ATAAATTTTA
1 TATATATAAATAAATAAATATGGTTCATAAGAAATAATAACATATAAATTTTA
27826538 CTTTTATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
51 10 0.23
52 5 0.11
53 4 0.09
54 2 0.05
55 3 0.07
56 14 0.32
57 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (57 bp):
TATATATAAATAAATAAATATGGTTCATAAGAAATAATAACATATAAATTTTAAAAT
Found at i:27827012 original size:33 final size:34
Alignment explanation
Indices: 27826970--27827034 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
27826960 TAGAACTGAA
27826970 AATATTAATACAAAATTTAAATTTATT-TTATTT
1 AATATTAATACAAAATTTAAATTTATTATTATTT
* *
27827003 AATATTAATATAAATTTTAAATTTATTATTAT
1 AATATTAATACAAAATTTAAATTTATTATTAT
27827035 ATTTTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (34 bp):
AATATTAATACAAAATTTAAATTTATTATTATTT
Found at i:27834992 original size:24 final size:24
Alignment explanation
Indices: 27834945--27834995 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
27834935 ATATATTGGT
* *
27834945 TAACCATTTTGGGCTTGTAAGAGC
1 TAACCATTCTGGGCTCGTAAGAGC
**
27834969 TAACCATTCTGGGCTCGTGTGAGC
1 TAACCATTCTGGGCTCGTAAGAGC
27834993 TAA
1 TAA
27834996 AGTTGTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (24 bp):
TAACCATTCTGGGCTCGTAAGAGC
Found at i:27835762 original size:21 final size:21
Alignment explanation
Indices: 27835723--27835762 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27835713 AGTATCATGA
* **
27835723 CTTGTGTCGGTAGTTGTCTCT
1 CTTGTATCGGTAGAAGTCTCT
27835744 CTTGTATCGGTAGAAGTCT
1 CTTGTATCGGTAGAAGTCT
27835763 GTACTATTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.42
Consensus pattern (21 bp):
CTTGTATCGGTAGAAGTCTCT
Found at i:27839702 original size:24 final size:24
Alignment explanation
Indices: 27839670--27839720 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
27839660 GTATACTGGT
*
27839670 TAACAATTCTGGGCTCGTAAGAGC
1 TAACAATTCTAGGCTCGTAAGAGC
* **
27839694 TAACCATTCTAGGCTCGTGTGAGC
1 TAACAATTCTAGGCTCGTAAGAGC
27839718 TAA
1 TAA
27839721 AGTTGTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
TAACAATTCTAGGCTCGTAAGAGC
Found at i:27840345 original size:21 final size:23
Alignment explanation
Indices: 27840316--27840370 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
27840306 GACTTGAGTT
*
27840316 GTATAGATAGT-TGAAT-TGGAA
1 GTATCGATAGTATGAATGTGGAA
*
27840337 GTATCGATAGTACTGTATGTGGAA
1 GTATCGATAGTA-TGAATGTGGAA
*
27840361 TTATCGATAG
1 GTATCGATAG
27840371 ATTGTGTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.36
23 4 0.14
24 14 0.50
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (23 bp):
GTATCGATAGTATGAATGTGGAA
Found at i:27840474 original size:21 final size:21
Alignment explanation
Indices: 27840450--27840503 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
27840440 AGTATCATTA
27840450 CTTGTGTCGGTATTTGTCTAT
1 CTTGTGTCGGTATTTGTCTAT
*
27840471 CTTGTGTCGGTATTTGTCTCT
1 CTTGTGTCGGTATTTGTCTAT
*
27840492 CTTGTATCGGTA
1 CTTGTGTCGGTA
27840504 GAAGTCTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (21 bp):
CTTGTGTCGGTATTTGTCTAT
Found at i:27841430 original size:20 final size:20
Alignment explanation
Indices: 27841405--27841458 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
27841395 TGAAGCATAC
*
27841405 TTGTATCGGTAGAACTGAAG
1 TTGTATCGGTAAAACTGAAG
*
27841425 TTGTATCGGTAAAAGTGAAG
1 TTGTATCGGTAAAACTGAAG
* *
27841445 TTTTACCGGTAAAA
1 TTGTATCGGTAAAA
27841459 GTCCTAGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGTATCGGTAAAACTGAAG
Found at i:27843185 original size:14 final size:14
Alignment explanation
Indices: 27843166--27843192 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27843156 TCTCATGCGA
27843166 TAAAATATATTAAT
1 TAAAATATATTAAT
27843180 TAAAATATATTAA
1 TAAAATATATTAA
27843193 GTCATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATATTAAT
Found at i:27845038 original size:22 final size:22
Alignment explanation
Indices: 27845013--27845057 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27845003 TTAACAATTT
27845013 CCTTACCAACCAGATACTCTTC
1 CCTTACCAACCAGATACTCTTC
27845035 CCTTACCAACCAGATACTCTTC
1 CCTTACCAACCAGATACTCTTC
27845057 C
1 C
27845058 ATGCATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.04, T:0.27
Consensus pattern (22 bp):
CCTTACCAACCAGATACTCTTC
Found at i:27853878 original size:7 final size:7
Alignment explanation
Indices: 27853856--27853891 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
27853846 TGGTTATATA
27853856 TTTAAAT
1 TTTAAAT
*
27853863 ATATAAAT
1 -TTTAAAT
27853871 TTTAAAT
1 TTTAAAT
27853878 TTTAAAT
1 TTTAAAT
27853885 TTTAAAT
1 TTTAAAT
27853892 AAACAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TTTAAAT
Found at i:27855475 original size:17 final size:17
Alignment explanation
Indices: 27855453--27855508 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
27855443 ATTGTGATTA
27855453 CAAAACTGCAAGCTCAT
1 CAAAACTGCAAGCTCAT
*
27855470 CAAAACTGCGAA-CTCAC
1 CAAAACTGC-AAGCTCAT
* *
27855487 CAAAGACCGCAAGCTTAT
1 CAAA-ACTGCAAGCTCAT
27855505 CAAA
1 CAAA
27855509 CATGAGAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.43, C:0.30, G:0.12, T:0.14
Consensus pattern (17 bp):
CAAAACTGCAAGCTCAT
Found at i:27862785 original size:21 final size:21
Alignment explanation
Indices: 27862759--27862799 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27862749 GATTCGAAGG
*
27862759 ATAAGAAGAGAAAGCGCAAAT
1 ATAAGAAGAAAAAGCGCAAAT
27862780 ATAAGAAGAAAAAGCGCAAA
1 ATAAGAAGAAAAAGCGCAAA
27862800 GAAGAAGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.10, G:0.22, T:0.07
Consensus pattern (21 bp):
ATAAGAAGAAAAAGCGCAAAT
Found at i:27862964 original size:17 final size:16
Alignment explanation
Indices: 27862944--27862985 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
27862934 TATTTGCCAC
27862944 TGCATTTCATTTGTTA-T
1 TGCATTTCA-TTG-TAGT
27862961 TGCATTTGCATTGTAGT
1 TGCATTT-CATTGTAGT
27862978 TGCATTTC
1 TGCATTTC
27862986 CATTCTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (16 bp):
TGCATTTCATTGTAGT
Found at i:27869715 original size:30 final size:30
Alignment explanation
Indices: 27869680--27869736 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
27869670 AGAAGAAGAA
*
27869680 GAAAGGGAAAAGAAAGAAAAATGAGAAAAG
1 GAAAGGGAAAAGAAAGAAAAAGGAGAAAAG
*
27869710 GAAAGGGAAAGGAAAGAAAAAGGAGAA
1 GAAAGGGAAAAGAAAGAAAAAGGAGAA
27869737 GCAAGAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (30 bp):
GAAAGGGAAAAGAAAGAAAAAGGAGAAAAG
Found at i:27870311 original size:18 final size:17
Alignment explanation
Indices: 27870269--27870320 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
27870259 GAACCTAAGT
*
27870269 AGAAGAAGGAAAATGAGG
1 AGAAGAAGGAAAA-GAAG
27870287 A-AGAGAAGGAAGAAGAAG
1 AGA-AGAAGGAA-AAGAAG
*
27870305 AGAAGAATGAAAAGAA
1 AGAAGAAGGAAAAGAA
27870321 TGAAAATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 6 0.21
18 20 0.69
19 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.04
Consensus pattern (17 bp):
AGAAGAAGGAAAAGAAG
Found at i:27876059 original size:22 final size:20
Alignment explanation
Indices: 27876029--27876086 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
27876019 ATTATGAATA
*
27876029 ATAAATATGTAATTTTAAGTTT
1 ATAATTATGTAATTTT-A-TTT
*
27876051 ATAATTATGTTATTTT-TTT
1 ATAATTATGTAATTTTATTT
27876070 AT-ATTATGTAATTTTAT
1 ATAATTATGTAATTTTAT
27876087 ACATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.38
19 6 0.19
22 14 0.44
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
ATAATTATGTAATTTTATTT
Found at i:27876072 original size:19 final size:18
Alignment explanation
Indices: 27876034--27876084 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 18
27876024 GAATAATAAA
27876034 TATGTAATTTTAAGTTTATAAT
1 TATGTAATTTT---TTTAT-AT
*
27876056 TATGTTATTTTTTTATAT
1 TATGTAATTTTTTTATAT
27876074 TATGTAATTTT
1 TATGTAATTTT
27876085 ATACATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.44
19 5 0.19
22 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TATGTAATTTTTTTATAT
Found at i:27877272 original size:29 final size:31
Alignment explanation
Indices: 27877208--27877274 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
27877198 TTAAAAAATA
* * *
27877208 GTAATTTTTTATGTTTTTATAATGTTATTTT
1 GTAATTTTTTATGTTTTTATAATATAAGTTT
27877239 GTAATTTTTTAT-TTTTT-TAA-ATAAGTTT
1 GTAATTTTTTATGTTTTTATAATATAAGTTT
27877267 GATAATTT
1 G-TAATTT
27877275 CTGTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 5 0.16
31 12 0.38
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (31 bp):
GTAATTTTTTATGTTTTTATAATATAAGTTT
Found at i:27883632 original size:75 final size:75
Alignment explanation
Indices: 27883410--27883620 Score: 332
Period size: 75 Copynumber: 2.8 Consensus size: 75
27883400 AATTTCACGT
* * * * * *
27883410 TCCCTCTCTTGGTCGCGTTCACTCTCGTGTCTCCTCAACCTACTACTGCTTCTCTCTCTCCTATC
1 TCCCTCTCTAGCTCACGATCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATC
27883475 TCTCTCCCGC
66 TCTCTCCCGC
*
27883485 TCCCTCTCTAGCTCACGATCACTCTCGTGCCTCCTCGACCTACTACTGCTCCTCTCTCTCCTATC
1 TCCCTCTCTAGCTCACGATCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATC
*
27883550 TCTCTCCCGT
66 TCTCTCCCGC
* *
27883560 TCCCTCTCTATCTCACGATCACTTTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCC
1 TCCCTCTCTAGCTCACGATCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCC
27883621 GGTCTATCTC
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 125 1.00
ACGTcount: A:0.10, C:0.45, G:0.09, T:0.36
Consensus pattern (75 bp):
TCCCTCTCTAGCTCACGATCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATC
TCTCTCCCGC
Found at i:27883656 original size:2 final size:2
Alignment explanation
Indices: 27883651--27883740 Score: 62
Period size: 2 Copynumber: 47.0 Consensus size: 2
27883641 TCCTTTTCCT
* * * *
27883651 TC TC TC TT TC CC TC -C TC TC TC TC TC TT TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * *
27883692 -C TA TC CC TC TC TT TG TC -C T- TA TC TC TA TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27883731 TC TC TC TC TC
1 TC TC TC TC TC
27883741 CCTTTCCTTC
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
1 4 0.06
2 64 0.94
ACGTcount: A:0.03, C:0.44, G:0.01, T:0.51
Consensus pattern (2 bp):
TC
Found at i:27884608 original size:18 final size:17
Alignment explanation
Indices: 27884583--27884617 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27884573 TATTTCGAGC
*
27884583 AAAAATTTTATTTTTTA
1 AAAAATTTAATTTTTTA
27884600 AAAAGATTTAATTTTTTA
1 AAAA-ATTTAATTTTTTA
27884618 CCTCTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AAAAATTTAATTTTTTA
Found at i:27889508 original size:17 final size:17
Alignment explanation
Indices: 27889486--27889524 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27889476 AGGTGGAGAA
*
27889486 CTTGTTCGTT-GAGAGTT
1 CTTGTTC-TTAGAGAATT
27889503 CTTGTTCTTAGAGAATT
1 CTTGTTCTTAGAGAATT
27889520 CTTGT
1 CTTGT
27889525 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (17 bp):
CTTGTTCTTAGAGAATT
Found at i:27891135 original size:31 final size:29
Alignment explanation
Indices: 27891094--27891168 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
27891084 AAAATAATAC
27891094 ATAAATTTTGATTTAATCTATAAATTCATAA
1 ATAAATTTTGATTT--TCTATAAATTCATAA
* * * *
27891125 ATAAACTTTGATTTTGTATAATTTCATAC
1 ATAAATTTTGATTTTCTATAAATTCATAA
27891154 ATAAAATTTTGATTT
1 AT-AAATTTTGATTT
27891169 GATCCAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 14 0.37
30 11 0.29
31 13 0.34
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (29 bp):
ATAAATTTTGATTTTCTATAAATTCATAA
Found at i:27891157 original size:29 final size:30
Alignment explanation
Indices: 27891090--27891168 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
27891080 TCTCAAAATA
27891090 ATACATAAATTTTGATTTAATCTATAAATTC
1 ATACATAAATTTTGATTT-ATCTATAAATTC
* * * *
27891121 ATAAATAAACTTTGATTT-TGTATAATTTC
1 ATACATAAATTTTGATTTATCTATAAATTC
27891150 ATACATAAAATTTTGATTT
1 ATACAT-AAATTTTGATTT
27891169 GATCCAATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.34
30 11 0.27
31 16 0.39
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (30 bp):
ATACATAAATTTTGATTTATCTATAAATTC
Found at i:27891591 original size:21 final size:21
Alignment explanation
Indices: 27891554--27891594 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27891544 AAATAATTAT
*
27891554 TTTTTTCAACAGTTTTAAAAG
1 TTTTTTCAACAGCTTTAAAAG
27891575 TTTTTTC-ACAAGCTTTAAAA
1 TTTTTTCAAC-AGCTTTAAAA
27891595 AAATCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTTTTCAACAGCTTTAAAAG
Found at i:27896443 original size:19 final size:20
Alignment explanation
Indices: 27896419--27896463 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
27896409 AAATGAAGAA
*
27896419 GTGCCC-TATTTACATTTCG
1 GTGCCCTTATTTACAGTTCG
* *
27896438 GTGCCCTTGTTTGCAGTTCG
1 GTGCCCTTATTTACAGTTCG
27896458 GTGCCC
1 GTGCCC
27896464 CTGCTTGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.09, C:0.29, G:0.24, T:0.38
Consensus pattern (20 bp):
GTGCCCTTATTTACAGTTCG
Found at i:27896531 original size:20 final size:20
Alignment explanation
Indices: 27896434--27896625 Score: 133
Period size: 20 Copynumber: 9.6 Consensus size: 20
27896424 CTATTTACAT
* * * *
27896434 TTCGGTGCCCTTGTTTGCAG
1 TTCGATGCCCCTGTATGCAC
*
27896454 TTCGGTGCCCCTGCT-TGCAC
1 TTCGATGCCCCTG-TATGCAC
** *
27896474 TTCGATGCCATTGTCTGCAC
1 TTCGATGCCCCTGTATGCAC
* *
27896494 TTCGGTGCCCTTGTATGCAC
1 TTCGATGCCCCTGTATGCAC
**
27896514 TTCGATGCCCCTAAATGCACAC
1 TTCGATGCCCCTGTATG--CAC
*
27896536 TT-G-TGCCCCTATATGCAC
1 TTCGATGCCCCTGTATGCAC
* *
27896554 TTCGGTGCCCCTGTATGCAT
1 TTCGATGCCCCTGTATGCAC
* *
27896574 TTCAATGCCCCTGAATGCACAC
1 TTCGATGCCCCTGTATG--CAC
27896596 TT-G-TGCCCCTGTATGCAC
1 TTCGATGCCCCTGTATGCAC
* *
27896614 TCCGCTGCCCCT
1 TTCGATGCCCCT
27896626 AATGGTATAG
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
18 9 0.06
19 3 0.02
20 117 0.84
21 2 0.01
22 9 0.06
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.31
Consensus pattern (20 bp):
TTCGATGCCCCTGTATGCAC
Found at i:27896533 original size:60 final size:58
Alignment explanation
Indices: 27896434--27896623 Score: 173
Period size: 60 Copynumber: 3.2 Consensus size: 58
27896424 CTATTTACAT
* * * ** * * *
27896434 TTCGGTGCCCTTGTTTGCAGTTCGGTGCCCCTGCTTGCACTTCGATGCCATTGTCTGCAC
1 TTCGGTGCCCTTGTATGCACTTCGATGCCCCTGAATGCACTT-G-TGCCACTATATGCAC
* *
27896494 TTCGGTGCCCTTGTATGCACTTCGATGCCCCTAAATGCACACTTGTGCCCCTATATGCAC
1 TTCGGTGCCCTTGTATGCACTTCGATGCCCCTGAATG--CACTTGTGCCACTATATGCAC
* * * * *
27896554 TTCGGTGCCCCTGTATGCATTTCAATGCCCCTGAATGCACACTTGTGCCCCTGTATGCAC
1 TTCGGTGCCCTTGTATGCACTTCGATGCCCCTGAATG--CACTTGTGCCACTATATGCAC
* *
27896614 TCCGCTGCCC
1 TTCGGTGCCC
27896624 CTAATGGTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
60 105 0.95
61 1 0.01
62 5 0.05
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.31
Consensus pattern (58 bp):
TTCGGTGCCCTTGTATGCACTTCGATGCCCCTGAATGCACTTGTGCCACTATATGCAC
Found at i:27896624 original size:60 final size:60
Alignment explanation
Indices: 27896489--27896625 Score: 211
Period size: 60 Copynumber: 2.3 Consensus size: 60
27896479 TGCCATTGTC
* *
27896489 TGCACTTCGGTGCCCTTGTATGCACTTCGATGCCCCTAAATGCACACTTGTGCCCCTATA
1 TGCACTTCGGTGCCCCTGTATGCACTTCAATGCCCCTAAATGCACACTTGTGCCCCTATA
* * *
27896549 TGCACTTCGGTGCCCCTGTATGCATTTCAATGCCCCTGAATGCACACTTGTGCCCCTGTA
1 TGCACTTCGGTGCCCCTGTATGCACTTCAATGCCCCTAAATGCACACTTGTGCCCCTATA
* *
27896609 TGCACTCCGCTGCCCCT
1 TGCACTTCGGTGCCCCT
27896626 AATGGTATAG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.16, C:0.36, G:0.19, T:0.29
Consensus pattern (60 bp):
TGCACTTCGGTGCCCCTGTATGCACTTCAATGCCCCTAAATGCACACTTGTGCCCCTATA
Found at i:27898151 original size:23 final size:23
Alignment explanation
Indices: 27898106--27898151 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27898096 ACAGGTGGAG
* * * *
27898106 AATACTATAGTCCAATTTTTTTT
1 AATACAATAATCCAAGTTATTTT
27898129 AATACAATAATCCAAGTTATTTT
1 AATACAATAATCCAAGTTATTTT
27898152 GAATCCATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (23 bp):
AATACAATAATCCAAGTTATTTT
Found at i:27900514 original size:21 final size:21
Alignment explanation
Indices: 27900490--27900543 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
27900480 CAAGTGACAG
*
27900490 TTCTACCAATACAAGTGTCT-C
1 TTCTACCAATACAAGTCT-TAC
*
27900511 TTCTACCAAAACAAGTCTTAC
1 TTCTACCAATACAAGTCTTAC
*
27900532 TTCTACCGATAC
1 TTCTACCAATAC
27900544 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.31
Consensus pattern (21 bp):
TTCTACCAATACAAGTCTTAC
Found at i:27904778 original size:158 final size:158
Alignment explanation
Indices: 27904481--27904804 Score: 459
Period size: 158 Copynumber: 2.1 Consensus size: 158
27904471 AAATTCGGGA
* * * *
27904481 ATTACATGTTATATTGGTGCTGGTCTTACATGTCCTACCGATGGTTGAGATCCAACATATGTTGT
1 ATTACATGTTATATGGGTGCTGGTCTTACATGTCCTACCGATGGCTAAGATCCAACATATGTTGC
* ** * * * *
27904546 GGATTCTCCATAGTTATTGTGAGCAGCATTGTGTAGCTTAATATCTCGACCCACAGCTCGTGTGA
66 GGATTCTCCACAACTAGTGTGAACAGCATCGTGTAGCTTAACATCTCGACCCACAGCTCGTGTGA
*
27904611 GCAGGCCCATTTCATATCTCGTGTGAGC
131 GCAGGCCCATTTCATAGCTCGTGTGAGC
* * * ***
27904639 ATTATATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTAAGATTCGGTATATGTTGC
1 ATTACATGTTATATGGGTGCTGGTCTTACATGTCCTACCGATGGCTAAGATCCAACATATGTTGC
*
27904704 GGATTCTCCACAACTCGTGTGAACAGCATCGTGTAGCTTAACATCTCGACCCACAGCTCGTGTGA
66 GGATTCTCCACAACTAGTGTGAACAGCATCGTGTAGCTTAACATCTCGACCCACAGCTCGTGTGA
*
27904769 GCAGTCCCATTTCATAGCTCGTGTGAGC
131 GCAGGCCCATTTCATAGCTCGTGTGAGC
*
27904797 ACTACATG
1 ATTACATG
27904805 ATACAGGAAA
Statistics
Matches: 144, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 144 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (158 bp):
ATTACATGTTATATGGGTGCTGGTCTTACATGTCCTACCGATGGCTAAGATCCAACATATGTTGC
GGATTCTCCACAACTAGTGTGAACAGCATCGTGTAGCTTAACATCTCGACCCACAGCTCGTGTGA
GCAGGCCCATTTCATAGCTCGTGTGAGC
Found at i:27908837 original size:17 final size:17
Alignment explanation
Indices: 27908800--27908854 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
27908790 AATTGAAATT
*
27908800 TATTTTATAATAAGATAA
1 TATTTTATAATAA-TTAA
27908818 TATTTTATAATAATTAA
1 TATTTTATAATAATTAA
*
27908835 TATTTTATATAAAATTAA
1 TATTTTATA-ATAATTAA
27908853 TA
1 TA
27908855 ATAAACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAATTAA
Found at i:27909601 original size:21 final size:19
Alignment explanation
Indices: 27909576--27909614 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
27909566 CAACAGAGGT
27909576 CACACGGCCGTTTGTCTCAAA
1 CACACGGCCG--TGTCTCAAA
*
27909597 CACACGTCCGTGTCTCAA
1 CACACGGCCGTGTCTCAA
27909615 GCCATGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (19 bp):
CACACGGCCGTGTCTCAAA
Found at i:27910449 original size:28 final size:28
Alignment explanation
Indices: 27910397--27910669 Score: 316
Period size: 28 Copynumber: 9.8 Consensus size: 28
27910387 TATTGCTCAA
* *
27910397 TCGAGCCAG-ATACAAAATAATGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* * * * *
27910424 CCAAGCCAGAATACAAAGTAACGCTCCT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* * *
27910452 TCGAGTCGGAATACAGTGTAATGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* * *
27910480 TCGAGCTAGAATACAGAGTAACGCTCCT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* * *
27910508 TCAAGCTAGAATACAGAGTACTGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* *
27910536 TCGAGTCAAAATACAGAGTAATGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* *
27910564 TCGAGCCAGAATACATAGCAATGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
27910592 TCGAGCCAGAATACAGAGTAATGCTCTT
1 TCGAGCCAGAATACAGAGTAATGCTCTT
* * *
27910620 TCGAGCCAAAATATAGAGTAATACTCCTT
1 TCGAGCCAGAATACAGAGTAATGCT-CTT
27910649 T-GAGCCAGAATACAGAGTAAT
1 TCGAGCCAGAATACAGAGTAAT
27910670 TCTCAAGCCT
Statistics
Matches: 205, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
27 7 0.03
28 194 0.95
29 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (28 bp):
TCGAGCCAGAATACAGAGTAATGCTCTT
Found at i:27913546 original size:21 final size:20
Alignment explanation
Indices: 27913522--27913593 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
27913512 TGCAGATTTA
*
27913522 TACCGATACAAGTGATAATTC
1 TACCGATACAAGTGAT-CTTC
*
27913543 TACCGATACAAGAGACTCTTC
1 TACCGATACAAGTGA-TCTTC
* *
27913564 TACCGAAACAAGTCATCCTTC
1 TACCGATACAAGTGAT-CTTC
27913585 TACCGATAC
1 TACCGATAC
27913594 CAAAAACTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (20 bp):
TACCGATACAAGTGATCTTC
Found at i:27913603 original size:42 final size:42
Alignment explanation
Indices: 27913522--27913603 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
27913512 TGCAGATTTA
* * *
27913522 TACCGATACAAGTGATAATTCTACCGATACAAGAGACTCTTC
1 TACCGAAACAAGTCATAATTCTACCGATACAAGAAACTCTTC
**
27913564 TACCGAAACAAGTCATCCTTCTACCGATACCAA-AAACTCT
1 TACCGAAACAAGTCATAATTCTACCGATA-CAAGAAACTCT
27913604 AGAGAGTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (42 bp):
TACCGAAACAAGTCATAATTCTACCGATACAAGAAACTCTTC
Found at i:27919340 original size:51 final size:51
Alignment explanation
Indices: 27919271--27919400 Score: 215
Period size: 51 Copynumber: 2.5 Consensus size: 51
27919261 GAATCCATAA
* *
27919271 ACTCACTATGAAACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTC
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTC
* *
27919322 ACTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATTC
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTC
*
27919373 ACTCACGATGACACTTAGTCATCAGACC
1 ACTCACGATGACACTTAGTCATCGGACC
27919401 CTTTCGTTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (51 bp):
ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTC
Found at i:27924039 original size:27 final size:25
Alignment explanation
Indices: 27923993--27924052 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
27923983 TGTGGGTGCT
* *
27923993 GAAGAAG-AGAAGGAAGAAG-ATAA
1 GAAGAAGAAGAAGGAAAAAGAAAAA
27924016 GAAAGAAGAAGCAAGAGAAAAAGAAAAA
1 G-AAGAAGAAG-AAG-GAAAAAGAAAAA
27924044 GAAGAAGAA
1 GAAGAAGAA
27924053 TTTGTAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 6 0.20
25 2 0.07
26 3 0.10
27 14 0.47
28 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (25 bp):
GAAGAAGAAGAAGGAAAAAGAAAAA
Found at i:27926775 original size:22 final size:22
Alignment explanation
Indices: 27926718--27926764 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
27926708 CGATCTGAGG
27926718 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAACAGAATT
*
27926739 AAAAATAAAAGAAAACATAATT
1 AAAAATAAAAGAAAACAGAATT
27926761 AAAA
1 AAAA
27926765 GAAATAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAGAATT
Found at i:27931698 original size:30 final size:30
Alignment explanation
Indices: 27931650--27931797 Score: 135
Period size: 30 Copynumber: 5.0 Consensus size: 30
27931640 TAGAGAATTT
*
27931650 AGGGTCAAAATG-AGATTTTGGGAAAGTTTG
1 AGGGTCAAAATGTA-ATTTTGGCAAAGTTTG
* * *
27931680 AGGGTCAAAATGTTATTTTTGCTAAGTTT-
1 AGGGTCAAAATGTAATTTTGGCAAAGTTTG
* * *
27931709 AGGGGTTAAAATGTAATTTTTGCAAAGTTCG
1 A-GGGTCAAAATGTAATTTTGGCAAAGTTTG
* **
27931740 -GGGTC-AAATGTAATTTTTGTGAAGTTTG
1 AGGGTCAAAATGTAATTTTGGCAAAGTTTG
*
27931768 AGAGTCAAAATGTAAGTTTT-GCAAAGTTTG
1 AGGGTCAAAATGTAA-TTTTGGCAAAGTTTG
27931798 GGGGCCTTCT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 20 0.21
29 9 0.09
30 64 0.66
31 4 0.04
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.37
Consensus pattern (30 bp):
AGGGTCAAAATGTAATTTTGGCAAAGTTTG
Found at i:27931765 original size:58 final size:59
Alignment explanation
Indices: 27931647--27931800 Score: 174
Period size: 58 Copynumber: 2.6 Consensus size: 59
27931637 TTCTAGAGAA
* * *
27931647 TTTA-GGGTCAAAATG-AGATTTTGGGAAAGTTTGAGGGTCAAAATGTTATTTTTGCTAAG
1 TTTAGGGGTCAAAATGTA-ATTTTTGCAAAGTTTG-GGGTCAAAATGTAATTTTTGCTAAG
* *
27931706 TTTAGGGGTTAAAATGTAATTTTTGCAAAGTTCGGGGTC-AAATGTAATTTTTG-TGAAG
1 TTTAGGGGTCAAAATGTAATTTTTGCAAAGTTTGGGGTCAAAATGTAATTTTTGCT-AAG
* *
27931764 TTT-GAGAGTCAAAATGTAAGTTTTGCAAAGTTTGGGG
1 TTTAG-GGGTCAAAATGTAATTTTTGCAAAGTTTGGGG
27931801 GCCTTCTAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.02
58 47 0.57
59 9 0.11
60 23 0.28
61 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (59 bp):
TTTAGGGGTCAAAATGTAATTTTTGCAAAGTTTGGGGTCAAAATGTAATTTTTGCTAAG
Found at i:27934000 original size:48 final size:48
Alignment explanation
Indices: 27933944--27934084 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 48
27933934 CATTAAGTTT
** * * *
27933944 CGCTTCATTGAATTGGTCTACTTCTCTGCATCTCATTAGGAAGATGAC
1 CGCTTCATTGAATTAATCCACTTCTCTGCATCTCATCAGGAAGACGAC
** *
27933992 CGCTTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGAC
1 CGCTTCATTGAATTAATCCACTTCTCTGCATCTCATCAGGAAGACGAC
* ** * * *
27934040 CGCTTTATTGTTTTAATCCACTTCTTTGTATTTCATCAGGAAGAC
1 CGCTTCATTGAATTAATCCACTTCTCTGCATCTCATCAGGAAGAC
27934085 AGATTTGGTT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (48 bp):
CGCTTCATTGAATTAATCCACTTCTCTGCATCTCATCAGGAAGACGAC
Found at i:27934285 original size:257 final size:256
Alignment explanation
Indices: 27933803--27934294 Score: 743
Period size: 257 Copynumber: 1.9 Consensus size: 256
27933793 CTCTTGGTCT
* *
27933803 ACTTCTATGTATCTCATCAGGAAAACGGATTTGGTTCACTTATCTGCATCTCGTCAAGAAGATGA
1 ACTTCTATGTATCTCATCAGGAAAACAGATTTGGTTCACTTATCTGCATCCCGTCAAGAAGATGA
* *
27933868 CCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTC
66 CCACTTTATTACTTCGACCCACTTCTCTGTATCTCATCAAGAAGATGGGATTTGAAGTTTCACTC
* * * *
27933933 GCATTAAGTTTCGCTTCATTGAATTGGTCTACTTCTCTGCATCTCATTAGGAAGATGACCGCTTC
131 ACATTAAGCTTCGCTTCATTGAATTGGTCTACTTATCTGCATCTCATCAGGAAGATGACCGCTTC
* *
27933998 ATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGTTTTAATCC
196 ATTGTTTTAATCCACTTCTCTATATCTCATCAAGAAGACGACCGCTTTATTGTTTTAATCC
* * * * *
27934059 ACTTCTTTGTATTTCATCAGGAAGACAGATTTGGTTCACTTTTCTGCATCCCGTCAGGAAGATGA
1 ACTTCTATGTATCTCATCAGGAAAACAGATTTGGTTCACTTATCTGCATCCCGTCAAGAAGATGA
* * *
27934124 CCACTTTATTACTTTGACCTATTTCTCTGTATCTCATC-AGAAAGATGGGATTTGGAAGTTTCAC
66 CCACTTTATTACTTCGACCCACTTCTCTGTATCTCATCAAG-AAGATGGGATTT-GAAGTTTCAC
* * *
27934188 TCACATTGAGCTTCGCTTTATTGAATTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCT
129 TCACATTAAGCTTCGCTTCATTGAATTGGTCTACTTATCTGCATCTCATCAGGAAGATGACCGCT
* * *
27934253 TCATTGTTTTAATCTACTTCTTTATTTCTCATCAAGAAGACG
194 TCATTGTTTTAATCCACTTCTCTATATCTCATCAAGAAGACG
27934295 GGTTTGGTTC
Statistics
Matches: 210, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
255 2 0.01
256 103 0.49
257 105 0.50
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (256 bp):
ACTTCTATGTATCTCATCAGGAAAACAGATTTGGTTCACTTATCTGCATCCCGTCAAGAAGATGA
CCACTTTATTACTTCGACCCACTTCTCTGTATCTCATCAAGAAGATGGGATTTGAAGTTTCACTC
ACATTAAGCTTCGCTTCATTGAATTGGTCTACTTATCTGCATCTCATCAGGAAGATGACCGCTTC
ATTGTTTTAATCCACTTCTCTATATCTCATCAAGAAGACGACCGCTTTATTGTTTTAATCC
Found at i:27934368 original size:85 final size:85
Alignment explanation
Indices: 27934220--27934377 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 85
27934210 GAATTGGTCT
* * * * * * *
27934220 ACTTATCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCTACTTCTTTATTTCTCAT
1 ACTTATCTGCATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCTCTATATCTCAT
27934285 CAAGAAGACGGGTTTGGTTC
66 CAAGAAGACGGGTTTGGTTC
* * * * *
27934305 ACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
1 ACTTATCTGCATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCTCTATATCTCAT
*
27934370 CAGGAAGA
66 CAAGAAGA
27934378 TGGGGTTTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 60 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
ACTTATCTGCATCTCATCAGGAAGATGACCACTTCATTGCTTTAACCCACTTCTCTATATCTCAT
CAAGAAGACGGGTTTGGTTC
Found at i:27934380 original size:209 final size:209
Alignment explanation
Indices: 27934011--27934398 Score: 607
Period size: 209 Copynumber: 1.9 Consensus size: 209
27934001 GTTTTAATCC
* * *
27934011 ACTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGTTTTAATCCACTTCTTTGTATTTCAT
1 ACTTATCTGTATCTCATCAGGAAGACGACCGCTTCATTGTTTTAATCCACTTCTTTATATTTCAT
* *
27934076 CAGGAAGACAGATTTGGTTCACTTTTCTGCATCCCGTCAGGAAGATGACCACTTTATTACTTTGA
66 CAAGAAGACAGATTTGGTTCACTTCTCTGCATCCCGTCAGGAAGATGACCACTTTATTACTTTGA
* *
27934141 CCTATTTCTCTGTATCTCATCAGAAAGATGGGATTTGGAAGTTTCACTCACATTGAGCTTCGCTT
131 CCCACTTCTCTGTATCTCATCAGAAAGATGGGATTTGGAAGTTTCACTCACATTGAGCTTCGCTT
27934206 TATTGAATTGGTCT
196 TATTGAATTGGTCT
* *
27934220 ACTTATCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCTACTTCTTTAT-TTCTCA
1 ACTTATCTGTATCTCATCAGGAAGACGACCGCTTCATTGTTTTAATCCACTTCTTTATATT-TCA
* * * *
27934284 TCAAGAAGACGGGTTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTTG
65 TCAAGAAGACAGATTTGGTTCACTTCTCTGCATCCCGTCAGGAAGATGACCACTTTATTACTTTG
* * * *
27934349 ACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTTGAATTTTCACTC
130 ACCCACTTCTCTGTATCTCATCAGAAAGATGGGATTTGGAAGTTTCACTC
27934399 TTCCTTATGA
Statistics
Matches: 161, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
208 2 0.01
209 159 0.99
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (209 bp):
ACTTATCTGTATCTCATCAGGAAGACGACCGCTTCATTGTTTTAATCCACTTCTTTATATTTCAT
CAAGAAGACAGATTTGGTTCACTTCTCTGCATCCCGTCAGGAAGATGACCACTTTATTACTTTGA
CCCACTTCTCTGTATCTCATCAGAAAGATGGGATTTGGAAGTTTCACTCACATTGAGCTTCGCTT
TATTGAATTGGTCT
Found at i:27934615 original size:39 final size:39
Alignment explanation
Indices: 27934572--27934988 Score: 213
Period size: 39 Copynumber: 10.7 Consensus size: 39
27934562 AATAGTTGTA
*
27934572 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
* * * *
27934611 ATCTGCCCCAGGCTC-AGGGTAAAAGATTGGATGGCT-GTA
1 ATCTGCCCCAAGCTCGA-GGTAAGAGATTGGAT-GATGGTG
** ** * * *
27934650 ATCTTTCTTAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
* * * * * ** *
27934689 ATCTACCTCAAGCTCGAGGTAAAAGATCGGATGGTTATA
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
* * * * *
27934728 ATCTGCCCCAGGCTCGGGGAAAGAGAATGGCTGATGGTG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
* * * * *
27934767 ATCTGCCCTAAGCTCTAGGTAA-ACAAT-CA-GATGGCTG
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGG-TG
* *** * *
27934804 CAATCTACCGGGAGCTCGGGGTAAGAGATTGGTTGATGGTG
1 --ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
* * * * * * *
27934845 ATCTGCCCCAGGCTCGGGGTAAAAGATAGGATGGCT-ATA
1 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGAT-GATGGTG
* * * *
27934884 ATCTGTCCTAGGCTC-AGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGA-GGTAAGAGATTGGATGATGGTG
* * * *
27934923 ATCTGCCTCAAGCTCTG-GGTAAAAGATCGGATAACT-GTG
1 ATCTGCCCCAAGCTC-GAGGTAAGAGATTGGATGA-TGGTG
* *
27934962 ATCTGCCCCAAGATCGGGGTAAGAGAT
1 ATCTGCCCCAAGCTCGAGGTAAGAGAT
27934989 CGGAATCTTT
Statistics
Matches: 273, Mismatches: 88, Indels: 34
0.69 0.22 0.09
Matches are distributed among these distances:
36 5 0.02
37 2 0.01
38 10 0.04
39 241 0.88
40 8 0.03
41 2 0.01
42 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGAGGTAAGAGATTGGATGATGGTG
Found at i:27934631 original size:78 final size:78
Alignment explanation
Indices: 27934508--27934988 Score: 473
Period size: 78 Copynumber: 6.2 Consensus size: 78
27934498 GCCCTTGTCA
*** * * * * * * * *
27934508 CGGGGTAAGAGATTGGCTGACATTAATCTGCCTCATGATCGGGGTAAAAGATCGAATAGTTGTAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGATGGCTGTAA
27934573 TCTGCCCCAAGCT
66 TCTGCCCCAAGCT
* * *
27934586 CGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCAGGGTAAAAGATTGGATGGCTGTAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGATGGCTGTAA
** ** *
27934651 TCTTTCTTAGGCT
66 TCTGCCCCAAGCT
* * * *
27934664 CGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGCTC-GAGGTAAAAGATCGGATGGTTATA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAG-GGTAAAAGATCGGATGGCTGTA
*
27934728 ATCTGCCCCAGGCT
65 ATCTGCCCCAAGCT
* * * * *
27934742 CGGGGAAAGAGAATGGCTGATGGTGATCTGCCCTAAGCTCTA-GGTAAACA-ATCAGATGGCTGC
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTC-AGGGTAAA-AGATCGGATGGCTGT
* ***
27934805 AATCTACCGGGAGCT
64 AATCTGCCCCAAGCT
* * * * *
27934820 CGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATAGGATGGCTATAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGATGGCTGTAA
* * *
27934885 TCTGTCCTAGGCT
66 TCTGCCCCAAGCT
* * * * ** *
27934898 CAGGGTAAGAGATTGGTTGATGGTGATCTGCCTCAAGCTCTGGGTAAAAGATCGGATAACTGTGA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGATGGCTGTAA
*
27934963 TCTGCCCCAAGAT
66 TCTGCCCCAAGCT
27934976 CGGGGTAAGAGAT
1 CGGGGTAAGAGAT
27934989 CGGAATCTTT
Statistics
Matches: 324, Mismatches: 73, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
77 2 0.01
78 321 0.99
79 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (78 bp):
CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGATCGGATGGCTGTAA
TCTGCCCCAAGCT
Found at i:27934762 original size:156 final size:156
Alignment explanation
Indices: 27934508--27934954 Score: 531
Period size: 156 Copynumber: 2.9 Consensus size: 156
27934498 GCCCTTGTCA
*** * * * * * *
27934508 CGGGGTAAGAGATTGGCTGACATTAATCTGCCTCATGATCGGGGTAAAAGATCGAATAGTTGTAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGGATGGTTATAA
* * *
27934573 TCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCAGGGTAAAAGAT
66 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGAT
* * * **
27934638 TGGATGGCTGTAATCTTTCTTAG-GCT
131 CGGATGGCTGCAATC-TACCGAGAGCT
* *
27934664 CGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGCTCGAGGTAAAAGATCGGATGGTTATAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGGATGGTTATAA
* * *
27934729 TCTGCCCCAGGCTCGGGGAAAGAGAATGGCTGATGGTGATCTGCCCTAAGCTCTA-GGTAAACA-
66 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTC-AGGGTAAA-AG
* *
27934792 ATCAGATGGCTGCAATCTACCGGGAGCT
129 ATCGGATGGCTGCAATCTACCGAGAGCT
* * * * *
27934820 CGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATAGGATGGCTATAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGGATGGTTATAA
* * * * * *
27934885 TCTGTCCTAGGCTCAGGGTAAGAGATTGGTTGATGGTGATCTGCCTCAAGCTCTGGGTAAAAGAT
66 TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGAT
27934950 CGGAT
131 CGGAT
27934955 AACTGTGATC
Statistics
Matches: 245, Mismatches: 41, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
155 4 0.02
156 239 0.98
157 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (156 bp):
CGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGGATGGTTATAA
TCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAAAAGAT
CGGATGGCTGCAATCTACCGAGAGCT
Found at i:27935282 original size:49 final size:50
Alignment explanation
Indices: 27935229--27935323 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 50
27935219 GGTATAAGAC
* * **
27935229 TCACCATTACAGCCTCAATCTTTCCCGTCATGT-TTTTAAGGTATCGAGT
1 TCACCATTACAGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGAGT
* *
27935278 TCACCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATC
1 TCACCATTACAGCCTCAACCTTTCCCATCACATCTTTTAAGGTATC
27935324 AGGTTCGCCG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 27 0.69
50 12 0.31
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (50 bp):
TCACCATTACAGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGAGT
Found at i:27935335 original size:50 final size:50
Alignment explanation
Indices: 27935229--27935363 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 50
27935219 GGTATAAGAC
* * * * **
27935229 TCACCATTACAGCCTCAATCTTTCCCGTCATGT-TTTTAAGGTATCGAGT
1 TCACCGTTACGGCCTCAACCTTTCCCATCAAATCTTTTAAGGTATCGAGT
*
27935278 TCACCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATC-AGGT
1 TCACCGTTACGGCCTCAACCTTTCCCATCAAATCTTTTAAGGTATCGA-GT
* ** * *
27935328 TCGCCGTTGTGGCCTTAACCTTTCCCTTCAAATCTT
1 TCACCGTTACGGCCTCAACCTTTCCCATCAAATCTT
27935364 CATGGTACCG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 28 0.39
50 44 0.61
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (50 bp):
TCACCGTTACGGCCTCAACCTTTCCCATCAAATCTTTTAAGGTATCGAGT
Found at i:27946917 original size:16 final size:16
Alignment explanation
Indices: 27946898--27946928 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27946888 CGCAAAGAAC
*
27946898 GAATAATTATACGAAT
1 GAATAAATATACGAAT
27946914 GAATAAATATACGAA
1 GAATAAATATACGAA
27946929 AATAAGCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (16 bp):
GAATAAATATACGAAT
Found at i:27947105 original size:28 final size:29
Alignment explanation
Indices: 27947074--27947134 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
27947064 GAAAAATGAA
* *
27947074 ATTTCAGAGAATTTAG-GGTCAAAATGTG
1 ATTTCAGAGAAGTTAGAGGCCAAAATGTG
** *
27947102 ATTTTTGAGAAGTTCGAGGCCAAAATGTG
1 ATTTCAGAGAAGTTAGAGGCCAAAATGTG
27947131 ATTT
1 ATTT
27947135 TTAAGGAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (29 bp):
ATTTCAGAGAAGTTAGAGGCCAAAATGTG
Found at i:27947155 original size:30 final size:29
Alignment explanation
Indices: 27947093--27947234 Score: 142
Period size: 30 Copynumber: 4.8 Consensus size: 29
27947083 AATTTAGGGT
* *
27947093 CAAAATGTGATTTTTGAGAAGTTCGAGGC
1 CAAAATGTGATTTTTAAGAAGTTCGGGGC
*
27947122 CAAAATGTGATTTTTAAGGAGTTCGTGGGC
1 CAAAATGTGATTTTTAAGAAGTTCG-GGGC
* * * *
27947152 CAAAATGTGATTTTTATGAAGTTTGATGGT
1 CAAAATGTGATTTTTAAGAAGTTCG-GGGC
* *
27947182 CAAAATGTAATTTTTACA-AAGTTCGGGGT
1 CAAAATGTGATTTTTA-AGAAGTTCGGGGC
* * *
27947211 CAAAATGTAAGTTTTACGAAGTTC
1 CAAAATGTGATTTTTAAGAAGTTC
27947235 AAGGGCCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
29 47 0.49
30 48 0.51
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (29 bp):
CAAAATGTGATTTTTAAGAAGTTCGGGGC
Found at i:27947164 original size:59 final size:59
Alignment explanation
Indices: 27947093--27947234 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 59
27947083 AATTTAGGGT
* *
27947093 CAAAATGTGATTTTTGA-GAAGTTCGA-GGCCAAAATGTGATTTTTA-AGGAGTTCGTGGGC
1 CAAAATGTGATTTTT-ATGAAGTTCGATGGCCAAAATGTAATTTTTACA-AAGTTCG-GGGC
* * *
27947152 CAAAATGTGATTTTTATGAAGTTTGATGGTCAAAATGTAATTTTTACAAAGTTCGGGGT
1 CAAAATGTGATTTTTATGAAGTTCGATGGCCAAAATGTAATTTTTACAAAGTTCGGGGC
* * *
27947211 CAAAATGTAAGTTTTACGAAGTTC
1 CAAAATGTGATTTTTATGAAGTTC
27947235 AAGGGCCCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 46 0.65
60 23 0.32
61 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (59 bp):
CAAAATGTGATTTTTATGAAGTTCGATGGCCAAAATGTAATTTTTACAAAGTTCGGGGC
Found at i:27947531 original size:161 final size:162
Alignment explanation
Indices: 27947259--27947552 Score: 362
Period size: 161 Copynumber: 1.8 Consensus size: 162
27947249 AATAAACCCA
* * *
27947259 AAAAAGAGTGACACGTGACAGCTTCTTAGGCTTCCAAAAGTGAGAGGACCAAATTGAAAAACAAT
1 AAAAAGAGTGACACGTGACAGCTTCTCAGGCTTCCAAAAGTAAGAGGACCAAATTGAAAAACAAC
* * ** *
27947324 TAAAATTACTAGGCAAATTTAGAATAAAACAAAACTTGATTTAAGGATGAAATTGAAACAAATGA
66 TAAAATTACTAGGCAAAATTAGAATAAAACAAAAATTGA-TTAAGGACCAAATTGAAAAAAATGA
27947389 AAAATGGAAAGGATTAATTACAGAAATAGCCCC
130 AAAATGGAAAGGATTAATTACAGAAATAGCCCC
* * * **
27947422 AAAAAG-G-GACACGTGGCAGCTTCTCAGGCTTTCAAAGAGTCAAG-GGACTAAATTGAAAAGTA
1 AAAAAGAGTGACACGTGACAGCTTCTCAGGCTTCCAAA-AGT-AAGAGGACCAAATTGAAAAACA
* * * **
27947484 ACTAAAATTATTGGGCAAAATTATAATAAATTAAAAATATG-TTAAGGACCAAATTGAAAAAAAT
64 ACTAAAATTACTAGGCAAAATTAGAATAAAACAAAAAT-TGATTAAGGACCAAATTGAAAAAAAT
27947548 GAAAA
128 GAAAA
27947553 TGCGAAAAGA
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
161 51 0.46
162 49 0.45
163 10 0.09
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (162 bp):
AAAAAGAGTGACACGTGACAGCTTCTCAGGCTTCCAAAAGTAAGAGGACCAAATTGAAAAACAAC
TAAAATTACTAGGCAAAATTAGAATAAAACAAAAATTGATTAAGGACCAAATTGAAAAAAATGAA
AAATGGAAAGGATTAATTACAGAAATAGCCCC
Found at i:27948263 original size:15 final size:15
Alignment explanation
Indices: 27948243--27948274 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27948233 TTCGATTTTC
*
27948243 TTTATTTATTTATTA
1 TTTATTTATTTAATA
27948258 TTTATTTATTTAATA
1 TTTATTTATTTAATA
27948273 TT
1 TT
27948275 ATACATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTAATA
Found at i:27955404 original size:25 final size:25
Alignment explanation
Indices: 27955339--27955455 Score: 146
Period size: 25 Copynumber: 4.6 Consensus size: 25
27955329 GTAATCTGAT
* *
27955339 TTTGGCTCGAAAGAGCGTTATTCTG
1 TTTGGCTCGTAAGAGCGATATTCTG
*
27955364 ATTTTGGCTCGAAAGAGCGATATTCTG
1 --TTTGGCTCGTAAGAGCGATATTCTG
* * *
27955391 TCTGGCTCGTAAGAGTGCTATTCTG
1 TTTGGCTCGTAAGAGCGATATTCTG
27955416 TTTGGCTCGTAAGAGCGATATT-TG
1 TTTGGCTCGTAAGAGCGATATTCTG
27955440 TTTGGGCTCGTAAGAG
1 TTT-GGCTCGTAAGAG
27955456 ATAAACTCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.06
25 52 0.64
27 24 0.30
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (25 bp):
TTTGGCTCGTAAGAGCGATATTCTG
Found at i:27956723 original size:21 final size:22
Alignment explanation
Indices: 27956677--27956737 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
27956667 TGATCTAAGG
* *
27956677 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
27956698 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
27956720 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
27956738 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:27956728 original size:15 final size:16
Alignment explanation
Indices: 27956703--27956732 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27956693 GAATTAAAAA
27956703 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
27956719 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
27956733 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:27957561 original size:19 final size:19
Alignment explanation
Indices: 27957537--27957579 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27957527 AAACATAAAT
27957537 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
27957556 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
27957575 TAAAT
1 TAAAT
27957580 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Done.