Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 192 of 207
Found at i:57954549 original size:19 final size:19
Alignment explanation
Indices: 57954527--57954572 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
57954517 AAAAAATTGC
*
57954527 AAAATTATGGAAAA-TATTT
1 AAAATTATAGAAAATTA-TT
*
57954546 AAAAATATAGAAAATTATT
1 AAAATTATAGAAAATTATT
57954565 AAAATTAT
1 AAAATTAT
57954573 TAATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAATTATAGAAAATTATT
Found at i:57954597 original size:19 final size:18
Alignment explanation
Indices: 57954542--57954599 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
57954532 TATGGAAAAT
*
57954542 ATTTAAAAATA-TAGAAA
1 ATTTAAAAATATTATAAA
*
57954559 ATTATTAAAATTATTAATAAA
1 A-T-TTAAAAATATT-ATAAA
57954580 ATTTAAAAACTATTATAAA
1 ATTTAAAAA-TATTATAAA
57954599 A
1 A
57954600 AGCATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 20 0.61
20 6 0.18
21 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTTAAAAATATTATAAA
Found at i:57959796 original size:25 final size:25
Alignment explanation
Indices: 57959762--57959811 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57959752 GTTTGTCGTG
57959762 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
57959787 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
57959812 ACTCTAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (25 bp):
GTCTTTATTGATGATATTCTGGTTT
Found at i:57960814 original size:9 final size:9
Alignment explanation
Indices: 57960800--57960824 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57960790 TAATTGAGTT
57960800 TATTTTAAA
1 TATTTTAAA
57960809 TATTTTAAA
1 TATTTTAAA
57960818 TATTTTA
1 TATTTTA
57960825 TTATTATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTTTAAA
Found at i:57965340 original size:13 final size:13
Alignment explanation
Indices: 57965322--57965346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57965312 AGTCCCTATT
57965322 AATTGAGGATAGG
1 AATTGAGGATAGG
57965335 AATTGAGGATAG
1 AATTGAGGATAG
57965347 AGTACCACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (13 bp):
AATTGAGGATAGG
Found at i:57972380 original size:12 final size:12
Alignment explanation
Indices: 57972358--57972387 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
57972348 AAACTAGATG
57972358 TTTATTAACAATA
1 TTTA-TAACAATA
57972371 TTTATAACAATA
1 TTTATAACAATA
57972383 TTTAT
1 TTTAT
57972388 GTTATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATAACAATA
Found at i:57974632 original size:19 final size:19
Alignment explanation
Indices: 57974571--57974632 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
57974561 AAGAACTTGT
* **
57974571 AAAATATAAAAAAATGTAA
1 AAAATATAATAATTTGTAA
* * *
57974590 AAAATATTTAATATTTTTTTA
1 AAAATA--TAATAATTTGTAA
57974611 AAAATATAATAATTTGTAA
1 AAAATATAATAATTTGTAA
57974630 AAA
1 AAA
57974633 GTTATTTAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 19 0.59
21 13 0.41
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATATAATAATTTGTAA
Found at i:57974866 original size:2 final size:2
Alignment explanation
Indices: 57974861--57974888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57974851 ATGCTACATA
57974861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57974889 TTCCTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57976742 original size:20 final size:19
Alignment explanation
Indices: 57976719--57976766 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
57976709 ATTTAAATAA
*
57976719 TATTATTTGAATAGTTATAG
1 TATTATTTGAATAATTAT-G
**
57976739 TATTAAATGAATAATTATG
1 TATTATTTGAATAATTATG
57976758 TATTTATTT
1 TA-TTATTT
57976767 TAAAGACATT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
TATTATTTGAATAATTATG
Found at i:57977660 original size:6 final size:6
Alignment explanation
Indices: 57977649--57977727 Score: 158
Period size: 6 Copynumber: 13.2 Consensus size: 6
57977639 AGGTTTATAG
57977649 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
57977697 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
57977728 ATGTGATACT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:57979672 original size:92 final size:92
Alignment explanation
Indices: 57979515--57979699 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
57979505 CTTGTATTAA
57979515 AAAATACTTTCTTAGAGTTAAATCATATACGAGTGTTTGAAAAGTCATAGTGTAATTGGATTTAG
1 AAAATACTTTCTTAGAGTTAAATCATATACGAGTGTTTGAAAAGTCATAGTGTAATTGGATTTAG
57979580 GAGTAATTACCCACCTAATTACTTTCT
66 GAGTAATTACCCACCTAATTACTTTCT
57979607 AAAATACTTTCTTAGAGTTAAATCATATACGAGTGTTTGAAAAGTCATAGTGTAATTGGATTTAG
1 AAAATACTTTCTTAGAGTTAAATCATATACGAGTGTTTGAAAAGTCATAGTGTAATTGGATTTAG
57979672 GAGTAATTACCCACCTAATTACTTTCT
66 GAGTAATTACCCACCTAATTACTTTCT
57979699 A
1 A
57979700 CCCTCTTCCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (92 bp):
AAAATACTTTCTTAGAGTTAAATCATATACGAGTGTTTGAAAAGTCATAGTGTAATTGGATTTAG
GAGTAATTACCCACCTAATTACTTTCT
Found at i:57981404 original size:21 final size:20
Alignment explanation
Indices: 57981354--57981416 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
57981344 AAAATCCGTA
* *
57981354 AGGGTTGAACGGAAGCTCAT
1 AGGGTTGAACGGAAACCCAT
*
57981374 AGGAGCTGAACGGAAACCCATT
1 AGG-GTTGAACGGAAACCCA-T
* *
57981396 AGGGTTGAACGAAAACTCAT
1 AGGGTTGAACGGAAACCCAT
57981416 A
1 A
57981417 TGAGTTAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 5 0.14
21 26 0.74
22 4 0.11
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGGTTGAACGGAAACCCAT
Found at i:57982960 original size:9 final size:9
Alignment explanation
Indices: 57982912--57982961 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
57982902 CTTAAGAAAA
57982912 ATTTT-AAT
1 ATTTTAAAT
57982920 ATTTTAAAT
1 ATTTTAAAT
*
57982929 ACTTTTATAT
1 A-TTTTAAAT
*
57982939 ATCTTATAA-
1 ATTTTA-AAT
57982948 ATTTTAAAT
1 ATTTTAAAT
57982957 ATTTT
1 ATTTT
57982962 TTACAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 7 0.21
9 18 0.53
10 9 0.26
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:57982979 original size:28 final size:28
Alignment explanation
Indices: 57982913--57982995 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
57982903 TTAAGAAAAA
* * *
57982913 TTTTAATATTTTAAATACTTTTATA-TAT
1 TTTTTATATTTTAAATA-TTTTTTACAAT
* * *
57982941 CTTATAAATTTTAAATATTTTTTACAAT
1 TTTTTATATTTTAAATATTTTTTACAAT
**
57982969 TTTTTATATTTT-AAGGTTTTTTACAAT
1 TTTTTATATTTTAAATATTTTTTACAAT
57982996 AATATTATTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
27 19 0.44
28 24 0.56
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTATATTTTAAATATTTTTTACAAT
Found at i:57983066 original size:21 final size:22
Alignment explanation
Indices: 57983042--57983092 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
57983032 TTTTTTATAA
57983042 TTTATATGT-TTT-TTTCTAAAT
1 TTTATATGTATTTATTTCT-AAT
* *
57983063 TTTATATATATTTATTTCTATT
1 TTTATATGTATTTATTTCTAAT
57983085 TTTATATG
1 TTTATATG
57983093 ATTGGGCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATGTATTTATTTCTAAT
Found at i:57983090 original size:22 final size:23
Alignment explanation
Indices: 57983044--57983091 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
57983034 TTTTATAATT
* *
57983044 TATATGTTTTTTTCTAAATTTTA
1 TATATATTTATTTCTAAATTTTA
*
57983067 TATATATTTATTTCT-ATTTTTA
1 TATATATTTATTTCTAAATTTTA
57983089 TAT
1 TAT
57983092 GATTGGGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
TATATATTTATTTCTAAATTTTA
Found at i:57983284 original size:3 final size:3
Alignment explanation
Indices: 57983276--57983312 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57983266 TAAGCCTTCA
57983276 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
57983313 TATCTAGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:57991507 original size:20 final size:20
Alignment explanation
Indices: 57991482--57991521 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57991472 GATTACGAAG
57991482 AACAAA-AAAAGAAATTAATT
1 AACAAAGAAAAGAAA-TAATT
*
57991502 AACAAAGAAAATAAATAATT
1 AACAAAGAAAAGAAATAATT
57991522 GAAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (20 bp):
AACAAAGAAAAGAAATAATT
Found at i:57992841 original size:2 final size:2
Alignment explanation
Indices: 57992836--57992863 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57992826 TGAAATTTTA
57992836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57992864 GAAGATGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58004736 original size:18 final size:18
Alignment explanation
Indices: 58004710--58004745 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58004700 ATTTTATAAA
*
58004710 CCACATTTTTTTGCTTTT
1 CCACATTTTTTTACTTTT
*
58004728 CCACCTTTTTTTACTTTT
1 CCACATTTTTTTACTTTT
58004746 TATTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.25, G:0.03, T:0.61
Consensus pattern (18 bp):
CCACATTTTTTTACTTTT
Found at i:58004757 original size:5 final size:6
Alignment explanation
Indices: 58004735--58004764 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
58004725 TTTCCACCTT
58004735 TTTTTA CTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
58004765 GGTGGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:58005328 original size:16 final size:16
Alignment explanation
Indices: 58005309--58005343 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58005299 TTTTAATTTT
*
58005309 TATAATTTTTTAAAAA
1 TATAAATTTTTAAAAA
*
58005325 TATAAATTTTTATAAA
1 TATAAATTTTTAAAAA
58005341 TAT
1 TAT
58005344 CTTTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAAATTTTTAAAAA
Found at i:58007148 original size:41 final size:43
Alignment explanation
Indices: 58007059--58007149 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 43
58007049 CTAGAATAAA
* * *
58007059 AAAACTAGAACCACTACAACATTTGGAGAAAATAGAATTATCT
1 AAAACTAGAACCACTACAACATTTAGAGAAAATAAAATGATCT
* * *
58007102 GAAACTAGAACCACTGC-A-ATTTAGAGGAAATAAAATGGAT-T
1 AAAACTAGAACCACTACAACATTTAGAGAAAATAAAAT-GATCT
58007143 AAAACTA
1 AAAACTA
58007150 AAAACTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 22 0.55
42 3 0.08
43 15 0.38
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (43 bp):
AAAACTAGAACCACTACAACATTTAGAGAAAATAAAATGATCT
Found at i:58009168 original size:3 final size:3
Alignment explanation
Indices: 58009153--58009242 Score: 72
Period size: 3 Copynumber: 30.0 Consensus size: 3
58009143 TTTAAGATTT
* * ** * * * * * *
58009153 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
58009201 TTA TTA TTA TTA TTA CCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58009243 AATTGTTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.11, G:0.01, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:58013189 original size:43 final size:43
Alignment explanation
Indices: 58013125--58013224 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
58013115 TCGTCGCTAA
* * * *
58013125 CTTTAGCGGCGCTTTTTCGACAAACACCGCTAAAGACGATGAC
1 CTTTAGCGACGCTTTTCCGACAAACACCGCTAAAGACCATAAC
* ** *
58013168 TTTTAGCGACGCTTTTCCGACAAATGCCGCTAAAGACCCTAAC
1 CTTTAGCGACGCTTTTCCGACAAACACCGCTAAAGACCATAAC
58013211 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
58013225 AAAAAACAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCGACAAACACCGCTAAAGACCATAAC
Found at i:58016849 original size:39 final size:39
Alignment explanation
Indices: 58016800--58016884 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
58016790 TGGGCCTAGG
* *
58016800 TTTTTTGCGGCGCTTTT-CTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCG-TTTTCCGAAAAACGCCACTAATGCTCA
* * *
58016839 TTTTTAGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGTTTTCCGAAAAACGCCACTAATGCTCA
58016878 TTTTTAG
1 TTTTTAG
58016885 TGATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 4 0.10
39 36 0.90
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCCGAAAAACGCCACTAATGCTCA
Found at i:58016913 original size:23 final size:23
Alignment explanation
Indices: 58016887--58016933 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
58016877 ATTTTTAGTG
58016887 ATTTTATTTA-TTTATTTGTTAAA
1 ATTTT-TTTATTTTATTTGTTAAA
58016910 ATTTTTTTATTTTATTTGTTAAA
1 ATTTTTTTATTTTATTTGTTAAA
58016933 A
1 A
58016934 ATTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTTATTTTATTTGTTAAA
Found at i:58017199 original size:21 final size:22
Alignment explanation
Indices: 58017160--58017200 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
58017150 TCTAAATCCC
58017160 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACTT
*
58017182 TAAATCCC-AACCCTTAAAC
1 TAAATCCCTAACCCCTAAAC
58017201 AATAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACTT
Found at i:58017206 original size:21 final size:22
Alignment explanation
Indices: 58017160--58017206 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
58017150 TCTAAATCCC
**
58017160 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACAA
*
58017182 TAAATCCC-AACCCTTAAACAA
1 TAAATCCCTAACCCCTAAACAA
58017203 TAAA
1 TAAA
58017207 CCATAAACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACAA
Found at i:58017429 original size:16 final size:17
Alignment explanation
Indices: 58017393--58017434 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
58017383 CACTATAATC
58017393 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
58017411 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
58017427 ATTATTTA
1 ATTATTTA
58017435 TAAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:58017708 original size:22 final size:23
Alignment explanation
Indices: 58017683--58017733 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
58017673 CTATAACCCC
58017683 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
58017705 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
58017727 TAAACTC
1 TAAACTC
58017734 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:58018048 original size:19 final size:20
Alignment explanation
Indices: 58018022--58018067 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
58018012 ATAGAATTTT
58018022 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
58018040 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
58018060 AATAAAAT
1 AATTAAAT
58018068 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:58018131 original size:41 final size:41
Alignment explanation
Indices: 58018074--58018225 Score: 241
Period size: 41 Copynumber: 3.7 Consensus size: 41
58018064 AAATGTTTTT
*
58018074 GCGGCGCTTTTCCAAAAACACCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
58018115 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCTTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
58018156 GCGGCACTTTTCCAGAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
**
58018197 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
58018226 CCCCGAAAGG
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:58018914 original size:17 final size:18
Alignment explanation
Indices: 58018880--58018925 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
58018870 CCGTTATGTC
58018880 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
58018895 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
58018912 CGCGACCGCGACCG
1 CGCGACCGCGACCG
58018926 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:58020500 original size:18 final size:18
Alignment explanation
Indices: 58020486--58020521 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58020476 AGGGTCAATA
58020486 TGAGCAAGAGAGTCAACT
1 TGAGCAAGAGAGTCAACT
* *
58020504 TGAGGAGGAGAGTCAACT
1 TGAGCAAGAGAGTCAACT
58020522 ATAGGCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.33, T:0.17
Consensus pattern (18 bp):
TGAGCAAGAGAGTCAACT
Found at i:58020532 original size:20 final size:20
Alignment explanation
Indices: 58020489--58020532 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
58020479 GTCAATATGA
58020489 GCAA-GAGAGTCAACTTGAG
1 GCAAGGAGAGTCAACTTGAG
58020508 G--AGGAGAGTCAACTAT-AG
1 GCAAGGAGAGTCAACT-TGAG
58020526 GCAAGGA
1 GCAAGGA
58020533 AGACTGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 2 0.10
20 4 0.19
ACGTcount: A:0.39, C:0.14, G:0.34, T:0.14
Consensus pattern (20 bp):
GCAAGGAGAGTCAACTTGAG
Found at i:58021512 original size:15 final size:15
Alignment explanation
Indices: 58021492--58021525 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
58021482 AGAGGAGAAC
*
58021492 AAGAACTTCGAGGAT
1 AAGAACTTCGAGGAG
58021507 AAGAACTTCGAGGAG
1 AAGAACTTCGAGGAG
58021522 AAGA
1 AAGA
58021526 GTCCATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (15 bp):
AAGAACTTCGAGGAG
Found at i:58027813 original size:6 final size:6
Alignment explanation
Indices: 58027795--58027824 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
58027785 GCAAATGAAT
58027795 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
58027825 TGAGAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:58035771 original size:4 final size:4
Alignment explanation
Indices: 58035764--58035811 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
58035754 ATTTATATAT
58035764 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
58035812 GTATATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:58036262 original size:110 final size:109
Alignment explanation
Indices: 58036067--58036370 Score: 425
Period size: 110 Copynumber: 2.8 Consensus size: 109
58036057 CTAAATAAAT
* *
58036067 GCAATGTTTTGCGTTTGGAGATTCGAGAAAACGTGCCCTAAGGTGCTAGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
** * * **
58036132 TTCAAGAAAATGGCTTAATATCCCTTTTAAAAATTTTAAAATAAG
66 TTCAACCAAATGGCTAAATATCCC-TTCAAAAATTACAAAATAAG
*
58036177 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
*
58036242 TTCAACCAAATAGCTAAATATCCCTTCAAAAATTACAAAATAAG
66 TTCAACCAAATGGCTAAATATCCCTTCAAAAATTACAAAATAAG
* * * * *
58036286 ACAATGTTTTGCGTCTGGAAATTCGAG-GAATGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
* *
58036348 TTTAACCAAATGGCCAAATATCC
66 TTCAACCAAATGGCTAAATATCC
58036371 TCTCGAATTT
Statistics
Matches: 175, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
106 27 0.15
108 24 0.14
109 42 0.24
110 82 0.47
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (109 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
TTCAACCAAATGGCTAAATATCCCTTCAAAAATTACAAAATAAG
Found at i:58048287 original size:44 final size:43
Alignment explanation
Indices: 58048008--58048360 Score: 197
Period size: 46 Copynumber: 8.2 Consensus size: 43
58047998 ATTATACAGG
* ** * *
58048008 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* * * *
58048054 TCTTATCTCCCTGAGATTACAGCGGAGCA-A-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAG--A
* * * *
58048097 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
* * * * * *
58048136 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAGCAGAGA
* ** * *
58048177 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* *
58048223 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* ** **
58048267 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* * **
58048310 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-AAAGCAGAGA
58048354 TCTTATC
1 TCTTATC
58048361 AGCGGAGCAG
Statistics
Matches: 236, Mismatches: 53, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
38 1 0.00
39 24 0.10
40 1 0.00
41 32 0.14
42 6 0.03
43 54 0.23
44 55 0.23
45 3 0.01
46 59 0.25
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
Found at i:58048317 original size:87 final size:88
Alignment explanation
Indices: 58048008--58048360 Score: 239
Period size: 87 Copynumber: 4.1 Consensus size: 88
58047998 ATTATACAGG
* *
58048008 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTG-AGATT
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAGATCCTATCTCCCTGAAG-TT
* * * *
58048072 ACAGCGGAGCA-ATCAAGGA-TAGTA-A
63 ACAGTGGAGCAGATTAA-AACAAG-AGA
* * ** * * ** * *
58048097 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GATCTTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAGATCCTATCTCCCTGAAGTTACA
* * * * *
58048157 GTAGAGAAGATCACATC-AG-G-
66 GTGGAGCAGATTAAAACAAGAGA
* * *
58048177 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAGATCCTATCTCCCTGAAGTTA
* * *
58048242 CAGTGGAGCAGATTGAAGCCAGAGA
64 CAGTGGAGCAGATTAAAACAAGAGA
* * * *
58048267 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCA-GATCCTATCTCCCTGAAGTTAC
* *
58048330 AGTGGAGCGGATTAAAATAAGAGA
65 AGTGGAGCAGATTAAAACAAGAGA
58048354 TCTTATC
1 TCTTATC
58048361 AGCGGAGCAG
Statistics
Matches: 208, Mismatches: 41, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
80 30 0.14
82 26 0.12
83 6 0.03
86 2 0.01
87 77 0.37
88 2 0.01
89 32 0.15
90 33 0.16
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAGATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACAAGAGA
Found at i:58048330 original size:43 final size:44
Alignment explanation
Indices: 58048220--58048337 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
58048210 AAAGAATTTC
* * * *
58048220 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
* *
58048264 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAG
**
58048307 CTATCCTATCTCCCTGAAGTTACAGTGGAGC
1 AGATCCTATCTCCCTGAAGTTACAGTGGAGC
58048338 GGATTAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
43 25 0.39
44 39 0.61
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
Found at i:58049042 original size:46 final size:46
Alignment explanation
Indices: 58048975--58049064 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
58048965 GCAGCTGTAC
*
58048975 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
**
58049021 AAGCCCAATCTGAACCAGCCCAAACCCAAGACTTAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
58049065 TAACCCCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.38, G:0.11, T:0.08
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:58050226 original size:26 final size:23
Alignment explanation
Indices: 58050162--58050226 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
58050152 ATATTTCTTT
*
58050162 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
58050184 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
58050212 TATATATACATATAC
1 TATATATACATATAC
58050227 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:58050442 original size:27 final size:25
Alignment explanation
Indices: 58050411--58050474 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
58050401 ATGTGTCCCC
*
58050411 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
58050437 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
58050464 TTTTTATATAT
1 TTTTTATATAT
58050475 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:58050649 original size:5 final size:5
Alignment explanation
Indices: 58050635--58050665 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
58050625 ACATAAGTGC
58050635 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
58050666 GTTTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:58061379 original size:15 final size:15
Alignment explanation
Indices: 58061340--58061382 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
58061330 TGATCCCAAT
* *
58061340 GGAATGTGATTCTTT
1 GGAATGTGATTGTTG
* *
58061355 GAAATATGATTGTTG
1 GGAATGTGATTGTTG
58061370 GGAATGTGATTGT
1 GGAATGTGATTGT
58061383 CGAGAAATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (15 bp):
GGAATGTGATTGTTG
Found at i:58065071 original size:13 final size:13
Alignment explanation
Indices: 58065029--58065071 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
58065019 GTCACTATTT
*
58065029 TTAAATTTTTAAA
1 TTAAATTTTTATA
* *
58065042 TAAAATTTTAATA
1 TTAAATTTTTATA
*
58065055 TTAAATTTTTATT
1 TTAAATTTTTATA
58065068 TTAA
1 TTAA
58065072 TGCTTTGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATTTTTATA
Found at i:58066600 original size:23 final size:22
Alignment explanation
Indices: 58066548--58066611 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
58066538 CATATGTACA
*
58066548 AATAAAATAATGACAATAATAAAT
1 AATATAATAAT-AC-ATAATAAAT
*
58066572 AATATAATAATACATAATGATAT
1 AATATAATAATACATAAT-AAAT
*
58066595 AATATAATAATAAATAA
1 AATATAATAATACATAA
58066612 ATAATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.14
23 21 0.58
24 10 0.28
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
AATATAATAATACATAATAAAT
Found at i:58066611 original size:15 final size:16
Alignment explanation
Indices: 58066552--58066605 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
58066542 TGTACAAATA
*
58066552 AAATAATGACAATAAT
1 AAATAATGATAATAAT
58066568 AAATAAT-ATAATAAT
1 AAATAATGATAATAAT
*
58066583 ACATAATGAT-ATAAT
1 AAATAATGATAATAAT
58066598 ATAATAAT
1 A-AATAAT
58066606 AAATAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (16 bp):
AAATAATGATAATAAT
Found at i:58068353 original size:131 final size:132
Alignment explanation
Indices: 58068152--58068420 Score: 414
Period size: 131 Copynumber: 2.0 Consensus size: 132
58068142 GATCTGCTTT
* * *
58068152 TTCAATCAATTCCACTGCCGACCGGGGAGGTAGAATTACTGGATTCAATATACTCCGCTGCAACC
1 TTCAATCAATTCCACTGCCGACCAGGGAGATAGAATTACTGGATTCAATATACTCCACTGCAACC
* * *
58068217 TCAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATCTGAAA
66 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAA
58068282 TC
131 TC
* * * * *
58068284 TTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAACC
1 TTCAATCAATTCCACTGCCGACCAGGGAGATAGAATTACTGGATTCAATATACTCCACTGCAACC
* *
58068348 ACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
66 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAA
58068413 TC
131 TC
58068415 TTCAAT
1 TTCAAT
58068421 TTGCTCAACT
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
131 89 0.72
132 35 0.28
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (132 bp):
TTCAATCAATTCCACTGCCGACCAGGGAGATAGAATTACTGGATTCAATATACTCCACTGCAACC
ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAA
TC
Found at i:58068544 original size:100 final size:99
Alignment explanation
Indices: 58068440--58068627 Score: 306
Period size: 100 Copynumber: 1.9 Consensus size: 99
58068430 TGCAATGTCG
* *
58068440 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCAC-CGTTAGAGAAGTAAGATCT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACAC-TAAGA-AAGTAAGATCC
*
58068504 GTCGTTGTGGCTTCAATCTTTTTAATTGCAATATTA
64 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTA
*
58068540 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGAAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCAC-ACTAAGAAAGTAAGATCCG
58068605 CCGTTGTGGCTTCAATCTTTTTA
65 CCGTTGTGGCTTCAATCTTTTTA
58068628 CTTTTCAACC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
100 77 0.94
101 4 0.05
102 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (99 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACACTAAGAAAGTAAGATCCGC
CGTTGTGGCTTCAATCTTTTTAATTGCAATATTA
Found at i:58068602 original size:50 final size:50
Alignment explanation
Indices: 58068448--58068622 Score: 149
Period size: 50 Copynumber: 3.5 Consensus size: 50
58068438 CGGGGAAACC
* *
58068448 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCAC--CGTTAGAGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTAC-TAAGA-AAGTA
* * * * * ** * * * * **
58068498 AGATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAA-CC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTACTA-AGAAAGTA
58068548 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGAAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGAAAGTA
* *
58068598 AGATCCGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTCGTAGCTTCAATCT
58068623 TTTTACTTTT
Statistics
Matches: 91, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
49 4 0.04
50 82 0.90
51 3 0.03
52 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGAAAGTA
Found at i:58080568 original size:3 final size:3
Alignment explanation
Indices: 58080546--58080608 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
58080536 CATATGTACA
* *
58080546 AAT AA- AAT AAT GAC AAT AAT AAT AAAT AAT -AT AAT AAT ACAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT
*
58080591 GAT -AT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
58080609 ATAAATAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
2 8 0.16
3 35 0.71
4 6 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:58080579 original size:15 final size:15
Alignment explanation
Indices: 58080561--58080612 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
58080551 AATAATGACA
58080561 ATAATAATAAATAAT
1 ATAATAATAAATAAT
*
58080576 ATAATAATACATAAT
1 ATAATAATAAATAAT
58080591 GAT-ATAATATAATAAT
1 -ATAATAATA-AATAAT
58080607 A-AATAA
1 ATAATAA
58080613 ATAATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 25 0.78
16 7 0.22
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:58090416 original size:24 final size:22
Alignment explanation
Indices: 58090389--58090444 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
58090379 AAGTTTCATA
58090389 ATTTTTTTATTCAT-ATTTTATGGC
1 ATTTTTTTATT-ATCATTTT-T-GC
* *
58090413 ATTTTTTCATTTTCATTTTTGC
1 ATTTTTTTATTATCATTTTTGC
58090435 ATTTTTTTAT
1 ATTTTTTTAT
58090445 ATTTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 11 0.39
23 2 0.07
24 15 0.54
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.68
Consensus pattern (22 bp):
ATTTTTTTATTATCATTTTTGC
Found at i:58095016 original size:23 final size:23
Alignment explanation
Indices: 58094960--58095016 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
58094950 ACGGCACACG
* *
58094960 AAGTGCCTGAAATACGACACATA
1 AAGTGACTGATATACGACACATA
58094983 AAGTGACTGATATACGACACATA
1 AAGTGACTGATATACGACACATA
*
58095006 AAGTGTCTGAT
1 AAGTGACTGAT
58095017 TGACAAAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (23 bp):
AAGTGACTGATATACGACACATA
Found at i:58096277 original size:3 final size:3
Alignment explanation
Indices: 58096264--58096318 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
58096254 AATTTATTCC
* *
58096264 ATA AT- ATA ATA ATA ATA AT- ATAA ATA ATA ATA GTA ATTA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA
*
58096309 ATA ACA ATA A
1 ATA ATA ATA A
58096319 ATATCTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58096321 original size:16 final size:16
Alignment explanation
Indices: 58096266--58096321 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
58096256 TTTATTCCAT
58096266 AATATAATAATAATAA-
1 AATA-AATAATAATAAC
* **
58096282 TATAAATAATAATAGT
1 AATAAATAATAATAAC
* *
58096298 AATTAATAATTATAAC
1 AATAAATAATAATAAC
58096314 AATAAATA
1 AATAAATA
58096322 TCTATTTCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
15 10 0.32
16 21 0.68
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AATAAATAATAATAAC
Found at i:58097747 original size:29 final size:29
Alignment explanation
Indices: 58097707--58097764 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
58097697 TTTAATATTA
* * *
58097707 TAAAAAATTTATAATTAAATTA-AATATG
1 TAAAAAAATTATAATGAAAGTATAATATG
58097735 TAAAATAAATTATAATGAAAGTATAATATG
1 TAAAA-AAATTATAATGAAAGTATAATATG
58097765 GTAGAAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAAAAAATTATAATGAAAGTATAATATG
Found at i:58098873 original size:13 final size:13
Alignment explanation
Indices: 58098855--58098879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58098845 TCAAACCCAT
58098855 AACCTTAAACTCA
1 AACCTTAAACTCA
58098868 AACCTTAAACTC
1 AACCTTAAACTC
58098880 CAAGCTTGTA
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:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (13 bp):
AACCTTAAACTCA
Found at i:58099012 original size:13 final size:14
Alignment explanation
Indices: 58098982--58099020 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
58098972 ATGTTCAAGT
58098982 TTCAAGGTTTAAAG
1 TTCAAGGTTTAAAG
*
58098996 TTCAAGGTTT-GAG
1 TTCAAGGTTTAAAG
*
58099009 TTCAAGATTTAA
1 TTCAAGGTTTAA
58099021 GATTTTGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (14 bp):
TTCAAGGTTTAAAG
Found at i:58099614 original size:16 final size:17
Alignment explanation
Indices: 58099589--58099622 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58099579 TTCTTATACG
58099589 AAAGCAAGAG-GAAAGA
1 AAAGCAAGAGAGAAAGA
*
58099605 AAAGCGAGAGAGAAAGA
1 AAAGCAAGAGAGAAAGA
58099622 A
1 A
58099623 GAGAAACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.62, C:0.06, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAGCAAGAGAGAAAGA
Found at i:58101250 original size:21 final size:21
Alignment explanation
Indices: 58101207--58101250 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58101197 TCTAGCTCAA
*
58101207 TTTTTACTGTTTTGTCACTAT
1 TTTTTACTGTTTTGTCACCAT
*
58101228 TTTTTATTGTTTTG-CTACCAT
1 TTTTTACTGTTTTGTC-ACCAT
58101249 TT
1 TT
58101251 CGCTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTTTACTGTTTTGTCACCAT
Found at i:58109342 original size:38 final size:38
Alignment explanation
Indices: 58109291--58109366 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
58109281 GTTAGTCTTT
*
58109291 TATACAACCACAACAAAGCACAATGGACCAACAACCAG
1 TATACAACCACAACAAAGCACAAAGGACCAACAACCAG
*
58109329 TATACAACCACAACCAAGCACAAAGGACCAACAACCAG
1 TATACAACCACAACAAAGCACAAAGGACCAACAACCAG
58109367 CAAATGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.50, C:0.33, G:0.11, T:0.07
Consensus pattern (38 bp):
TATACAACCACAACAAAGCACAAAGGACCAACAACCAG
Found at i:58128286 original size:3 final size:3
Alignment explanation
Indices: 58128278--58128304 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58128268 TTGGCAAAAG
58128278 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
58128305 GACGTCGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:58130055 original size:14 final size:14
Alignment explanation
Indices: 58130026--58130064 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
58130016 AATTTATAGC
*
58130026 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
58130040 ATTTACAAATATAT
1 ATATACAAATAAAT
58130054 ATATACAAATA
1 ATATACAAATA
58130065 CGATATACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:58131830 original size:11 final size:11
Alignment explanation
Indices: 58131801--58131857 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
58131791 AAAAAAAAAA
58131801 TCTTGTT-TTT
1 TCTTGTTGTTT
58131811 T-TTGTTTGTTT
1 TCTTG-TTGTTT
58131822 TCTTGTTGTTT
1 TCTTGTTGTTT
* * *
58131833 TGTTGCTATTT
1 TCTTGTTGTTT
58131844 TCTTGTTGTTT
1 TCTTGTTGTTT
58131855 TCT
1 TCT
58131858 CACTATTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 29 0.76
12 3 0.08
ACGTcount: A:0.02, C:0.09, G:0.16, T:0.74
Consensus pattern (11 bp):
TCTTGTTGTTT
Found at i:58131863 original size:22 final size:22
Alignment explanation
Indices: 58131819--58131866 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
58131809 TTTTTGTTTG
* **
58131819 TTTTCTTGTTGTTTTGTTGCTA
1 TTTTCTTGTTGTTTTCTCACTA
58131841 TTTTCTTGTTGTTTTCTCACTA
1 TTTTCTTGTTGTTTTCTCACTA
58131863 TTTT
1 TTTT
58131867 ACTACAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.69
Consensus pattern (22 bp):
TTTTCTTGTTGTTTTCTCACTA
Found at i:58135424 original size:44 final size:44
Alignment explanation
Indices: 58135347--58135460 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
58135337 AAGACTTGTA
* **
58135347 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTG-TT
* *
58135392 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTT
1 TCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGTT
* *
58135435 TTTTTCGATCTACTCCACCACCAGTA
1 TCTTT-GATCTACTTCACCACCAGTA
58135461 TGGGGAGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 6 0.10
44 31 0.53
45 22 0.37
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGTT
Found at i:58135632 original size:50 final size:50
Alignment explanation
Indices: 58135570--58135832 Score: 177
Period size: 50 Copynumber: 5.3 Consensus size: 50
58135560 GATCTGTAAT
* **
58135570 CTTCAATTTGTTCAACTGCAATGTTGGGGAAACCAGATCCGCCGTTGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTTGTAG
* * * *** * * *
58135620 CTTCAATCTGTTCCACCGCACTGTCAGGGAAGTAAGATCTGTCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * *
58135670 CTTAAATCTTTTAAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTTGTAG
** * * ** *** * * *
58135720 CTTCAATCTGTTCCGCTGCACT-ACTAAAGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTTGTAG
* * * * * * *
58135770 CTTCAATCTTTTAAATTGCAATATCAGGAAAACCAGATTCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTTGTAG
58135820 CTTCAATCTGTTC
1 CTTCAATCTGTTC
58135833 CGCTGCAGTA
Statistics
Matches: 149, Mismatches: 62, Indels: 4
0.69 0.29 0.02
Matches are distributed among these distances:
49 1 0.01
50 147 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTTGTAG
Found at i:58135720 original size:100 final size:101
Alignment explanation
Indices: 58135596--58135881 Score: 402
Period size: 100 Copynumber: 2.9 Consensus size: 101
58135586 TGCAATGTTG
* * * *
58135596 GGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACCGCACTGTC-AGGGAAGTAAGATCT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGTCTAAGGAAGTAAGATCT
* *
58135660 GTCGTTGTGGCTTAAATCTTTTAAATTGCAATATCA
66 GCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCA
* *
58135696 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACT-ACTAAAGAAGTAAGAT-T
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGTCTAAGGAAGTAAGATCT
*
58135759 CACCGTTGTGGCTTCAATCTTTTAAATTGCAATATCA
66 -GCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCA
* *
58135796 GGAAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCA--GTACTAAGGAAGTAAGATC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGT-CTAAGGAAGTAAGATC
* *
58135859 CGCCGTTGTGGCCTCAATCTTTT
65 TGCCGTTGTGGCTTCAATCTTTT
58135882 TGACTTTTCA
Statistics
Matches: 165, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
99 2 0.01
100 163 0.99
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (101 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGTCTAAGGAAGTAAGATCT
GCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCA
Found at i:58135863 original size:50 final size:50
Alignment explanation
Indices: 58135704--58135878 Score: 156
Period size: 50 Copynumber: 3.5 Consensus size: 50
58135694 CAGGGAAACC
* *
58135704 AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTACTAAAGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAATACTAAGGAAGTA
* * * * * **** * *
58135754 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATA-TCAGGAA-AA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAATACTAAGGAAGTA
* *
58135802 CCAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAGTACTAAGGAAGTA
1 --AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAATACTAAGGAAGTA
* * *
58135854 AGATCCGCCGTTGTGGCCTCAATCT
1 AGATCCGCCGTCGTAGCTTCAATCT
58135879 TTTTGACTTT
Statistics
Matches: 93, Mismatches: 28, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
48 1 0.01
49 5 0.05
50 80 0.86
51 6 0.06
52 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAATACTAAGGAAGTA
Found at i:58137162 original size:22 final size:21
Alignment explanation
Indices: 58137123--58137167 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
58137113 TTAGCCTCTC
58137123 CATTTTACTTTTTCATTTTTT
1 CATTTTACTTTTTCATTTTTT
58137144 CATTTTCATCTTTTT-ATTTTTT
1 CATTTT-A-CTTTTTCATTTTTT
58137166 CA
1 CA
58137168 CATCATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTACTTTTTCATTTTTT
Found at i:58138051 original size:23 final size:23
Alignment explanation
Indices: 58138022--58138067 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58138012 AGTTTGGCAG
*
58138022 AAAAATCCAAAAGACTGAAAGAA
1 AAAAATCCAAAAGAATGAAAGAA
**
58138045 AAAAATCGTAAAGAATGAAAGAA
1 AAAAATCCAAAAGAATGAAAGAA
58138068 CATTTGCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.11
Consensus pattern (23 bp):
AAAAATCCAAAAGAATGAAAGAA
Found at i:58144670 original size:14 final size:15
Alignment explanation
Indices: 58144646--58144676 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
58144636 TATTAATATT
58144646 ATTATCATTATTATA
1 ATTATCATTATTATA
58144661 ATTA-CATTATTATA
1 ATTATCATTATTATA
58144675 AT
1 AT
58144677 ATTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATCATTATTATA
Found at i:58147165 original size:2 final size:2
Alignment explanation
Indices: 58147158--58147191 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
58147148 GACAAAACTC
58147158 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58147192 TTTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:58151808 original size:22 final size:22
Alignment explanation
Indices: 58151768--58151809 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58151758 ACTCATATAT
* *
58151768 ATATGTATGTATAAGATATACG
1 ATATGTATCTATAACATATACG
*
58151790 ATATGTATCTATACCATATA
1 ATATGTATCTATAACATATA
58151810 TTAAGAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (22 bp):
ATATGTATCTATAACATATACG
Found at i:58152641 original size:21 final size:21
Alignment explanation
Indices: 58152616--58152655 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58152606 TATAATCTAA
* *
58152616 ATCTTAGATGTTGTTATAAGT
1 ATCTTAGATGCTATTATAAGT
58152637 ATCTTAGATGCTATTATAA
1 ATCTTAGATGCTATTATAA
58152656 ATGTATAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (21 bp):
ATCTTAGATGCTATTATAAGT
Found at i:58162213 original size:90 final size:90
Alignment explanation
Indices: 58162056--58162237 Score: 346
Period size: 90 Copynumber: 2.0 Consensus size: 90
58162046 GAATTTGTGT
*
58162056 CAGATAAGGAAATATTCAGTTTTCTCTAAGTTTTTCTGTATATTTGAAGAATCCTTTAAGGAGCA
1 CAGATAAGGAAATATTCAGTTTTATCTAAGTTTTTCTGTATATTTGAAGAATCCTTTAAGGAGCA
58162121 TATCCCATACCGATGGCCAAACATG
66 TATCCCATACCGATGGCCAAACATG
*
58162146 CAGATAAGGAAATATTCAGTTTTATCTAAGTTTTTCTGTATATTTGAAGAATCCTTTAAGGATCA
1 CAGATAAGGAAATATTCAGTTTTATCTAAGTTTTTCTGTATATTTGAAGAATCCTTTAAGGAGCA
58162211 TATCCCATACCGATGGCCAAACATG
66 TATCCCATACCGATGGCCAAACATG
58162236 CA
1 CA
58162238 TCCACGCGGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (90 bp):
CAGATAAGGAAATATTCAGTTTTATCTAAGTTTTTCTGTATATTTGAAGAATCCTTTAAGGAGCA
TATCCCATACCGATGGCCAAACATG
Found at i:58166681 original size:61 final size:58
Alignment explanation
Indices: 58166586--58166702 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 58
58166576 GTATACACTC
58166586 CATTACACAACCTATTTATACTAATAATCAGATATACTAAGAAGGAAAGTCAAAGATTACA
1 CATTACACAACCTATTTATACTAATAATCAGATATAC--A-AAGGAAAGTCAAAGATTACA
*
58166647 CATTACACAACCTATTTATGCTAATAATCAGATATACAAAGGAAAGTCAAAGATTA
1 CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTA
58166703 TAAATCCTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
58 18 0.33
59 1 0.02
61 36 0.65
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.26
Consensus pattern (58 bp):
CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTACA
Found at i:58172919 original size:29 final size:29
Alignment explanation
Indices: 58172874--58172933 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
58172864 TAACCACCTT
*
58172874 TTTTTGCTAATCAAGAACAATAGAAATAA
1 TTTTTGCTAATCAAGAACAACAGAAATAA
* * *
58172903 TTTTTGCTACTCGAGAACAACAGCAATAA
1 TTTTTGCTAATCAAGAACAACAGAAATAA
58172932 TT
1 TT
58172934 AAGAGTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (29 bp):
TTTTTGCTAATCAAGAACAACAGAAATAA
Found at i:58174471 original size:2 final size:2
Alignment explanation
Indices: 58174464--58174513 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
58174454 TGTGCGTGCA
58174464 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
58174506 TG TG TG TG
1 TG TG TG TG
58174514 AGAGAGAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:58178852 original size:20 final size:20
Alignment explanation
Indices: 58178827--58178866 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58178817 AATATTTTCC
*
58178827 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
58178847 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
58178867 TCATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:58182200 original size:22 final size:23
Alignment explanation
Indices: 58182170--58182217 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
58182160 AGTTTTAATG
* *
58182170 TTTAATTTGATATTTGAA-TTTT
1 TTTAATTTGATACTTAAAGTTTT
*
58182192 TTTAGTTTGATACTTAAAGTTTT
1 TTTAATTTGATACTTAAAGTTTT
58182215 TTT
1 TTT
58182218 TATTCCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.62
Consensus pattern (23 bp):
TTTAATTTGATACTTAAAGTTTT
Found at i:58182213 original size:54 final size:54
Alignment explanation
Indices: 58182096--58182213 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
58182086 GTTAGGTTAA
*
58182096 ACTTAAGTTTGGCTTTAATGTTAAATTTGATATTAAAATATTTTTTAATTTGAT
1 ACTTAAGTTTAGCTTTAATGTTAAATTTGATATTAAAATATTTTTTAATTTGAT
* * * * ** *
58182150 ATTTGAGTTTAGTTTTAATGTTTAATTTGATATTTGAAT-TTTTTTAGTTTGAT
1 ACTTAAGTTTAGCTTTAATGTTAAATTTGATATTAAAATATTTTTTAATTTGAT
58182203 ACTTAAAGTTT
1 ACTT-AAGTTT
58182214 TTTTTATTCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 16 0.30
54 37 0.70
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.55
Consensus pattern (54 bp):
ACTTAAGTTTAGCTTTAATGTTAAATTTGATATTAAAATATTTTTTAATTTGAT
Found at i:58189104 original size:41 final size:39
Alignment explanation
Indices: 58189059--58189191 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 39
58189049 AGCGGCATTT
*
58189059 TTAGCGG-GATTTTGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCG-TTTT-ACAAAAAACGCCGCTAAAAAT-GAGCA
* * *
58189100 TTAGCGGCGCTTTTA-TAAAAACGCCGCTAAAGATAGAGAA
1 TTAGCGGCG-TTTTACAAAAAACGCCGCTAAAAAT-GAGCA
* * *
58189140 TTAGCGGCGTTTAACACAAAACGCCGCTAAAAATTAGCA
1 TTAGCGGCGTTTTACAAAAAACGCCGCTAAAAATGAGCA
58189179 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
58189192 CTGAAAATCG
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 19 0.25
40 45 0.58
41 8 0.10
42 5 0.06
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTACAAAAAACGCCGCTAAAAATGAGCA
Found at i:58189130 original size:40 final size:38
Alignment explanation
Indices: 58189076--58189210 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 38
58189066 GATTTTGACA
*
58189076 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTTAT
1 AAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTTTAT
* * * *
58189116 AAAAACGCCGCTAAAGATAGAGAATTAGCGGCGTTTAAC
1 AAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTAT
* *
58189155 ACAAAACGCCGCTAAAAATTAGCATTAGCGGCGTTTTCT
1 A-AAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTTAT
*
58189194 GAAAATCGCCGC-AAAAA
1 -AAAAACGCCGCTAAAAA
58189211 GCCTAAGCCA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 5 0.06
39 29 0.36
40 46 0.57
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTTAT
Found at i:58189441 original size:82 final size:80
Alignment explanation
Indices: 58189247--58189487 Score: 227
Period size: 82 Copynumber: 3.0 Consensus size: 80
58189237 GAGTTTTTGG
* * **
58189247 GGCCCTTAGCGGCATTTTTTAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTG-AGT
1 GGCCATTAGCGGCA-TTTTTAAGAAGCGCCGCTAATACTCTATCCTTTAGCGGCGTTTTTGAAG-
*
58189311 AAGCGCCGCTAAAAGCCA
64 AAGCGCCGCT-AATGCCA
* * * * * *
58189329 GAG-CATTAGCGGCGCTTCTTAAAAAACGCCGCTAATTCTCTATCCTTTAGCGACGTTTTTGAAG
1 G-GCCATTAGCGGC-ATTTTTAAGAAGCGCCGCTAATACTCTATCCTTTAGCGGCGTTTTTGAAG
* *
58189393 AAGCGCCGGTAATGCTCT
64 AAGCGCCGCTAATGC-CA
* * ** *
58189411 GGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATACTAAGAT-CTTTAGCGGCGTTTTTGAAA
1 GGCCATTAGCGGCATTTTT-AAGAAGCGCCGCTAATACT-CTATCCTTTAGCGGCGTTTTTGAAG
58189475 AAGCGCCGCTAAT
64 AAGCGCCGCTAAT
58189488 ATATTTTTTA
Statistics
Matches: 128, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
81 9 0.07
82 114 0.89
83 5 0.04
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (80 bp):
GGCCATTAGCGGCATTTTTAAGAAGCGCCGCTAATACTCTATCCTTTAGCGGCGTTTTTGAAGAA
GCGCCGCTAATGCCA
Found at i:58189476 original size:123 final size:123
Alignment explanation
Indices: 58189252--58189487 Score: 332
Period size: 123 Copynumber: 1.9 Consensus size: 123
58189242 TTTGGGGCCC
* * * *
58189252 TTAGCGGCATTTTTTAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAGTAAGCGC
1 TTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCATTTTTGAGGAAGCGC
*
58189317 CGCTAAAAGCCAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAATTCTCTATCCT
66 CGCTAAAAGCAAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAATTCTCTATCCT
* *
58189375 TTAGCGACGTTTTTGAAGAAGCGCCGGTAATGCTCTGGCCTTTAGCGGCATTTTTGAGGAAGCGC
1 TTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCATTTTTGAGGAAGCGC
* * * * *
58189440 CGCTAATA-CTAAGATCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAAT
66 CGCTAAAAGC-AAGAGCATTAGCGGCGCTTCTT-AAAAAACGCCGCTAAT
58189488 ATATTTTTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
122 5 0.05
123 94 0.95
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (123 bp):
TTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCATTTTTGAGGAAGCGC
CGCTAAAAGCAAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAATTCTCTATCCT
Found at i:58189488 original size:41 final size:41
Alignment explanation
Indices: 58189252--58189488 Score: 203
Period size: 41 Copynumber: 5.8 Consensus size: 41
58189242 TTTGGGGCCC
* * * * *
58189252 TTAGCGGCATTTTTTAAGAAGCGCCGCTAATGCTCTGGCCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAGACCT
* * *
58189293 TTAGCGGCGTTTTTG-AGTAAGCGCCGCTAAAAGC-CAGAGCA
1 TTAGCGGCGTTTTTGAAG-AAGCGCCGCTAATA-CTCAGACCT
* * * * *
58189334 TTAGCGGCGCTTCTT-AAAAAACGCCGCTAATTCTCTA-TCCT
1 TTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATACTC-AGACCT
* * * * *
58189375 TTAGCGACGTTTTTGAAGAAGCGCCGGTAATGCTCTGGCCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAGACCT
* * * *
58189416 TTAGCGGCATTTTTGAGGAAGCGCCGCTAATACTAAGATCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAGACCT
*
58189457 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATA
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATA
58189489 TATTTTTTAT
Statistics
Matches: 152, Mismatches: 36, Indels: 16
0.75 0.18 0.08
Matches are distributed among these distances:
40 7 0.05
41 138 0.91
42 7 0.05
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAGACCT
Found at i:58189795 original size:15 final size:16
Alignment explanation
Indices: 58189775--58189808 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
58189765 CAAATATGGT
58189775 GTTTATGGATTTA-GG
1 GTTTATGGATTTACGG
58189790 GTTTATGGATTTACGG
1 GTTTATGGATTTACGG
58189806 GTT
1 GTT
58189809 AGAGGTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (16 bp):
GTTTATGGATTTACGG
Found at i:58190284 original size:23 final size:23
Alignment explanation
Indices: 58190254--58190299 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
58190244 TATGGTTTAA
* *
58190254 GGTTTAGGGGTTAGGAGTTAGGG
1 GGTTTAGGGGTTAAGAGCTAGGG
58190277 GGTTTAGGGGTTAAGAGCTAGGG
1 GGTTTAGGGGTTAAGAGCTAGGG
58190300 ATTTAAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.50, T:0.28
Consensus pattern (23 bp):
GGTTTAGGGGTTAAGAGCTAGGG
Found at i:58190717 original size:83 final size:80
Alignment explanation
Indices: 58190615--58190767 Score: 252
Period size: 83 Copynumber: 1.9 Consensus size: 80
58190605 GGATAGATAG
* *
58190615 GTAATTATTTAAATTGGATAGGACCAAATTATAAGAAAAGATAAAATACAAAAATAAAAATGGAA
1 GTAATTATTTAAATTGGATAGGACCAAATTATAAGAAAAAATAAAATAC-AAAA-AAAAA-GAAA
58190680 TAAAAAATAATTCTTTAT
63 TAAAAAATAATTCTTTAT
*
58190698 GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAAAAAAGAAATAA
1 GTAATTATTTAAATTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAAAAAAGAAATAA
58190763 AAAAT
66 AAAAT
58190768 TTTCTAATTC
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
80 11 0.16
81 5 0.07
82 4 0.06
83 47 0.70
ACGTcount: A:0.58, C:0.05, G:0.10, T:0.27
Consensus pattern (80 bp):
GTAATTATTTAAATTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAAAAAAGAAATAA
AAAATAATTCTTTAT
Found at i:58197122 original size:87 final size:87
Alignment explanation
Indices: 58197017--58197386 Score: 242
Period size: 87 Copynumber: 4.3 Consensus size: 87
58197007 GACCTACTCT
* * * * * *
58197017 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
58197081 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* **
58197104 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
* *
58197169 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
* * ** * * *
58197194 ACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACTTCAGAGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
58197255 AGATC----CTTTAATCCGCTCC
65 AGATCTGATCTTTGATCTGCTCC
** * * ** * * * *
58197274 ATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCCGCTCCGCCGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAACCTCAGGGAGAT
* *
58197337 AAGATCTGAAATTCTTTGGTCTGTTCC
64 AAGATCTG--A-TCTTTGATCTGCTCC
*
58197364 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
58197387 CCTGTATAAT
Statistics
Matches: 222, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
80 30 0.14
81 1 0.00
82 3 0.01
83 28 0.13
86 2 0.01
87 87 0.39
88 5 0.02
89 1 0.00
90 65 0.29
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:58197209 original size:46 final size:43
Alignment explanation
Indices: 58197057--58197386 Score: 234
Period size: 44 Copynumber: 7.6 Consensus size: 43
58197047 TTTTAATCCA
*
58197057 CTCCACTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * * **
58197100 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAT-TCTTTGATCTG
* *
58197144 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* * * *
58197190 TTCCACTGTAATCTCAGGGAGATAAGACCTGA---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATTCTTTGATCTG
* * * *
58197231 CTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATTCTTTGATCTG
* * * *
58197270 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * *
58197314 CTCCGCCGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
*
58197360 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
58197387 CCTGTATAAT
Statistics
Matches: 224, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 23 0.10
44 72 0.32
45 2 0.01
46 67 0.30
47 2 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATTCTTTGATCTG
Found at i:58198608 original size:1 final size:1
Alignment explanation
Indices: 58198602--58198626 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
58198592 CTCTCCAAAG
58198602 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
58198627 AGGAAGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:58212033 original size:12 final size:12
Alignment explanation
Indices: 58212018--58212051 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58212008 TAACCTACAT
58212018 AACTTACATAGA
1 AACTTACATAGA
*
58212030 AACTTATATAGA
1 AACTTACATAGA
*
58212042 AACTTGCATA
1 AACTTACATA
58212052 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:58212110 original size:16 final size:16
Alignment explanation
Indices: 58212091--58212168 Score: 60
Period size: 16 Copynumber: 5.2 Consensus size: 16
58212081 ATACATAGCG
58212091 TACATAACTTACATAA
1 TACATAACTTACATAA
**
58212107 TACACCACTTACAT-A
1 TACATAACTTACATAA
*
58212122 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
**
58212136 TACACCACTTACAT-A
1 TACATAACTTACATAA
*
58212151 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
58212165 TACA
1 TACA
58212169 CCACTATACC
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
13 16 0.36
14 4 0.09
15 4 0.09
16 21 0.47
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:58212136 original size:29 final size:29
Alignment explanation
Indices: 58212094--58212173 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
58212084 CATAGCGTAC
*
58212094 ATAACTTACATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
58212123 ATAACTTGCATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
58212152 ATAACTTGCATAATACACCACT
1 ATAACTTGCATAATACACCACT
58212174 ATACCTTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.28
Consensus pattern (29 bp):
ATAACTTGCATAATACACCACTTACATAA
Found at i:58217543 original size:66 final size:65
Alignment explanation
Indices: 58217436--58217606 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
58217426 GAGCAAATTA
* * * *
58217436 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
58217500 G
65 G
* *
58217501 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
58217566 G
65 G
* * ** *
58217567 CAGCAGCTTAAAGCAGATGCGGCAGTAAGAGAAGCGGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
58217607 CGGCAGCTAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.29, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:58217601 original size:21 final size:21
Alignment explanation
Indices: 58217577--58217649 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
58217567 CAGCAGCTTA
*
58217577 AAGCAGATGCGGCAG-TAAGAG
1 AAGCAGAGGCGGCAGCT-AGAG
*
58217598 AAGCGGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCTAGAG
* * * *
58217619 AAGTACAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCTAGAG
58217640 AAGCAGAGGC
1 AAGCAGAGGC
58217650 TAAAGCGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.41, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCTAGAG
Found at i:58217650 original size:21 final size:21
Alignment explanation
Indices: 58217594--58217668 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
58217584 TGCGGCAGTA
* * *
58217594 AGAGAAGCGGAGGCGGCAGCT
1 AGAGAAGCAGAGGCTGCAGCG
* *
58217615 AGAGAAGTACAGGCTGCAGCG
1 AGAGAAGCAGAGGCTGCAGCG
**
58217636 AGAGAAGCAGAGGCTAAAGCG
1 AGAGAAGCAGAGGCTGCAGCG
*
58217657 AGGGAAGCAGAG
1 AGAGAAGCAGAG
58217669 CAGCTTCAGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.36, C:0.16, G:0.43, T:0.05
Consensus pattern (21 bp):
AGAGAAGCAGAGGCTGCAGCG
Found at i:58218119 original size:86 final size:86
Alignment explanation
Indices: 58217990--58218268 Score: 312
Period size: 86 Copynumber: 3.2 Consensus size: 86
58217980 TTTTTAAAAA
* ** * * * * *
58217990 CGCCACTAAAGGTGTTGGCCTTTAGAGGCGTTTTT-GGTCAAAGCGCCGCTAAAGATAAGGGTCT
1 CGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTAGG-GAAAGCGCCGCTAAAGATTAGGTTCT
* **
58218054 TTAGCGGCGTTTGTGGAAAAAG
65 TTAGTGGCGTTTGTGGTCAAAG
* *
58218076 CGCCATTAAAGATCATGGTCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAATATTAGGTTCTT
1 CGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGATTAGGTTCTT
*
58218141 TAGTGGCGTTTTGTGGTCGAAG
66 TAGTGGCG-TTTGTGGTCAAAG
* * * * *
58218163 CGCCGCTATAGATCATGGT-TTATTGCGGCG-TTTTAGGGGAAGCGCCACTAAAGATTAGGTTCT
1 CGCCACTAAAGATCATGGTCTT-TAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGATTAGGTTCT
58218226 TTAGTGGCGTTTGTGGTCAAAG
65 TTAGTGGCGTTTGTGGTCAAAG
* * *
58218248 CGCCGCTATAGATCAGGGTCT
1 CGCCACTAAAGATCATGGTCT
58218269 ATTCCGGCGT
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
85 30 0.18
86 101 0.61
87 35 0.21
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (86 bp):
CGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGATTAGGTTCTT
TAGTGGCGTTTGTGGTCAAAG
Found at i:58218206 original size:129 final size:129
Alignment explanation
Indices: 58218009--58218255 Score: 297
Period size: 129 Copynumber: 1.9 Consensus size: 129
58217999 AGGTGTTGGC
58218009 CTTTAGAGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGAGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* * *
58218074 AGCGCCATTAAAGATCATGG-TCTTTAGCGGCGTTTTTAGG-GAAAGCGCCGCTAAATATTAGGT
66 AGCGCCACTAAAGATCA-GGTTCTTTAGCGGCGTTTGT-GGTCAAAGCGCCGCTAAATATTAGGT
58218137 T
129 T
* * * * * *
58218138 CTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCATGGT-TTATTGCGGCGTTT-TAGG-
1 CTTTAGAGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCTT-TAGCGGCGTTTGT-GGA
** * *
58218200 GGAAGCGCCACTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTA
63 AAAAGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTA
58218256 TAGATCAGGG
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
128 4 0.04
129 60 0.60
130 36 0.36
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (129 bp):
CTTTAGAGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
AGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAATATTAGGTT
Found at i:58218278 original size:43 final size:43
Alignment explanation
Indices: 58218009--58218281 Score: 232
Period size: 43 Copynumber: 6.3 Consensus size: 43
58217999 AGGTGTTGGC
* * *
58218009 CTTTAGAGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** ** *
58218052 CTTTAGCGGCGTTTGTGGAAAAAGCGCCATTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
58218095 CTTTAGCGGCGTTTTTAGG-GAAAGCGCCGCTAAATATTAGGTT
1 CTTTAGCGGCGTTTGT-GGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
58218138 CTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCATGGT
1 CTTTAGCGGCG-TTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * * *
58218182 -TTATTGCGGCGTTT-TAGG-GGAAGCGCCACTAAAGATTAGGTT
1 CTT-TAGCGGCGTTTGT-GGTCAAAGCGCCGCTAAAGATCAGGGT
* *
58218224 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
58218267 CTATT-CCGGCGTTTG
1 CT-TTAGCGGCGTTTG
58218282 AGAAAAAAAC
Statistics
Matches: 178, Mismatches: 43, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
42 30 0.17
43 117 0.66
44 31 0.17
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:58218498 original size:22 final size:22
Alignment explanation
Indices: 58218470--58218512 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
58218460 TTGCGGCGCT
*
58218470 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
58218492 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
58218513 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:58218816 original size:17 final size:18
Alignment explanation
Indices: 58218815--58218848 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58218805 TTAAAATTAA
*
58218815 AAAATTAAAAAGTATTTT
1 AAAATAAAAAAGTATTTT
58218833 AAAATAAAAAA-TATTT
1 AAAATAAAAAAGTATTT
58218849 ATTATATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAATAAAAAAGTATTTT
Found at i:58218819 original size:18 final size:17
Alignment explanation
Indices: 58218815--58218848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58218805 TTAAAATTAA
*
58218815 AAAATTAAAAAGTATTTT
1 AAAA-TAAAAAATATTTT
58218833 AAAATAAAAAATATTT
1 AAAATAAAAAATATTT
58218849 ATTATATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAATAAAAAATATTTT
Found at i:58218822 original size:25 final size:25
Alignment explanation
Indices: 58218794--58218844 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
58218784 AAAAAGTATT
58218794 TTAAAAA-TATTTTAAAATTAAAAAA
1 TTAAAAAGTATTTTAAAA-TAAAAAA
58218819 TTAAAAAGTATTTTAAAATAAAAAA
1 TTAAAAAGTATTTTAAAATAAAAAA
58218844 T
1 T
58218845 ATTTATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TTAAAAAGTATTTTAAAATAAAAAA
Found at i:58219169 original size:16 final size:16
Alignment explanation
Indices: 58219148--58219187 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
58219138 ATCTGTAATG
58219148 TTAATCGAGTTAAGAC
1 TTAATCGAGTTAAGAC
58219164 TTAATCGAGTTAAGAC
1 TTAATCGAGTTAAGAC
*
58219180 TCAATCGA
1 TTAATCGA
58219188 CTAGACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (16 bp):
TTAATCGAGTTAAGAC
Found at i:58220717 original size:17 final size:17
Alignment explanation
Indices: 58220697--58220732 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
58220687 GTTTTTCTCG
58220697 TTTGCTTGTATTGTGTT
1 TTTGCTTGTATTGTGTT
58220714 TTTGCTTGTATTGTGTT
1 TTTGCTTGTATTGTGTT
58220731 TT
1 TT
58220733 CTTTGCCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.22, T:0.67
Consensus pattern (17 bp):
TTTGCTTGTATTGTGTT
Found at i:58221286 original size:20 final size:20
Alignment explanation
Indices: 58221261--58221299 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58221251 CGTAAAATGA
*
58221261 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
58221281 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
58221300 CAGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:58224814 original size:21 final size:22
Alignment explanation
Indices: 58224774--58224814 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58224764 AAAAATTATG
* *
58224774 AAAATTTATTAAAATTGTTAAT
1 AAAATTTATCAAAATAGTTAAT
58224796 AAAATTTA-CAAAATAGTTA
1 AAAATTTATCAAAATAGTTA
58224815 CCAAAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
AAAATTTATCAAAATAGTTAAT
Found at i:58225659 original size:18 final size:19
Alignment explanation
Indices: 58225617--58225659 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
58225607 TTATAAATGG
58225617 AATAAATTGTAAAATTATT
1 AATAAATTGTAAAATTATT
* *
58225636 AA-AAATTG-AAATTTTTT
1 AATAAATTGTAAAATTATT
58225653 AATAAAT
1 AATAAAT
58225660 ATTAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
AATAAATTGTAAAATTATT
Found at i:58226031 original size:26 final size:26
Alignment explanation
Indices: 58225992--58226041 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
58225982 TTTTATATTA
*
58225992 AAAATAATACAAATATATACAAATTT
1 AAAATAATACAAATATATAAAAATTT
* * *
58226018 AAAATATTATAAATTTATAAAAAT
1 AAAATAATACAAATATATAAAAAT
58226042 ATATAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAATACAAATATATAAAAATTT
Found at i:58226047 original size:10 final size:10
Alignment explanation
Indices: 58225985--58226095 Score: 53
Period size: 10 Copynumber: 11.8 Consensus size: 10
58225975 TATGATATTT
58225985 TATATTAAAAA
1 TATA-TAAAAA
*
58225996 TA-ATACAAA
1 TATATAAAAA
*
58226005 TATATACAAA
1 TATATAAAAA
58226015 T-T-T-AAAA
1 TATATAAAAA
*
58226022 TAT-TATAAA
1 TATATAAAAA
*
58226031 TTTATAAAAA
1 TATATAAAAA
*
58226041 TATATAAAAG
1 TATATAAAAA
*
58226051 TACA-AAAAA
1 TATATAAAAA
58226060 -ATA-AAAACA
1 TATATAAAA-A
*
58226069 TAT-TATAAA
1 TATATAAAAA
*
58226078 TGAAAT-AAAA
1 T-ATATAAAAA
58226088 TATATAAA
1 TATATAAA
58226096 TTATTAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
7 4 0.05
8 9 0.12
9 23 0.30
10 37 0.49
11 3 0.04
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
TATATAAAAA
Found at i:58226204 original size:20 final size:19
Alignment explanation
Indices: 58226157--58226208 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
58226147 GTAAATTACA
* *
58226157 AAAATTTTTTAAAATTATG
1 AAAATTATTTAAAAATATG
*
58226176 AAAAATATTTAAAAATATAG
1 AAAATTATTTAAAAATAT-G
*
58226196 GAAATTA-TTAAAA
1 AAAATTATTTAAAA
58226209 TTGTTCTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
AAAATTATTTAAAAATATG
Found at i:58229443 original size:9 final size:9
Alignment explanation
Indices: 58229425--58229464 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
58229415 AAAAATAAAT
58229425 AAAT-ATAC
1 AAATAATAC
58229433 AAATAATAC
1 AAATAATAC
58229442 AAATAATAC
1 AAATAATAC
58229451 AAATATATAC
1 AAATA-ATAC
58229461 AAAT
1 AAAT
58229465 TTAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 4 0.13
9 18 0.60
10 8 0.27
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATAATAC
Done.