Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 109 of 213
Found at i:30865005 original size:20 final size:21
Alignment explanation
Indices: 30864980--30865019 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30864970 GTTAGCGAAA
30864980 AAATATAAATAT-AAATAAAC
1 AAATATAAATATAAAATAAAC
**
30865000 AAATATGTATATAAAATAAA
1 AAATATAAATATAAAATAAA
30865020 ATAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATATAAATATAAAATAAAC
Found at i:30871264 original size:50 final size:50
Alignment explanation
Indices: 30871149--30871341 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
30871139 AATAATAACA
* * ** **
30871149 TGCCAAAGGCATGTCCCAGACATGGTCTTACATGGGATTTTCTCAAATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** *
30871200 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
30871250 TGCCAATGCTATGTCCCAAACATAGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
30871300 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30871342 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 87 0.73
51 32 0.27
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30875582 original size:21 final size:21
Alignment explanation
Indices: 30875541--30875582 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30875531 CTGAAAACAC
*
30875541 ATCAGATAATTCCTATGTCTG
1 ATCAGATAATTCCCATGTCTG
30875562 ATCAGATAATTCTCCAT-TCTG
1 ATCAGATAATTC-CCATGTCTG
30875583 GCACTTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (21 bp):
ATCAGATAATTCCCATGTCTG
Found at i:30878794 original size:50 final size:50
Alignment explanation
Indices: 30878611--30878803 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
30878601 GATAATAACA
* ** *
30878611 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** * *
30878662 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCACTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * **
30878712 TGCCAACACCATGTCTCAAACATGGTATTACATAAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
30878762 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30878804 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 27, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 82 0.71
51 33 0.29
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30879173 original size:29 final size:28
Alignment explanation
Indices: 30879141--30879209 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
30879131 CCTCGACTCT
30879141 AACTTTAGAAAATTATGATTTTGCCCCTA
1 AACTTTAGAAAATTATGATTTTGCCCC-A
* * *
30879170 AACTTTTACATAATTATGCTTTTGCCCCA
1 AAC-TTTAGAAAATTATGATTTTGCCCCA
*
30879199 AAGTTTAGAAA
1 AACTTTAGAAA
30879210 TTAAACTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 6 0.18
30 21 0.64
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (28 bp):
AACTTTAGAAAATTATGATTTTGCCCCA
Found at i:30880452 original size:26 final size:26
Alignment explanation
Indices: 30880417--30880466 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
30880407 CCCATACACC
* *
30880417 AATATTGCAGCATAGCTGCCAGTAAT
1 AATATCGCAGCAGAGCTGCCAGTAAT
30880443 AATATCGCAGCAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTGCCAGTA
30880467 CAGTATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTGCCAGTAAT
Found at i:30880697 original size:26 final size:26
Alignment explanation
Indices: 30880668--30880820 Score: 171
Period size: 26 Copynumber: 5.9 Consensus size: 26
30880658 ACGGTCATCC
* * *
30880668 TACCCTTCGGGGGTATTTGGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* *
30880694 TACCCATCGAGGGTATGTCGATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
*
30880720 TACCCATCAAGGGTATTTCGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* **
30880746 TACCCATCGAGGTTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * *
30880772 TACCCATCGACGTTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * *
30880798 TAACCATCGAAGGTATTTTGGTA
1 TACCCATCGAGGGTATTTCGGTA
30880821 CAGTTAACGA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCGGTAATT
Found at i:30886127 original size:20 final size:21
Alignment explanation
Indices: 30886089--30886128 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30886079 ATGAAGTCGG
* *
30886089 GACTTTCTAGTGGGGAAAATT
1 GACTTTCTACTGGGAAAAATT
30886110 GACTTTCT-CTGGGAAAAAT
1 GACTTTCTACTGGGAAAAAT
30886129 CCAAAATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
GACTTTCTACTGGGAAAAATT
Found at i:30890636 original size:26 final size:26
Alignment explanation
Indices: 30890602--30890651 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
30890592 CCATTTCGAA
30890602 TATCAAATTCA-TCTCATAAATTTTCT
1 TATCAAATTCATTC-CATAAATTTTCT
*
30890628 TATCCAATTCATTCCATAAATTTT
1 TATCAAATTCATTCCATAAATTTT
30890652 AATAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (26 bp):
TATCAAATTCATTCCATAAATTTTCT
Found at i:30894516 original size:27 final size:27
Alignment explanation
Indices: 30894486--30894678 Score: 241
Period size: 27 Copynumber: 7.2 Consensus size: 27
30894476 GGAATATAAT
*
30894486 AGTCATTTTACCCTATGGTGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
30894513 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
30894540 -GATCATTCTACCCTAT-GGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
30894566 -GTTCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * * *
30894593 AATTATTTTAACTTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
30894620 GGTCATTCTACCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
30894646 GGTTATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
30894673 AGTCAT
1 AGTCAT
30894679 AATAGTGTAA
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 49 0.34
27 94 0.66
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:30894583 original size:80 final size:81
Alignment explanation
Indices: 30894488--30894678 Score: 305
Period size: 80 Copynumber: 2.4 Consensus size: 81
30894478 AATATAATAG
* *
30894488 TCATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
30894553 TATGGGGTATTTC-GT
66 TATGGGGTATTTCGGT
* * * *
30894568 TCATTTTACCCTATGGGGGTATTTCAATTATTTTAACTTATGGGGGTATTTCGGTCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
30894633 TATGGGGTATTTCGGT
66 TATGGGGTATTTCGGT
*
30894649 T-ATTTTACCCTATGGGGGTATTTTAGTCAT
1 TCATTTTACCCTATGGGGGTATTTCAGTCAT
30894679 AATAGTGTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 98 0.97
81 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
TATGGGGTATTTCGGT
Found at i:30894678 original size:53 final size:54
Alignment explanation
Indices: 30894490--30894678 Score: 258
Period size: 53 Copynumber: 3.5 Consensus size: 54
30894480 TATAATAGTC
* *
30894490 ATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
* *
30894544 ATTCTACCCTAT-GGGGTATTTC-GTTCATTTTACCCTATGGGGGTATTTCAATT
1 ATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTCGATT
* * * * *
30894597 ATTTTAACTTATGGGGGTATTTCGGTCATTCTACCCTAT-GGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
*
30894650 ATTTTACCCTATGGGGGTATTTTAGTCAT
1 ATTTTACCCTATGGGGGTATTTCAGTCAT
30894679 AATAGTGTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 82 0.69
54 34 0.29
55 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATT
Found at i:30900981 original size:15 final size:15
Alignment explanation
Indices: 30900956--30900990 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30900946 GACTCTATTT
*
30900956 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
30900970 TAATTAATATTAAGA
1 TAATTAATATTAAGA
30900985 TAATTA
1 TAATTA
30900991 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:30903896 original size:16 final size:16
Alignment explanation
Indices: 30903866--30903900 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
30903856 GTATTGAATT
30903866 AAAAAAATTCAAAAAA
1 AAAAAAATTCAAAAAA
30903882 AAAAGAAATTCAAAAAA
1 AAAA-AAATTCAAAAAA
30903899 AA
1 AA
30903901 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAAATTCAAAAAA
Found at i:30905029 original size:29 final size:28
Alignment explanation
Indices: 30905016--30905069 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
30905006 AAATGTGATC
30905016 AAGAAAAGAAAATTGAAAAAGAGAGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
*
30905044 AAGAAAAGAAAA-TGAGAAAGA-AGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
30905070 GTGTCATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 8 0.32
28 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (28 bp):
AAGAAAAGAAAATTGAAAAAGAGAGTGA
Found at i:30911062 original size:5 final size:5
Alignment explanation
Indices: 30911039--30911104 Score: 71
Period size: 5 Copynumber: 12.4 Consensus size: 5
30911029 GCAACCCAAT
30911039 TTTTA TTTTTA TTTATTA TTTTA TTTTA TTTTA TTTT- TTTTA TTTATTA
1 TTTTA -TTTTA -TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
30911088 CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
30911105 ATTTATTACT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
5 31 0.57
6 13 0.24
7 6 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:30911062 original size:18 final size:17
Alignment explanation
Indices: 30911039--30911108 Score: 92
Period size: 18 Copynumber: 4.2 Consensus size: 17
30911029 GCAACCCAAT
30911039 TTTTATTTTTATTTATTA
1 TTTTA-TTTTATTTATTA
30911057 TTTTATTTTA-TT-TTA
1 TTTTATTTTATTTATTA
30911072 TTTT-TTTTATTTATTA
1 TTTTATTTTATTTATTA
*
30911088 CTTTATTTTATTTTATTA
1 TTTTATTTTA-TTTATTA
30911106 TTT
1 TTT
30911109 ATTACTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.11
15 9 0.20
16 8 0.17
17 10 0.22
18 14 0.30
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:30911082 original size:31 final size:32
Alignment explanation
Indices: 30911044--30911118 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 32
30911034 CCAATTTTTA
*
30911044 TTTTTATTTATTATTTTATTTTATTTTATT-T
1 TTTTTATTTATTACTTTATTTTATTTTATTAT
30911075 TTTTTATTTATTACTTTATTTTATTTTATTAT
1 TTTTTATTTATTACTTTATTTTATTTTATTAT
* *
30911107 TTATTACTTATT
1 TTTTTATTTATT
30911119 TGGATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTATTTATTACTTTATTTTATTTTATTAT
Found at i:30911219 original size:17 final size:17
Alignment explanation
Indices: 30911175--30911213 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
30911165 AAAATACGAA
30911175 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
30911192 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
30911209 GAAAA
1 GAAAA
30911214 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.28, T:0.05
Consensus pattern (17 bp):
GAAAAAGGAACAGCTAG
Found at i:30912596 original size:50 final size:50
Alignment explanation
Indices: 30912515--30912758 Score: 244
Period size: 50 Copynumber: 4.9 Consensus size: 50
30912505 CATTGAGAAT
* * * *
30912515 ATGAGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* *
30912565 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * * *
30912615 ATGAGAGGTCTCC-CGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAAAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * **
30912665 ATGAGAA-ATCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACA-
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AG
** *
30912715 A-GAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30912759 TGTTATTATC
Statistics
Matches: 164, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 121 0.74
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
Found at i:30912649 original size:100 final size:103
Alignment explanation
Indices: 30912470--30912709 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 103
30912460 AATGAGATCA
* * * *
30912470 CATGTAAGACCATGTCTAGGACATGGCATTGCCATCATTGAGAATATGAGAGGTCTCATGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG-A-ATGAGAGGTCTCACGTAAGA
* * * * *
30912535 CCATGTTTGGGACATGGCGTTGGCACCAAGATGA-AAGGTCC
63 CCATGTCTAGGACATGGCATGGGCACCAAGATGAGAA-ATCC
* *
30912576 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCTCCCGTAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
* * *
30912638 TGTCTAGGACATGGCATGGGCACCGATATGAGAAATCT
66 TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
* *
30912676 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30912710 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 79 0.68
101 2 0.02
103 3 0.03
105 1 0.01
106 31 0.27
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (103 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
Found at i:30916984 original size:56 final size:55
Alignment explanation
Indices: 30916893--30917041 Score: 228
Period size: 56 Copynumber: 2.7 Consensus size: 55
30916883 GGGAATGAGA
*
30916893 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTG-AGATTATCAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCATCATTGAAG-TTATCAGAGG
*
30916949 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCATCATTGAAGTTATCAGAGG
*
30917005 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA
30917042 CCGAGATGAG
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
55 1 0.01
56 83 0.95
57 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCATCATTGAAGTTATCAGAGG
Found at i:30917072 original size:50 final size:49
Alignment explanation
Indices: 30916893--30917126 Score: 189
Period size: 56 Copynumber: 4.4 Consensus size: 49
30916883 GGGAATGAGA
* * * *
30916893 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATCAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA-C--CGAG---ATGAGAAG
* *
30916949 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCA-C--CG-AG--ATGAGAAG
*
30917005 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAAG
** * * * * *
30917055 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAAG
*
30917105 TCCCATGTAAGACCATATCTGG
1 TCCCATGTAAGACCATGTCTGG
30917127 TATTTTTTAT
Statistics
Matches: 157, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
49 2 0.01
50 64 0.41
52 2 0.01
53 1 0.01
55 2 0.01
56 83 0.53
57 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATGAGAAG
Found at i:30917460 original size:50 final size:53
Alignment explanation
Indices: 30917298--30917596 Score: 262
Period size: 56 Copynumber: 5.7 Consensus size: 53
30917288 GGGAATGAGA
*
30917298 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGG
* * *
30917354 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CG-AG-TATGAGAGG
* * *
30917410 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C-CGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
* * * **
30917460 TCCC-TCGTAAGACCATGTTTGGGACTTGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
* * * * **
30917510 TCCCATGTAAGACCATATCTGGGATATGGCATTGTCAGT-AC-A--A-GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCACGAGTATGAGAGG
* *
30917559 TCCCATGTAAGACCAAGTCTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
30917597 GTTATTATCA
Statistics
Matches: 208, Mismatches: 28, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 77 0.37
51 2 0.01
52 3 0.01
53 1 0.00
55 1 0.00
56 85 0.41
57 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
Found at i:30917481 original size:405 final size:405
Alignment explanation
Indices: 30916725--30917531 Score: 1533
Period size: 405 Copynumber: 2.0 Consensus size: 405
30916715 AAATGTAATA
*
30916725 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATGAAAATATCT
1 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
*
30916790 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
30916855 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
30916920 GGCATTGGCATCATTGAGATTATCAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATCAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
30916985 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
30917050 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
30917115 GACCATATCTGGTAT
391 GACCATATCTGGTAT
* *
30917130 TTTTTATAATTATTATTAATGCTGTTATTTTTCAGTAATTATGTATTTATTTCATCAAAATATCT
1 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
30917195 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
*
30917260 GTATCGAATACAAATGTCTTGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
*
30917325 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATCAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
30917390 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
* * *
30917455 AGAGGTCCCTCGTAAGACCATGTTTGGGACTTGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
30917520 GACCATATCTGG
391 GACCATATCTGG
30917532 GATATGGCAT
Statistics
Matches: 393, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
405 393 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (405 bp):
TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCATTGCAACATTGGGAAT
GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
GGCATTGGCATCATTGAGATTATCAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
GACCATATCTGGTAT
Found at i:30920691 original size:15 final size:15
Alignment explanation
Indices: 30920666--30920700 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30920656 GACTCTATTT
*
30920666 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
30920680 TAATTAATATTAAGA
1 TAATTAATATTAAGA
30920695 TAATTA
1 TAATTA
30920701 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:30930175 original size:10 final size:11
Alignment explanation
Indices: 30930149--30930174 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30930139 TATTTTTAAA
30930149 AAAAATATTTT
1 AAAAATATTTT
30930160 AAAAATATTTT
1 AAAAATATTTT
30930171 AAAA
1 AAAA
30930175 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:30943567 original size:22 final size:22
Alignment explanation
Indices: 30943536--30943602 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
30943526 TGCACTAATG
30943536 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
30943558 TATAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
30943580 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
30943602 A
1 A
30943603 TAATCAGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:30951026 original size:27 final size:27
Alignment explanation
Indices: 30950823--30951021 Score: 191
Period size: 27 Copynumber: 7.4 Consensus size: 27
30950813 ACCTAAAAAT
*
30950823 AGGGTAAAATGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
**
30950850 AGGGTAAAATGACAAAAATACCCCCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* *
30950877 AGGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGAAATACCCCCAG
* * *
30950904 AGGGTAAAACGACCGAAATATCCTCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* * * **
30950931 AAGGTAAAATGACTGAAATAACCTTAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* ** *
30950958 AGTGTAAAGCGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
** * * * *
30950985 AGGGTAAGTTGACTGAAATAGCCTCAT
1 AGGGTAAAATGACCGAAATACCCCCAG
30951012 AGGGTAAAAT
1 AGGGTAAAAT
30951022 AACTGTTATA
Statistics
Matches: 136, Mismatches: 36, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAG
Found at i:30952254 original size:27 final size:27
Alignment explanation
Indices: 30952224--30952302 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
30952214 AAAATAACTA
* *
30952224 AAATACCCCCATAGGGTATAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
30952251 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
30952278 AAATACCCCTATTA-GGTAAAATGAC
1 AAATACCCCCA-TAGGGTAAAATGAC
30952303 TATTATACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 46 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:30955968 original size:3 final size:3
Alignment explanation
Indices: 30955962--30956003 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
30955952 CAACAACAAC
30955962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30956004 GAAACATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30960261 original size:27 final size:27
Alignment explanation
Indices: 30960221--30960418 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
30960211 CTAATATTTA
* *
30960221 TAAAATAACTGTAATAACCCTATAGGG
1 TAAAATGACCGTAATAACCCTATAGGG
* *
30960248 TAAAATAACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATAACCCTATAGGG
* * *
30960275 TAAAATGACC-AAAAAACCCCCATAGGG
1 TAAAATGACCGTAATAA-CCCTATAGGG
* * *
30960302 TAAAATGACCGTGAT-GCCTCTGTAGGG
1 TAAAATGACCGTAATAACC-CTATAGGG
*
30960329 TAAAATAACCGTAAT-ACCCTCATAGGG
1 TAAAATGACCGTAATAACCCT-ATAGGG
* * * * * *
30960356 TTAAATGATCGAAATATCCCTGTAAGG
1 TAAAATGACCGTAATAACCCTATAGGG
* *
30960383 TAAAATGACCGTAAT-GCCTCTAGAGGG
1 TAAAATGACCGTAATAACC-CTATAGGG
30960410 T-AAATGACC
1 TAAAATGACC
30960419 ATTTTACCTT
Statistics
Matches: 134, Mismatches: 31, Indels: 13
0.75 0.17 0.07
Matches are distributed among these distances:
26 17 0.13
27 112 0.84
28 5 0.04
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATAACCCTATAGGG
Found at i:30960356 original size:81 final size:82
Alignment explanation
Indices: 30960243--30960413 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 82
30960233 AATAACCCTA
*
30960243 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAGGGTAAAAT
1 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAAT
*
30960308 GACCGTGATGCCTCT-G
66 GACCGTAATGCCTCTAG
* * * * * **
30960324 TAGGGTAAAATAACCGTAATA-CCCTCATAGGGTTAAATGATCGAAATATCCCTGTAAGGTAAAA
1 TAGGGTAAAATAACCGTAATACCCCT-ATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAA
30960388 TGACCGTAATGCCTCTAG
65 TGACCGTAATGCCTCTAG
30960406 -AGGGTAAA
1 TAGGGTAAA
30960414 TGACCATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 4 0.05
81 74 0.94
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (82 bp):
TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCCCCATAAGGTAAAAT
GACCGTAATGCCTCTAG
Found at i:30960394 original size:54 final size:54
Alignment explanation
Indices: 30960221--30960418 Score: 186
Period size: 54 Copynumber: 3.7 Consensus size: 54
30960211 CTAATATTTA
* * *
30960221 TAAAATAACTGTAATAACCCT-ATAGGGTAAAATAACCGTAATACCCCTATAGGG
1 TAAAATAACCGTAAT-ACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* ** * * * * *
30960275 TAAAATGACCAAAAAACCCCCATAGGGTAAAATGACCGTGATGCCTCTGTAGGG
1 TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * * * *
30960329 TAAAATAACCGTAATACCCTCATAGGGTTAAATGATCGAAATATCCCTGTAAGG
1 TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
* * *
30960383 TAAAATGACCGTAAT-GCCTCTAGAGGGT-AAATGACC
1 TAAAATAACCGTAATACCCTC-ATAGGGTAAAATGACC
30960419 ATTTTACCTT
Statistics
Matches: 114, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 15 0.13
54 99 0.87
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (54 bp):
TAAAATAACCGTAATACCCTCATAGGGTAAAATGACCGTAATACCCCTGTAGGG
Found at i:30961847 original size:27 final size:27
Alignment explanation
Indices: 30961817--30962128 Score: 345
Period size: 27 Copynumber: 11.6 Consensus size: 27
30961807 AGAGCCAAAA
*
30961817 ATAGGGTAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
30961844 ATAGGGTAACATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * *
30961871 AGAGAGTAAAATGACTGAAATGCCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
30961898 ATAGGGTAAAATAACCTAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
** **
30961925 ATAGGGTAAAACAATAGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
30961952 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
30961979 ATAGGGTAAAACGATCGAAATAACCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
30962006 ATAGGATAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
30962033 AAAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* ** *
30962060 ATAGGGTAAATTGATTGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * * *
30962087 ATAAGGTAAAATAATCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
30962114 AAAGTGTAACATGAC
1 ATAGGGTAAAATGAC
30962129 TGTTATACTC
Statistics
Matches: 232, Mismatches: 53, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 232 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:30966594 original size:149 final size:148
Alignment explanation
Indices: 30966329--30966640 Score: 441
Period size: 149 Copynumber: 2.1 Consensus size: 148
30966319 AAAGTTTTCA
** *
30966329 TTTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
1 TTTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
*
30966394 AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATT
66 AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATT
*
30966459 TTTAAGAAAAATAGTTA-
131 TTTAAGAAAAATAGTGAC
* *
30966476 TATTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAA
1 T-TTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTT-GTCATATTAAA
* * * **
30966541 GGAAAA-TTTAAATTTTTTAAAACAAA-GTTTTGGTCTTTTTCAACTATTTCGAAATAAAATTTT
64 GGAAAAGTTTAAA--ATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTT
*
30966604 GATTTTTAAGAAAAGTAGTGAC
127 GATTTTTAAGAAAAATAGTGAC
30966626 TTTTTTTAAAGAAAA
1 TTTTTTTAAA-AAAA
30966641 TTTTGATTTT
Statistics
Matches: 146, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
147 1 0.01
148 53 0.36
149 78 0.53
150 14 0.10
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (148 bp):
TTTTTTTAAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTGTCATATTAAAGG
AAAAGTTTAAAATTAAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATT
TTTAAGAAAAATAGTGAC
Found at i:30967553 original size:27 final size:27
Alignment explanation
Indices: 30967520--30967608 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
30967510 TAAGTAAGTG
*
30967520 TTACATTTTAATGAAACCATAATGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
30967547 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
*
30967574 TTACATTTTAAGGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
30967601 TTACATTT
1 TTACATTT
30967609 GAATTTAGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGTTT
Found at i:30969490 original size:15 final size:17
Alignment explanation
Indices: 30969447--30969484 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30969437 GAATGGATTA
* *
30969447 TTATATTGAACGAACTG
1 TTATATTGTATGAACTG
30969464 TTATATTGTATGAACTG
1 TTATATTGTATGAACTG
30969481 TTAT
1 TTAT
30969485 TTTATGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (17 bp):
TTATATTGTATGAACTG
Found at i:30969495 original size:17 final size:18
Alignment explanation
Indices: 30969447--30969497 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
30969437 GAATGGATTA
*
30969447 TTATATTG-AACGAACTG
1 TTATATTGTATCGAACTG
30969464 TTATATTGTAT-GAACTG
1 TTATATTGTATCGAACTG
30969481 TTAT-TT-TATGCGAACTG
1 TTATATTGTAT-CGAACTG
30969498 CCTATTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 2 0.07
17 24 0.80
18 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (18 bp):
TTATATTGTATCGAACTG
Found at i:30985726 original size:50 final size:50
Alignment explanation
Indices: 30985615--30985911 Score: 222
Period size: 50 Copynumber: 5.8 Consensus size: 50
30985605 ATTTGGATAA
* *
30985615 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---CAAG--ATG
* * *
30985671 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* ** * * * *
30985721 AGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATTGGTACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * *
30985771 AGA-ACTCCCATGTAAGACCGTATCTGGGATATGGCATGGGCACCGATATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * * ** *
30985821 AGA-ACACCCATGTAAGACCATATCTGAGATATTGCTTTGGCA-GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
30985870 AAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30985912 TGTTATTATC
Statistics
Matches: 201, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
49 37 0.18
50 122 0.61
52 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:30993744 original size:22 final size:22
Alignment explanation
Indices: 30993718--30993762 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30993708 AGTGAGACAG
30993718 TAGGGACACCTACTACAGAGAC
1 TAGGGACACCTACTACAGAGAC
30993740 TAGGGACACCTACTACAGAGAC
1 TAGGGACACCTACTACAGAGAC
30993762 T
1 T
30993763 GAGTCCTAGT
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:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (22 bp):
TAGGGACACCTACTACAGAGAC
Found at i:31001541 original size:50 final size:50
Alignment explanation
Indices: 31001443--31001548 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
31001433 TATTAAGGTT
* * *
31001443 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGGTGGTACCGAG
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
* * * * *
31001493 ATGAGAGGTCCCCCGTAAAACCGTGTCTGGGACATAGC-ATGGGCACCGAT
1 ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGT-GGCACCGAG
31001543 ATGAGA
1 ATGAGA
31001549 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAAACCATGTCTGGGACATAGCGGTGGCACCGAG
Found at i:31009285 original size:21 final size:21
Alignment explanation
Indices: 31009267--31009317 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
31009257 TACTAATATT
*
31009267 AACACTAATAATGATAATAAA
1 AACAATAATAATGATAATAAA
31009288 AACAATAATAAT-ATGAATAATA
1 AACAATAATAATGAT-AATAA-A
*
31009310 ACCAATAA
1 AACAATAA
31009318 ACAAAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.24
Consensus pattern (21 bp):
AACAATAATAATGATAATAAA
Found at i:31009623 original size:12 final size:12
Alignment explanation
Indices: 31009606--31009635 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31009596 GACTCATGGA
31009606 GAAAGGAGATGT
1 GAAAGGAGATGT
*
31009618 GAAAGGTGATGT
1 GAAAGGAGATGT
31009630 GAAAGG
1 GAAAGG
31009636 GAGACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (12 bp):
GAAAGGAGATGT
Found at i:31020262 original size:61 final size:61
Alignment explanation
Indices: 31020187--31020307 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
31020177 TCTTAATCTT
*
31020187 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
31020248 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATA
31020308 TCTCACATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (61 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAAGAATACTCTTGAATTAAAATTTGATGTGATAA
Found at i:31020274 original size:30 final size:29
Alignment explanation
Indices: 31020187--31020276 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
31020177 TCTTAATCTT
31020187 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
* ** * * * *
31020216 GAATACT-CTTGAATTAGAATTTGATGTGATAA
1 CAAGCCTCCATG-GTT-G-GTTTCATGTGA-AA
31020248 CAAGCCTCCATGGTTGGTTTCATGTGAAA
1 CAAGCCTCCATGGTTGGTTTCATGTGAAA
31020277 GAATACTCTT
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
28 3 0.07
29 8 0.19
30 10 0.24
31 10 0.24
32 8 0.19
33 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (29 bp):
CAAGCCTCCATGGTTGGTTTCATGTGAAA
Found at i:31022614 original size:24 final size:24
Alignment explanation
Indices: 31022569--31022616 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
31022559 TTTTATTTAT
**
31022569 ATAAAACTATAATTTGGACTAATA
1 ATAAAACTATAATTTACACTAATA
* *
31022593 ATAAAGCTATAATTTACTCTAATA
1 ATAAAACTATAATTTACACTAATA
31022617 TGATCTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
ATAAAACTATAATTTACACTAATA
Found at i:31040675 original size:37 final size:37
Alignment explanation
Indices: 31040625--31040703 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31040615 TTATTACGAA
* *
31040625 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
31040662 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
31040699 GTCTT
1 GTCTT
31040704 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:31040900 original size:47 final size:47
Alignment explanation
Indices: 31040822--31041083 Score: 425
Period size: 47 Copynumber: 5.6 Consensus size: 47
31040812 CCCTTCGGGA
* * * * * * *
31040822 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31040869 CCTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31040916 CTTATCACATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31040963 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31041010 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31041057 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
31041084 ACCAACCCTT
Statistics
Matches: 200, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31041338 original size:40 final size:40
Alignment explanation
Indices: 31041301--31041489 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
31041291 GGATATAGCT
* * *
31041301 ACTCGTTCAAATGCCTTTGGGACATAGCCCGGTTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
31041341 ACTCGTACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* **
31041381 ACTCGCACAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * * * * *
31041420 TCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
31041460 ACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 AC-TCGTACAAATGCCTTCGGGACTTAGCCC
31041490 AGACATCATT
Statistics
Matches: 125, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 29 0.23
40 77 0.62
41 16 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:31041419 original size:79 final size:80
Alignment explanation
Indices: 31041336--31041489 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
31041326 AGCCCGGTTA
* * *
31041336 TAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
31041399 GGG-CTTAGCCCGAAAT
64 GGGACTTAGCCCGAAAT
* ** * *
31041415 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
31041480 GACTTAGCCC
66 GACTTAGCCC
31041490 AGACATCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 45 0.70
80 16 0.25
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGAAAT
Found at i:31041429 original size:39 final size:40
Alignment explanation
Indices: 31041336--31041439 Score: 156
Period size: 39 Copynumber: 2.6 Consensus size: 40
31041326 AGCCCGGTTA
* * *
31041336 TAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
*
31041376 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
*
31041415 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
31041440 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
Found at i:31052052 original size:20 final size:21
Alignment explanation
Indices: 31052024--31052062 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
31052014 AAGTATTTTT
31052024 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTACA
31052045 ATTA-TTTTTAATATTTTA
1 ATTATTTTTTAATATTTTA
31052063 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTACA
Found at i:31052068 original size:21 final size:21
Alignment explanation
Indices: 31052024--31052068 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
31052014 AAGTATTTTT
*
31052024 ATTATTTTTTAATATTTTACA
1 ATTATTTTTTAATATTTTAAA
31052045 ATTA-TTTTTAATATTTTATAA
1 ATTATTTTTTAATATTTTA-AA
31052066 ATT
1 ATT
31052069 TTATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTTTTTAATATTTTAAA
Found at i:31052296 original size:21 final size:22
Alignment explanation
Indices: 31052272--31052314 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31052262 ACATTTCGTT
31052272 TAGTGAA-TAAATAAAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
* *
31052293 TAGTGAAGTAATTAGAATTTAA
1 TAGTGAAGTAAATAAAATTTAA
31052315 AATTCACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (22 bp):
TAGTGAAGTAAATAAAATTTAA
Found at i:31059132 original size:27 final size:27
Alignment explanation
Indices: 31059093--31059637 Score: 449
Period size: 27 Copynumber: 20.2 Consensus size: 27
31059083 GTAATGGGAC
*
31059093 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
31059120 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
31059147 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
** * * **
31059174 TAAAATGGCCGAAATATCGCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
31059201 TAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* *
31059228 TAAAATGACCAAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * * ** *
31059255 TATAATTATCGAAATGCCCTTGAAGGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * ***
31059282 TAAAATGACCGAAATATCCTTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* ** *
31059309 TAAAATGATCGAAATACTCTTGAATGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
31059336 TAAAATGATCGAAATA-CCCTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
31059362 TAAATTGACCGAAAGACCCCCGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* * **
31059389 TAAAACT-ATCAAAATAACCCTAAAGGG
1 TAAAA-TGATCGAAATACCCCCGAAGGG
* * *
31059416 TAAAATGA-CTAAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCCCGAAGGG
* **
31059443 TAAAATGATCAAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
*
31059470 TAAAATGA-CTAAAGTA-CCCCGAAGGG
1 TAAAATGATCGAAA-TACCCCCGAAGGG
* * * *
31059496 TAAAATGATCAAAATACCCCCAAAAGA
1 TAAAATGATCGAAATACCCCCGAAGGG
* * *
31059523 TAAAATTA-CTGAAATACCCCTGAAGGA
1 TAAAATGATC-GAAATACCCCCGAAGGG
* **
31059550 TAAAATTATCGAAATACCCCTAAAGGG
1 TAAAATGATCGAAATACCCCCGAAGGG
* ***
31059577 TAAAATTATCGAAAT-CTCCTTAAAGGG
1 TAAAATGATCGAAATAC-CCCCGAAGGG
* *
31059604 TAAAATTA-CTAAAATACCCCCGAAGGGG
1 TAAAATGATC-GAAATACCCCCGAA-GGG
31059632 TAAAAT
1 TAAAAT
31059638 TACCGACATA
Statistics
Matches: 427, Mismatches: 77, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
26 47 0.11
27 367 0.86
28 13 0.03
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCGAAGGG
Found at i:31060105 original size:28 final size:28
Alignment explanation
Indices: 31060065--31060151 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
31060055 ACTGTAATGT
* *
31060065 TACTGTATTGGGTTGAGGCCCACACTGA
1 TACTATATTGGGTTAAGGCCCACACTGA
* *
31060093 TACTATATTGGGTTAAGTCCCACAGTGA
1 TACTATATTGGGTTAAGGCCCACACTGA
* * *
31060121 TACTAAATTGGGCTAAGGCCCTCACTG-
1 TACTATATTGGGTTAAGGCCCACACTGA
31060148 TACT
1 TACT
31060152 GTCACTGAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 4 0.08
28 46 0.92
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (28 bp):
TACTATATTGGGTTAAGGCCCACACTGA
Found at i:31067148 original size:27 final size:26
Alignment explanation
Indices: 31067110--31067600 Score: 426
Period size: 27 Copynumber: 18.3 Consensus size: 26
31067100 GTATTGGGCC
*
31067110 TAAAATGTCCGAAATACCTCCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
*
31067137 TAAAATGACCGAAATACCCTCGAAGAG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * * * *
31067164 TAAAATTACCAAAATGCCCTTGAAAGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
31067191 TAAAATGATCGAAATACACTCGAAGGG
1 TAAAATGACCGAAATAC-CCCGAAGGG
* *
31067218 TAAAATGATCGAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACC-CCGAAGGG
**
31067245 TAAAATGACCGAAATACCTTGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
31067271 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * ** *
31067298 TAAAATGTCTGAAATATCCTTGAAAGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
31067325 TAAAATTACCAAAATACCCTCGAAGGT
1 TAAAATGACCGAAATACCC-CGAAGGG
31067352 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
31067379 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
**
31067406 TAAAATGACTAAAATA-CCCGAAGGG
1 TAAAATGACCGAAATACCCCGAAGGG
* *
31067431 TAAAATGACCAAAATACCCCTGAATGG
1 TAAAATGACCGAAATACCCC-GAAGGG
* * **
31067458 TAAAATTACCAAAATATCCCTAAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * * * *
31067485 TAAAATTATCAAAATATCTCTGAAGGG
1 TAAAATGACCGAAATA-CCCCGAAGGG
* * *
31067512 TAAAATTACCAAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCC-CGAAGGG
* * *
31067539 TAAAATTACCGAAATACCCTCTAAGGA
1 TAAAATGACCGAAATACCC-CGAAGGG
* *
31067566 TAAAATTACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCGA-AGGG
*
31067593 TGAAATGA
1 TAAAATGA
31067601 TCTTTATACC
Statistics
Matches: 395, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 22 0.06
26 38 0.10
27 329 0.83
28 6 0.02
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCGAAGGG
Found at i:31067581 original size:81 final size:80
Alignment explanation
Indices: 31067110--31067584 Score: 553
Period size: 81 Copynumber: 5.9 Consensus size: 80
31067100 GTATTGGGCC
* *
31067110 TAAAATGTCCGAAATA-CCTCCGAAGGGTAAAATGACCGAAATACCCTCGAAGAGTAAAATTACC
1 TAAAATGACCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACC
* *
31067174 AAAATGCCCTTGAAAGG
65 AAAATACCC-TGAAGGG
* * * * * *
31067191 TAAAATGATCGAAATACACTCGAAGGGTAAAATGATCGAAATACCTTCGAAGGGTAAAATGACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
*
31067256 AAATACCTTGAAGGG
66 AAATACCCTGAAGGG
* * * * *
31067271 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGTCTGAAATATCCTTGAAAGGTAAAATTACCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
*
31067336 AAATACCCTCGAAGGT
66 AAATACCCT-GAAGGG
** * *
31067352 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTAAAATGACTA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
31067417 AAATACCC-GAAGGG
66 AAATACCCTGAAGGG
* * * * * *
31067431 TAAAATGACCAAAATACCC-CTGAATGGTAAAATTACCAAAATATCCCT-AAAGGGTAAAATTAT
1 TAAAATGACCGAAATACCCTC-GAAGGGTAAAATGACCGAAATA-CCCTCGAAGGGTAAAATTAC
*
31067494 CAAAATATCTCTGAAGGG
64 CAAAATA-CCCTGAAGGG
* * * * * * *
31067512 TAAAATTACCAAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCTAAGGATAAAATTACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
31067577 AAATACCC
66 AAATACCC
31067585 CCATAGGGTG
Statistics
Matches: 334, Mismatches: 52, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.00
79 58 0.17
80 80 0.24
81 193 0.58
82 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (80 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATTACCA
AAATACCCTGAAGGG
Found at i:31071310 original size:20 final size:21
Alignment explanation
Indices: 31071274--31071312 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31071264 TTAGTATCAT
31071274 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAAGGTATCGATTA
*
31071295 TTTTCAGAAA-GTATCGAT
1 TTTTAAGAAAGGTATCGAT
31071313 ACCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTTAAGAAAGGTATCGATTA
Found at i:31071515 original size:20 final size:21
Alignment explanation
Indices: 31071458--31071545 Score: 80
Period size: 20 Copynumber: 4.4 Consensus size: 21
31071448 AGCAATTCTG
* *
31071458 ACTTGTTTGAAAATCATTTTG
1 ACTTGATTGAAAATCATTTTC
* *
31071479 A-TGTG-TT-AAAATGATTTTA
1 ACT-TGATTGAAAATCATTTTC
31071498 ACTTGATTG-AAATCATTTTC
1 ACTTGATTGAAAATCATTTTC
31071518 ACTTGGA--GAAAATCATTTTC
1 ACTT-GATTGAAAATCATTTTC
31071538 ACTTGATT
1 ACTTGATT
31071546 TTAAAATTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 16 0.29
20 34 0.62
21 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (21 bp):
ACTTGATTGAAAATCATTTTC
Found at i:31073364 original size:40 final size:40
Alignment explanation
Indices: 31073303--31073396 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
31073293 CTTTAAATGT
*
31073303 AAGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATGAAA
1 AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
* * * *
31073343 AAGGGTTGCTATGCGTC-GATTCCCCGTATCATTGATTATA
1 AAGGGTTGCTAAGCG-CAGATTCCCCGAATCATTGATGAAA
*
31073383 AGGTGGTTGCTAAG
1 AAG-GGTTGCTAAG
31073397 TGCTAATTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 35 0.78
41 10 0.22
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
AAGGGTTGCTAAGCGCAGATTCCCCGAATCATTGATGAAA
Found at i:31073562 original size:83 final size:84
Alignment explanation
Indices: 31073306--31073661 Score: 506
Period size: 84 Copynumber: 4.3 Consensus size: 84
31073296 TAAATGTAAG
* ** * * * *
31073306 GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATGA-AAAA-GGGTTGCTATGCG-TCGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCT-GATTCCC
31073367 CGTATCATTGATTATAAGGT
65 CGTATCATTGATTATAAGGT
* * * *
31073387 GGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTAAAAGGGGTTGTGATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
31073452 GTATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
*
31073471 GGTTGCTAAGTGCTGATTCCACCGTGTACTTGATT-TAAAAGGGGTTGTTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
31073535 GTATCATTGATTATAAGGT
66 GTATCATTGATTATAAGGT
* * * *
31073554 GGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
* *
31073619 GTATTATTGGTTATAAGGT
66 GTATCATTGATTATAAGGT
31073638 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
31073662 GGATCCTTTG
Statistics
Matches: 247, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
81 18 0.07
82 9 0.04
83 83 0.34
84 136 0.55
85 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (84 bp):
GGTTGCTAAGTGCTGATTCCACCGTGTCCTTGATTATAAAAGGGGTTGTTATGTGCTGATTCCCC
GTATCATTGATTATAAGGT
Found at i:31073636 original size:167 final size:167
Alignment explanation
Indices: 31073360--31073661 Score: 516
Period size: 167 Copynumber: 1.8 Consensus size: 167
31073350 GCTATGCGTC
* *
31073360 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATGTCCTTGATTGTA
1 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
31073425 AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
66 AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
31073490 CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
131 CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
* ** *
31073527 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTATG
1 GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
* *
31073592 AAAGGGGTTGCT-ATGTGCTGATTCCCCGTATTATTGGTTATAAGGTGGTTGCTAAGTGCTGATT
66 AAAGGGGTTG-TGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
31073656 CCACCG
130 CCACCG
31073662 GGATCCTTTG
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 125 0.99
168 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (167 bp):
GATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACCATATCCTTGATTATA
AAAGGGGTTGTGATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTGTACTTGATTTAAAAGGGGTTGTTATGTGCT
Found at i:31073688 original size:44 final size:44
Alignment explanation
Indices: 31073374--31073705 Score: 247
Period size: 41 Copynumber: 7.8 Consensus size: 44
31073364 CCCCGTATCA
* * * *
31073374 TTGATTATAAGGTGGTTGCTAAGTGCTAATTCCACC-ATGTCC-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
** * *
31073416 TTGATTGTAAAAGG-GGTTG-TGATGTGCTGATTCC-CC-GTAT-CA
1 TTGA-T-TATGAGGTGGTTGCT-AAGTGCTGATTCCACCGGTATCCT
*
31073458 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTGTA--C-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCG-GTATCCT
** * * *
31073500 TTGATTTAAAAGG-GGTTGTTATGTGCTGATTCC-CC-GTAT-CA
1 TTGA-TTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
* *
31073541 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA-CTGTATCC-
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
*
31073583 TTGATTATGAAAGG-GGTTGCTATGTGCTGATTCC-CC-GTAT--T
1 TTGATTATG--AGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
* * *
31073624 ATTGGTTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCT
1 -TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
**
31073669 TTGAACATGAGGTGGTTGCTAAGTGCTGATTCCACCG
1 TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCG
31073706 TGTAACGGTT
Statistics
Matches: 241, Mismatches: 23, Indels: 50
0.77 0.07 0.16
Matches are distributed among these distances:
39 3 0.01
40 17 0.07
41 63 0.26
42 63 0.26
43 49 0.20
44 45 0.19
45 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (44 bp):
TTGATTATGAGGTGGTTGCTAAGTGCTGATTCCACCGGTATCCT
Found at i:31079277 original size:19 final size:20
Alignment explanation
Indices: 31079244--31079281 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
31079234 ATTCTACTAC
31079244 TAAATTTCTTTTTTTAAAAT
1 TAAATTTCTTTTTTTAAAAT
31079264 TAAATTTC-TTTTTTAAAA
1 TAAATTTCTTTTTTTAAAA
31079282 ACTCGATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATTTCTTTTTTTAAAAT
Found at i:31079282 original size:20 final size:20
Alignment explanation
Indices: 31079244--31079282 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31079234 ATTCTACTAC
*
31079244 TAAATTTCTTTTTTTAAAAT
1 TAAATTTCTTTTTTAAAAAT
31079264 TAAATTTCTTTTTTAAAAA
1 TAAATTTCTTTTTTAAAAA
31079283 CTCGATAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATTTCTTTTTTAAAAAT
Found at i:31098361 original size:34 final size:31
Alignment explanation
Indices: 31098318--31098383 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 31
31098308 ATTATCACTA
*
31098318 TAATGGGCTAAGGCCCACATTGATACTGATACTG
1 TAATGGGCTAAGGCCCA-ACTGA-ACTGA-ACTG
31098352 TAATGGGCTAAGGCCCAACTGAACTGAACTG
1 TAATGGGCTAAGGCCCAACTGAACTGAACTG
31098383 T
1 T
31098384 TATTGAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 5 0.16
32 5 0.16
33 4 0.13
34 17 0.55
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (31 bp):
TAATGGGCTAAGGCCCAACTGAACTGAACTG
Found at i:31101609 original size:50 final size:50
Alignment explanation
Indices: 31101492--31101931 Score: 326
Period size: 50 Copynumber: 8.6 Consensus size: 50
31101482 ACAGGTGAAA
* ** * * * *
31101492 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGT-ATTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * ** * *
31101541 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* ** * * * * *
31101591 GCCATGTCCTAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * *
31101641 GTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAAT
** * * * *
31101697 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * * * ** * *
31101746 GCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
** ** * *
31101796 GCCATGTCCCAGACATTATCTTACGGGGGACCTCTTATCTCAGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * *
31101846 GTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAAT
*
31101902 GCCATGTCCCAGACATAGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
31101932 TCTTATTCCC
Statistics
Matches: 299, Mismatches: 78, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
49 71 0.24
50 150 0.50
53 5 0.02
56 73 0.24
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
Found at i:31101660 original size:100 final size:100
Alignment explanation
Indices: 31101534--31101884 Score: 368
Period size: 100 Copynumber: 3.5 Consensus size: 100
31101524 TTTCCTGTAT
* * **
31101534 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
* *
31101599 CTAGACATGGTCTTACGGGGGACCACTTATCTCGG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
* * * ** *
31101634 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCCATGC
** * *
31101699 CATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTAC
60 CATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTC-G--G
* * * * **
31101739 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
** *
31101804 CCAGACATTATCTTACGGGGGACCTCTTATCTCAG
66 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
31101839 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
31101885 ACCTCAATAA
Statistics
Matches: 197, Mismatches: 41, Indels: 26
0.75 0.16 0.10
Matches are distributed among these distances:
99 32 0.16
100 78 0.40
101 4 0.02
102 5 0.03
103 6 0.03
104 3 0.02
105 36 0.18
106 33 0.17
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
Found at i:31101844 original size:205 final size:205
Alignment explanation
Indices: 31101492--31101932 Score: 765
Period size: 205 Copynumber: 2.2 Consensus size: 205
31101482 ACAGGTGAAA
* * *
31101492 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGTATTGCCAATGCCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
* * *
31101557 GGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* *
31101622 CACTTATCTCGGTGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
31101687 TAATGCCAAT
196 TAATGCCAAT
31101697 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
*
31101762 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATTATCTTACGGGGGAC
66 GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
* * *
31101827 CTCTTATCTCAGTGCCAATGTCATGTCCCAGATATGGTCTTACATGGGACCTCTCATAACCTCAA
131 CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
31101892 TAATGCCAAT
196 TAATGCCAAT
*
31101902 GCCATGTCCCAGACATAGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT
31101933 CTTATTCCCT
Statistics
Matches: 223, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 223 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (205 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGCCATATCCCAAATAT
GGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGGAC
CACTTATCTCAGTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAA
TAATGCCAAT
Found at i:31108361 original size:19 final size:18
Alignment explanation
Indices: 31108337--31108386 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
31108327 TTGGGCTAGA
*
31108337 ATGGGCCAAAATGGACTGT
1 ATGGGCC-AAACGGACTGT
* *
31108356 ATGGGCCCAACGGGCTGT
1 ATGGGCCAAACGGACTGT
*
31108374 ATGGGCCCAACGG
1 ATGGGCCAAACGG
31108387 GCTTATGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (18 bp):
ATGGGCCAAACGGACTGT
Found at i:31108375 original size:18 final size:18
Alignment explanation
Indices: 31108352--31108394 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
31108342 CCAAAATGGA
31108352 CTGTATGGGCCCAACGGG
1 CTGTATGGGCCCAACGGG
31108370 CTGTATGGGCCCAACGGG
1 CTGTATGGGCCCAACGGG
31108388 CT-TATGG
1 CTGTATGG
31108395 ACCCCACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (18 bp):
CTGTATGGGCCCAACGGG
Found at i:31108400 original size:18 final size:18
Alignment explanation
Indices: 31108352--31108400 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
31108342 CCAAAATGGA
*
31108352 CTGTATGGGCCCAACGGG
1 CTGTATGGCCCCAACGGG
*
31108370 CTGTATGGGCCCAACGGG
1 CTGTATGGCCCCAACGGG
31108388 CT-TATGGACCCCA
1 CTGTATGG-CCCCA
31108401 CACAGGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (18 bp):
CTGTATGGCCCCAACGGG
Found at i:31114096 original size:44 final size:44
Alignment explanation
Indices: 31114033--31114390 Score: 278
Period size: 44 Copynumber: 8.0 Consensus size: 44
31114023 CGGTTTTAGT
* *
31114033 CTGCTCCACTACAACTTCAGAGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
*
31114077 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * *
31114121 CTGCTCTATTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * ** ** *
31114165 CTACTCCACTGTAACATCAGGGAGATAAGGTTTGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTTCA-A-C
* * * * * * *
31114212 TAATTCGACCTACTGCAATTTCAGAGG-TATAAGA-TT-CATCGTTTTAATC
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGACTTGTATC--TTCAA-C
* * * *
31114261 C-GCTCCACTACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* **
31114304 CTGCTCCATTGCAACTTCAAAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* * *
31114348 CTGCTCCACTGTAACTTCAGTGAGATAAGACTTGTAGCTTCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA
31114391 ATTGTTTTAC
Statistics
Matches: 249, Mismatches: 50, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
43 3 0.01
44 202 0.81
45 9 0.04
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 6 0.02
51 15 0.06
52 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:31114519 original size:44 final size:44
Alignment explanation
Indices: 31114471--31114768 Score: 172
Period size: 44 Copynumber: 6.9 Consensus size: 44
31114461 GATCCATCAT
* *
31114471 TTCAATCCGCTTCACTGCAACTTCAGGAAGATAGGATTGGTTTC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
* * * * * *
31114515 TTCAATCTGCTCCGCTGCAACTTTAAGG-AGATAAAACTGG---A
1 TTCAATCCGCTCCACTGCAAC-TTCAGGAAGATAAGATTGGTTTC
* * * * * * *
31114556 TGCGATCTGATCTACTGCAACTTCAGAGAA-ATAAGATCT-ATTTT
1 TTCAATCCGCTCCACTGCAACTTCAG-GAAGATAAGAT-TGGTTTC
* * *
31114600 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
** * * *
31114644 TTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTTGC
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
* * *
31114688 GATC--TGCGCT--ACTGCAACTTCA-GAGAGATAAGATCTGTGGTT-
1 -TTCAATCCGCTCCACTGCAACTTCAGGA-AGATAAGAT-TG-GTTTC
* * * *
31114730 TT-AATCCGCTCCACTACAACTTTAGGGAGATAGGATTGG
1 TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGG
31114769 CTTCATTGAT
Statistics
Matches: 188, Mismatches: 48, Indels: 38
0.69 0.18 0.14
Matches are distributed among these distances:
40 6 0.03
41 43 0.23
42 10 0.05
43 11 0.06
44 110 0.59
45 8 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATTGGTTTC
Found at i:31114549 original size:129 final size:129
Alignment explanation
Indices: 31114427--31114768 Score: 454
Period size: 129 Copynumber: 2.7 Consensus size: 129
31114417 TAAAATCCGG
* * * * *
31114427 TGCGGTCTACTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTCAATCCGCTTCACTGCAAC
1 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
* *
31114492 TTCAGGAAGATAGGATTGGTTTCTTCAATCTGCTCCGCTGCAACTTTAAGG-AGATAAAACTGGA
66 TTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAAC-TTAAGGAAGATAAAACTGGA
* **
31114556 TGCGATCTGA-TCTACTGCAACTTCAGAGAAATAAGATCTATTTTTTTAATCCGCTCCACTGCAA
1 TGCGATCT-ACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAA
** * * *
31114620 CTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGT
65 CTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAAACTGGA
* * * ** *
31114685 TGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAAC
1 TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
*
31114750 TTTAGGGAGATAGGATTGG
66 TTCAGGGAGATAGGATTGG
31114769 CTTCATTGAT
Statistics
Matches: 187, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
128 5 0.03
129 181 0.97
130 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
TGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAAC
TTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAAACTGGA
Found at i:31114837 original size:45 final size:45
Alignment explanation
Indices: 31114778--31115030 Score: 334
Period size: 45 Copynumber: 5.7 Consensus size: 45
31114768 GCTTCATTGA
* *
31114778 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * *
31114823 TATGCTTCGTTGTCAGTACAGGAAGGCAAGGTC-GGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
31114866 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * *
31114912 TCTGCTCCGCTGTCAGTATAGGAAGGTAAG-GCTGGTATCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* **
31114955 ATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
*
31115001 TCTGCTCCGCTGTCAGTACAGGAAGGCAAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG
31115031 GCTGGTGTCT
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.01
44 76 0.42
45 102 0.56
46 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
Found at i:31114927 original size:89 final size:89
Alignment explanation
Indices: 31114776--31115040 Score: 424
Period size: 89 Copynumber: 3.0 Consensus size: 89
31114766 TGGCTTCATT
* * * *
31114776 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGTTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
31114841 CAGGAAGGCAAGG-TCGGTGTCTTC
66 CAGGAAGGCAAGGCT-GGTGTCTTC
*
31114865 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAGTCTGCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
* * *
31114930 TAGGAAGGTAAGGCTGGTATCTTC
66 CAGGAAGGCAAGGCTGGTGTCTTC
* *
31114954 GATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
31115019 CAGGAAGGCAAGGCTGGTGTCT
66 CAGGAAGGCAAGGCTGGTGTCT
31115041 ATTTTTATGC
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
89 160 0.99
90 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (89 bp):
GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTA
CAGGAAGGCAAGGCTGGTGTCTTC
Found at i:31115912 original size:19 final size:20
Alignment explanation
Indices: 31115876--31115921 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
31115866 TAATTTACCC
* *
31115876 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTGTTAATTTAAT
31115896 ATTTTT-TTGTTAATTTAAT
1 ATTTTTATTGTTAATTTAAT
31115915 -TTTTTAT
1 ATTTTTAT
31115922 ATTCTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTTATTGTTAATTTAAT
Found at i:31118754 original size:18 final size:18
Alignment explanation
Indices: 31118731--31118767 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31118721 AAATATAGTA
31118731 TTTTATTTTTAGTTTTAG
1 TTTTATTTTTAGTTTTAG
*
31118749 TTTTATTTTTATTTTTAG
1 TTTTATTTTTAGTTTTAG
31118767 T
1 T
31118768 ACTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTAGTTTTAG
Found at i:31119984 original size:27 final size:27
Alignment explanation
Indices: 31119953--31120044 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
31119943 CATCCTATTA
* *
31119953 GCCTTTATGGCATACTTTGAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
31119980 GCCTTTGCGGCGTACTCTAAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
* * *
31120007 GCGTTTTTGGCGTACTTTGAAAAGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
31120034 GCCTTTGTGGC
1 GCCTTTGTGGC
31120045 TTATCCTGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTTTGAAAGGAAT
Found at i:31123948 original size:21 final size:22
Alignment explanation
Indices: 31123906--31123950 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31123896 TTATGTTTAG
31123906 AAATTGAAAACTTTTAATATAA
1 AAATTGAAAACTTTTAATATAA
31123928 AAATTGAAAA-TTTTGAA-ATAA
1 AAATTGAAAACTTTT-AATATAA
31123949 AA
1 AA
31123951 TCAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATTGAAAACTTTTAATATAA
Found at i:31124005 original size:17 final size:18
Alignment explanation
Indices: 31123985--31124024 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
31123975 AATTTAATGC
* *
31123985 AAAAAA-TATTAAATTTT
1 AAAAAATTATGAAAATTT
31124002 AAAAAATTATGAAAATTT
1 AAAAAATTATGAAAATTT
31124020 AAAAA
1 AAAAA
31124025 TACTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAAATTATGAAAATTT
Found at i:31124033 original size:17 final size:16
Alignment explanation
Indices: 31123986--31124040 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
31123976 ATTTAATGCA
*
31123986 AAAAATATTAAATTTT
1 AAAAATATTAAAATTT
*
31124002 AAAAAATTATGAAAATTT
1 -AAAAA-TATTAAAATTT
*
31124020 AAAAATACTTAAAAGTT
1 AAAAATA-TTAAAATTT
31124037 AAAA
1 AAAA
31124041 GAAAAACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAAATATTAAAATTT
Found at i:31126145 original size:28 final size:28
Alignment explanation
Indices: 31126105--31126161 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
31126095 ACTAATCATC
*
31126105 ACTCTTAATTTTCTCTAATTATAGTTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
31126133 ACTCTTAATTTTCTCTAATTATAGCTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
31126161 A
1 A
31126162 AAAATGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
ACTCTTAATTTTCTCTAATTATAGCTGG
Found at i:31128466 original size:24 final size:24
Alignment explanation
Indices: 31128439--31128485 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
31128429 AAATCAATTA
*
31128439 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
31128463 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
31128486 AATAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:31130395 original size:44 final size:43
Alignment explanation
Indices: 31130332--31130646 Score: 231
Period size: 44 Copynumber: 7.0 Consensus size: 43
31130322 CAGTTTTAGT
31130332 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAAC
*
31130376 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTATCTTCAAC
* * ** *
31130420 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTGGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTCA-A-C
* * * * * * * *
31130467 TAATTCGACCTACTGTAATTTCAGAGG-TATAAGATT-CATCGTTTTAATC
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGATTGTATC--TTCAA-C
* * * * *
31130516 C-ACTCCACTGCAACTTCAGGGAGATAGGATAAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTATCTTCAAC
* * *
31130559 CTGCTCCATTGCAACTTTAGAGAGATAAGATTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAAC
* * *
31130603 CTGCTCCACTGCAACTTCAGTGAGATAGGACTTGTAGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAAC
31130647 TTGTTTTACT
Statistics
Matches: 210, Mismatches: 43, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
43 6 0.03
44 159 0.76
45 10 0.05
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 4 0.02
51 17 0.08
52 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAAC
Found at i:31130842 original size:41 final size:41
Alignment explanation
Indices: 31130774--31130932 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 41
31130764 GGTTTCTTCA
* * *
31130774 ATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTGGATGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
* *** ***
31130815 ATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAG----ATTGGATGCG
* * * * *
31130860 ATCCGCTCCACTGCAACTTTAGGGA-ATAAGACTGGATGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
31130900 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
31130933 CTGTGGTTTT
Statistics
Matches: 86, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
40 24 0.28
41 33 0.38
44 5 0.06
45 24 0.28
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCG
Found at i:31130889 original size:85 final size:85
Alignment explanation
Indices: 31130784--31130979 Score: 322
Period size: 85 Copynumber: 2.3 Consensus size: 85
31130774 ATCTGCTCTG
*
31130784 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTTCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
* **
31130849 TATTTTTTTTAATCCGCTCCA
66 T-GTGGTTTTAATCCGCTCCA
*
31130870 CTGCAACTTTAGGGA-ATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
31130934 TGTGGTTTTAATCCGCTCCA
66 TGTGGTTTTAATCCGCTCCA
*
31130954 CTGCAACTTTAGGGAGATAGGATTGG
1 CTGCAACTTTAGGGAGATAAGATTGG
31130980 CTTCTTTGAT
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 31 0.30
85 56 0.55
86 15 0.15
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (85 bp):
CTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
TGTGGTTTTAATCCGCTCCA
Found at i:31130958 original size:129 final size:127
Alignment explanation
Indices: 31130695--31130972 Score: 290
Period size: 129 Copynumber: 2.2 Consensus size: 127
31130685 GGTCTACTCT
* *
31130695 ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTTCACTGCAACTTCAGGAAGATAG
1 ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAA
* * * * * * * ** *
31130760 GATTGGTTTCTTCAATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTGGATGCGATCTTCTCT
66 GACTGG--TATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCAATCCGCTCC
* * * * *
31130824 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTAATCCGCTCCACTGCAACTTTAGGGA-ATA
1 ACTGCAACTTTAGAGAGATAAGATCCA-TTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATA
* * **
31130888 AGACTGG-ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTC
65 AGACTGGTATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA--T-TGGATGCAATCCGCTC
31130952 C
127 C
*
31130953 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGAGAGATA
31130973 GGATTGGCTT
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
126 31 0.25
128 1 0.01
129 61 0.50
130 29 0.24
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (127 bp):
ACTGCAACTTTAGAGAGATAAGATCCATTATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAA
GACTGGTATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATGCAATCCGCTCC
Found at i:31130972 original size:44 final size:43
Alignment explanation
Indices: 31130695--31130972 Score: 176
Period size: 44 Copynumber: 6.5 Consensus size: 43
31130685 GGTCTACTCT
* * *
31130695 ACTGCAACTTTAGAGAGATAAGATCCATT-ATTTTAATCCGCTTC
1 ACTGCAACTTTAGGGAGATAAGAT-C-TTGGTTTTAATCCGCTCC
* * * * *
31130739 ACTGCAACTTCAGGAAGATAGGA--TTGGTTTCTTCAATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGG-TT-TT-AATCCGCTCC
* * *** ** *
31130783 GCTGCAACTTTAGGGAGATAAGA--TTGGATGCGATCTTCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* * **
31130824 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATC--TTGGTTTTAATCCGCTCC
* *** * *
31130869 ACTGCAACTTTAGGGA-ATAAGA-C-TGGATGCGATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
* *
31130909 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTTAGGGAGATAAGATCT-TGGTTTTAATCCGCTCC
31130953 ACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGGGAGATA
31130973 GGATTGGCTT
Statistics
Matches: 173, Mismatches: 49, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
40 25 0.14
41 34 0.20
42 3 0.02
43 4 0.02
44 84 0.49
45 23 0.13
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
ACTGCAACTTTAGGGAGATAAGATCTTGGTTTTAATCCGCTCC
Found at i:31131090 original size:44 final size:45
Alignment explanation
Indices: 31130982--31131387 Score: 479
Period size: 45 Copynumber: 9.1 Consensus size: 45
31130972 AGGATTGGCT
* * * *
31130982 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * *
31131027 TCTTC-AGTATGCTTCGCTGTCAGTATAGGAAGGCAAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
31131071 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
31131116 TCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAG-GCTAG-TA
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCT-GCTA
*
31131160 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * * *
31131205 TCTTC-AGTCTGCTCCGCTGTCAATACAGGAAGGCAAG-GTTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* *
31131249 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
* * * * * *
31131294 TTTTC-AGTCTGCTTCACTATCAGTACAAGAAGGCAAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
*
31131338 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
31131383 TCTTC
1 TCTTC
31131388 ACTAATCTGT
Statistics
Matches: 302, Mismatches: 45, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
44 149 0.49
45 153 0.51
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTA
Found at i:31131138 original size:89 final size:89
Alignment explanation
Indices: 31130982--31131388 Score: 670
Period size: 89 Copynumber: 4.6 Consensus size: 89
31130972 AGGATTGGCT
* * * * *
31130982 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
31131047 CAGTATAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
31131071 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
31131136 CAGTACAGGAAGGCAAGGCTAGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
31131160 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
31131225 CAATACAGGAAGGCAAGGTTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* * * * *
31131249 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAAGCAAGATCTGCTATTTTCAGTCTGCTTCACTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
31131314 CAGTACAAGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
31131338 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
31131389 CTAATCTGTT
Statistics
Matches: 296, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 296 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:31131692 original size:24 final size:24
Alignment explanation
Indices: 31131665--31131718 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
31131655 TTGCCCCCAA
31131665 TGTAATCTTCAAAGTTCAATCCAC
1 TGTAATCTTCAAAGTTCAATCCAC
* *
31131689 TGTAATCTTCAAGGTTCAGTCCAC
1 TGTAATCTTCAAAGTTCAATCCAC
31131713 TGTAAT
1 TGTAAT
31131719 TTTGGTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (24 bp):
TGTAATCTTCAAAGTTCAATCCAC
Found at i:31132635 original size:11 final size:10
Alignment explanation
Indices: 31132619--31132653 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
31132609 TTCATGCTTC
31132619 TTTTCTTTTCT
1 TTTTCTTTT-T
31132630 TTTTCTTTTT
1 TTTTCTTTTT
*
31132640 GTTTCTTTTT
1 TTTTCTTTTT
31132650 TTTT
1 TTTT
31132654 TCAAGTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:31132637 original size:16 final size:17
Alignment explanation
Indices: 31132616--31132655 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
31132606 TTTTTCATGC
31132616 TTCTTTTCT-TTTCTTT
1 TTCTTTTCTGTTTCTTT
31132632 TTCTTTT-TGTTTCTTT
1 TTCTTTTCTGTTTCTTT
*
31132648 TTTTTTTC
1 TTCTTTTC
31132656 AAGTTAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTCTTTTCTGTTTCTTT
Found at i:31134932 original size:40 final size:40
Alignment explanation
Indices: 31134835--31135059 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
31134825 TTGAATGCTG
* * * *
31134835 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31134875 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
31134915 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
31134955 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31134995 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31135034 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31135060 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31135077 original size:79 final size:80
Alignment explanation
Indices: 31134910--31135092 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
31134900 GTGCGAGATA
* * * *
31134910 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAATCTGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31134975 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
31134990 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
31135054 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
31135069 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31135093 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31141063 original size:174 final size:174
Alignment explanation
Indices: 31140883--31141551 Score: 738
Period size: 174 Copynumber: 3.9 Consensus size: 174
31140873 TCCGCTCCAT
* * * * ** * * *
31140883 TGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAG
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGG
* * * * * *
31140946 ATCTTTGGCTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTAC
65 AT-TCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGC
* *
31141011 TCCACTGTAACCTCAGGGAGATAAGACCTCATGCGATCTACTCTGC
129 TCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
* * * *
31141057 TGTAACTTTAGAGAGATAAGATCCTTTATTTTAATTCGCTCCA-TGTAACTTCAGGGAGATAGGA
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA
** * * * * * * *
31141121 TAGTGTCTTCAATCTGTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCC
66 TTCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTC
* *
31141186 CACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTAC
131 CACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
*
31141230 TGTAACTTCAGAGAGATAAGAT-CTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 TGTAACTTCAGAGAGATAAGATACTTT-ACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
* * *
31141294 ATAGTCT--CTTCGATTTGCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTG
65 AT--TCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
* * *
31141357 CTCCACTATAATCTCAGGGAGATAAGACCTAATGCGATCTACTCTAT
128 CTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
* *
31141404 TGTAACTTCAGAGAGAAAAGAT-C----CTTTAATCCACTCCACTGTAA-TCTCAGGGAGATAGG
1 TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGG
* * * * **
31141463 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTG
65 ATT-CTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTG
31141525 CTCCACTGTAACCTCAGGGAGATAAGA
128 CTCCACTGTAACCTCAGGGAGATAAGA
31141552 TCTGAAATTC
Statistics
Matches: 425, Mismatches: 59, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
167 2 0.00
168 36 0.08
169 34 0.08
170 36 0.08
172 4 0.01
173 127 0.30
174 175 0.41
175 10 0.02
176 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (174 bp):
TGTAACTTCAGAGAGATAAGATACTTTACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA
TTCTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTC
CACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTAC
Found at i:31141191 original size:173 final size:174
Alignment explanation
Indices: 31140958--31141551 Score: 780
Period size: 174 Copynumber: 3.5 Consensus size: 174
31140948 CTTTGGCTTT
* * * * *
31140958 AATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
* * *
31141023 TCAGGGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
31141088 TAATTCGCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTC
131 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
* * * * * *
31141131 AATCTGTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
*
31141196 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTAATT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT-ATT
*
31141260 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTC
130 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
* * * *
31141305 GATTTGCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
* *
31141370 TCAGGGAGATAAGACCTAATGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-----TT
66 TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
* *
31141430 TAATCCACTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTC
131 TAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGT-GTCTTC
* * * ** *
31141475 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTGCTCCACTGTAAT
31141537 CTCAGGGAGATAAGA
65 CTCAGGGAGATAAGA
31141552 TCTGAAATTC
Statistics
Matches: 372, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
167 1 0.00
168 34 0.09
169 33 0.09
170 39 0.10
172 4 0.01
173 122 0.33
174 138 0.37
175 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATC
TCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
Found at i:31141279 original size:217 final size:214
Alignment explanation
Indices: 31140736--31141291 Score: 553
Period size: 218 Copynumber: 2.6 Consensus size: 214
31140726 GATTAGTTAT
* * * * * * *
31140736 CTTTAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGT
* * * * ** * *
31140801 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGGTCCTTT
63 AACCTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTT
* *
31140866 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA
128 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAA
31140931 TCTCAGGGAGATAAGATCTTTGG
193 TCTCAGGGAGATAAGATCTTT-G
* * ** * *
31140954 CTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGT
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCGATCTACTCCACTGT
* * * * ** *
31141019 AACCTCAGGGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTT
63 AACCTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTT
* * * *
31141084 ATTTTAATTCGCTCCA-TGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGTTTCACTGTTA
128 ATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAA
31141148 TCTCAGGGAGATAAGATCTGAAATT-
193 TCTCAGGGAGATAAGATCT----TTG
* ** * *
31141173 TTTTGGTCTGCCCCACTGTAATCTCAGGGAGATAAGACCTG-A-TGCGATCTACTCTACTGTAAC
1 CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAAC
* * ** * *
31141236 TTCAGAGAGATAAGATCTTTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
66 CTCAGAGAGATAAGA-C-CTAA-TGCAATCCACTCCACTGTAACTTCAGAGAGATA
31141292 GGATAGTCTC
Statistics
Matches: 292, Mismatches: 39, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
214 31 0.11
215 1 0.00
216 2 0.01
217 87 0.30
218 136 0.47
219 33 0.11
221 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (214 bp):
CTTTAATCTGCCCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCGATCTACTCCACTGTAAC
CTCAGAGAGATAAGACCTAATGCAATCCACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATT
TTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCACTGTAATCT
CAGGGAGATAAGATCTTTG
Found at i:31141623 original size:388 final size:385
Alignment explanation
Indices: 31140740--31141993 Score: 1457
Period size: 388 Copynumber: 3.2 Consensus size: 385
31140730 AGTTATCTTT
* *
31140740 AATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
* *
31140805 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGGTCCTTTATTT
66 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTT
* *
31140870 TAATCCGCTCCATTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
131 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTC
* * * **
31140935 AGGGAGATAAGATCTTTGGCTTTAATCTGCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATT
196 AGGGAGATAAGATCTTT-GCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCT-AAA-T
* * * * * * **
31141000 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTCATGCGATCTACTCTGCTGTAACTT
258 -TGCGATCTACTCCACTGTAACCTCAGAGAGAAAAGACCT-ATGCAATCCACTCCACTGTAACTT
* * * * * * *
31141065 TAGAGAGATAAGATCCTTTATTTTAATTCGCTCCATGTAACTTCAGGGAGATAGGATAGTGTCTT
321 CAGAGAGATAAGAT-CTCTACTTCAATTCGCTCCATGTAACTTCAGGGAGATAAGATACTGGCTT
31141130 C
385 C
* * * * * * * *
31141131 AATCTGTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
*
31141196 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTAATT
66 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTT-ATT
* *
31141260 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTCTCTTCGATTTGCTCCACTGTAATCT
130 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCT
* ** *
31141325 CAGGGAGATGAGATCTGAAATT-CTTCGGTCTGCTCCACTATAATCTCAGGGAGATAAGACCT-A
195 CAGGGAGATAAGATCT----TTGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTAA
* * * *
31141388 A-TGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCCT-T-TAATCCACTCCACTGTAA-T
256 ATTGCGATCTACTCCACTGTAACCTCAGAGAGAAAAGA-CCTATGCAATCCACTCCACTGTAACT
* * * *
31141449 CTCAGGGAGATAGGAT-TACTAGCTTCAA-TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCT
320 -TCAGAGAGATAAGATCT-CTA-CTTCAATTC-GCTCC-ATGTAACT-TCAGGGAGATAAGAT-A
31141511 CTGGCTTC
378 CTGGCTTC
*
31141519 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
*
31141584 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTT
66 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTT
* * *
31141649 TAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTATAATCTC
131 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTC
* * * *
31141714 AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
196 AGGGAGATAAGATCT-TTGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCT-AAA-T
* * * * * * **
31141779 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTT
258 -TGCGATCTACTCCACTGTAACCTCAGAGAGAAAAGACCT-ATGCAATCCACTCCACTGTAACTT
* * * * * * *
31141844 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCT
321 CAGAGAGATAAGAT-CTCTACTTCAATTCGCTCCA-TGTAACTTCAGGGAGATAAGATACTGGCT
31141909 TC
384 TC
* * ** * ** * *
31141911 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAATTCTTCAGTCTGTTCCACCGTAATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
*
31141976 TCAGGGAAATAAGACCTG
66 TCAGGGAGATAAGACCTG
31141994 TATAATGAAC
Statistics
Matches: 726, Mismatches: 108, Indels: 57
0.81 0.12 0.06
Matches are distributed among these distances:
384 1 0.00
385 6 0.01
386 69 0.10
387 20 0.03
388 225 0.31
389 7 0.01
390 7 0.01
391 218 0.30
392 79 0.11
393 86 0.12
394 5 0.01
395 3 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (385 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTC
AGGGAGATAAGATCTTTGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTAAATTGC
GATCTACTCCACTGTAACCTCAGAGAGAAAAGACCTATGCAATCCACTCCACTGTAACTTCAGAG
AGATAAGATCTCTACTTCAATTCGCTCCATGTAACTTCAGGGAGATAAGATACTGGCTTC
Found at i:31141721 original size:87 final size:87
Alignment explanation
Indices: 31140791--31141946 Score: 377
Period size: 87 Copynumber: 13.4 Consensus size: 87
31140781 TCTTCGGTCT
* * ** * *
31140791 ACTCCACTGTAACCTCAGGGAGATAAGACCTGA--TGCGATCTACTCTGCTGTAACCTCAGAGAG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTACTCCACTATAACCTCAGGGAG
* * * *
31140854 ATAAGGTC-CTTTATTTTAATCC
66 ATAAGATCTC-TGACTTCAATCC
* * * * * * * * *
31140876 GCTCCATTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTGCTCCGCTGTAATCTCAGGGA
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-CTGATCTTCGATCTACTCCACTATAACCTCAGGGA
* * * *
31140940 GATAAGATCTTTGGCTTTAATCT
65 GATAAGATCTCTGACTTCAATCC
* * * * *
31140963 GCTCCACTGTAACCTCTGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TCTTCGATCTACTCCACTATAACCTCAGG
* * * *
31141028 GAGATAAGA-C-CTCA-TGCGATCT
63 GAGATAAGATCTCTGACTTCAATCC
** * * * * ** * * *
31141050 ACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTAT-TTTAAT-TCGCTCCA-TGTAACTTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATCTTCGATCT-ACTCCACTATAACCTCAGG
* ** * *
31141112 GAGATAGGAT-AGTGTCTTCAATCT
63 GAGATAAGATCTCTGACTTCAATCC
** * * * * * * * * * *
31141136 GTTTCACTGTTATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTGCCCCACTGTAATCTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TCTTCGATCTACTCCACTATAACCTCAGG
* * *
31141201 GAGATAAGA-C-CTGA-TGCGATCT
63 GAGATAAGATCTCTGACTTCAATCC
* * * * ** ** * *
31141223 ACTCTACTGTAACTTCAGAGAGATAAGATCTTTAAT-TTTAATCCGCTCCACTGTAACTTCAGGG
1 ACTCCACTGTAACCTCAGGGAGATAAGATC--TGATCTTCGATCTACTCCACTATAACCTCAGGG
* * * **
31141287 AGATAGGATAGTCT--CTTCGATTT
64 AGATAAGAT-CTCTGACTTCAATCC
* * * * * *
31141310 GCTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TCTTCGATCTACTCCACTATAACCTCAGG
* * * *
31141375 GAGATAAGA-C-CT-AATGCGATCT
63 GAGATAAGATCTCTGACTTCAATCC
* * * * * ** * * *
31141397 ACTCTATTGTAACTTCAGAGAGAAAAGATC----CTTTAATCCACTCCACTGTAATCTCAGGGAG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTACTCCACTATAACCTCAGGGAG
* *
31141458 ATAGGAT-TACT-AGCTTCAATCT
66 ATAAGATCT-CTGA-CTTCAATCC
* * * * * * *
31141480 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTG-GCTTCAATCTGCTCCACTGTAACCTCAGGG
1 ACTCCACTGTAACCTCAGGGAGATAAGA--TCTGATCTTCGATCTACTCCACTATAACCTCAGGG
*** ** *
31141544 AGATAAGATCTGAAATTCTTCGGTCT
64 AGATAAGATCTCTGA--CTTCAATCC
* * ** * * * *
31141570 ACTCCACTGTAACCTCAGGGAGATAAGACCTGA--TGCGATCTACTCTGCTGTAACTTTAGAGAG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTACTCCACTATAACCTCAGGGAG
* * *
31141633 ATAAGATC-CTTTATTTTAATCC
66 ATAAGATCTC-TGACTTCAATCC
* * * * * *
31141655 ACTCTACTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTGCTCCACTATAATCTCAGGGA
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-CTGATCTTCGATCTACTCCACTATAACCTCAGGGA
* *
31141719 GATAAGATCTCTGGCTTCAATCT
65 GATAAGATCTCTGACTTCAATCC
* *
31141742 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TCTTCGATCTACTCCACTATAACCTCAGG
* * *
31141807 GAGATAAGA-C-CTGA-TGCGATCT
63 GAGATAAGATCTCTGACTTCAATCC
** * * * ** ** * *
31141829 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTAACTTCAGGG
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATCTTCGATCTACTCCACTATAACCTCAGGG
* ** * * *
31141893 AGATAGGAT-AGTGTCTTCGATCT
64 AGATAAGATCTCTGACTTCAATCC
* * *
31141916 GCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCT
31141947 CTAATTCTTC
Statistics
Matches: 795, Mismatches: 217, Indels: 118
0.70 0.19 0.10
Matches are distributed among these distances:
80 30 0.04
82 3 0.00
83 26 0.03
84 21 0.03
85 125 0.16
86 42 0.05
87 338 0.43
88 56 0.07
89 54 0.07
90 100 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
ACTCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTACTCCACTATAACCTCAGGGAG
ATAAGATCTCTGACTTCAATCC
Found at i:31141783 original size:218 final size:218
Alignment explanation
Indices: 31141311--31141948 Score: 1047
Period size: 218 Copynumber: 2.9 Consensus size: 218
31141301 CTTCGATTTG
* * * * *
31141311 CTCCACTGTAATCTCAGGGAGATGAGATCTGAAATTCTTCGGTCTGCTCCACTATAATCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* ** *
31141376 AGATAAGACCTAATGCGATCTACTCTATTGTAACTTCAGAGAGAAAAGATCC-----TTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
31141436 ACTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAGG
131 ACTCCACTGTAACT-TCAGGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAATCTCAGG
*
31141499 GAGATAAGATCTCTGGCTTCAATCTG
193 GAGATAAGATCTCTGGCTTCAATCTA
31141525 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
*
31141590 AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * *
31141655 ACTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTATAATCTCAGGGAG
131 ACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
31141720 ATAAGATCTCTGGCTTCAATCTA
196 ATAAGATCTCTGGCTTCAATCTA
31141743 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
31141808 AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
31141873 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
131 ACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
31141938 ATAAGATCTCT
196 ATAAGATCTCT
31141949 AATTCTTCAG
Statistics
Matches: 396, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
214 107 0.27
217 1 0.00
218 254 0.64
219 33 0.08
220 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
ACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTGGCTTCAATCTA
Found at i:31141841 original size:174 final size:174
Alignment explanation
Indices: 31141515--31141993 Score: 445
Period size: 174 Copynumber: 2.7 Consensus size: 174
31141505 AGATCTCTGG
*
31141515 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACTG
1 CTTCAATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT---ATGTCTTCGATCTACTCCACTG
* * * ** * * *
31141579 TAACCTCAGGGAGATAAGACCTG-A---TGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGAT
62 TAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-
* ** * * *
31141640 CCTTTATTTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATAGTGT-
126 CC-TGATTGCAATCCACTCTACTGTAACTTCAGAGAGATAAGATACTGTA
* * * * *
31141689 CTTCGATCTGCTCCACTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAA
1 CTTCAATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTATGTCTTCGATCTACTCCACTGTAA
31141754 CCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT
65 CCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT
* * * * *
31141819 GA-TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTA
129 GATTGCAATCCACTCTACTGTAACTTCAGAGAGATAAGATACTGTA
* * * * * *
31141864 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTTCGATCTGCTCCGCTGTA
1 CTTCAATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCTA-TGTCTTCGATCTACTCCACTGTA
* * * ** * * *
31141927 ATCTCAGGGAGATAAGATCTCTAATTCTTCAGTCTGTTCCACCGTAATCTCAGGGAAATAAGACC
64 ACCTCAGGGAGATAAGATCT-GAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACC
31141992 TG
128 TG
31141994 TATAATGAAC
Statistics
Matches: 250, Mismatches: 45, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
171 1 0.00
172 38 0.15
173 1 0.00
174 148 0.59
175 31 0.12
176 2 0.01
177 29 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (174 bp):
CTTCAATCTGCTCCACTGTAACTCAGGGAGATAAGATCTATGTCTTCGATCTACTCCACTGTAAC
CTCAGGGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
TTGCAATCCACTCTACTGTAACTTCAGAGAGATAAGATACTGTA
Found at i:31143201 original size:7 final size:7
Alignment explanation
Indices: 31143189--31143236 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
31143179 TTAGCCTCTC
31143189 CATTTTT
1 CATTTTT
31143196 CATTTTT
1 CATTTTT
*
31143203 CATTCTT
1 CATTTTT
31143210 -ATTTTT
1 CATTTTT
31143216 CATTTTTT
1 CA-TTTTT
*
31143224 CA-TTCT
1 CATTTTT
31143230 CATTTTT
1 CATTTTT
31143237 TTTACTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.29
7 17 0.50
8 7 0.21
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:31143215 original size:21 final size:21
Alignment explanation
Indices: 31143189--31143236 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
31143179 TTAGCCTCTC
31143189 CATTTTTCA-TTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
*
31143209 TATTTTTCATTTTTTCATTCT
1 CATTTTTCATTTTTTCATTCT
31143230 CATTTTT
1 CATTTTT
31143237 TTTACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTTTCATTCT
Found at i:31144147 original size:18 final size:18
Alignment explanation
Indices: 31144126--31144178 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
31144116 TTAATTTTTC
31144126 TTTTTCTTCTTTTTTGAT
1 TTTTTCTTCTTTTTTGAT
*
31144144 TTTTT-TTCTGCTTTTGAT
1 TTTTTCTTCT-TTTTTGAT
31144162 TTTGATTCTTCTTTTTT
1 TTT--TTCTTCTTTTTT
31144179 CTTTTCCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
20 6 0.21
21 4 0.14
ACGTcount: A:0.06, C:0.11, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTGAT
Found at i:31144164 original size:53 final size:53
Alignment explanation
Indices: 31144102--31144204 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 53
31144092 CTTCTATTTT
*
31144102 CTTTTATTTTGATT-TTAATTTTTCTTTTTCTTC-TTTTTTGATTTTTTTTCTG
1 CTTTTATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTG-TTTTTTTTCTG
**
31144154 CTTTTGATTTTGATTCTTCTTTTTTCTTTTCCTTCTTTTTTTGTTTTTTTT
1 CTTTT-ATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTGTTTTTTTT
31144205 ATGGAATCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 5 0.11
53 9 0.20
54 24 0.53
55 7 0.16
ACGTcount: A:0.07, C:0.12, G:0.06, T:0.76
Consensus pattern (53 bp):
CTTTTATTTTGATTCTTAATTTTTCTTTTCCTTCTTTTTTTGTTTTTTTTCTG
Found at i:31144194 original size:47 final size:45
Alignment explanation
Indices: 31144083--31144204 Score: 104
Period size: 47 Copynumber: 2.6 Consensus size: 45
31144073 TTTTTCTTCC
* *
31144083 TTTCTTTTTCTTCTATTTTCTTTTATTTTGATTTTAATTTTTCTTTT
1 TTTC-TTTTCTTCT-TTTTTTTTTATTTTGATTTTAATTCTTCTTTT
* ** *
31144130 TCTTCTTTT-TTGATTTTTTTTCTGCTTTTGATTTTGATTCTTC-TTT
1 T-TTCTTTTCTT-CTTTTTTTT-TTATTTTGATTTTAATTCTTCTTTT
*
31144176 TTTCTTTTCCTTCTTTTTTTGTTTTTTTT
1 TTTCTTTT-CTTCTTTTTTT-TTTATTTT
31144205 ATGGAATCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
45 7 0.12
46 24 0.40
47 26 0.43
48 3 0.05
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (45 bp):
TTTCTTTTCTTCTTTTTTTTTTATTTTGATTTTAATTCTTCTTTT
Found at i:31144201 original size:18 final size:17
Alignment explanation
Indices: 31144120--31144201 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
31144110 TTGATTTTAA
*
31144120 TTTTTCTTTTTCTTC-T
1 TTTTTGTTTTTCTTCTT
* *
31144136 TTTTTGATTTTTTTTCTG
1 TTTTTG-TTTTTCTTCTT
*
31144154 CTTTTGATTTTGATTCTTC-T
1 TTTTTG--TTT--TTCTTCTT
* *
31144174 TTTTTCTTTTCCTTCTT
1 TTTTTGTTTTTCTTCTT
31144191 TTTTTGTTTTT
1 TTTTTGTTTTT
31144202 TTTATGGAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
16 10 0.21
17 18 0.38
18 8 0.17
19 3 0.06
20 4 0.08
21 5 0.10
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTGTTTTTCTTCTT
Found at i:31148580 original size:114 final size:109
Alignment explanation
Indices: 31148314--31148616 Score: 405
Period size: 114 Copynumber: 2.8 Consensus size: 109
31148304 ATATGTGGCA
* * * * *
31148314 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * * *
31148376 CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * *
31148420 ATTTGTTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTCCCAAACG
1 ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
31148485 CAAAACATTGCCTTAATTTTCAAAATTTTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTT-ATTTT-AAAA--TTTTTAAAAGGATATTAAGCC
31148533 ATTTGGTTGAACGAGAAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
* *
31148598 GCAAAATATTGCCTCATTT
65 GCAAAACATTGCCTTATTT
31148617 AGAAAAATTT
Statistics
Matches: 173, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
106 13 0.08
108 26 0.15
109 31 0.18
110 5 0.03
111 3 0.02
113 35 0.20
114 60 0.35
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:31149881 original size:17 final size:17
Alignment explanation
Indices: 31149859--31149898 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
31149849 GACGTGCGGC
*
31149859 GCGGCGTCAGAACGGTG
1 GCGGCGACAGAACGGTG
*
31149876 GCGGCGACAGAATGGTG
1 GCGGCGACAGAACGGTG
31149893 GCGGCG
1 GCGGCG
31149899 CCGGGCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.50, T:0.10
Consensus pattern (17 bp):
GCGGCGACAGAACGGTG
Found at i:31152576 original size:48 final size:48
Alignment explanation
Indices: 31152515--31152712 Score: 216
Period size: 48 Copynumber: 4.1 Consensus size: 48
31152505 CTACTATGTG
* *
31152515 CACCGATATTCTGTTATGACATAAGGGTGGCACGGACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * *
31152563 CACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTGTGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * * *
31152611 CACCAATAACCTATTAAGATACAAGGGTGGTACGAACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
* * * * * * *
31152659 CACTGAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
31152707 CACCGA
1 CACCGA
31152713 GAAATCTATT
Statistics
Matches: 123, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGC
Found at i:31152701 original size:96 final size:96
Alignment explanation
Indices: 31152537--31152710 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
31152527 GTTATGACAT
* * *
31152537 AAGGGTGGCACGGACTATGTGCAGGCCACCGGTAATCTGTTACGATACAAGGGTGGCACGGACTG
1 AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
31152602 TGTGCAGGCCACCAATAACCTATTAAGATAC
66 TGTGCAGGCCACCAATAACCTATTAAGATAC
* * ** *
31152633 AAGGGTGGTACGAACTATGTGCAGGCCACTGAG-AATCTGTTATTACACAAAGGTGGTACGGACT
1 AAGGGTGGCACGAACTATGTGCAGGCCACCG-GTAATCTGTTACGACACAAAGGTGGCACGGACT
*
31152697 GTGTGTAGGCCACC
65 GTGTGCAGGCCACC
31152711 GAGAAATCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (96 bp):
AAGGGTGGCACGAACTATGTGCAGGCCACCGGTAATCTGTTACGACACAAAGGTGGCACGGACTG
TGTGCAGGCCACCAATAACCTATTAAGATAC
Found at i:31153568 original size:2 final size:2
Alignment explanation
Indices: 31153561--31153585 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31153551 GGAAATTTAA
31153561 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31153586 AATGATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31154913 original size:21 final size:21
Alignment explanation
Indices: 31154889--31154959 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
31154879 CAGCGTGAAT
31154889 ATCAAAATCCAAAACTTAAAA
1 ATCAAAATCCAAAACTTAAAA
* *
31154910 ATCAAAACCCCAAA-TCTAAAA
1 ATCAAAATCCAAAACT-TAAAA
* ** *
31154931 CTCAAAATTTAAAACTTGAAA
1 ATCAAAATCCAAAACTTAAAA
*
31154952 CTCAAAAT
1 ATCAAAAT
31154960 TTAAGAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (21 bp):
ATCAAAATCCAAAACTTAAAA
Found at i:31158222 original size:21 final size:21
Alignment explanation
Indices: 31158164--31158235 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
31158154 AAATAAAATG
* * * *
31158164 GTTTTCCCTATAAAAAACCAA
1 GTTTTTCCTGTAAAAATCTAA
31158185 GTTTTTCCTGTAAAAATCTAA
1 GTTTTTCCTGTAAAAATCTAA
31158206 GTTATTTCCTGT-AAAATCTCAA
1 GTT-TTTCCTGTAAAAATCT-AA
*
31158228 CTTTTTCC
1 GTTTTTCC
31158236 CTAAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 32 0.73
22 12 0.27
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (21 bp):
GTTTTTCCTGTAAAAATCTAA
Found at i:31160473 original size:40 final size:39
Alignment explanation
Indices: 31160389--31160569 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 39
31160379 TTGAATGATG
* * * *
31160389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31160429 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
31160469 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31160508 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
31160549 -CCGGGCTATA-TCCCGAAGGCA
1 TCCGGGCTA-AGT-CCGAAGGCA
31160570 ATTGAACGAG
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Done.