Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 15 of 131
Found at i:5139834 original size:80 final size:80
Alignment explanation
Indices: 5139656--5139826 Score: 220
Period size: 80 Copynumber: 2.1 Consensus size: 80
5139646 AATTATCGTA
* * * * *
5139656 TGAATGCACATACATGCCCTTGTTTGTACTTCAGTACCCTTGAGTGCGCATCCGTGCCCTTGTTT
1 TGAATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTGAGTGCACATCCGTGCCCCTGTTT
*
5139721 GTACTTAGGTACCCC
66 GTACTTAAGTACCCC
* * **
5139736 TGAATGCATATACGTGCCCCTATTTGTACTTC-GATACCCCTGAGTGCACATTTGTGCCCCTGTT
1 TGAATGCACATACATGCCCCTATTTGTACTTCAG-TACCCCTGAGTGCACATCCGTGCCCCTGTT
5139800 TGTA-TTACAGTACCCC
65 TGTACTTA-AGTACCCC
5139816 TGAATGCACAT
1 TGAATGCACAT
5139827 GCCTGCCCTT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 4 0.05
80 74 0.95
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (80 bp):
TGAATGCACATACATGCCCCTATTTGTACTTCAGTACCCCTGAGTGCACATCCGTGCCCCTGTTT
GTACTTAAGTACCCC
Found at i:5152730 original size:40 final size:40
Alignment explanation
Indices: 5152672--5152863 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
5152662 AATTATTGTA
*
5152672 TGAATGCACATATGTGCCCTTATTTGTACTTCCA-TAACCC
1 TGAATGCACATATGTGCCCCTATTTGTACTT-CAGTAACCC
* ** *
5152712 TGAATGCGCATACATGCCCCTGTTTGTACTTCAGT-ACCC
1 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAACCC
*
5152751 TTGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCC
1 -TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAACCC
* * * * * * *
5152792 TAAATGCCCATACGTGCCCTTGTTTGTACTTTAGTACCCC
1 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAACCC
5152832 TGAATGCACATATGTGCCCCTATTTGTACTTC
1 TGAATGCACATATGTGCCCCTATTTGTACTTC
5152864 GGTGCTCCAA
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.05
40 117 0.93
41 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAACCC
Found at i:5152880 original size:40 final size:39
Alignment explanation
Indices: 5152674--5152901 Score: 201
Period size: 40 Copynumber: 5.7 Consensus size: 39
5152664 TTATTGTATG
* * *
5152674 AATGCACATATGTGCCCTTATTTGTACTTCCA-TAACCCTG
1 AATGCACATATGTGCCCCTATTTGTACTT-CAGT-GCCCTA
* ** * * *
5152714 AATGCGCATACATGCCCCTGTTTGTACTTCAGTACCCTTG
1 AATGCACATATGTGCCCCTATTTGTACTTCAGTGCCC-TA
5152754 AATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCCTA
1 AATGCACATATGTGCCCCTATTTGTACTTCAGT-GCCCTA
* * * * * * *
5152794 AATGCCCATACGTGCCCTTGTTTGTACTTTAGTACCCCTG
1 AATGCACATATGTGCCCCTATTTGTACTTCAGT-GCCCTA
*
5152834 AATGCACATATGTGCCCCTATTTGTACTTCGGTGCTCC-A
1 AATGCACATATGTGCCCCTATTTGTACTTCAGTGC-CCTA
*
5152873 AAGTGCACAT-TCGTGCCCCTATTTCTACT
1 AA-TGCACATAT-GTGCCCCTATTTGTACT
5152902 ACGGTACCCC
Statistics
Matches: 155, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
39 10 0.06
40 142 0.92
41 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (39 bp):
AATGCACATATGTGCCCCTATTTGTACTTCAGTGCCCTA
Found at i:5152888 original size:80 final size:80
Alignment explanation
Indices: 5152672--5152912 Score: 299
Period size: 80 Copynumber: 3.0 Consensus size: 80
5152662 AATTATTGTA
* * * * *
5152672 TGAATGCACATATGTGCCCTTATTTGTACTTCCA-TAACCCTGAATGCGCATACATGCCCCTGTT
1 TGAATGCACATATGTGCCCCTATTTGTACTT-CAGTAGCCCTAAATGCACATACGTGCCCCTGTT
*
5152736 TGTACTTCAGTACCCT
65 TGTACTTCAGTACCCC
* *
5152752 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCCTAAATGCCCATACGTGCCCTTGTTT
1 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCCTAAATGCACATACGTGCCCCTGTTT
*
5152817 GTACTTTAGTACCCC
66 GTACTTCAGTACCCC
* * *
5152832 TGAATGCACATATGTGCCCCTATTTGTACTTCGGT-GCTCC-AAAGTGCACATTCGTGCCCCTAT
1 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGC-CCTAAA-TGCACATACGTGCCCCTGT
* * *
5152895 TTCTACTACGGTACCCC
64 TTGTACTTCAGTACCCC
5152912 T
1 T
5152913 TTGTACTCCT
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 7 0.05
80 134 0.95
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.33
Consensus pattern (80 bp):
TGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCCTAAATGCACATACGTGCCCCTGTTT
GTACTTCAGTACCCC
Found at i:5152889 original size:120 final size:119
Alignment explanation
Indices: 5152674--5152901 Score: 273
Period size: 120 Copynumber: 1.9 Consensus size: 119
5152664 TTATTGTATG
* * *
5152674 AATGCACATATGTGCCCTTATTTGTACTTCCATAACCCTGAATGCGCATACATGCCCCTGTTTGT
1 AATGCACATACGTGCCCTTATTTGTACTTCCATAACCCTGAATGCACATACATGCCCCTATTTGT
* *
5152739 ACTTCAGTACCCTTGAATGCACATATGTGCCCCTATTTGTACTTCAGTAGCCCTA
66 ACTTCAGTACCC-TAAATGCACATATGTGCCCCTATTTCTACTTCAGTAGCCCTA
* * * * **
5152794 AATGCCCATACGTGCCCTTGTTTGTACTT-TAGTACCCCTGAATGCACATATGTGCCCCTATTTG
1 AATGCACATACGTGCCCTTATTTGTACTTCCA-TAACCCTGAATGCACATACATGCCCCTATTTG
* *
5152858 TACTTCGGTGCTCC-AAAGTGCACAT-TCGTGCCCCTATTTCTACT
65 TACTTCAGTAC-CCTAAA-TGCACATAT-GTGCCCCTATTTCTACT
5152902 ACGGTACCCC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
119 4 0.04
120 85 0.93
121 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (119 bp):
AATGCACATACGTGCCCTTATTTGTACTTCCATAACCCTGAATGCACATACATGCCCCTATTTGT
ACTTCAGTACCCTAAATGCACATATGTGCCCCTATTTCTACTTCAGTAGCCCTA
Found at i:5157660 original size:30 final size:30
Alignment explanation
Indices: 5157579--5157660 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
5157569 GTAACCTCAA
*
5157579 TATAATGTCAGCTTGTGTGAGCAACCCTGT
1 TATAATGTCAGCTTGTGTGAGTAACCCTGT
* *
5157609 TATAATGTCAACTTGTGTGAGTAACCCTTT
1 TATAATGTCAGCTTGTGTGAGTAACCCTGT
* *
5157639 TATAATGCCAGCTTATGTGAGT
1 TATAATGTCAGCTTGTGTGAGT
5157661 GATAACTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (30 bp):
TATAATGTCAGCTTGTGTGAGTAACCCTGT
Found at i:5159905 original size:43 final size:42
Alignment explanation
Indices: 5159841--5160052 Score: 137
Period size: 43 Copynumber: 5.0 Consensus size: 42
5159831 CAAAAAGCTC
** * *
5159841 ATACGATGCCAACGTTCCAGACGTGGTCTTACATGTAATCA-
1 ATACGATGCCAATATCCCAGACGTGGTCTTACACGTAATCAT
* *
5159882 ACTATCGATGCCACTATCCCAGACAG-GGTCTTACACGAAATCAT
1 A-TA-CGATGCCAATATCCCAGAC-GTGGTCTTACACGTAATCAT
* *
5159926 ATACGATGCCAATGTCCCAGA-ATGGTCTTACACGTAAATC-T
1 ATACGATGCCAATATCCCAGACGTGGTCTTACACGT-AATCAT
* ** * * **
5159967 CAAATCGATGCCAACGTCCCAAACATGGTCTTACACAAAATC-T
1 -ATA-CGATGCCAATATCCCAGACGTGGTCTTACACGTAATCAT
* * * * *
5160010 CAAATCGATGCAAACATCCCAGACGTGATCTTACACGAAATCA
1 -ATA-CGATGCCAATATCCCAGACGTGGTCTTACACGTAATCA
5160053 CTTATCAAAG
Statistics
Matches: 140, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
41 13 0.09
42 24 0.17
43 89 0.64
44 14 0.10
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATATCCCAGACGTGGTCTTACACGTAATCAT
Found at i:5159987 original size:85 final size:84
Alignment explanation
Indices: 5159841--5160052 Score: 207
Period size: 85 Copynumber: 2.5 Consensus size: 84
5159831 CAAAAAGCTC
* * * *
5159841 ATACGATGCCAACGTTCCAGACGTGGTCTTACATGTAATCAACTATCGATGCCACTATCCCAGAC
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAC-ATCGATGCCACTATCCCAAAC
*
5159906 AGGGTCTTACACGAAATCAT
65 AGGGTCTTACACAAAATCAT
* *
5159926 ATACGATGCCAATGTCCCAGA-ATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGT-AA--TCAACATCGATGCC-ACTATCCCA
*
5159988 AACATGGTCTTACACAAAATC-T
62 AACAGGGTCTTACACAAAATCAT
* * * * * *
5160010 CAAATCGATGCAAACATCCCAGACGTGATCTTACACGAAATCA
1 -ATA-CGATGCCAACGTCCCAGACATGGTCTTACACGTAATCA
5160053 CTTATCAAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
84 16 0.15
85 55 0.52
86 19 0.18
87 15 0.14
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (84 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAATCAACATCGATGCCACTATCCCAAACA
GGGTCTTACACAAAATCAT
Found at i:5167896 original size:43 final size:43
Alignment explanation
Indices: 5167775--5167896 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
5167765 ATCATATACT
* * *
5167775 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCTCAAATCG
* * * * **
5167819 ATGCAAACATCCCAGATGTGGTCTTATAGGAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCTCAAATCG
5167862 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATC
5167897 CCATATCGGA
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 42 0.66
44 22 0.34
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCTCAAATCG
Found at i:5168933 original size:5 final size:5
Alignment explanation
Indices: 5168923--5168948 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5168913 TGAGCATTCG
5168923 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
5168949 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:5174304 original size:22 final size:20
Alignment explanation
Indices: 5174268--5174326 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
5174258 GACCCGGCCC
5174268 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
5174290 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
5174311 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
5174327 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:5174340 original size:18 final size:16
Alignment explanation
Indices: 5174317--5174350 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
5174307 AAAAAAGTAT
5174317 TTTAAAAATATTTTAAAA
1 TTTAAAAA-A-TTTAAAA
5174335 TTTAAAAAATTTAAAA
1 TTTAAAAAATTTAAAA
5174351 AGTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAAAATTTAAAA
Found at i:5177908 original size:60 final size:60
Alignment explanation
Indices: 5177831--5177950 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
5177821 TCGCGTACCC
* ** *
5177831 TTCTATGAGACTACACGATATACGTTCATTCCATCATATAGGCAAACCCACATCGTATAA
1 TTCTATGAGACCACACGATATACGTTCACACCATCATAAAGGCAAACCCACATCGTATAA
* * ** * **
5177891 TTCTATGAGACCGCACGATGTTGGTTCGCACCATCATAAAGGTGAACCCACATCGTATAA
1 TTCTATGAGACCACACGATATACGTTCACACCATCATAAAGGCAAACCCACATCGTATAA
5177951 ACATGTGTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (60 bp):
TTCTATGAGACCACACGATATACGTTCACACCATCATAAAGGCAAACCCACATCGTATAA
Found at i:5178861 original size:33 final size:32
Alignment explanation
Indices: 5178806--5178874 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
5178796 TCTTTAAGCT
*
5178806 TTATTTTAGTTTATTCTAATTTAAATTTAGATA
1 TTATTTTAGTTTAATCTAATTTAAATTT-GATA
* * *
5178839 TTATTTTATTTTCAATCT-ATTTATATTTTATA
1 TTATTTTAGTTT-AATCTAATTTAAATTTGATA
5178871 TTAT
1 TTAT
5178875 AATTATTCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 7 0.23
33 20 0.65
34 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (32 bp):
TTATTTTAGTTTAATCTAATTTAAATTTGATA
Found at i:5183796 original size:21 final size:21
Alignment explanation
Indices: 5183772--5183829 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
5183762 TATCTGGGAT
* *
5183772 CATCACATGACATTCTTGCTG
1 CATCAAATGACATCCTTGCTG
* *
5183793 CATCAAAAGACATCCTTGGTG
1 CATCAAATGACATCCTTGCTG
5183814 CATCAAATGACATCCT
1 CATCAAATGACATCCT
5183830 CCCAGCATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (21 bp):
CATCAAATGACATCCTTGCTG
Found at i:5195992 original size:50 final size:48
Alignment explanation
Indices: 5195932--5196031 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 48
5195922 AGAGAAATAA
* *
5195932 GAAACATTTGGAAATGATTA-AGGTTTTCTCCAAAATGAAAATGGAAAAT
1 GAAACATTTGGAAATGAATACA-ATTTTCTCCAAAATGAAAAT-GAAAAT
5195981 GAAATCATTTGGAAATGAATACAATTTTCTCCAAAATGAAAATGAAAAT
1 GAAA-CATTTGGAAATGAATACAATTTTCTCCAAAATGAAAATGAAAAT
5196030 GA
1 GA
5196032 CTTGAAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
49 12 0.26
50 34 0.72
51 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (48 bp):
GAAACATTTGGAAATGAATACAATTTTCTCCAAAATGAAAATGAAAAT
Found at i:5201540 original size:16 final size:16
Alignment explanation
Indices: 5201516--5201546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5201506 TGATTCTGAG
*
5201516 CATGGCATACTGCATA
1 CATGACATACTGCATA
5201532 CATGACATACTGCAT
1 CATGACATACTGCAT
5201547 GGGGTTGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:5201947 original size:34 final size:34
Alignment explanation
Indices: 5201909--5201979 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
5201899 ATTTTCCACC
5201909 GTTACCG-TAATGGGCTAAGGCCTACACTGATACT
1 GTTACCGTTAA-GGGCTAAGGCCTACACTGATACT
* * * *
5201943 GTTACTGTTAAGGGCTCAGGCCTAGACTGATTCT
1 GTTACCGTTAAGGGCTAAGGCCTACACTGATACT
5201977 GTT
1 GTT
5201980 TCTTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (34 bp):
GTTACCGTTAAGGGCTAAGGCCTACACTGATACT
Found at i:5205987 original size:21 final size:21
Alignment explanation
Indices: 5205961--5206002 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5205951 TTGCCAAAGT
*
5205961 TGTGATTCCTATAAAATTCAA
1 TGTGATTACTATAAAATTCAA
* *
5205982 TGTGATTACTATTAATTTCAA
1 TGTGATTACTATAAAATTCAA
5206003 AGTACGCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (21 bp):
TGTGATTACTATAAAATTCAA
Found at i:5219212 original size:20 final size:20
Alignment explanation
Indices: 5219187--5219225 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
5219177 TATCAATATT
5219187 TTTTTAA-TGAGTATCGATAA
1 TTTTTAATTG-GTATCGATAA
5219207 TTTTTAATTGGTATCGATA
1 TTTTTAATTGGTATCGATA
5219226 CCAAATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTTTAATTGGTATCGATAA
Found at i:5225537 original size:22 final size:22
Alignment explanation
Indices: 5225512--5225554 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5225502 GACATAATTA
5225512 TAACAC-TTTAAACACATTTAAG
1 TAACACATTTAAACAC-TTTAAG
*
5225534 TAACACATTTACACACTTTAA
1 TAACACATTTAAACACTTTAA
5225555 TATCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (22 bp):
TAACACATTTAAACACTTTAAG
Found at i:5225926 original size:3 final size:3
Alignment explanation
Indices: 5225918--5225944 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5225908 TGATTACCAA
5225918 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
5225945 ACTTCTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:5250146 original size:29 final size:29
Alignment explanation
Indices: 5250046--5250169 Score: 79
Period size: 29 Copynumber: 4.1 Consensus size: 29
5250036 GGTTGCTCAC
* * *
5250046 ATAAGGGTCAAACCTTTCAAGATGGTCAT
1 ATAAGGGCCAAACCTTTCAAAATGGTCAA
* ***
5250075 ATAAGGGCCTAACCTTTACAAAAGTGCAAAA
1 ATAAGGGCCAAACCTTT-CAAAA-TGGTCAA
* *
5250106 ATGAA-TGCCAAACCATTCAAAATGGTCAA
1 AT-AAGGGCCAAACCTTTCAAAATGGTCAA
* * * *
5250135 ATAAGGGTCAAATCTTTATAAAAGTGCTCAA
1 ATAAGGGCCAAACCTTT-CAAAA-TGGTCAA
5250166 ATAA
1 ATAA
5250170 AGCCAAAACT
Statistics
Matches: 70, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
28 2 0.03
29 29 0.41
30 13 0.19
31 24 0.34
32 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (29 bp):
ATAAGGGCCAAACCTTTCAAAATGGTCAA
Found at i:5255109 original size:10 final size:10
Alignment explanation
Indices: 5255096--5255192 Score: 65
Period size: 10 Copynumber: 9.4 Consensus size: 10
5255086 AAATAAAGAG
5255096 TATAAAAATT
1 TATAAAAATT
5255106 TATAAAAATT
1 TATAAAAATT
* *
5255116 AATAGAAAATA
1 TATA-AAAATT
5255127 TA-AAAAATAT
1 TATAAAAAT-T
* *
5255137 AGAAAAAATATT
1 -TATAAAA-ATT
*
5255149 TAAAAAAATT
1 TATAAAAATT
5255159 TATAAAAA--
1 TATAAAAATT
*
5255167 TATAAAAACAT
1 TATAAAAA-TT
5255178 TATAAAAATT
1 TATAAAAATT
5255188 ATATA
1 -TATA
5255193 TATAAATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
8 8 0.11
9 5 0.07
10 25 0.36
11 25 0.36
12 5 0.07
13 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
TATAAAAATT
Found at i:5255138 original size:18 final size:19
Alignment explanation
Indices: 5255106--5255142 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5255096 TATAAAAATT
*
5255106 TATAAAAATTAATAGAAAA
1 TATAAAAAATAATAGAAAA
5255125 TATAAAAAAT-ATAGAAAA
1 TATAAAAAATAATAGAAAA
5255143 AATATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
TATAAAAAATAATAGAAAA
Found at i:5258694 original size:29 final size:29
Alignment explanation
Indices: 5258539--5258698 Score: 113
Period size: 29 Copynumber: 5.3 Consensus size: 29
5258529 GAGAGGAACC
* *
5258539 CCTTTGTGGCAAAATTTTGGACAGGAAAG
1 CCTTTGTGGCAAAACTATGGACAGGAAAG
* * *
5258568 CCTTTGTGGTAAGAACTATATGAAAAGGAAAG
1 CCTTTGTGGCAA-AAC--TATGGACAGGAAAG
** * * *
5258600 ATTTTGTGGCAAAATTTTGGACAAGAAAG
1 CCTTTGTGGCAAAACTATGGACAGGAAAG
* * * * * *
5258629 CCTTTATGGTAAGTACTATATGAAAAGAAAAG
1 CCTTTGTGGCAA-AAC--TATGGACAGGAAAG
*
5258661 CCTTTGTGGCAAAACTCTGGACAGGAAAG
1 CCTTTGTGGCAAAACTATGGACAGGAAAG
5258690 CCTTTGTGG
1 CCTTTGTGG
5258699 TGAGCATTGA
Statistics
Matches: 94, Mismatches: 31, Indels: 12
0.69 0.23 0.09
Matches are distributed among these distances:
29 48 0.51
30 3 0.03
31 4 0.04
32 39 0.41
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (29 bp):
CCTTTGTGGCAAAACTATGGACAGGAAAG
Found at i:5258730 original size:61 final size:61
Alignment explanation
Indices: 5258539--5258760 Score: 248
Period size: 61 Copynumber: 3.6 Consensus size: 61
5258529 GAGAGGAACC
*
5258539 CCTTTGTGGCAAAATTTTGGACAGGAAAGCCTTTGTGGTAAGAACTATATGAAAAGGAAAG
1 CCTTTGTGGCAAAACTTTGGACAGGAAAGCCTTTGTGGTAAGAACTATATGAAAAGGAAAG
** * * * * *
5258600 ATTTTGTGGCAAAATTTTGGACAAGAAAGCCTTTATGGTAAGTACTATATGAAAAGAAAAG
1 CCTTTGTGGCAAAACTTTGGACAGGAAAGCCTTTGTGGTAAGAACTATATGAAAAGGAAAG
* * * * ** *
5258661 CCTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGTGAGCATTGA-ATGTTAAGGAATG
1 CCTTTGTGGCAAAACTTTGGACAGGAAAGCCTTTGTGGTAAGAACT-ATATGAAAAGGAAAG
* * * *
5258722 CCTCTGTGGCAAAACTTTGGGAAAGAAAAGCCTTCGTGG
1 CCTTTGTGGCAAAACTTT-GGACAGGAAAGCCTTTGTGG
5258761 CAGTTTCTGT
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
61 117 0.87
62 18 0.13
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (61 bp):
CCTTTGTGGCAAAACTTTGGACAGGAAAGCCTTTGTGGTAAGAACTATATGAAAAGGAAAG
Found at i:5260400 original size:3 final size:3
Alignment explanation
Indices: 5260392--5260428 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5260382 AGAACAATAG
5260392 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
5260429 ATAGACGCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5261649 original size:17 final size:17
Alignment explanation
Indices: 5261627--5261671 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
5261617 AATTAAAATA
*
5261627 TAATTTTATAATTTTAT
1 TAATTTTATAATTCTAT
5261644 TAA-TTTATAATGTCTAT
1 TAATTTTATAAT-TCTAT
5261661 T-ATTTT-TAATT
1 TAATTTTATAATT
5261672 GATTAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
17 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TAATTTTATAATTCTAT
Found at i:5261717 original size:30 final size:29
Alignment explanation
Indices: 5261649--5261720 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
5261639 TTTATTAATT
*
5261649 TATAATGTCTATTATTTTTAATTGATTAAA
1 TATAAT-TTTATTATTTTTAATTGATTAAA
*
5261679 TCAAAATTTTATTATTTTTAATATGCA-TAAA
1 T-ATAATTTTATTATTTTTAAT-TG-ATTAAA
5261710 TATAATTTTAT
1 TATAATTTTAT
5261721 CTTTTATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 24 0.67
31 11 0.31
32 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (29 bp):
TATAATTTTATTATTTTTAATTGATTAAA
Found at i:5264735 original size:33 final size:33
Alignment explanation
Indices: 5264669--5264735 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
5264659 ATCTTTATAC
* **
5264669 CTTAAATTGAAAATGATTTTTATATAGGGGGAG
1 CTTAAATTGAAAATGACTTTTATATAGAAGGAG
5264702 CTTAAATTGAAAATGACTTTTAT-TAAGAAGGAG
1 CTTAAATTGAAAATGACTTTTATAT-AGAAGGAG
5264735 C
1 C
5264736 AATCTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (33 bp):
CTTAAATTGAAAATGACTTTTATATAGAAGGAG
Found at i:5264852 original size:22 final size:23
Alignment explanation
Indices: 5264820--5264862 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5264810 GGATCATATG
* *
5264820 TTTTGATATAACAATTAAAGTGT
1 TTTTGATATAAAAAGTAAAGTGT
5264843 TTTTGA-ATAAAAAGTAAAGT
1 TTTTGATATAAAAAGTAAAGT
5264863 TGAGCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (23 bp):
TTTTGATATAAAAAGTAAAGTGT
Found at i:5265106 original size:20 final size:20
Alignment explanation
Indices: 5265081--5265130 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5265071 TATCGATCTA
* *
5265081 GTATCGATACT-TTTCTTATG
1 GTATCGATA-TATTTCCTAAG
5265101 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
5265121 GTATCGATAT
1 GTATCGATAT
5265131 TCCTACTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:5266399 original size:116 final size:116
Alignment explanation
Indices: 5266272--5266775 Score: 568
Period size: 116 Copynumber: 4.3 Consensus size: 116
5266262 NNNNNNNNNN
* * * * *
5266272 CAAAATTGGACAACATTTATTCACCAAAATTAGGCAGCATATATATACTAATTTGGACAACACTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
* *
5266337 ATACACAAAATTTGACAGCTTGTATATGCAAAATTGGACAGCTTGTATATG
66 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCTTGTATATA
5266388 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
5266453 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATT-TAT-TCA
66 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGC-TTGTATAT-A
* ** * * *
5266504 CCAAAATTGGGCAGCATACATAT-ACC-AATTTGGACAGC--ACTTATACACAAAATTT-GACAG
1 -CAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATACATATAC-C--AATTTGGACAG
** * * ** *
5266564 CA-TGTATATGCAAAATTGGACAGCATTTATTAACCAAAAGTT-GACAGCATGTATATA
61 CACT-TATACACAAAATTTGACAGCATGTA-TATGCAAAA-TTGGACAGCTTGTATATA
* *
5266621 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATACATATACCAATTTGGACAGTACTT
1 CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
5266686 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATT-TAT-TCA
66 ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGC-TTGTATAT-A
* *
5266737 CCAAATTAGG-CAGCA-TAATT-ACCACAAATTGGGCAGCAT
1 CAAAATT-GGACAGCATTTATTCACCA-AAATTGGGCAGCAT
5266776 TTAAGCATAA
Statistics
Matches: 327, Mismatches: 38, Indels: 47
0.79 0.09 0.11
Matches are distributed among these distances:
114 11 0.03
115 24 0.07
116 196 0.60
117 83 0.25
118 6 0.02
119 7 0.02
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (116 bp):
CAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTT
ATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCTTGTATATA
Found at i:5266462 original size:93 final size:93
Alignment explanation
Indices: 5266365--5266653 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
5266355 CTTGTATATG
*
5266365 CAAAATTGGACAGCTTGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
1 CAAAATTGGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
5266430 ATATACCAATTTGGACAGCACTTATACA
66 ATATACCAATTTGGACAGCACTTATACA
*
5266458 CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
1 CAAAATTGGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
5266523 ATATACCAATTTGGACAGCACTTATACA
66 ATATACCAATTTGGACAGCACTTATACA
* * * *
5266551 CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTAACCAAAAGTT-GACAGCATG
1 CAAAATTGGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAA-TTGGGCAGCATA
* * * * *
5266615 TATATACAAAATTGGACAGCATTTATTCA
65 CATATACCAATTTGGACAGCACTTATACA
5266644 CCAAAATTGG
1 -CAAAATTGG
5266654 GCAACATACA
Statistics
Matches: 183, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
93 173 0.95
94 10 0.05
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (93 bp):
CAAAATTGGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
ATATACCAATTTGGACAGCACTTATACA
Found at i:5266539 original size:140 final size:139
Alignment explanation
Indices: 5266393--5266778 Score: 526
Period size: 140 Copynumber: 2.8 Consensus size: 139
5266383 ATATGCAAAA
* * * * ** * * * *
5266393 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATACA
* *
5266458 CAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAC
65 CAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATAC
5266523 ATATACCAAT
130 ATATACCAAT
5266533 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTA-A
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTA-TACA
*
5266597 CCAAAAGTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATA
65 -CAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATA
5266662 CATATACCAAT
129 CATATACCAAT
* *
5266673 TTGGACAGTACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATTCAC
1 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATACAC
* * * * *
5266738 CAAATTAGGCAGCAT-AAT-TACCACAAATTGGGCAGCATTTA
66 AAAATTTGACAGCATGTATATA-CA-AAATTGGACAGCATTTA
5266779 AGCATAAAAA
Statistics
Matches: 220, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
137 2 0.01
138 4 0.02
139 64 0.29
140 150 0.68
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (139 bp):
TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATACAC
AAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAACATACA
TATACCAAT
Found at i:5266742 original size:23 final size:23
Alignment explanation
Indices: 5266274--5266778 Score: 226
Period size: 23 Copynumber: 21.7 Consensus size: 23
5266264 NNNNNNNNCA
*
5266274 AAATTGGACAACATTTATTCACC
1 AAATTGGACAGCATTTATTCACC
* *
5266297 AAAATTAGG-CAGCATATATAT-ACT
1 -AAATT-GGACAGCATTTAT-TCACC
* * * * *
5266321 AATTTGGACAACACTTATACACA
1 AAATTGGACAGCATTTATTCACC
*
5266344 AAATTTGACAGC-TTGTATATGCA--
1 AAATTGGACAGCATT-TAT-T-CACC
5266367 AAATTGGACAGC-TTGTATATGCA--
1 AAATTGGACAGCATT-TAT-T-CACC
5266390 AAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATTTATTCACC
* **
5266413 AAAATTGGGCAGCATACATAT-ACC
1 -AAATTGGACAGCATTTAT-TCACC
* * * *
5266437 AATTTGGACAGCACTTATACACA
1 AAATTGGACAGCATTTATTCACC
* *
5266460 AAATTTGACAGCATGTATATGCA--
1 AAATTGGACAGCAT-T-TATTCACC
5266483 AAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATTTATTCACC
* **
5266506 AAAATTGGGCAGCATACATAT-ACC
1 -AAATTGGACAGCATTTAT-TCACC
* * * *
5266530 AATTTGGACAGCACTTATACACA
1 AAATTGGACAGCATTTATTCACC
* *
5266553 AAATTTGACAGCATGTATATGCA--
1 AAATTGGACAGCAT-T-TATTCACC
*
5266576 AAATTGGACAGCATTTATTAACC
1 AAATTGGACAGCATTTATTCACC
* *
5266599 AAAAGTT-GACAGCATGTATAT-ACA
1 -AAA-TTGGACAGCATTTAT-TCACC
5266623 AAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATTTATTCACC
* * **
5266646 AAAATTGGGCAACATACATAT-ACC
1 -AAATTGGACAGCATTTAT-TCACC
* * * * *
5266670 AATTTGGACAGTACTTATACACA
1 AAATTGGACAGCATTTATTCACC
* *
5266693 AAATTTGACAGCATGTATATGCA--
1 AAATTGGACAGCAT-T-TATTCACC
5266716 AAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATTTATTCACC
*
5266739 AAATTAGG-CAGCA-TAATT-ACCAC
1 AAATT-GGACAGCATTTATTCA-C-C
*
5266762 AAATTGGGCAGCATTTA
1 AAATTGGACAGCATTTA
5266779 AGCATAAAAA
Statistics
Matches: 366, Mismatches: 74, Indels: 82
0.70 0.14 0.16
Matches are distributed among these distances:
21 17 0.05
22 17 0.05
23 213 0.58
24 93 0.25
25 26 0.07
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (23 bp):
AAATTGGACAGCATTTATTCACC
Found at i:5266789 original size:93 final size:93
Alignment explanation
Indices: 5266390--5266791 Score: 260
Period size: 93 Copynumber: 4.3 Consensus size: 93
5266380 TGTATATGCA
* * * * * ** * * *
5266390 AAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTTAT
1 AAATTGGACAGCACTTATACA-AAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTAT
* * * * ** * *
5266455 ACA-CAAAATTTGACAGCATGTATATGCA
65 TCACCAAAATTAGGCAACATACATATACC
* * * * * ** * * *
5266483 AAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACAGCACTTAT
1 AAATTGGACAGCACTTATACA-AAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTAT
* * * * ** * *
5266548 ACA-CAAAATTTGACAGCATGTATATGCA
65 TCACCAAAATTAGGCAACATACATATACC
* * *
5266576 AAATTGGACAGCATTTATTA-ACCAAAAGTTGACAGCATGTATATACAAAATTGGACAGCATTTA
1 AAATTGGACAGCACTTA-TACA-AAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTA
*
5266640 TTCACCAAAATTGGGCAACATACATATACC
64 TTCACCAAAATTAGGCAACATACATATACC
* * * *
5266670 AATTTGGACAGTACTTATACACAAAATTTGACAGCATGTATATGCAAAATTGGACAGCATTTATT
1 AAATTGGACAGCACTTATACAAAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATT
*
5266735 CACC-AAATTAGGCAGCATA-AT-TACCAC
66 CACCAAAATTAGGCAACATACATATA-C-C
* *
5266762 AAATTGGGCAGCATTTA-AGCATAAAAATTT
1 AAATTGGACAGCACTTATA-CA-AAAAATTT
5266792 TATGAACATA
Statistics
Matches: 273, Mismatches: 29, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
90 2 0.01
91 4 0.01
92 29 0.11
93 204 0.75
94 34 0.12
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (93 bp):
AAATTGGACAGCACTTATACAAAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATT
CACCAAAATTAGGCAACATACATATACC
Found at i:5267317 original size:101 final size:101
Alignment explanation
Indices: 5267153--5267347 Score: 338
Period size: 101 Copynumber: 1.9 Consensus size: 101
5267143 ATTCATACTA
5267153 CTAAATCATCTTAACTTTAGCTTACCATATCATAAGATAATTATTAACTTAATACTATAATTTAA
1 CTAAATCATCTTAACTTTAGCTTACCATATCATAAGATAATTATTAACTTAATACTATAATTTAA
5267218 CTAAAATCAATATAATTAC-TCAACCATAAGTATTTC
66 CTAAAATCAATATAATTACAT-AACCATAAGTATTTC
* * * *
5267254 CTAAATCATCTTACCTTTAGCTTACCATATCATAAGATAATTATTCACTTATTACTATGATTTAA
1 CTAAATCATCTTAACTTTAGCTTACCATATCATAAGATAATTATTAACTTAATACTATAATTTAA
5267319 CTAAAATCAATATAATTACATAACCATAA
66 CTAAAATCAATATAATTACATAACCATAA
5267348 ACATTTCTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 88 0.99
102 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (101 bp):
CTAAATCATCTTAACTTTAGCTTACCATATCATAAGATAATTATTAACTTAATACTATAATTTAA
CTAAAATCAATATAATTACATAACCATAAGTATTTC
Found at i:5267642 original size:28 final size:27
Alignment explanation
Indices: 5267610--5267709 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
5267600 TTTAATAAGT
*
5267610 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTT-ATAATTAAAC
* *
5267638 TCGCACACTTAGTGCTT-TACCCTTATAC
1 TCGCACACTTAGTGCTTATA--ATTAAAC
5267666 TCGCACACTTAGTGCATT-TCAATTAAAC
1 TCGCACACTTAGTGC-TTAT-AATTAAAC
5267694 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
5267710 AATCTCATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 56 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (27 bp):
TCGCACACTTAGTGCTTATAATTAAAC
Found at i:5271139 original size:11 final size:11
Alignment explanation
Indices: 5271105--5271148 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
5271095 TATCTAATGA
5271105 ATTTT-ATAAT
1 ATTTTAATAAT
5271115 -TTTTAA-AA-
1 ATTTTAATAAT
5271123 ATTTTAATAAT
1 ATTTTAATAAT
*
5271134 ATTTTAATGAT
1 ATTTTAATAAT
5271145 ATTT
1 ATTT
5271149 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.41
10 3 0.10
11 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:5279552 original size:18 final size:18
Alignment explanation
Indices: 5279529--5279565 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5279519 GTATGATAAG
*
5279529 ATAACTGTTTCGAAAAAT
1 ATAACTGGTTCGAAAAAT
5279547 ATAACTGGTTCGAAAAAT
1 ATAACTGGTTCGAAAAAT
5279565 A
1 A
5279566 CCATTAATTT
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:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
ATAACTGGTTCGAAAAAT
Found at i:5285175 original size:312 final size:311
Alignment explanation
Indices: 5284610--5285208 Score: 1015
Period size: 312 Copynumber: 1.9 Consensus size: 311
5284600 TGTATAATAA
* * *
5284610 TATGAACACACTGATTTTTCATAAATGCAAGAAACAATTGCTCACAACTCTGCTAAATATAAGAA
1 TATGAACACACTGATTTTTCAAAAATGCAAGAAACAATTGCTCACAAATCTGCTAAATACAAGAA
* * *
5284675 GATCTAAACAATTGCCTTGCACAAGAGAAAAAGTTTCCTAGTATCATGAATATACAAGATATAAT
66 GATCTAAACAATTGCCTTGCACAAGAGAAAAACTTTCCTAGTATAATGAATATACAAGAGATAAT
5284740 GCCTCAGTGTGTTATCAGTCATCCATGTTACCTAGCCAATAAGTAGCTATTACCCAGAATATCAA
131 GCCTCAGTGTGTTATCAGTCATCCATGTTACCTAGCCAATAAGTAGCTATTACCCAGAATATCAA
*
5284805 CTACATTAACACAGAAAACTTCAACAAATCATATGCACATGAATCCAATAACATTTGTCTTAGCT
196 CTACATTAACACAGAAAACTTCAACAAACCATATGCACATGAATCCAATAACATTTGTCTTAGCT
5284870 ACAGCACTACCTCGTCTATCCCTCAATGTGCATGTATAATAACAATCAAAAT
261 ACAGC-CTACCTCGTCTATCCCTCAATGTGCATGTATAATAACAATCAAAAT
* *
5284922 TATGAACACAACT-ATTTTTTAAAAATGCAAGGAACAATTGCTCACAAATCTGCTAAATACAAGA
1 TATGAACAC-ACTGATTTTTCAAAAATGCAAGAAACAATTGCTCACAAATCTGCTAAATACAAGA
5284986 AGATCTAAACAATTGCCTTGCACAAGAGAAAACACTTT-CTAGTATAATGAATATACAAGAGATA
65 AGATCTAAACAATTGCCTTGCACAAGAGAAAA-ACTTTCCTAGTATAATGAATATACAAGAGATA
*
5285050 ATGCCTCAGTGTGTTATCAGTCATCCATGTTACCTTGCCAATAAGTAGCTATTACCCAGACA-AT
129 ATGCCTCAGTGTGTTATCAGTCATCCATGTTACCTAGCCAATAAGTAGCTATTACCCAGA-ATAT
* * *
5285114 CAACTACATTAACACAGACAACTTCAACACACCATATGCACATGAATCCAATAATATTTGTCTTA
193 CAACTACATTAACACAGAAAACTTCAACAAACCATATGCACATGAATCCAATAACATTTGTCTTA
*
5285179 GCTACAGCCTATCTCGTCTATCCCTCAATG
258 GCTACAGCCTACCTCGTCTATCCCTCAATG
5285209 CCTGAAAAAA
Statistics
Matches: 270, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
311 21 0.08
312 241 0.89
313 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (311 bp):
TATGAACACACTGATTTTTCAAAAATGCAAGAAACAATTGCTCACAAATCTGCTAAATACAAGAA
GATCTAAACAATTGCCTTGCACAAGAGAAAAACTTTCCTAGTATAATGAATATACAAGAGATAAT
GCCTCAGTGTGTTATCAGTCATCCATGTTACCTAGCCAATAAGTAGCTATTACCCAGAATATCAA
CTACATTAACACAGAAAACTTCAACAAACCATATGCACATGAATCCAATAACATTTGTCTTAGCT
ACAGCCTACCTCGTCTATCCCTCAATGTGCATGTATAATAACAATCAAAAT
Found at i:5286640 original size:19 final size:20
Alignment explanation
Indices: 5286605--5286646 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
5286595 ATTTAAAAAT
5286605 TATTTATTTTAATTTAA-CA
1 TATTTATTTTAATTTAATCA
5286624 TATTTATTTT-ATGTTAATCA
1 TATTTATTTTAAT-TTAATCA
5286644 TAT
1 TAT
5286647 GTCATGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.67
20 5 0.24
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTTATTTTAATTTAATCA
Found at i:5288608 original size:26 final size:26
Alignment explanation
Indices: 5288579--5288662 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
5288569 CCCGATATAT
* *
5288579 GGCTCTTTGTGAGTTTTCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
* * * *
5288605 GGCTTTTTATGACCTTCCCAATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
5288631 GGCTCTTTGT-AGCCTTCCCGATTAAT
1 GGCTCTTTGTGAG-CTTCCCGATTAAA
5288657 GGCTCT
1 GGCTCT
5288663 CCGAATCTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 1 0.02
26 45 0.98
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:5290789 original size:25 final size:25
Alignment explanation
Indices: 5290761--5290811 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
5290751 CAAATTCACA
5290761 TATGCATATTCAAACCACATTTTAC
1 TATGCATATTCAAACCACATTTTAC
5290786 TATGCATATTCAAACCACATTTTAC
1 TATGCATATTCAAACCACATTTTAC
5290811 T
1 T
5290812 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (25 bp):
TATGCATATTCAAACCACATTTTAC
Found at i:5291510 original size:25 final size:26
Alignment explanation
Indices: 5291482--5291549 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
5291472 AAATAACAGA
**
5291482 AAGCTCATGTGAGCTGAA-TAAT-GGG
1 AAGCTCATAAGAGCTGAAGT-ATCGGG
*
5291507 AAGCTCATACGAGCT-AAGTATCGGG
1 AAGCTCATAAGAGCTGAAGTATCGGG
5291532 AAGCTCATAAGAGCTGAA
1 AAGCTCATAAGAGCTGAA
5291550 ATCGGTGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.11
25 31 0.84
26 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (26 bp):
AAGCTCATAAGAGCTGAAGTATCGGG
Found at i:5297725 original size:29 final size:29
Alignment explanation
Indices: 5297663--5297742 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
5297653 ACTGTTCTAC
* **
5297663 CAGTCACTCAACTTTGATTAAAGTAACATTT
1 CAGTCACTAAACTTTGA--AAAGTAACAACT
* *
5297694 CAGTCACTGAACTTTGAAAAGTTACAACT
1 CAGTCACTAAACTTTGAAAAGTAACAACT
*
5297723 CAGTCACTAAACTTTAAAAA
1 CAGTCACTAAACTTTGAAAA
5297743 AGTGACAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 27 0.63
31 16 0.37
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (29 bp):
CAGTCACTAAACTTTGAAAAGTAACAACT
Found at i:5299610 original size:18 final size:17
Alignment explanation
Indices: 5299586--5299633 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
5299576 AATTATATAT
5299586 ATTTTATTTTTATTTCAG
1 ATTTTATTTTT-TTTCAG
* * *
5299604 TTTTTATACTTTTTTCCG
1 ATTTTAT-TTTTTTTCAG
5299622 ATTTTATTTTTT
1 ATTTTATTTTTT
5299634 GGAATTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (17 bp):
ATTTTATTTTTTTTCAG
Found at i:5303052 original size:17 final size:16
Alignment explanation
Indices: 5303030--5303061 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
5303020 ATTTCACAAT
5303030 CAAATATATATACAAAA
1 CAAATATATA-ACAAAA
5303047 CAAATATATAACAAA
1 CAAATATATAACAAA
5303062 CTAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (16 bp):
CAAATATATAACAAAA
Found at i:5303062 original size:15 final size:16
Alignment explanation
Indices: 5303025--5303062 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
5303015 CAATTATTTC
*
5303025 ACAATCAAATATATAT
1 ACAAACAAATATATAT
5303041 ACAAAACAAATATATA-
1 AC-AAACAAATATATAT
5303057 ACAAAC
1 ACAAAC
5303063 TAAGTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 12 0.60
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAACAAATATATAT
Found at i:5306584 original size:18 final size:19
Alignment explanation
Indices: 5306543--5306584 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5306533 GTTGCTATAC
*
5306543 AATGACATTAATCACTAAT
1 AATGAAATTAATCACTAAT
5306562 AATGAAATTAATCA-TAAT
1 AATGAAATTAATCACTAAT
*
5306580 TATGA
1 AATGA
5306585 TAAATAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (19 bp):
AATGAAATTAATCACTAAT
Found at i:5315181 original size:94 final size:94
Alignment explanation
Indices: 5314938--5315604 Score: 689
Period size: 94 Copynumber: 7.1 Consensus size: 94
5314928 AAACCATAAT
* * * * * * *
5314938 TCCTATACCCCTGAAGTTGTAGTAGGTCAGATTGAATCTACCATAGCAAATCTTATCTTCCTAAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
** * *
5315003 GTTATAGTGGAGCAGATTTAAGCTACAAA
66 GTTGCAGTAGAGCAGATTGAAGCTACAAA
* * * * **
5315032 TCCTATA-CCTTGAAGTTGCAATAGGTCAAATTAAATCTACCATAGCGAATTTTATCTCTTTGAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
* *
5315096 GTTGCAGTAAAGCAGATTAAAGCTACAAA
66 GTTGCAGTAGAGCAGATTGAAGCTACAAA
* * ** * * *
5315125 TCCTATATCCCTGAAGTTGCAGTAGGTCGGATTAAATCTACTATAGGGAATCTTATCTCCTTGAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
* * *
5315190 GTTGTAGT-GTAGCAGATTGAAGCCAAAAA
66 GTTGCAGTAG-AGCAGATTGAAGCTACAAA
* * * * * * *
5315219 TCATATACCCCTAAAGTTACAGTGGGTCGAATTAAATCTACCATAGTGAATCTTAACTCCCTAAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
* *
5315284 GTTGCAGTGGAGCAGATTGAAGCCATC-AA
66 GTTGCAGTAGAGCAGATTGAAGCTA-CAAA
* * * * * *
5315313 TCCTATACCCTTGAAGTTACAATGGGAT-AAATTAAATCTACCATAGCAAATATTATTTCCCTGA
1 TCCTATACCCCTGAAGTTGCAGTGGG-TCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGA
* *
5315377 AGTTGCAGTAGAGTAGATTGAAACTACAAA
65 AGTTGCAGTAGAGCAGATTGAAGCTACAAA
* * *
5315407 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGT-TACCATTGCGAATCTTATCTCCTTGA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATT-AAATCTACCATAGCGAATCTTATCTCCCTGA
*
5315471 AGTTGCAATAGAGCAGATTGAAGCTACAAA
65 AGTTGCAGTAGAGCAGATTGAAGCTACAAA
* * * * ** * *
5315501 TTCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAATCTAAAATGGCGAATCTTATCTTCCTGAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
* * *
5315566 GTTACAGTGGAGCAAGA-TGAAGCAACAAA
66 GTTGCAGTAGAGC-AGATTGAAGCTACAAA
*
5315595 TTCTATACCC
1 TCCTATACCC
5315605 AGTGGGTCGG
Statistics
Matches: 480, Mismatches: 83, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
93 81 0.17
94 391 0.81
95 8 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (94 bp):
TCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCCTGAA
GTTGCAGTAGAGCAGATTGAAGCTACAAA
Found at i:5315422 original size:44 final size:44
Alignment explanation
Indices: 5315371--5315544 Score: 131
Period size: 44 Copynumber: 3.8 Consensus size: 44
5315361 AATATTATTT
5315371 CCCTGAAGTTGCAGTAGAGT-AGATTGAAACTACAAATCCTATAC
1 CCCTGAAGTTGCAGT-GAGTCAGATTGAAACTACAAATCCTATAC
* * * * *
5315415 CCCTGAAGTTGCAGTGGGTCAAATTGAAGTTACCATTGCGAATCTTAT-C
1 CCCTGAAGTTGCAGTGAGTCAGATTGAA---A-C--TACAAATCCTATAC
* * * *
5315464 TCCTTGAAGTTGCAATAGAG-CAGATTGAAGCTACAAATTCTATAC
1 -CCCTGAAGTTGCAGT-GAGTCAGATTGAAACTACAAATCCTATAC
* * *
5315509 CCCTGAAGTTGTAGTGGGTCAGATTGAATCTA-AAAT
1 CCCTGAAGTTGCAGTGAGTCAGATTGAAACTACAAAT
5315545 GGCGAATCTT
Statistics
Matches: 100, Mismatches: 19, Indels: 23
0.70 0.13 0.16
Matches are distributed among these distances:
43 9 0.09
44 54 0.54
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 30 0.30
51 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGAGTCAGATTGAAACTACAAATCCTATAC
Found at i:5315604 original size:282 final size:281
Alignment explanation
Indices: 5314926--5315604 Score: 834
Period size: 282 Copynumber: 2.4 Consensus size: 281
5314916 AATAGATCAG
* * * *
5314926 TGAAACCATAATTCCTATACCCCTGAAGTTGTAGTAGGTCAGATTGAATCTACCATAGCAAATCT
1 TGAAGCCAAAATT-CTATACCCCTGAAGTTGTAGTGGGTCAGATTGAATCTACCATAGCGAATCT
* * * *
5314991 TATCTTCCTAAAGTTATAGTGGAGCAGATTTAAGCTACAAATCCTATA-CCTTGAAGTTGCAATA
65 TATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCAACAAATCCTATACCCTTGAAGTTACAATA
* * **
5315055 GGTCAAATTAAATCTACCATAGCGAATTTTATCTCTTTGAAGTTGCAGTAAAGCAGATTAAAGCT
130 GGTCAAATTAAATCTACCATAGCAAATATTATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGCT
* ** * *
5315120 ACAAATCCTATATCCCTGAAGTTGCAGTAGGTCGGATTAAATCTACTATAGGGAATCTTATCTCC
195 ACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAAATTAAATCTACCATAGCGAATCTTATCTCC
* *
5315185 TTGAAGTTGTAGTGTAGCAGAT
260 TTGAAGTTGCAATGTAGCAGAT
* * ** * *
5315207 TGAAGCCAAAAATCATATACCCCTAAAGTTACAGTGGGTC-GAATTAAATCTACCATAGTGAATC
1 TGAAGCCAAAATTC-TATACCCCTGAAGTTGTAGTGGGTCAG-ATTGAATCTACCATAGCGAATC
* * * *
5315271 TTAACTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCATC-AATCCTATACCCTTGAAGTTACAA
64 TTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAG-CAACAAATCCTATACCCTTGAAGTTACAA
* * * *
5315335 TGGGAT-AAATTAAATCTACCATAGCAAATATTATTTCCCTGAAGTTGCAGTAGAGTAGATTGAA
128 TAGG-TCAAATTAAATCTACCATAGCAAATATTATCTCCCTGAAGTTGCAGTAAAGCAGATT-AA
* * *
5315399 A-CTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGT-TACCATTGCGAATCTTA
191 AGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAAATT-AAATCTACCATAGCGAATCTTA
5315462 TCTCCTTGAAGTTGCAATAG-AGCAGAT
255 TCTCCTTGAAGTTGCAAT-GTAGCAGAT
* ** *
5315489 TGAAGCTACAAATTCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAATCTAAAATGGCGAATCT
1 TGAAGCCA-AAATTCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAATCTACCATAGCGAATCT
* *
5315554 TATCTTCCTGAAGTTACAGTGGAGCAAGA-TGAAGCAACAAATTCTATACCC
65 TATCTTCCTAAAGTTACAGTGGAGC-AGATTGAAGCAACAAATCCTATACCC
5315605 AGTGGGTCGG
Statistics
Matches: 334, Mismatches: 52, Indels: 23
0.82 0.13 0.06
Matches are distributed among these distances:
280 2 0.01
281 92 0.28
282 223 0.67
283 17 0.05
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (281 bp):
TGAAGCCAAAATTCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAATCTACCATAGCGAATCTT
ATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCAACAAATCCTATACCCTTGAAGTTACAATAG
GTCAAATTAAATCTACCATAGCAAATATTATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAGCTA
CAAATCCTATACCCCTGAAGTTGCAGTAGGTCAAATTAAATCTACCATAGCGAATCTTATCTCCT
TGAAGTTGCAATGTAGCAGAT
Found at i:5315685 original size:84 final size:84
Alignment explanation
Indices: 5315521--5315686 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 84
5315511 CTGAAGTTGT
* * * * *
5315521 AGTGGGTCAGATTGAATCTAAAATGGCGAATCTTATCTTCCTGAAGTTACAGTGGAGCAAGATGA
1 AGTGGGTCAGATTAAAACTAAAATGGCGAATATTATCTCCCTAAAGTTACAGTGGAGCAAGATGA
*
5315586 AGCAACAAATTCTATACCC
66 AGCAACAAATCCTATACCC
* * * **
5315605 AGTGGGTCGGATTAAAACTACAATGGTGAATATTATCTCCCTAAAGTTATGGTGGAGCAAGATGA
1 AGTGGGTCAGATTAAAACTAAAATGGCGAATATTATCTCCCTAAAGTTACAGTGGAGCAAGATGA
** *
5315670 AGCTGCAAGTCCTATAC
66 AGCAACAAATCCTATAC
5315687 ATTTGAAGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (84 bp):
AGTGGGTCAGATTAAAACTAAAATGGCGAATATTATCTCCCTAAAGTTACAGTGGAGCAAGATGA
AGCAACAAATCCTATACCC
Found at i:5315791 original size:48 final size:48
Alignment explanation
Indices: 5315727--5315896 Score: 165
Period size: 50 Copynumber: 3.6 Consensus size: 48
5315717 TACAATGGCG
5315727 AATCTTATCTCCCTGAAGTTGCAGTGGAAGATCAAAGTTATAATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAAGATCAAAGTTATAATATCA
* * *
5315775 AATCTTATCTCTCTGAAGATGTAGTGG-AG--C-AAG--ATGAAGCTAT-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAAGATCAAAGTTAT-AA--TATCA
* * *
5315819 AATCCTATATCCCTGAAGTTGCAATGGATCAGATCAAAGTTATAATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA--AGATCAAAGTTATAATATCA
* * *
5315869 AATCTTATCTCCCTAAAGATGCATTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
5315897 GCAAGATGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 25 0.26
45 4 0.04
47 4 0.04
48 24 0.25
49 4 0.04
50 27 0.28
51 2 0.02
52 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (48 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAAGATCAAAGTTATAATATCA
Found at i:5315866 original size:94 final size:92
Alignment explanation
Indices: 5315727--5315935 Score: 303
Period size: 94 Copynumber: 2.2 Consensus size: 92
5315717 TACAATGGCG
* * * * *
5315727 AATCTTATCTCCCTGAAGTTGCAGTGGAAGATCAAAGTTATAATATCAAATCTTATCTCTCTGAA
1 AATCCTATATCCCTGAAGTTGCAATGGAAGATCAAAGTTATAATATCAAATCTTATCTCCCTAAA
*
5315792 GATGTAGTGGAGCAAGATGAAGCTATA
66 GATGCAGTGGAGCAAGATGAAGCTATA
5315819 AATCCTATATCCCTGAAGTTGCAATGGATCAGATCAAAGTTATAATATCAAATCTTATCTCCCTA
1 AATCCTATATCCCTGAAGTTGCAATGGA--AGATCAAAGTTATAATATCAAATCTTATCTCCCTA
*
5315884 AAGATGCATTGGAGCAAGATGAAGCTATA
64 AAGATGCAGTGGAGCAAGATGAAGCTATA
* *
5315913 AACCCTATA-CCTCTTAAGTTGCA
1 AATCCTATATCC-CTGAAGTTGCA
5315936 GTGGGTCGGA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
92 25 0.24
93 2 0.02
94 78 0.74
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (92 bp):
AATCCTATATCCCTGAAGTTGCAATGGAAGATCAAAGTTATAATATCAAATCTTATCTCCCTAAA
GATGCAGTGGAGCAAGATGAAGCTATA
Found at i:5315913 original size:50 final size:51
Alignment explanation
Indices: 5315818--5315913 Score: 97
Period size: 50 Copynumber: 1.9 Consensus size: 51
5315808 ATGAAGCTAT
* * * * * *
5315818 AAATCCTATATCCCTGAAGTTGCAATGGATC-AGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATCAAAGCTATAATATC
* * *
5315868 AAATCTTATCTCCCTAAAGATGCATTGGAGCAAGAT-GAAGCTATAA
1 AAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATCAAAGCTATAA
5315914 ACCCTATACC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
50 33 0.89
51 4 0.11
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (51 bp):
AAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATCAAAGCTATAATATC
Found at i:5316095 original size:94 final size:94
Alignment explanation
Indices: 5315768--5316097 Score: 349
Period size: 94 Copynumber: 3.5 Consensus size: 94
5315758 TCAAAGTTAT
* * * * *
5315768 AATATCAAATCTTATCT-CTCTGAAGATGTAGTGGAGCAAGATGAAGCTATAAATCCTATATCCC
1 AATAACAAATCTTATCTCCT-TGAAGATGCAATGGAGCAAGATGAAACTATAAATCCTATACCCC
* * * * * * *
5315832 TGAAGTTGCAATGGATCAG-ATCAAAGTTAT
65 TAAAGTTGCAGTGGGTCGGAATGAAA-CTAC
* * * * * * *
5315862 AATATCAAATCTTATCTCCCTAAAGATGCATTGGAGCAAGATGAAGCTATAAACCCTATACCTCT
1 AATAACAAATCTTATCTCCTTGAAGATGCAATGGAGCAAGATGAAACTATAAATCCTATACCCCT
* *
5315927 TAAGTTGCAGTGGGTCGGATTGAAACTAC
66 AAAGTTGCAGTGGGTCGGAATGAAACTAC
* ** * * * *
5315956 CATAGTAAATCTTATCTCCTTGAAGTTGCAATAGAGTAAGATGAAACTACAAATCCTATACCCCT
1 AATAACAAATCTTATCTCCTTGAAGATGCAATGGAGCAAGATGAAACTATAAATCCTATACCCCT
*
5316021 AAAGTTGCAGTGGGTCGGAAGGAAACTAC
66 AAAGTTGCAGTGGGTCGGAATGAAACTAC
* *
5316050 AACAACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAACT
1 AATAACAAATCTTATCTCCTTGAAGATGCAATGGAGCAAGATGAAACT
5316098 GTGACACTAA
Statistics
Matches: 197, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
94 192 0.97
95 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (94 bp):
AATAACAAATCTTATCTCCTTGAAGATGCAATGGAGCAAGATGAAACTATAAATCCTATACCCCT
AAAGTTGCAGTGGGTCGGAATGAAACTAC
Found at i:5316096 original size:50 final size:44
Alignment explanation
Indices: 5315962--5316097 Score: 107
Period size: 50 Copynumber: 3.0 Consensus size: 44
5315952 CTACCATAGT
* *
5315962 AAATCTTATCTCCTTGAAGTTGCAATAGAGTAAGATGAAACTAC
1 AAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAACTAC
* * * * *
5316006 AAATCCTATAC-CCCTAAAGTTGCAGTGG-GTCGGAAGGAAACT-ACAACAAC
1 AAATCTTAT-CTCCTTGAAGTTGCAATGGAG-C--AA-G--A-TGA-AACTAC
5316056 AAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAACT
1 AAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAACT
5316098 GTGACACTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 24
0.65 0.12 0.23
Matches are distributed among these distances:
43 1 0.01
44 25 0.37
45 3 0.04
46 2 0.03
47 2 0.03
48 2 0.03
49 3 0.04
50 29 0.43
51 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (44 bp):
AAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAACTAC
Found at i:5317625 original size:12 final size:13
Alignment explanation
Indices: 5317608--5317636 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5317598 AATCTGACCC
5317608 TTTATTTACT-TT
1 TTTATTTACTATT
5317620 TTTATTTACTATT
1 TTTATTTACTATT
5317633 TTTA
1 TTTA
5317637 ATCCCCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTACTATT
Found at i:5319323 original size:21 final size:20
Alignment explanation
Indices: 5319280--5319323 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
5319270 CCCTTCAACT
* *
5319280 ATTTATTTATTTAAAATTTA
1 ATTTATATATTTAAAATTCA
*
5319300 ATTTATATATTTTTAAATTCA
1 ATTTATATA-TTTAAAATTCA
5319321 ATT
1 ATT
5319324 GTTAACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATATATTTAAAATTCA
Found at i:5322220 original size:165 final size:163
Alignment explanation
Indices: 5321950--5322271 Score: 545
Period size: 165 Copynumber: 2.0 Consensus size: 163
5321940 GGCGAAATAA
*
5321950 TGTCCTTGCTGGACGTGGAATGCAAATTCAGAATTTGTGCCAGTGTGTAGAGGTCATGACAACGA
1 TGTCCTTGCTGGACGTGGAATGCAAATTCAGAATTTGTGCCAGTGTGTAGAGATCATGACAACGA
* *
5322015 TATTGTGGACTATCTACTTAGGGACAGTTGGAGCCGGATGGCAGAACTGGATGACAGTTGGGACC
66 TATTGTGAACCATCTACTTAGGGACAGTTGGAGCCGGATGGCAGAACTGGATGACAGTTGGGACC
* *
5322080 AAATTTAGTACCATGAGCATGGGATGCATAATT
131 AAATTTAGTACCATGAGAATAGGATGCATAATT
*
5322113 TGTCCTTGTTGGACGTGGAATGCAAATTCAGAATTTGTGCCACAGTGTGTAGAGATCATGACAAC
1 TGTCCTTGCTGGACGTGGAATGCAAATTCAGAATTTGTG-C-CAGTGTGTAGAGATCATGACAAC
* *
5322178 GATATTGTGAACCATCTACTTAGGGACAGTTGGAGCCGGATGGCAGAACTGGGTGACGGTTGGGA
64 GATATTGTGAACCATCTACTTAGGGACAGTTGGAGCCGGATGGCAGAACTGGATGACAGTTGGGA
*
5322243 CCAAATTTGGTACCATGAGAATAGGATGC
129 CCAAATTTAGTACCATGAGAATAGGATGC
5322272 CATGGATCGG
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 38 0.26
164 1 0.01
165 109 0.74
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (163 bp):
TGTCCTTGCTGGACGTGGAATGCAAATTCAGAATTTGTGCCAGTGTGTAGAGATCATGACAACGA
TATTGTGAACCATCTACTTAGGGACAGTTGGAGCCGGATGGCAGAACTGGATGACAGTTGGGACC
AAATTTAGTACCATGAGAATAGGATGCATAATT
Found at i:5332086 original size:19 final size:21
Alignment explanation
Indices: 5332042--5332088 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
5332032 CAGAAAATGA
5332042 TTTCTGGAAAATGATTTACTT
1 TTTCTGGAAAATGATTTACTT
5332063 TTTCTGG-AAATGATTTAC-T
1 TTTCTGGAAAATGATTTACTT
5332082 TTTCTGG
1 TTTCTGG
5332089 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.31
20 11 0.42
21 7 0.27
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (21 bp):
TTTCTGGAAAATGATTTACTT
Found at i:5333266 original size:32 final size:32
Alignment explanation
Indices: 5333220--5333280 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
5333210 TGTCAATCAT
*
5333220 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATACAACAAGCTTAAAACATAATAAA
*
5333252 TTCAATATATAACAAGCTTAAAACATAAT
1 TTCAATATACAACAAGCTTAAAACATAAT
5333281 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATACAACAAGCTTAAAACATAATAAA
Found at i:5333291 original size:27 final size:30
Alignment explanation
Indices: 5333220--5333293 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
5333210 TGTCAATCAT
*
5333220 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
5333252 TTCAATATATAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
5333280 -TCAATATCTAACAA
1 TTCAATATCTAACAA
5333294 ATTCAAGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
29 2 0.05
32 22 0.56
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:5344749 original size:11 final size:11
Alignment explanation
Indices: 5344733--5344757 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5344723 TAGAAAGACG
5344733 CAACTTAAGTA
1 CAACTTAAGTA
5344744 CAACTTAAGTA
1 CAACTTAAGTA
5344755 CAA
1 CAA
5344758 ATATCTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (11 bp):
CAACTTAAGTA
Found at i:5349603 original size:7 final size:6
Alignment explanation
Indices: 5349566--5349604 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
5349556 GCAGTAGCTT
*
5349566 TTTTATA TTTTTA TTTTTA TTTTTC TTTTTAA TTTTTA T
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA T
5349605 CTTTGGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 20 0.69
7 9 0.31
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:5350518 original size:3 final size:3
Alignment explanation
Indices: 5350414--5350506 Score: 82
Period size: 3 Copynumber: 31.3 Consensus size: 3
5350404 AATTAACTAA
* * * *
5350414 TAT TAT T-T TTT TAT TAT TGT TAT TAT TAT TAT TAT GAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
5350461 TAT TACT T-T CAT TAT TAT TAG TAT TTT TAC TAT TAC TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5350506 T
1 T
5350507 GATAATATTA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
2 3 0.04
3 65 0.93
4 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5351779 original size:23 final size:23
Alignment explanation
Indices: 5351752--5351797 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5351742 AAAACTTATA
* *
5351752 AATATTTTAAAAAAATATGTATG
1 AATATTATAAAAAAACATGTATG
*
5351775 AATATTATAAAAATACATGTATG
1 AATATTATAAAAAAACATGTATG
5351798 TGTACATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (23 bp):
AATATTATAAAAAAACATGTATG
Found at i:5352684 original size:23 final size:23
Alignment explanation
Indices: 5352657--5352702 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5352647 AAAACTTATA
* *
5352657 AATATTTTAAAAAAATATGTATG
1 AATATTATAAAAAAACATGTATG
*
5352680 AATATTATAAAAATACATGTATG
1 AATATTATAAAAAAACATGTATG
5352703 TGTACATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (23 bp):
AATATTATAAAAAAACATGTATG
Found at i:5382441 original size:113 final size:112
Alignment explanation
Indices: 5382000--5382558 Score: 474
Period size: 114 Copynumber: 4.9 Consensus size: 112
5381990 ATATATATAT
* * * * * *
5382000 CGCCGCTAATACTATGCTTTAGCGGTGATTTCTCGT-GGACGCCACTAATTCCAGTATACATCAA
1 CGCCGCTAATAGTATGCTTTAGCGGCGTTTTC-CCTATG-CGCCACTAATTCTAGTATACATCAA
* * * *
5382064 GACTTAAACGCTGCGTTTTGGTTAATATATTTTGCAGCGCTTCTCAAAAAG
64 GAC-AAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-CAAAG
* * * * *
5382115 CGCCGCTAATAGTATGCTTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACCTCATG
1 CGCCGCTAATAGTATGCTTTAGCGGCGTTTTCCC-TATGCGCCACTAATTCTAGTATACATCAAG
* * * * * * *
5382180 AAAAAACTCTGCGCTTTGG-TGAGCATATTTTGCGGTGCTTTTTTCAAAG
65 ACAAAACGCTGCGTTTTGGTTAAG-ATATTTTGCGGCGC-TTCTCCAAAG
* * *** ** *
5382229 CGCCGCTAATACTATGCTTTAGCGGCATTTTTTAATATGCGCCACTAATAATTGTATACATCAAG
1 CGCCGCTAATAGTATGCTTTAGCGGC-GTTTTCCCTATGCGCCACTAATTCTAGTATACATCAAG
* * * *
5382294 ACAAAAAGCTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAACG
65 ACAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCC-AAAG
* * * *
5382343 CGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTCAAGA
1 CGCCGCTAATAGTATGCTTTAGCGGCGTTTTCCCTATGCGCCACTAATTCTAGTATACATCAAGA
* * * * *
5382408 CCAAACTCTGCATTTTAGTTAAGATATTTTGCGGCGCTTCTCACAAAA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-CAAAG
* * * *** * * ** *
5382456 CGCCGCTAATATTATGCTTTAGTGGTGTTTTCCCTTAAATGCCACTAACTGTAACATACACCAAG
1 CGCCGCTAATAGTATGCTTTAGCGGCGTTTTCCC-TATGCGCCACTAATTCTAGTATACATCAAG
* ** *
5382521 ACCAAAACGGTGCACTTTGGTTAGGATATTTTGCGGCG
65 A-CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCG
5382559 TTTTCCCATA
Statistics
Matches: 347, Mismatches: 87, Indels: 20
0.76 0.19 0.04
Matches are distributed among these distances:
113 101 0.29
114 155 0.45
115 90 0.26
116 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (112 bp):
CGCCGCTAATAGTATGCTTTAGCGGCGTTTTCCCTATGCGCCACTAATTCTAGTATACATCAAGA
CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCCAAAG
Found at i:5382474 original size:227 final size:229
Alignment explanation
Indices: 5382053--5382477 Score: 570
Period size: 227 Copynumber: 1.9 Consensus size: 229
5382043 ACTAATTCCA
* * * *
5382053 GTATACATCAAGACTTAAACGCTGCGTTTTGGTTAATATATTTTGCAGCGCTTCTCAAAAAGCGC
1 GTATACATCAAGACTAAAAAGCTGCGTTTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGC
* *
5382118 CGCTAATAGTATGCTTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACCTCATGAAA
66 CGCTAATAGTATGCCTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAAA
* * * * ** *
5382183 AAACTCTGCGCTTTGGTGAGCATATTTTGCGGTGCTTTTTTCAAAGCGCCGCTAATACTATGCTT
131 AAACTCTGCACTTTGGTAAGCATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGCTT
5382248 TAGCGGCATTTTTTAATATGCGCCACTAATAATT
196 TAGCGGCATTTTTTAATATGCGCCACTAATAATT
* * ** *
5382282 GTATACATCAAGAC-AAAAAGCTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAACGCGC
1 GTATACATCAAGACTAAAAAGCTGCGTTTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGC
** * *
5382346 CGCTAATAGTATGCCTTAGCGGCGTGT-TCCC-TTTGCGCCACTAATTCTAGTATACCTCAAGAC
66 CGCTAATAGTATGCCTTAGCGGCGT-TCTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAA
* * * *
5382409 CAAACTCTGCATTTTAGTTAAG-ATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATATTATGC
130 AAAACTCTGCACTTT-GGTAAGCATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGC
5382473 TTTAG
194 TTTAG
5382478 TGGTGTTTTC
Statistics
Matches: 168, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
227 80 0.48
228 73 0.43
229 15 0.09
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (229 bp):
GTATACATCAAGACTAAAAAGCTGCGTTTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGC
CGCTAATAGTATGCCTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAAA
AAACTCTGCACTTTGGTAAGCATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGCTT
TAGCGGCATTTTTTAATATGCGCCACTAATAATT
Found at i:5383225 original size:17 final size:17
Alignment explanation
Indices: 5383205--5383257 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
5383195 TCAATTTATA
5383205 AATATATTTTAAATTTT
1 AATATATTTTAAATTTT
*
5383222 AATA-ATTTTGAATTTT
1 AATATATTTTAAATTTT
* * *
5383238 TATGTATTTTTAATTTT
1 AATATATTTTAAATTTT
5383255 AAT
1 AAT
5383258 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
AATATATTTTAAATTTT
Found at i:5394879 original size:12 final size:12
Alignment explanation
Indices: 5394864--5394897 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
5394854 AAACCAAGCC
5394864 GTAAATATTTTT
1 GTAAATATTTTT
5394876 GTAAATATTTTT
1 GTAAATATTTTT
*
5394888 ATAAATATTT
1 GTAAATATTT
5394898 ACAGAGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (12 bp):
GTAAATATTTTT
Found at i:5396070 original size:42 final size:42
Alignment explanation
Indices: 5396021--5396269 Score: 349
Period size: 42 Copynumber: 5.9 Consensus size: 42
5396011 ACCATGGCAG
** *
5396021 TATGTGATTACGTGTAAGATTAGAGCTAGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
* **
5396063 TATGTGATTACATGTAAGACCATAGCCGGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
* * *
5396105 TATGTGATTACGTATAAGACCATAGCTGGGCTATGACATCGA
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
*
5396147 TATGTGATTACGTGTAAGACCATAGCT-GCTCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTAG-GCTATGGCATCGA
5396189 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
* * *
5396231 TATGTAATTATGTGTAAGACCATAG-TTGGACTATGGCAT
1 TATGTGATTACGTGTAAGACCATAGCTAGG-CTATGGCAT
5396270 TGAGAAAACG
Statistics
Matches: 187, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
41 4 0.02
42 182 0.97
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGA
Found at i:5397349 original size:25 final size:25
Alignment explanation
Indices: 5397282--5397355 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
5397272 ACCTCTGACC
* *
5397282 TCCTTACCACACCTGTGACTCCAAT
1 TCCTTACCACACCTGTGTCTCCACT
5397307 TCC-TAGCCACACCTGTGTCTCCACT
1 TCCTTA-CCACACCTGTGTCTCCACT
*
5397332 TCCTTACCACACCTGTGTCGCCAC
1 TCCTTACCACACCTGTGTCTCCAC
5397356 CTTGCCACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.19, C:0.43, G:0.11, T:0.27
Consensus pattern (25 bp):
TCCTTACCACACCTGTGTCTCCACT
Found at i:5400590 original size:27 final size:27
Alignment explanation
Indices: 5400533--5400703 Score: 125
Period size: 27 Copynumber: 6.3 Consensus size: 27
5400523 TCATCTCCTA
** * *
5400533 AGGGTATGACGATCATTTTACCTTATT-
1 AGGGTATTTCGATAATTTTACC-AATTG
5400560 AGGGTATTTCGATAATTTTACCAATTG
1 AGGGTATTTCGATAATTTTACCAATTG
* * ** *
5400587 AGGGTATTTC-AGTCATTTTATCTTTTA
1 AGGGTATTTCGA-TAATTTTACCAATTG
* * *
5400614 AGGGTATTTCGATAAATTTACCCATCG
1 AGGGTATTTCGATAATTTTACCAATTG
** * *
5400641 AGGGTATTTTAAAAATTTTACCCATTTG
1 AGGGTATTTCGATAATTTTA-CCAATTG
*
5400669 -GGGTATTTTGATAATTTTACTC-ATTG
1 AGGGTATTTCGATAATTTTAC-CAATTG
5400695 AGGGTATTT
1 AGGGTATTT
5400704 TGGTTATTTT
Statistics
Matches: 112, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
26 8 0.07
27 99 0.88
28 5 0.04
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACCAATTG
Found at i:5400618 original size:54 final size:52
Alignment explanation
Indices: 5400544--5400703 Score: 176
Period size: 54 Copynumber: 3.0 Consensus size: 52
5400534 GGGTATGACG
5400544 ATCATTTTACCTTATTAGGGTATTTCGATAATTTTACCAATTGAGGGTATTTCA
1 ATCATTTTACCTT-TTAGGGTATTTCGATAATTTTACC-ATTGAGGGTATTTCA
* * * * *
5400598 GTCATTTTATCTTTTAAGGGTATTTCGATAAATTTACCCATCGAGGGTATTTTA
1 ATCATTTTACCTTTT-AGGGTATTTCGATAATTTTA-CCATTGAGGGTATTTCA
** * * *
5400652 AAAATTTTACCCATTTGGGGTATTTTGATAATTTTACTCATTGAGGGTATTT
1 ATCATTTTA-CCTTTTAGGGTATTTCGATAATTTTAC-CATTGAGGGTATTT
5400704 TGGTTATTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
53 3 0.03
54 79 0.90
55 6 0.07
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (52 bp):
ATCATTTTACCTTTTAGGGTATTTCGATAATTTTACCATTGAGGGTATTTCA
Found at i:5400727 original size:27 final size:27
Alignment explanation
Indices: 5400560--5400741 Score: 100
Period size: 27 Copynumber: 6.7 Consensus size: 27
5400550 TTACCTTATT
* * * *
5400560 AGGGTATTTCGATAATTTTACCAATTG
1 AGGGTATTTTGGTAATTTTACCCATAG
** * ***
5400587 AGGGTATTTCAGTCATTTTATCTTTTA-
1 AGGGTATTTTGGTAATTTTA-CCCATAG
* * * *
5400614 AGGGTATTTCGATAAATTTACCCATCG
1 AGGGTATTTTGGTAATTTTACCCATAG
*** *
5400641 AGGGTATTTTAAAAATTTTACCCATTTG
1 AGGGTATTTTGGTAATTTTACCCA-TAG
* * *
5400669 -GGGTATTTTGATAATTTTACTCATTG
1 AGGGTATTTTGGTAATTTTACCCATAG
*
5400695 AGGGTATTTTGGTTATTTTACCCTATAG
1 AGGGTATTTTGGTAATTTTACCC-ATAG
* *
5400723 A-GGTATTTCGGTCATTTTA
1 AGGGTATTTTGGTAATTTTA
5400742 ACAACCTTTT
Statistics
Matches: 121, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
26 5 0.04
27 108 0.89
28 8 0.07
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.45
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACCCATAG
Found at i:5400728 original size:54 final size:54
Alignment explanation
Indices: 5400547--5400741 Score: 175
Period size: 54 Copynumber: 3.6 Consensus size: 54
5400537 TATGACGATC
* * *
5400547 ATTTTACCTTATTAG-GGTATTTCGATAATTTTACCAATTGAGGGTATTTCAGTC
1 ATTTTACCCTATTAGAGGTATTTCGATAATTTTACC-ATTGAGGGTATTTTAGTA
* * * * **
5400601 ATTTTA-TCTTTTA-AGGGTATTTCGATAAATTTACCCATCGAGGGTATTTTAAAA
1 ATTTTACCCTATTAGA-GGTATTTCGATAATTTTA-CCATTGAGGGTATTTTAGTA
* * * * *
5400655 ATTTTACCC-ATTTGGGGTATTTTGATAATTTTACTCATTGAGGGTATTTTGGTT
1 ATTTTACCCTATTAGAGGTATTTCGATAATTTTAC-CATTGAGGGTATTTTAGTA
* *
5400709 ATTTTACCCTA-TAGAGGTATTTCGGTCATTTTA
1 ATTTTACCCTATTAGAGGTATTTCGATAATTTTA
5400742 ACAACCTTTT
Statistics
Matches: 109, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
53 5 0.05
54 100 0.92
55 4 0.04
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.46
Consensus pattern (54 bp):
ATTTTACCCTATTAGAGGTATTTCGATAATTTTACCATTGAGGGTATTTTAGTA
Found at i:5402284 original size:22 final size:22
Alignment explanation
Indices: 5402256--5402303 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
5402246 GTGTCATGAT
*
5402256 TTCACAAGATAATTATAAAGCC
1 TTCACAAAATAATTATAAAGCC
*
5402278 TTCACAAAATATTTATAAAGCC
1 TTCACAAAATAATTATAAAGCC
5402300 TTCA
1 TTCA
5402304 AGCTAATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (22 bp):
TTCACAAAATAATTATAAAGCC
Found at i:5407657 original size:49 final size:49
Alignment explanation
Indices: 5407602--5407778 Score: 225
Period size: 49 Copynumber: 3.6 Consensus size: 49
5407592 TGTGTGTATC
* *
5407602 CGTGTAAGACCATAGCTGAGCTATGGCATTGGTAAGTGATATGCGATTT
1 CGTGTAAGACCATAGCTGAGCTATGGCATCGGTAAGTGATATGTGATTT
* *
5407651 TGTGTAAGACCATAGCT-AGGCTGTGGCATCGGTAAGTGATATGTGATTT
1 CGTGTAAGACCATAGCTGA-GCTATGGCATCGGTAAGTGATATGTGATTT
* * *
5407700 CGTGTAAGACCATAGCTTG-GCTATGGCATCGGTATGTGTTATGTGATTA
1 CGTGTAAGACCATAGC-TGAGCTATGGCATCGGTAAGTGATATGTGATTT
* *
5407749 CGTGTAAGACCAT-GATTGGGCTATGGCATC
1 CGTGTAAGACCATAG-CTGAGCTATGGCATC
5407779 AATATGTAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
48 4 0.04
49 108 0.96
50 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (49 bp):
CGTGTAAGACCATAGCTGAGCTATGGCATCGGTAAGTGATATGTGATTT
Found at i:5411486 original size:46 final size:46
Alignment explanation
Indices: 5411408--5411546 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
5411398 CATGACAAAA
* * *
5411408 TGTGAAACGTAGGAATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
5411454 TGTGAAAAGTAGGTATGGTGTTTC-GATAAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAG-TGAAGAAAACCATACTGAGT
*
5411500 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACTATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
5411546 T
1 T
5411547 ATAGCATTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 81 0.98
47 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:5412004 original size:21 final size:21
Alignment explanation
Indices: 5411976--5412057 Score: 101
Period size: 21 Copynumber: 3.8 Consensus size: 21
5411966 CCTGATTAGT
5411976 ATACGACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTA
* ** * *
5411997 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTA
5412018 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCT-A
5412040 GATACGACACATAAAGTG
1 -ATACGACACATAAAGTG
5412058 TTTGATGTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
21 32 0.65
23 17 0.35
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTA
Found at i:5412047 original size:23 final size:23
Alignment explanation
Indices: 5411976--5412085 Score: 113
Period size: 23 Copynumber: 5.0 Consensus size: 23
5411966 CCTGATTAGT
5411976 ATACGACACATAAAGTGCCT-A-
1 ATACGACACATAAAGTGCCTGAG
* ** *
5411997 AAACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
5412018 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
**
5412041 ATACGACACATAAAGTGTTTGATG
1 ATACGACACATAAAGTGCCTGA-G
*
5412065 -TATGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
5412086 TCGGTAAAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
21 32 0.44
23 39 0.54
24 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:5416531 original size:26 final size:26
Alignment explanation
Indices: 5416493--5416546 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
5416483 TTAGTTTCAA
** * *
5416493 ATTTTGTTGTATATGTACATACTTAC
1 ATTTTGTCATATATATACATACGTAC
5416519 ATTTTGTCATATATATACATACGTAC
1 ATTTTGTCATATATATACATACGTAC
5416545 AT
1 AT
5416547 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.46
Consensus pattern (26 bp):
ATTTTGTCATATATATACATACGTAC
Found at i:5418274 original size:23 final size:24
Alignment explanation
Indices: 5418248--5418300 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
5418238 AACCTATTCA
5418248 ATTACA-AATACAATTATTAAAAT
1 ATTACATAATACAATTATTAAAAT
*
5418271 ATTAAATATAATACAATTATTAAAAT
1 ATT--ACATAATACAATTATTAAAAT
5418297 ATTA
1 ATTA
5418301 AATATAACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 1 0.04
25 2 0.08
26 20 0.77
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTACATAATACAATTATTAAAAT
Found at i:5418284 original size:26 final size:26
Alignment explanation
Indices: 5418254--5418307 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
5418244 TTCAATTACA
5418254 AATACAATTATTAAAATATTAAATAT
1 AATACAATTATTAAAATATTAAATAT
5418280 AATACAATTATTAAAATATTAAATAT
1 AATACAATTATTAAAATATTAAATAT
5418306 AA
1 AA
5418308 CACATAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AATACAATTATTAAAATATTAAATAT
Found at i:5421624 original size:3 final size:3
Alignment explanation
Indices: 5421616--5421648 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5421606 TAAAACAGTT
5421616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5421649 CAGACCCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5421905 original size:11 final size:12
Alignment explanation
Indices: 5421882--5421910 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
5421872 TACAAACTGT
5421882 AAATAATAATAA
1 AAATAATAATAA
5421894 AAATAA-AATAA
1 AAATAATAATAA
5421905 AAATAA
1 AAATAA
5421911 GGATCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:5424414 original size:5 final size:5
Alignment explanation
Indices: 5424385--5424434 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
5424375 TAAAAATTTA
* * *
5424385 ATTAT GTTAA ATTAT AATA- ATTAT ATTAT AATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
5424435 GAAATAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:5431816 original size:21 final size:21
Alignment explanation
Indices: 5431752--5431816 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
5431742 CATGATCAGT
*
5431752 ATACGACATATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
5431773 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
5431794 ATACGACACATAAAATGCCTG
1 ATACGACACATAAAGTGCCTG
5431815 AT
1 AT
5431817 CGGCAAAGCC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:5432963 original size:5 final size:5
Alignment explanation
Indices: 5432955--5433026 Score: 58
Period size: 5 Copynumber: 14.2 Consensus size: 5
5432945 TATTTAATTT
* * * * *
5432955 ATATA ATATA ATACA ATATA ATACA ATACA ATATA TTATATT ATATT ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA
5433007 ATA-A A-ATA ATATA TATATA A
1 ATATA ATATA ATATA -ATATA A
5433027 AACATAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
3 1 0.02
4 4 0.07
5 42 0.75
6 5 0.09
7 4 0.07
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:5433586 original size:23 final size:23
Alignment explanation
Indices: 5433560--5433604 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5433550 TTTCTTACTG
* *
5433560 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCAGGATATTACAA
5433583 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
5433605 TATACGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAA
Found at i:5443614 original size:21 final size:21
Alignment explanation
Indices: 5443590--5443641 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
5443580 TGTTAGTAAA
* *
5443590 TAATTTAAATTTTTAAAAATT
1 TAATTTAAATTCTAAAAAATT
**
5443611 TAATAAAAATTCTAAAAAATT
1 TAATTTAAATTCTAAAAAATT
5443632 TAATTCTAAA
1 TAATT-TAAA
5443642 AATGATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATTTAAATTCTAAAAAATT
Found at i:5445819 original size:79 final size:79
Alignment explanation
Indices: 5445688--5445943 Score: 512
Period size: 79 Copynumber: 3.2 Consensus size: 79
5445678 TTAAATTCAT
5445688 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
1 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
5445753 TATGATAATTATAC
66 TATGATAATTATAC
5445767 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
1 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
5445832 TATGATAATTATAC
66 TATGATAATTATAC
5445846 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
1 ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
5445911 TATGATAATTATAC
66 TATGATAATTATAC
5445925 ATTTAAAAATAATTATAAT
1 ATTTAAAAATAATTATAAT
5445944 TTAATAGAAA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 177 1.00
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.41
Consensus pattern (79 bp):
ATTTAAAAATAATTATAATATTTAATTTAAAATTATTAGTTAAAAATTTGAAATAAAATAAAAAT
TATGATAATTATAC
Found at i:5445957 original size:44 final size:44
Alignment explanation
Indices: 5445744--5445991 Score: 171
Period size: 44 Copynumber: 6.0 Consensus size: 44
5445734 TTTGAAATAA
5445744 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATATT
1 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAAT-TT
* * * **
5445789 --T---AATT-T-AAAATTAT-TAGTTAAAAAT--TTGA-AATAA
1 AATAAAAATTATGATAATTATACATTTAAAAATAATT-ATAATTT
5445823 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATATT
1 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAAT-TT
* * * **
5445868 --T---AATT-T-AAAATTAT-TAGTTAAAAAT--TTGA-AATAA
1 AATAAAAATTATGATAATTATACATTTAAAAATAATT-ATAATTT
5445902 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATTT
1 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATTT
* * * * *
5445946 AATAGAAATTATGATAGTTACACATTTAAAAACAATTAGAATTT
1 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATTT
5445990 AA
1 AA
5445992 ATTACAATTA
Statistics
Matches: 153, Mismatches: 25, Indels: 51
0.67 0.11 0.22
Matches are distributed among these distances:
35 10 0.07
36 4 0.03
37 18 0.12
38 14 0.09
39 10 0.07
40 10 0.07
41 14 0.09
42 18 0.12
43 4 0.03
44 51 0.33
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (44 bp):
AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATTT
Found at i:5450171 original size:11 final size:11
Alignment explanation
Indices: 5450157--5450198 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
5450147 TAAATATTAC
5450157 TTTATTAATAT
1 TTTATTAATAT
*
5450168 TTTAATGAGATAT
1 TTT-ATTA-ATAT
5450181 TTTATTAATAT
1 TTTATTAATAT
5450192 TTTATTA
1 TTTATTA
5450199 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:5452058 original size:393 final size:393
Alignment explanation
Indices: 5451333--5452121 Score: 1578
Period size: 393 Copynumber: 2.0 Consensus size: 393
5451323 ATATATATAC
5451333 ATAAAAGATGTGGAATGGAGAGGAAGTGGAGGAAAAATATATGAATATATATATATAGTAGATGA
1 ATAAAAGATGTGGAATGGAGAGGAAGTGGAGGAAAAATATATGAATATATATATATAGTAGATGA
5451398 ATTTGAGATGTTTTGAAATGGTTGTAGGCGATGGAATGATTGATACATATGAGTATGTTTAAACG
66 ATTTGAGATGTTTTGAAATGGTTGTAGGCGATGGAATGATTGATACATATGAGTATGTTTAAACG
5451463 AATTGATAACATAATAAGTGAATAATTTTTAATTGATGTAAATTCTTTGTTAAAATTTTATGAAG
131 AATTGATAACATAATAAGTGAATAATTTTTAATTGATGTAAATTCTTTGTTAAAATTTTATGAAG
5451528 AATTAAATTGATTGACACAATTTAGAAATAAATATGAAATATACATAAAGTGGGTAAACTAATTT
196 AATTAAATTGATTGACACAATTTAGAAATAAATATGAAATATACATAAAGTGGGTAAACTAATTT
5451593 TGCAAGTGTAAGTCCTCCAATGGTCTTATTTGTAAACTTTTAATATTTGTGTTAATTTTATAAAC
261 TGCAAGTGTAAGTCCTCCAATGGTCTTATTTGTAAACTTTTAATATTTGTGTTAATTTTATAAAC
5451658 TTTGTTATATTTAATTGAATATCGTGTTTTTACGAGGACCTGAGATTAGAAATAGATGTGAATGG
326 TTTGTTATATTTAATTGAATATCGTGTTTTTACGAGGACCTGAGATTAGAAATAGATGTGAATGG
5451723 ATG
391 ATG
5451726 ATAAAAGATGTGGAATGGAGAGGAAGTGGAGGAAAAATATATGAATATATATATATAGTAGATGA
1 ATAAAAGATGTGGAATGGAGAGGAAGTGGAGGAAAAATATATGAATATATATATATAGTAGATGA
5451791 ATTTGAGATGTTTTGAAATGGTTGTAGGCGATGGAATGATTGATACATATGAGTATGTTTAAACG
66 ATTTGAGATGTTTTGAAATGGTTGTAGGCGATGGAATGATTGATACATATGAGTATGTTTAAACG
5451856 AATTGATAACATAATAAGTGAATAATTTTTAATTGATGTAAATTCTTTGTTAAAATTTTATGAAG
131 AATTGATAACATAATAAGTGAATAATTTTTAATTGATGTAAATTCTTTGTTAAAATTTTATGAAG
5451921 AATTAAATTGATTGACACAATTTAGAAATAAATATGAAATATACATAAAGTGGGTAAACTAATTT
196 AATTAAATTGATTGACACAATTTAGAAATAAATATGAAATATACATAAAGTGGGTAAACTAATTT
5451986 TGCAAGTGTAAGTCCTCCAATGGTCTTATTTGTAAACTTTTAATATTTGTGTTAATTTTATAAAC
261 TGCAAGTGTAAGTCCTCCAATGGTCTTATTTGTAAACTTTTAATATTTGTGTTAATTTTATAAAC
5452051 TTTGTTATATTTAATTGAATATCGTGTTTTTACGAGGACCTGAGATTAGAAATAGATGTGAATGG
326 TTTGTTATATTTAATTGAATATCGTGTTTTTACGAGGACCTGAGATTAGAAATAGATGTGAATGG
5452116 ATG
391 ATG
5452119 ATA
1 ATA
5452122 TGTAAAATGA
Statistics
Matches: 396, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
393 396 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (393 bp):
ATAAAAGATGTGGAATGGAGAGGAAGTGGAGGAAAAATATATGAATATATATATATAGTAGATGA
ATTTGAGATGTTTTGAAATGGTTGTAGGCGATGGAATGATTGATACATATGAGTATGTTTAAACG
AATTGATAACATAATAAGTGAATAATTTTTAATTGATGTAAATTCTTTGTTAAAATTTTATGAAG
AATTAAATTGATTGACACAATTTAGAAATAAATATGAAATATACATAAAGTGGGTAAACTAATTT
TGCAAGTGTAAGTCCTCCAATGGTCTTATTTGTAAACTTTTAATATTTGTGTTAATTTTATAAAC
TTTGTTATATTTAATTGAATATCGTGTTTTTACGAGGACCTGAGATTAGAAATAGATGTGAATGG
ATG
Found at i:5454922 original size:62 final size:62
Alignment explanation
Indices: 5454825--5454976 Score: 189
Period size: 62 Copynumber: 2.5 Consensus size: 62
5454815 ACTGCCTGGG
* * *
5454825 CACACTCCTATGTCCATGCTCT-TGTGGTCCTAAATCATAAAAAGTGAGTTACACGACCTAGA
1 CACACGCCCATGTCCATGC-CTGTGTGGCCCTAAATCATAAAAAGTGAGTTACACGACCTAGA
* * * * * *
5454887 CACACGCCCATGTCCATGCCTGTGTGGCCCTAAATCATAAATAGTGAGTTACATGGCTTGGG
1 CACACGCCCATGTCCATGCCTGTGTGGCCCTAAATCATAAAAAGTGAGTTACACGACCTAGA
* *
5454949 CACACGCCCATGTCCTTGCCCGTGTGGC
1 CACACGCCCATGTCCATGCCTGTGTGGC
5454977 TCACACGGCC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 2 0.03
62 76 0.97
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (62 bp):
CACACGCCCATGTCCATGCCTGTGTGGCCCTAAATCATAAAAAGTGAGTTACACGACCTAGA
Found at i:5456182 original size:17 final size:18
Alignment explanation
Indices: 5456165--5456240 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 18
5456155 AAATTGATAT
5456165 AAATATAAAAACATTATA
1 AAATATAAAAACATTATA
* *
5456183 AACATATTATAAATATTATAA
1 AA-ATA-TAAAAACATTAT-A
5456204 AAATATAAAAAC--TATA
1 AAATATAAAAACATTATA
* *
5456220 AATTATAAAAA-AATATA
1 AAATATAAAAACATTATA
5456237 AAAT
1 AAAT
5456241 TAATAAAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
16 11 0.23
17 10 0.21
18 2 0.04
19 8 0.17
20 13 0.28
21 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAAAAACATTATA
Found at i:5456207 original size:11 final size:11
Alignment explanation
Indices: 5456168--5456209 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
5456158 TTGATATAAA
*
5456168 TATAAAAACAT
1 TATAAAAATAT
*
5456179 TATAAACATAT
1 TATAAAAATAT
5456190 TAT--AAATAT
1 TATAAAAATAT
5456199 TATAAAAATAT
1 TATAAAAATAT
5456210 AAAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:5456246 original size:26 final size:26
Alignment explanation
Indices: 5456145--5456247 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 26
5456135 ATTAATATTT
*
5456145 AAAAATATGAAAATTGATATAAATATAA
1 AAAAATATAAAAATT-A-ATAAATATAA
* *
5456173 AAACATTATAAACATATT-ATAAATATTAT
1 AAA-AATATAAA-A-ATTAATAAATA-TAA
*
5456202 AAAAATATAAAAACT-ATAAATTATAA
1 AAAAATATAAAAATTAATAAA-TATAA
5456228 AAAAATAT-AAAATTAATAAA
1 AAAAATATAAAAATTAATAAA
5456248 ACATATTGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
25 5 0.08
26 22 0.35
27 3 0.05
28 17 0.27
29 11 0.18
30 1 0.02
31 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAAATATAAAAATTAATAAATATAA
Found at i:5456253 original size:18 final size:17
Alignment explanation
Indices: 5456161--5456253 Score: 57
Period size: 18 Copynumber: 5.2 Consensus size: 17
5456151 ATGAAAATTG
5456161 ATATAAA-TATAAAAAC
1 ATATAAATTATAAAAAC
* * *
5456177 ATTATAAACATATTATAAAT
1 A-TATAAA-TTA-TAAAAAC
*
5456197 ATTATAAAAATATAAAAAC
1 A-TAT-AAATTATAAAAAC
*
5456216 -TATAAATTATAAAAAA
1 ATATAAATTATAAAAAC
5456232 ATATAAAATTA-ATAAAAC
1 ATAT-AAATTATA-AAAAC
5456250 ATAT
1 ATAT
5456254 TGTAATGGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 12 0.19
17 13 0.21
18 14 0.23
19 7 0.11
20 13 0.21
21 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATAAATTATAAAAAC
Found at i:5458026 original size:14 final size:14
Alignment explanation
Indices: 5458007--5458036 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5457997 GTTCTCTAAC
5458007 TTACGGGGTTTCAA
1 TTACGGGGTTTCAA
5458021 TTACGGGGTTTCAA
1 TTACGGGGTTTCAA
5458035 TT
1 TT
5458037 TTCTCGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (14 bp):
TTACGGGGTTTCAA
Found at i:5458651 original size:20 final size:19
Alignment explanation
Indices: 5458623--5458672 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
5458613 ATTTCGACAC
*
5458623 ATATTAAAATATATAAAATT
1 ATATAAAAATAT-TAAAATT
*
5458643 ATATAAAAAGTATTAAACTT
1 ATATAAAAA-TATTAAAATT
5458663 ATATAAAAAT
1 ATATAAAAAT
5458673 CATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.85
21 3 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATAAAAATATTAAAATT
Found at i:5459271 original size:21 final size:21
Alignment explanation
Indices: 5459247--5459287 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5459237 CTTTACTAAA
5459247 TTTATAATATTT-ATAAGTTTT
1 TTTATAAT-TTTAATAAGTTTT
5459268 TTTATAATTTTAATAAGTTT
1 TTTATAATTTTAATAAGTTT
5459288 ATATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTATAATTTTAATAAGTTTT
Found at i:5461354 original size:16 final size:18
Alignment explanation
Indices: 5461328--5461360 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5461318 CTTAAAAATT
5461328 ATATAATTAAT-TTTTTA
1 ATATAATTAATATTTTTA
5461345 ATAT-ATTAATATTTTT
1 ATATAATTAATATTTTT
5461361 TAAAAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATAATTAATATTTTTA
Found at i:5463579 original size:14 final size:14
Alignment explanation
Indices: 5463557--5463592 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5463547 CATAGGTATC
5463557 TAAAAAAATGGAAA
1 TAAAAAAATGGAAA
* *
5463571 TAAATAAATGTAAA
1 TAAAAAAATGGAAA
5463585 TAAAAAAA
1 TAAAAAAA
5463593 AAGTAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAAAATGGAAA
Found at i:5463750 original size:23 final size:23
Alignment explanation
Indices: 5463722--5463766 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5463712 ATATATTTGG
5463722 ACTATA-AAATATACATAAAACAA
1 ACTATACAAATAT-CATAAAACAA
*
5463745 ACTATACAAATATTATAAAACA
1 ACTATACAAATATCATAAAACA
5463767 GAAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
ACTATACAAATATCATAAAACAA
Found at i:5465524 original size:88 final size:88
Alignment explanation
Indices: 5465322--5465996 Score: 825
Period size: 88 Copynumber: 7.6 Consensus size: 88
5465312 GGCGATAAGA
* * * ** * ** *
5465322 CTGGTGTCTTTGATCTACTTCGCTG-CAAGTACAGGAAGGCAAGATCTGCCATATTCAGTCTGCT
1 CTGGTATCTTCGATCTGCTTCGCTGTC-AGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACT
** * * **
5465386 CCACTGTA-AACCTAGGGAGGCAAAA
65 CCAC--TACTGCCCAGGGAGACAAGG
*
5465411 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTT-AACCTACT
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTAT-TTTCAACCTACT
* * *
5465475 CCACTACTGCCAAGAGAGGCAAGG
65 CCACTACTGCCCAGGGAGACAAGG
* *
5465499 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
5465564 CACTACTGCCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * *
5465587 CTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGTAAGATCTGTCATTTTCGACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
**
5465652 CACTACTGCCCAGGGAGATTAGG
66 CACTACTGCCCAGGGAGACAAGG
* *
5465675 CTGGTATCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
5465740 CACTACTGCCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * *
5465763 CTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGTAAGATCTGTCATTTTCGACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
**
5465828 CACTACTGCCCAGGGAGATTAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * * ** *
5465851 CTGGTATCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
* * ** *
5465916 CGCTGCAAACCCAGGGAGGCAAGG
66 CACTAC-TGCCCAGGGAGACAAGG
* * * *
5465940 CTGGTATCTTCAATCTGCTTCTCTGTTAGTACAGGAAGGCAAGATCTGTTATCTTCA
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCA
5465997 GTCTGCTCCG
Statistics
Matches: 512, Mismatches: 69, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
87 5 0.01
88 387 0.76
89 117 0.23
90 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
CACTACTGCCCAGGGAGACAAGG
Found at i:5465539 original size:44 final size:45
Alignment explanation
Indices: 5465403--5466009 Score: 120
Period size: 44 Copynumber: 13.8 Consensus size: 45
5465393 AAACCTAGGG
* * *
5465403 AGGCAA-AACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * ** * * * * * * * *
5465447 AGGCAAGATCTGTTATCTTTAACCTACTCCACT-ACTG-CCAAGAG
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTAC-AGAA
5465491 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * * * * * * * * * ** **
5465535 AGGCAAGATCTGCTATTTTCAACCTACTCCACT-ACTGCCCAGGG
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * *
5465579 AGACAAG-GCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * * * * * * * * ** **
5465623 AGGTAAGATCT-GTCATTTTCGACCTACTCCACT-ACTGCCCAGGG
1 AGGCAAGAGCTGGT-ATCTTCGATCTGCTTCGCTGTCAGTACAGAA
*** * *
5465667 AGATTAG-GCTGGTATCTTCGATCTGCTTCGTTGTCAGTACAGGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * * * * * * * * * ** **
5465711 AGGCAAGATCTGCTATTTTCAACCTACTCCACT-ACTGCCCAGGG
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * *
5465755 AGACAAG-GCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * * * * * * * * ** **
5465799 AGGTAAGATCT-GTCATTTTCGACCTACTCCACT-ACTGCCCAGGG
1 AGGCAAGAGCTGGT-ATCTTCGATCTGCTTCGCTGTCAGTACAGAA
*** *
5465843 AGATTAG-GCTGGTATCTTCGATCTGCTTCGTTGTCAGTACA-AGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGA-A
* * * * * **
5465887 AGGCAAGATCTGCTATATTC-AGTCTGCTCCGCTG-CA-AACCCAGGG
1 AGGCAAGAGCTGGTATCTTCGA-TCTGCTTCGCTGTCAGTA--CAGAA
* * * *
5465932 AGGCAAG-GCTGGTATCTTCAATCTGCTTCTCTGTTAGTACAGGA
1 AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
* * *
5465976 AGGCAAGATCTGTTATCTTC-AGTCTGCTCCGCTG
1 AGGCAAGAGCTGGTATCTTCGA-TCTGCTTCGCTG
5466010 CAAACTCAGG
Statistics
Matches: 373, Mismatches: 163, Indels: 53
0.63 0.28 0.09
Matches are distributed among these distances:
43 83 0.22
44 156 0.42
45 133 0.36
46 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (45 bp):
AGGCAAGAGCTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGAA
Found at i:5465937 original size:45 final size:45
Alignment explanation
Indices: 5465885--5466027 Score: 144
Period size: 45 Copynumber: 3.2 Consensus size: 45
5465875 GTCAGTACAA
* *
5465885 GAAGGCAAGATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAG
1 GAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAG
* * * * * * ** **
5465930 GGAGGCAAG-GCTGGTATCTTCAATCTGCTTCTCTGTTAGTACAG
1 GAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAG
* *
5465974 GAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGCAAACTCAG
1 GAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAG
*
5466019 GAAAGCAAG
1 GAAGGCAAG
5466028 GCTGAAGTTT
Statistics
Matches: 73, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
44 32 0.44
45 41 0.56
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (45 bp):
GAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAG
Found at i:5467306 original size:15 final size:15
Alignment explanation
Indices: 5467286--5467332 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
5467276 CCTTAGCCTC
5467286 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
5467301 TCCATTTTT-CATTTT
1 TCCATTTTTAC-TTTT
* *
5467316 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
5467331 TC
1 TC
5467333 ACATCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:5467346 original size:30 final size:29
Alignment explanation
Indices: 5467289--5467347 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
5467279 TAGCCTCTCC
5467289 ATTTTTACTTTTTCCATTTTTCATTTTTCT
1 ATTTTTACTTTTTCCATTTTT-ATTTTTCT
* *
5467319 ATTTTTATTTTTTCACATCTTTTTTTTTT
1 ATTTTTACTTTTTC-CAT-TTTTATTTTT
5467348 GCAACTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 8 0.32
32 4 0.16
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (29 bp):
ATTTTTACTTTTTCCATTTTTATTTTTCT
Found at i:5467842 original size:18 final size:17
Alignment explanation
Indices: 5467813--5467921 Score: 62
Period size: 17 Copynumber: 6.4 Consensus size: 17
5467803 CCCAGCGGGG
5467813 TTTTTTCTTTTTCTCTT
1 TTTTTTCTTTTTCTCTT
*
5467830 TTTTTTCTGTTTTTTCTT
1 TTTTTTCT-TTTTCTCTT
* ** *
5467848 CTTTTTC-CCTCCT-TT
1 TTTTTTCTTTTTCTCTT
* * *
5467863 TTTTTTGTTTTTGTGTT
1 TTTTTTCTTTTTCTCTT
* * *
5467880 TTGTTT-TTGTTCTTTT
1 TTTTTTCTTTTTCTCTT
5467896 TTTCTTTCTTTTTTCCTCTT
1 TTT-TTTC-TTTTT-CTCTT
5467916 TTTTTT
1 TTTTTT
5467922 TTGAATTGAA
Statistics
Matches: 66, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
15 7 0.11
16 13 0.20
17 18 0.27
18 14 0.21
19 7 0.11
20 7 0.11
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTCTCTT
Found at i:5467852 original size:9 final size:8
Alignment explanation
Indices: 5467813--5467907 Score: 50
Period size: 9 Copynumber: 10.8 Consensus size: 8
5467803 CCCAGCGGGG
5467813 TTTTTTCT
1 TTTTTTCT
*
5467821 TTTTCTCTT
1 TTTTTTC-T
5467830 TTTTTTCT
1 TTTTTTCT
5467838 GTTTTTTCT
1 -TTTTTTCT
5467847 TCTTTTTCCCT
1 T-TTTTT--CT
5467858 CCTTTTTT-T
1 --TTTTTTCT
5467867 TTGTTTT-T
1 TT-TTTTCT
* *
5467875 GTGTTTTGT
1 -TTTTTTCT
5467884 TTTTGTTCT
1 TTTT-TTCT
5467893 TTTTTTCT
1 TTTTTTCT
5467901 TTCTTTT
1 TT-TTTT
5467908 TTCCTCTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 23
0.71 0.05 0.23
Matches are distributed among these distances:
7 2 0.03
8 26 0.37
9 34 0.49
11 2 0.03
12 5 0.07
13 1 0.01
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:5467873 original size:29 final size:29
Alignment explanation
Indices: 5467812--5467874 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
5467802 CCCCAGCGGG
* *
5467812 GTTTTTTCTTTTTCTCTTTTTTTTCTGTT
1 GTTTTTTCTTTTTCCCTCTTTTTTCTGTT
5467841 -TTTTCTTCTTTTTCCCTCCTTTTTT-T-TT
1 GTTTT-TTCTTTTTCCCT-CTTTTTTCTGTT
5467869 GTTTTT
1 GTTTTT
5467875 GTGTTTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
28 7 0.24
29 16 0.55
30 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (29 bp):
GTTTTTTCTTTTTCCCTCTTTTTTCTGTT
Done.