Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 202 of 335
Found at i:60188767 original size:27 final size:27
Alignment explanation
Indices: 60188737--60188880 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
60188727 GGTAAAATGG
* * * *
60188737 TAATTTTACCCAACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
60188764 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
60188791 TAATTCTATCCTACAGGGGTATTTCTG-
1 TAATTCTACCCTACAGGGGTATTTC-GA
*
60188818 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
60188845 TAATTCTATCCTACAGGAGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
60188872 TAATTCTAC
1 TAATTCTAC
60188881 AACTTATCCA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.99
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:60191123 original size:20 final size:20
Alignment explanation
Indices: 60191049--60191111 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
60191039 ATACGTGGGA
60191049 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
*
60191066 ATATGTTATGCACATGATATG
1 -TATGATATGCACATGATATG
60191087 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
60191107 TATGA
1 TATGA
60191112 AGTGCTCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.17
20 31 0.77
21 2 0.05
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:60191207 original size:26 final size:26
Alignment explanation
Indices: 60191174--60191309 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
60191164 GAGGAAGTGC
60191174 AAAA-GGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
60191199 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
60191225 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
60191251 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
60191276 AAAAGGGCTT-TGCCCAAG-TTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
60191300 AAAAGAGGCT
1 AAAAG-GGCT
60191310 AGGCATCTAG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.08
25 38 0.39
26 51 0.53
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:60191251 original size:52 final size:51
Alignment explanation
Indices: 60191174--60191309 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
60191164 GAGGAAGTGC
*
60191174 AAAA-GGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
60191225 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
* *
60191276 AAAAGGGCTT-TGCCCAAG-TTATTAAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
60191310 AGGCATCTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
49 10 0.12
50 11 0.14
51 28 0.35
52 31 0.39
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:60199497 original size:25 final size:25
Alignment explanation
Indices: 60199452--60199535 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
60199442 GAGGAAGTGC
*
60199452 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
**
60199478 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
60199503 AAAAGGGTTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
60199526 AAAAGAGGCT
1 AAAAG-GGCT
60199536 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.10
24 6 0.12
25 29 0.58
26 10 0.20
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:60206288 original size:30 final size:30
Alignment explanation
Indices: 60206254--60206351 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
60206244 AGCTCACTCC
60206254 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
60206284 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
60206314 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
60206344 TAGCTCAT
1 TAGCTCAT
60206352 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:60214516 original size:12 final size:13
Alignment explanation
Indices: 60214499--60214533 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
60214489 ATAAATCACT
60214499 TTTTTTTTTC-GA
1 TTTTTTTTTCGGA
60214511 TTTTTTTTTCGGA
1 TTTTTTTTTCGGA
60214524 TTTTTTTTTC
1 TTTTTTTTTC
60214534 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCGGA
Found at i:60214516 original size:13 final size:14
Alignment explanation
Indices: 60214498--60214532 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
60214488 CATAAATCAC
60214498 TTTTTTTTTTC-GA
1 TTTTTTTTTTCGGA
60214511 -TTTTTTTTTCGGA
1 TTTTTTTTTTCGGA
60214524 TTTTTTTTT
1 TTTTTTTTT
60214533 CAAACTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.50
13 2 0.10
14 8 0.40
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTCGGA
Found at i:60216147 original size:21 final size:22
Alignment explanation
Indices: 60216121--60216164 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
60216111 AAACGAGCTC
60216121 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
60216142 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
60216164 G
1 G
60216165 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:60216996 original size:27 final size:26
Alignment explanation
Indices: 60216966--60217025 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60216956 GTGAGGCTGC
*
60216966 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60216993 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
60217019 CAGATAT
1 CAGATAT
60217026 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60217802 original size:27 final size:27
Alignment explanation
Indices: 60217772--60217887 Score: 96
Period size: 27 Copynumber: 4.3 Consensus size: 27
60217762 GGCAAAATGG
* *
60217772 TAATTTTATCCCACAAGGGTATCTCGA
1 TAATTCTATCCCACAGGGGTATCTCGA
* *
60217799 TAATTCTA-CCCTACAGGGGTATTTCGG
1 TAATTCTATCCC-ACAGGGGTATCTCGA
* *
60217826 TAATTCTATCCTACAGGGGTATTTC-A
1 TAATTCTATCCCACAGGGGTATCTCGA
* *
60217852 GTAATTCTA-CCCTACAGGAGTATTTC-A
1 -TAATTCTATCCC-ACAGGGGTATCTCGA
60217879 GTAATTCTA
1 -TAATTCTA
60217888 CAACTTATCC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.06
27 70 0.91
28 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTATCCCACAGGGGTATCTCGA
Found at i:60217836 original size:54 final size:54
Alignment explanation
Indices: 60217770--60217887 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
60217760 GGGGCAAAAT
* *
60217770 GGTAATTTTATCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTATCCCACAAGGGTATCTCAG-TAATTCTACCCTACAGGAGTATTTC
* * *
60217824 GGTAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTATCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGAGTATTTC
*
60217878 AGTAATTCTA
1 GGTAATTCTA
60217888 CAACTTATCC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTATCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGAGTATTTC
Found at i:60217888 original size:27 final size:27
Alignment explanation
Indices: 60217799--60217888 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
60217789 GGTATCTCGA
*
60217799 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
60217826 TAATTCTATCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
60217853 TAATTCTACCCTACAGGAGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
60217880 TAATTCTAC
1 TAATTCTAC
60217889 AACTTATCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:60222976 original size:53 final size:54
Alignment explanation
Indices: 60222798--60223004 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
60222788 ATTAGGGTTT
* *
60222798 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTACAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * * *
60222852 AAGGAAATCAAGTAAGACCATGTCAAGACATGCCATTGATAAACTACTATAAGAC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
60222907 AACGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
60222960 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
60223005 TAAAAAAAAA
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 40 0.33
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:60228081 original size:26 final size:24
Alignment explanation
Indices: 60228047--60228105 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
60228037 CTTTTTCATC
*
60228047 TTCTTTTTCACTCTCAAATTTCTTT
1 TTCTTTTTCAATCTC-AATTTCTTT
*
60228072 TCTCTTTTTCAATCTCATTTTCTTT
1 T-TCTTTTTCAATCTCAATTTCTTT
60228097 TTCTTTTTC
1 TTCTTTTTC
60228106 TTTTTGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 8 0.26
25 10 0.32
26 13 0.42
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (24 bp):
TTCTTTTTCAATCTCAATTTCTTT
Found at i:60228110 original size:7 final size:6
Alignment explanation
Indices: 60228065--60228116 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
60228055 CACTCTCAAA
** * *
60228065 TTTCTT TTCTCTT TTTCAA TCTCAT TTTCTT TTTCTT TTTCTT TTTGCTT
1 TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT-CTT
60228115 TT
1 TT
60228117 CAAAGGCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
6 27 0.71
7 11 0.29
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:60228128 original size:12 final size:12
Alignment explanation
Indices: 60228113--60228143 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60228103 TTCTTTTTGC
60228113 TTTTCAAAGGCT
1 TTTTCAAAGGCT
*
60228125 TTTTTAAAGGCT
1 TTTTCAAAGGCT
60228137 TTTTCAA
1 TTTTCAA
60228144 GTTCTCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:60228227 original size:15 final size:15
Alignment explanation
Indices: 60228204--60228251 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
60228194 TTTCTTTTTA
60228204 TTTCATTCTTTTTCTT
1 TTTC-TTCTTTTTCTT
*
60228220 TTTCTTCTTTTGCTT
1 TTTCTTCTTTTTCTT
*
60228235 TTTCTTTTCTTTTCTT
1 TTTCTTCT-TTTTCTT
60228251 T
1 T
60228252 GTTTTCTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTCTTCTTTTTCTT
Found at i:60228237 original size:7 final size:6
Alignment explanation
Indices: 60228193--60228251 Score: 50
Period size: 6 Copynumber: 9.3 Consensus size: 6
60228183 CTTGCCTCTC
*
60228193 TTTTCT TTTTAT TTCATTCT TTTTCT TTTTCTT CTTTTGCT TTTTC- TTTTC-
1 TTTTCT TTTTCT TT--TTCT TTTTCT TTTTC-T -TTTT-CT TTTTCT TTTTCT
60228244 TTTTCT TT
1 TTTTCT TT
60228252 GTTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 10 0.22
6 19 0.42
7 5 0.11
8 10 0.22
9 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:60228252 original size:21 final size:20
Alignment explanation
Indices: 60228193--60228262 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
60228183 CTTGCCTCTC
*
60228193 TTTTCTTTTTATTTCATT-CT
1 TTTTCTTTTT-TTTCTTTGCT
*
60228213 TTTTCTTTTTCTTCTTTTGCT
1 TTTTCTTTTTTTTC-TTTGCT
60228234 TTTTCTTTTCTTTTCTTTG-T
1 TTTTCTTTT-TTTTCTTTGCT
60228254 TTTCTCTTT
1 TTT-TCTTT
60228263 ACAAGAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.07
20 16 0.37
21 20 0.47
22 4 0.09
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTTGCT
Found at i:60230872 original size:30 final size:30
Alignment explanation
Indices: 60230787--60230883 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
60230777 TAAACTAAAA
* *
60230787 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
60230817 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
60230847 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
60230876 ATGAGCTA
1 -TGAGCTA
60230884 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:60241798 original size:25 final size:22
Alignment explanation
Indices: 60241744--60241798 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
60241734 TTTCGGCTAG
60241744 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
60241766 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
60241791 AGGAAGAA
1 A-GAAGAA
60241799 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:60243822 original size:55 final size:53
Alignment explanation
Indices: 60243758--60243886 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 53
60243748 AGGAAATCAT
* *
60243758 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCACAG-ATCCCAC
1 GTAAGACCATGTCAAGACATGGCAATGAT-AACT-CTATAAGGCA-AGCATACCAC
* * * * * *
60243813 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTTATAAGGCAAGCATACCAC
1 GTAAGACCATGTCAAGACATGGCAATGATAACTCTATAAGGCAAGCATACCAC
*
60243866 ATAAGACCATGTCAAGACATG
1 GTAAGACCATGTCAAGACATG
60243887 AAAATGGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 33 0.53
54 2 0.03
55 25 0.40
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCAATGATAACTCTATAAGGCAAGCATACCAC
Found at i:60243874 original size:53 final size:53
Alignment explanation
Indices: 60243794--60243901 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
60243784 GATAAACTAC
* * * ** *
60243794 TATAAGGCACAGATCCCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTT
1 TATAAGGCACAGATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
*
60243847 TATAAGGCA-AGCATACCACATAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 TATAAGGCACAG-ATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
60243900 TA
1 TA
60243902 GAAAGGAAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (53 bp):
TATAAGGCACAGATACCACATAAGACCATGCCAAGACATGAAAATGGTAAGTT
Found at i:60247200 original size:10 final size:10
Alignment explanation
Indices: 60247185--60247211 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
60247175 TAAGTTGAAG
60247185 TTGAGCTGAT
1 TTGAGCTGAT
60247195 TTGAGCTGAT
1 TTGAGCTGAT
60247205 TTGAGCT
1 TTGAGCT
60247212 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:60252383 original size:12 final size:13
Alignment explanation
Indices: 60252366--60252399 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
60252356 ATAAATCACT
60252366 TTTTTTTTTCG-A
1 TTTTTTTTTCGAA
60252378 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
60252390 TTTTTTTTTC
1 TTTTTTTTTC
60252400 AAACTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:60254029 original size:10 final size:10
Alignment explanation
Indices: 60254014--60254040 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
60254004 TAAGTTGAAG
60254014 TTGAGCTGAT
1 TTGAGCTGAT
60254024 TTGAGCTGAT
1 TTGAGCTGAT
60254034 TTGAGCT
1 TTGAGCT
60254041 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:60254795 original size:118 final size:118
Alignment explanation
Indices: 60254587--60254817 Score: 462
Period size: 118 Copynumber: 2.0 Consensus size: 118
60254577 CAAGCTTATA
60254587 TGAATTTTCATTGATTCGCTCGATGACTTGGAAGGGGCCGTCTCCTCGCGGCAACAACTTAGATC
1 TGAATTTTCATTGATTCGCTCGATGACTTGGAAGGGGCCGTCTCCTCGCGGCAACAACTTAGATC
60254652 TTCGTTGAGCTGGAAACCTTTCTTTTCTCATGTGCACCCAGACCCAGTCTCCG
66 TTCGTTGAGCTGGAAACCTTTCTTTTCTCATGTGCACCCAGACCCAGTCTCCG
60254705 TGAATTTTCATTGATTCGCTCGATGACTTGGAAGGGGCCGTCTCCTCGCGGCAACAACTTAGATC
1 TGAATTTTCATTGATTCGCTCGATGACTTGGAAGGGGCCGTCTCCTCGCGGCAACAACTTAGATC
60254770 TTCGTTGAGCTGGAAACCTTTCTTTTCTCATGTGCACCCAGACCCAGT
66 TTCGTTGAGCTGGAAACCTTTCTTTTCTCATGTGCACCCAGACCCAGT
60254818 TGGGTTCAAT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (118 bp):
TGAATTTTCATTGATTCGCTCGATGACTTGGAAGGGGCCGTCTCCTCGCGGCAACAACTTAGATC
TTCGTTGAGCTGGAAACCTTTCTTTTCTCATGTGCACCCAGACCCAGTCTCCG
Found at i:60259540 original size:11 final size:11
Alignment explanation
Indices: 60259526--60259567 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
60259516 TTATTTTTTT
60259526 ATTTTTTTCGA
1 ATTTTTTTCGA
60259537 ATTTTTTTCGA
1 ATTTTTTTCGA
* *
60259548 TTTTTTTTTGAA
1 ATTTTTTTCG-A
60259560 ATTTTTTT
1 ATTTTTTT
60259568 AACTTGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (11 bp):
ATTTTTTTCGA
Found at i:60261735 original size:40 final size:40
Alignment explanation
Indices: 60261712--60261974 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
60261702 CACACCCACG
* * *
60261712 AATGCCCTCGGGTCTTAGCCCGGATATAACGACTTGCACA
1 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
60261752 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
1 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
60261792 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
1 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
60261832 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
1 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
* *
60261872 AATGCCTTCGGGTATTAGCCCGGATATAGTC-ACTAGCACA
1 AATGCCTTCGGGTATTAGCCCGGATATA-ACAACTTGCACA
* * * ** * *
60261912 ATTGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATA
1 AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
*
60261952 AATGTCTTCGGG-ACTTAGCCCGG
1 AATGCCTTCGGGTA-TTAGCCCGG
60261975 GTATCATTCA
Statistics
Matches: 205, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
40 204 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACA
Found at i:60262162 original size:123 final size:123
Alignment explanation
Indices: 60261943--60262281 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
60261933 GGATATAATT
* * * * * * **
60261943 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
*
60262008 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
60262066 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
60262131 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
60262189 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
60262254 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
60262282 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:60269141 original size:40 final size:39
Alignment explanation
Indices: 60269076--60269278 Score: 212
Period size: 40 Copynumber: 5.1 Consensus size: 39
60269066 CGGAATACAA
** * * * *
60269076 CCGGATATAACCACACGCACGAATGCCCTCAGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTATTAGC
60269116 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAGC
60269156 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAGC
* * * *
60269196 CCGGATATATACACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTATTAGC
* * * *
60269236 CC-GATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTA-TTAGC
60269275 CCGG
1 CCGG
60269279 GTATCATTCA
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.22
40 107 0.76
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:60269466 original size:123 final size:123
Alignment explanation
Indices: 60269247--60269585 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
60269237 CGATATAATT
* * * * * * **
60269247 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
*
60269312 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
60269370 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
60269435 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
60269493 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
60269558 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
60269586 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:60273724 original size:27 final size:28
Alignment explanation
Indices: 60273668--60273737 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
60273658 AAATTTGTGC
*
60273668 AGCACCAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
60273696 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
60273723 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60273738 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:60273748 original size:27 final size:27
Alignment explanation
Indices: 60273692--60273749 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
60273682 GAGTTTGATC
* * *
60273692 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
60273719 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
60273746 ATAT
1 ATAT
60273750 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:60295294 original size:67 final size:64
Alignment explanation
Indices: 60295161--60295340 Score: 177
Period size: 64 Copynumber: 2.8 Consensus size: 64
60295151 AGTTCGACTT
* * * * * * * *
60295161 TCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCT
1 TCTTGT-CTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACA-TATATCCCGTAGCC
60295223 C
64 C
* * * *
60295224 TCTTGTCTACATGGTGTCCTTCACCTGGAATCACGCATGCGACCTAGCTACATATATCCCGTAGC
1 TCTTGTCTACATGGTG---TACACATAGAATCACCCATGCGACCTAGCTACATATATCCCGTAGC
60295289 CC
63 CC
*
60295291 TCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 TCTTGTCTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACAT
60295341 CATAATGTCT
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 14 0.15
64 29 0.31
66 21 0.22
67 28 0.29
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
TCTTGTCTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATATATCCCGTAGCCC
Found at i:60297173 original size:27 final size:27
Alignment explanation
Indices: 60297071--60297174 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 27
60297061 AATACTTTAG
* *
60297071 TTTACTAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
* ** * *
60297098 CTTGTAAAATTACCT-AAGTACCCCCGA
1 TTTACAAAATTA-CTGAAATACCCTCGA
* ***
60297125 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
*
60297152 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACTGAAATACCC
60297175 ATGTAGGGTA
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 1 0.02
27 53 0.95
28 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTCGA
Found at i:60297189 original size:27 final size:27
Alignment explanation
Indices: 60297159--60297299 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
60297149 CGATTTACAA
* *
60297159 AATTATTGAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
60297186 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
60297213 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
60297240 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
60297267 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
60297294 AATTAC
1 AATTAC
60297300 CATTTGGCCC
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:60297217 original size:54 final size:54
Alignment explanation
Indices: 60297159--60297300 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
60297149 CGATTTACAA
* * **
60297159 AATTATTGAAATACCCATGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
60297213 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
60297267 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
60297301 ATTTGGCCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:60297866 original size:22 final size:22
Alignment explanation
Indices: 60297814--60297867 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
60297804 GCCAATTATT
60297814 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGCGCCAAC
* *
60297836 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGCGCCAAC
60297858 CTGATTATGG
1 CTGATTATGG
60297868 TTGTGTACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGCGCCAAC
Found at i:60298163 original size:6 final size:6
Alignment explanation
Indices: 60298152--60298189 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
60298142 ATTTTGTCAC
* *
60298152 CTGATT CTGATT CTGATT CTGATT CTCATT TTGATT CT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CT
60298190 AGTTCCGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (6 bp):
CTGATT
Found at i:60301428 original size:12 final size:12
Alignment explanation
Indices: 60301411--60301435 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60301401 CCTAATTTGA
60301411 TACGTAGCCTAT
1 TACGTAGCCTAT
60301423 TACGTAGCCTAT
1 TACGTAGCCTAT
60301435 T
1 T
60301436 GCTACTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TACGTAGCCTAT
Found at i:60311243 original size:30 final size:30
Alignment explanation
Indices: 60311209--60311306 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
60311199 AGCTCACTCC
60311209 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
60311239 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
60311269 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
60311299 TAGCTCAT
1 TAGCTCAT
60311307 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:60316731 original size:2 final size:2
Alignment explanation
Indices: 60316724--60316777 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
60316714 TCAAATTTTA
* *
60316724 AT AT AT AT -T AT AG AT AT AG AT CAT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
*
60316765 AT A- AA AT AT AT AT
1 AT AT AT AT AT AT AT
60316778 TAGTAGATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
1 3 0.07
2 38 0.88
3 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:60317193 original size:52 final size:52
Alignment explanation
Indices: 60317130--60317235 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
60317120 GATGCACCGT
*
60317130 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGATATA
1 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGACATA
60317182 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGACATA
1 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGACATA
60317234 TC
1 TC
60317236 ATCATTAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (52 bp):
TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGACATA
Found at i:60322979 original size:26 final size:26
Alignment explanation
Indices: 60322950--60323000 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
60322940 GTGTCGAAAC
*
60322950 ATATTTCTCTTTTCTTTCTTCCCTTT
1 ATATTTCTCTTTTCATTCTTCCCTTT
*
60322976 ATATTTCTGTTTTCATTCTTCCCTT
1 ATATTTCTCTTTTCATTCTTCCCTT
60323001 CTAAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.25, G:0.02, T:0.63
Consensus pattern (26 bp):
ATATTTCTCTTTTCATTCTTCCCTTT
Found at i:60326138 original size:27 final size:27
Alignment explanation
Indices: 60326108--60326159 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
60326098 TTGGAGGAAG
60326108 TACTGTACTAGTGGCTTTGCCACGTTT
1 TACTGTACTAGTGGCTTTGCCACGTTT
* *
60326135 TACTGTTCTGGTGGCTTTGCCACGT
1 TACTGTACTAGTGGCTTTGCCACGT
60326160 ATTTTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (27 bp):
TACTGTACTAGTGGCTTTGCCACGTTT
Found at i:60326426 original size:33 final size:35
Alignment explanation
Indices: 60326380--60326445 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
60326370 CTATCACTAT
* *
60326380 ATAGGGCTTAGGCCCAGACTG-TACTGT-TACTGA
1 ATAGGGCTCAGGCCCAGACCGATACTGTATACTGA
*
60326413 ATAGGGCTCAGGCCTAGACCGATACTGTATACT
1 ATAGGGCTCAGGCCCAGACCGATACTGTATACT
60326446 TTGGTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 18 0.64
34 6 0.21
35 4 0.14
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (35 bp):
ATAGGGCTCAGGCCCAGACCGATACTGTATACTGA
Found at i:60327471 original size:23 final size:23
Alignment explanation
Indices: 60327445--60327503 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
60327435 TAAACACCAC
*
60327445 ATGGTGTGTAGGGATGGTCAGAT
1 ATGGTGTGTAGGGATGGTCAGAG
*
60327468 ATGGTGTGTAGGGATGGTCGGAG
1 ATGGTGTGTAGGGATGGTCAGAG
60327491 ATGGTGTGTAGGG
1 ATGGTGTGTAGGG
60327504 GCTAGGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.19, C:0.03, G:0.49, T:0.29
Consensus pattern (23 bp):
ATGGTGTGTAGGGATGGTCAGAG
Found at i:60327593 original size:35 final size:35
Alignment explanation
Indices: 60327542--60327611 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
60327532 CTGACTCCAT
**
60327542 ATCTGTATCTGTATCTG-AGATGGGCTAAGGCCCAA
1 ATCTGTATCTAAATCTGTA-ATGGGCTAAGGCCCAA
*
60327577 ATCTGTATCTAAATCTGTAATGGGCTTAGGCCCAA
1 ATCTGTATCTAAATCTGTAATGGGCTAAGGCCCAA
60327612 GACTGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (35 bp):
ATCTGTATCTAAATCTGTAATGGGCTAAGGCCCAA
Found at i:60331435 original size:40 final size:40
Alignment explanation
Indices: 60331380--60331602 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
60331370 GCCACTAGCT
* * * *
60331380 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
* * *
60331420 CAAATGCCTTTGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
*
60331459 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
* * *
60331499 CGAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
* * *
60331539 CGAATGCCTTCGGGAGTTAGCCCAGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
*
60331579 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
60331603 AAATTAGCCA
Statistics
Matches: 166, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.20
40 132 0.80
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
Found at i:60331625 original size:40 final size:39
Alignment explanation
Indices: 60331347--60331643 Score: 287
Period size: 40 Copynumber: 7.5 Consensus size: 39
60331337 AAACCAAGTA
** * * *
60331347 CCTTCGGGGTTTAG-CCGGATATAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* * *
60331386 CCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* * *
60331426 CCTTTGGGACTTAGCCCGG-TATAATAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* *
60331465 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAACG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
* *
60331505 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGTACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
* * *
60331545 CCTTCGGGAGTTAGCCCAGATATAGTAGCTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
* * * *
60331585 CCTTCGGGACTTAGCCC-GAAATTAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAG-TACTCGCACAAATG
60331625 -CTCTCGGGACTTAGCCCGG
1 CCT-TCGGGACTTAGCCCGG
60331644 TTATCATCCG
Statistics
Matches: 224, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
39 52 0.23
40 170 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:60339598 original size:40 final size:40
Alignment explanation
Indices: 60339546--60339810 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
60339536 GCCACTAGCT
* *
60339546 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
60339586 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
60339625 CCAAATGCCTTCGGGACTTAGCCC-G-AATAGT-ACTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
60339663 -AAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
60339702 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
60339742 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
60339782 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
60339811 CATCCGAACA
Statistics
Matches: 199, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
36 21 0.11
37 1 0.01
38 12 0.06
39 25 0.13
40 139 0.70
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60339712 original size:116 final size:116
Alignment explanation
Indices: 60339551--60339765 Score: 351
Period size: 116 Copynumber: 1.9 Consensus size: 116
60339541 TAGCTCAAAT
* * *
60339551 GCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG-TATA
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
60339615 ATAACTCGCACCAAATGCCTTCGGGACTTAGCCCGAATAGTACTCGCAAAAC
66 ATAACTCGCA-CAAATGCCTTCGGGACTTAGCCCGAATAGTACTCGCAAAAC
*
60339667 GCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* * *
60339732 GTAGCTCGCACGAATGCCTTCGGGACTTAGCCCG
66 ATAACTCGCACAAATGCCTTCGGGACTTAGCCCG
60339766 GAATTAGCCA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
116 79 0.87
117 12 0.13
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (116 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
ATAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATAGTACTCGCAAAAC
Found at i:60354654 original size:56 final size:56
Alignment explanation
Indices: 60354580--60354694 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 56
60354570 TCCTAGACAA
* * * *
60354580 GGTCTTACTTGTAAACACATATCGGAATCACCTATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGT
* *
60354636 GGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGT
60354692 GGT
1 GGT
60354695 TTTGTAACGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:60364037 original size:49 final size:49
Alignment explanation
Indices: 60363965--60364068 Score: 208
Period size: 49 Copynumber: 2.1 Consensus size: 49
60363955 TCTTGATCTA
60363965 TAATACCAAATTAATTTTATTTAATACATACATTCATCAAAACAGCCCC
1 TAATACCAAATTAATTTTATTTAATACATACATTCATCAAAACAGCCCC
60364014 TAATACCAAATTAATTTTATTTAATACATACATTCATCAAAACAGCCCC
1 TAATACCAAATTAATTTTATTTAATACATACATTCATCAAAACAGCCCC
60364063 TAATAC
1 TAATAC
60364069 GAACTTTGGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (49 bp):
TAATACCAAATTAATTTTATTTAATACATACATTCATCAAAACAGCCCC
Found at i:60365452 original size:43 final size:43
Alignment explanation
Indices: 60365361--60365491 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 43
60365351 CCGAATTCAT
* * * *
60365361 TCACTGGCATTTCGCCTACTAGGCTTGAACGCCTAAATAGTATC
1 TCACCGGCATTTAGCCTACTAGGCTCGAACGCC-GAATAGTATC
* *
60365405 TCACCGGCATTTTGCCTGCTAGGCTCGAA-GTCCGAATAGTATC
1 TCACCGGCATTTAGCCTACTAGGCTCGAACG-CCGAATAGTATC
* * *
60365448 TCACCAGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATT-TAGCCTACTAGGCTCGAACG-CCGAATAGTAT
60365492 TGTGCGATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 20 0.27
44 42 0.57
45 12 0.16
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTTAGCCTACTAGGCTCGAACGCCGAATAGTATC
Found at i:60373247 original size:79 final size:79
Alignment explanation
Indices: 60373053--60373276 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
60373043 TCGAATGATG
* * *
60373053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
* *
60373117 CGTGCGAGTTACTAAT
64 TGTGCGAGTTACTAAA
*
60373133 TCCGGGCTAAGT-CCGAAGGCATTCGTGCAAGTTACTA-ATTCCGGGCTAAGTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATTT
*
60373196 GTGTGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * * * *
60373211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTT
60373276 G
65 G
60373277 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 58 0.46
80 32 0.25
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:60373283 original size:40 final size:40
Alignment explanation
Indices: 60373053--60373276 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
60373043 TCGAATGATG
* * *
60373053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
60373093 TCCGGACTAAGAT-CCGAAGGCATCCGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
60373133 TCCGGGCTAAGT-CCGAAGGCATTCGTGCAAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60373172 TCCGGGCTAAGT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60373211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
60373252 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60373277 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 72 0.45
40 81 0.50
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60373298 original size:79 final size:78
Alignment explanation
Indices: 60373053--60373309 Score: 218
Period size: 79 Copynumber: 3.2 Consensus size: 78
60373043 TCGAATGATG
* * * *
60373053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGT-CCGAAGGCATTCGTGC-AAGTTACTAATA-CCGGGCTAAG-TCCGAAGGCAT
** ** *
60373116 CCGTGCGAGTTACTAAT
62 TTGAACGAGTTACTAAA
* * *
60373133 TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTACTAATTCCGGGCTAAGTCCGAAGGCATTTGT
1 TCCGGGTTAAGTCCGAAGGCATTCGTGCAAGTTACTAATACCGGGCTAAGTCCGAAGGCATTTGA
**
60373198 GTGAGTTACTAAA
66 ACGAGTTACTAAA
* * * *
60373211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGT-CCGAAGGCATTCGTGCAAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATT
*
60373275 TGAACGAG-TAGCTATA
63 TGAACGAGTTA-CTAAA
*
60373291 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTT-AAGTCCGAAGG
60373310 TACGTGATTC
Statistics
Matches: 151, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 37 0.25
79 68 0.45
80 46 0.30
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCGAAGGCATTCGTGCAAGTTACTAATACCGGGCTAAGTCCGAAGGCATTTGA
ACGAGTTACTAAA
Found at i:60375447 original size:88 final size:88
Alignment explanation
Indices: 60375277--60375490 Score: 290
Period size: 88 Copynumber: 2.4 Consensus size: 88
60375267 TTCATTCATT
* * *
60375277 GGCATTTCGCCTCCTAGGCTCGAAGCCCG-ATA-TCATTTCACCGGCATTATAGCCTGCTAGGCT
1 GGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGT-ATCTCACCGGCATTATAGCCTGCTAGGCG
60375340 CGAAAGCCCAAATAATATCTCACC
65 CGAAAGCCCAAATAATATCTCACC
*
60375364 GGCATTTCGCCTGCTAGGCTCGAAGCCTGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCGC
1 GGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCGC
* * *
60375429 -AAAGGCCCGAATAGTATCTCACT
66 GAAA-GCCCAAATAATATCTCACC
* *
60375452 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 GGCATT-TCGCCTGCTAGGCTCGAA-GCCCGAATAGTAT
60375491 TGTGCGATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
87 30 0.27
88 53 0.47
89 17 0.15
90 12 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (88 bp):
GGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCGC
GAAAGCCCAAATAATATCTCACC
Found at i:60375487 original size:45 final size:44
Alignment explanation
Indices: 60375277--60375490 Score: 265
Period size: 45 Copynumber: 4.9 Consensus size: 44
60375267 TTCATTCATT
* * * *
60375277 GGCATT-TCGCCTCCTAGGCTCGAAGCCCG-ATA-TCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACC
* *
60375319 GGCATTATAGCCTGCTAGGCTCGAAAGCCCAAATAATATCTCACC
1 GGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATCTCACC
* * *
60375364 GGCATT-TCGCCTGCTAGGCTCGAAGCCTGAATAGTATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACC
* *
60375407 GGCATTATAGCCTGCTAGGCGCAAAGGCCCGAATAGTATCTCACT
1 GGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACC
60375452 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 GGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTAT
60375491 TGTGCGATAT
Statistics
Matches: 150, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
42 6 0.04
43 37 0.25
44 35 0.23
45 71 0.47
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
GGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACC
Found at i:60376865 original size:56 final size:56
Alignment explanation
Indices: 60376750--60376923 Score: 197
Period size: 56 Copynumber: 3.1 Consensus size: 56
60376740 GGATATTACA
* * * *
60376750 GTCTTACTCACACACGCATATCGTAA-CATATATCGATGCCAACGTAGTAAATGTG
1 GTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTAGTAAACGTG
* * * *
60376805 GTCTTACTCACACACACATATCGGAATTACATATCGATGCCAATGTATTAAACGTG
1 GTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTAGTAAACGTG
** * * * ***
60376861 GTCTTACTTGCACACACATATCAAAATCACATATCGATGGCAACATCCCAAACGTG
1 GTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTAGTAAACGTG
60376917 GTCTTAC
1 GTCTTAC
60376924 ACGTAATCAC
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
55 24 0.24
56 76 0.76
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
GTCTTACTCACACACACATATCGAAATCACATATCGATGCCAACGTAGTAAACGTG
Found at i:60376959 original size:43 final size:43
Alignment explanation
Indices: 60376885--60377026 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
60376875 CACATATCAA
* *
60376885 AATCACATATCGATGGCAACATCCCAA-ACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGT-CCAAGACGTGGTCTTACACGT
*
60376928 AATCACATATCGATGCCAACGTCCAAGACGTGGTCTTACACGG
1 AATCACATATCGATGCCAACGTCCAAGACGTGGTCTTACACGT
* * *
60376971 AATCACATATCGATGCTAACGTCCTAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCAAGACGTGGTCTTACACGT
60377014 AATCACATATCGA
1 AATCACATATCGA
60377027 AAATCCTATG
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.04
43 87 0.96
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCAAGACGTGGTCTTACACGT
Found at i:60378849 original size:66 final size:68
Alignment explanation
Indices: 60378773--60378959 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
60378763 TAGTACCACT
*
60378773 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
60378835 CACG
65 CACG
60378839 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
60378904 ATCACG
63 ATCACG
60378910 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
60378960 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:60378884 original size:71 final size:71
Alignment explanation
Indices: 60378796--60378959 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60378786 CGATTTGTCT
60378796 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
60378861 CTTTCA
66 CTTTCA
60378867 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
60378932 CTTTCA
66 CTTTCA
60378938 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
60378960 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:60378997 original size:71 final size:70
Alignment explanation
Indices: 60378796--60378993 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
60378786 CGATTTGTCT
* * *
60378796 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
60378861 CTTTCA
65 CTTTCA
* * *
60378867 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
60378932 CTTTCA
65 CTTTCA
* *
60378938 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
60378994 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:60386413 original size:66 final size:68
Alignment explanation
Indices: 60386337--60386523 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
60386327 TAGTACCACT
*
60386337 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
60386399 CACG
65 CACG
60386403 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
60386468 ATCACG
63 ATCACG
60386474 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
60386524 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:60386448 original size:71 final size:71
Alignment explanation
Indices: 60386360--60386523 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60386350 CGATTTGTCT
60386360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
60386425 CTTTCA
66 CTTTCA
60386431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
60386496 CTTTCA
66 CTTTCA
60386502 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
60386524 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:60386561 original size:71 final size:70
Alignment explanation
Indices: 60386360--60386557 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
60386350 CGATTTGTCT
* * *
60386360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
60386425 CTTTCA
65 CTTTCA
* * *
60386431 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
60386496 CTTTCA
65 CTTTCA
* *
60386502 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
60386558 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:60390367 original size:43 final size:44
Alignment explanation
Indices: 60390319--60390437 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
60390309 AAAGCTCGTA
*
60390319 CAATGCCAACATCCCAGACGTGGTCTTACATGTAA-TC-AAATAT
1 CAATGCCAACATCCCAGACGTGGTCTTACACGTAAGTCTAAA-AT
*
60390362 CAATGCC-ACTATCCCAGACAG-GGTCTTACACGTAAGTCTCAAAT
1 CAATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAAGTCTAAAAT
* * *
60390406 CGATGCCAACGTCCCAGACATGGTCTTACACG
1 CAATGCCAACATCCCAGACGTGGTCTTACACG
60390438 AAATTACATA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 30 0.46
45 4 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (44 bp):
CAATGCCAACATCCCAGACGTGGTCTTACACGTAAGTCTAAAAT
Found at i:60397114 original size:23 final size:23
Alignment explanation
Indices: 60397082--60397125 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
60397072 AAAATTTAAA
* *
60397082 TATAATTAAACATTAGTAACTAT
1 TATAAATAAACATTAATAACTAT
*
60397105 TATAAATAAATATTAATAACT
1 TATAAATAAACATTAATAACT
60397126 CTTGGGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAAATAAACATTAATAACTAT
Found at i:60398226 original size:32 final size:30
Alignment explanation
Indices: 60398185--60398279 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 30
60398175 TAATACAATA
60398185 CATTAACTATTTTTTTTTTGGTTCTTA-GACAG
1 CATTAACTATTTTTTTTTT--TTCTTACG-CAG
*
60398217 CATTAACTATTTTTTGTTATTTCTTACGCAG
1 CATTAACTATTTTTT-TTTTTTCTTACGCAG
* * *
60398248 CATTAACTGTTTTTTTTTCTTTGTTATGCAG
1 CATTAACTATTTTTTTTT-TTTCTTACGCAG
60398279 C
1 C
60398280 CCCTTTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
30 2 0.04
31 34 0.62
32 16 0.29
33 3 0.05
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.54
Consensus pattern (30 bp):
CATTAACTATTTTTTTTTTTTCTTACGCAG
Found at i:60400854 original size:17 final size:17
Alignment explanation
Indices: 60400834--60400867 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60400824 AGGTTAAGGT
60400834 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
60400851 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
60400868 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:60409328 original size:34 final size:33
Alignment explanation
Indices: 60409254--60409330 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
60409244 AGGAGTGGAG
* *
60409254 TACTGCAGTGGATACGGGCCGGGGGCAGTGCTA
1 TACTGCGGTGGATACGGGCCGGGAGCAGTGCTA
* *
60409287 TAATGCGGTGGATATGGGCCAGGGAG-AGGTGCTA
1 TACTGCGGTGGATACGGGCC-GGGAGCA-GTGCTA
*
60409321 TGCTGCGGTG
1 TACTGCGGTG
60409331 TGTACGACCC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.18, C:0.17, G:0.44, T:0.21
Consensus pattern (33 bp):
TACTGCGGTGGATACGGGCCGGGAGCAGTGCTA
Found at i:60409495 original size:72 final size:72
Alignment explanation
Indices: 60409378--60409518 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 72
60409368 GCCCCTCGAT
* *
60409378 GAGCCCAAGAAATTGTCATTGCCCGCAAAATCTGGATGATAAGAAGTATCAGCCGAAAGTGAATG
1 GAGCCCAAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
60409443 CGATGAC
66 CGATGAC
* * * * *
60409450 GAGCCCGAGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCAAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
60409515 CGAT
66 CGAT
60409519 CGCTCGGACT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCAAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
CGATGAC
Found at i:60411584 original size:22 final size:21
Alignment explanation
Indices: 60411556--60411597 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
60411546 TAGTACATAA
60411556 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
60411578 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
60411598 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:60411984 original size:12 final size:13
Alignment explanation
Indices: 60411952--60411987 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
60411942 TTTTTTAAAA
60411952 TATATTATTTTCT
1 TATATTATTTTCT
*
60411965 TATTTTATTTT-T
1 TATATTATTTTCT
60411977 TATATTATTTT
1 TATATTATTTT
60411988 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:60411996 original size:297 final size:293
Alignment explanation
Indices: 60411381--60412279 Score: 1101
Period size: 297 Copynumber: 3.1 Consensus size: 293
60411371 ATAAGTAAAA
* *
60411381 TATTTTCGTATATTATTTTTTATATTATTTTAGC-AAAAATGTTTTAAATGTATTATG--TA--A
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
* *
60411441 GTA-TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACAC---------TTTTTCGTATC
66 GTAGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTGTATTTTTTTGTATC
* * *
60411496 -T-TTTTTT-AAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAAT
131 TTATTTTTTAAAATATATTATTTTCGTA-T-TTTATTTCTTAATA---TTATTTTAGTACATAAT
* * * **
60411557 GTTTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTT
191 GTTTCAAATGTATTATTTAAGTATTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTT
*
60411622 TATTCATA-TTTTTTCGTATATTATTTTTTAAAATATAT
255 TATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
*
60411660 TATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
*
60411725 TGTAAGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTGTATTTTTTTGT
66 -GT-AGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACAC-TTTTTGTATTTTTTTGT
*
60411790 ATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGT
128 ATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACATAATGT
* *
60411855 TTCAAATGTATTATTTCAGTATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTA
193 TTCAAATGTATTATTTAAGTATTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTA
60411920 TTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
257 TTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
* *** *
60411957 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAAAATTCAAATGTATTA---AT-TA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGC-AAAAAATGTTTCAAATGTATTATGTATATT
* * * *
60412018 ACT-GTTTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATT
65 AGTAGTTTTTTTATATTAA------TTTAATAAATAACCCTGATTTTGACACTTT-TT-GT-A--
* * *
60412082 TTTTTATTTCCGTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTT
119 -TTTT-TTT--GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTT
*
60412147 TAGTACATAATGCTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAACCCTGAT
180 TAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAACCCTGAT
60412212 TTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
245 TTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
*
60412261 TATTTTGGTATTTTATTTT
1 TATTTTCGTATTTTATTTT
60412280 AGCATAAAAT
Statistics
Matches: 544, Mismatches: 36, Indels: 55
0.86 0.06 0.09
Matches are distributed among these distances:
279 32 0.06
280 22 0.04
282 2 0.00
284 1 0.00
285 2 0.00
286 1 0.00
287 39 0.07
291 13 0.02
293 1 0.00
294 2 0.00
295 8 0.01
296 78 0.14
297 100 0.18
298 28 0.05
299 12 0.02
300 17 0.03
302 4 0.01
303 3 0.01
304 81 0.15
305 98 0.18
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.55
Consensus pattern (293 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
GTAGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTGTATTTTTTTGTATC
TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACATAATGTTTC
AAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG
TATTTTTTTCGTATATTATTTTTTAAAATATAT
Found at i:60412183 original size:305 final size:293
Alignment explanation
Indices: 60411540--60412279 Score: 1040
Period size: 305 Copynumber: 2.5 Consensus size: 293
60411530 TTTAAAACCC
* * * **
60411540 TTATTTTAGTACATAATGTTTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAA
1 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATA-TTTTTTAATAAATAA
*
60411605 CCCTGATTTTAGCACTTTATTCATA-TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCT
65 CCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCT
*** **
60411669 ATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTATGTAAGTTT
130 ATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAATG--TTATGTATATTAACT-AGTTT
* * *
60411734 TTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTGTATTTTTTTGTATCTTATTT
192 CTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTCGTATTTTTTTGTATATTATTT
*
60411799 TTTAAAATATATTATTTTCGTATTTTATTTCTTCATA
257 TTAAAAATATATTATTTTCGTATTTTATTTCTTCATA
* *
60411836 TTATTTTAGTACATAATGTTTCAAATGTATTATTTCAGTATTTTTTATATTTTTTCAATAAATAT
1 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTT-AATAAATAA
*
60411901 CCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCTT
65 CCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCT
60411966 ATTTTATTTTTTATATTATTTTAGCAAAAAAAAAATTCAAATG-TAT-TA-ATTAACT-GTTTCT
130 ATTTTATTTTTTATATTATTTTAGC-AAAAAAAAATTCAAATGTTATGTATATTAACTAGTTTCT
* * *
60412027 TTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTC
194 TTATACTAA------TTTAATAAATAACCCTGATTTTGACACTTT-TTCGT-A---TTTT-TTT-
*
60412092 CGTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTTATA
246 -GTATATTATTTTTAAAAATATATTATTTTCGTATTTTATTTCTTCATA
*
60412141 TTATTTTAGTACATAATGCTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAAC
1 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAAC
**
60412206 CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTGGTA
66 CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTA
60412271 TTTTATTTT
131 TTTTATTTT
60412280 AGCATAAAAT
Statistics
Matches: 400, Mismatches: 27, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
291 13 0.03
293 5 0.01
294 2 0.00
295 9 0.02
296 75 0.19
297 91 0.23
298 18 0.05
299 1 0.00
302 4 0.01
303 3 0.01
304 81 0.20
305 98 0.25
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (293 bp):
TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTAATAAATAAC
CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTA
TTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAATGTTATGTATATTAACTAGTTTCTTT
ATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTCGTATTTTTTTGTATATTATTTTTAA
AAATATATTATTTTCGTATTTTATTTCTTCATA
Found at i:60412883 original size:14 final size:14
Alignment explanation
Indices: 60412864--60412926 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
60412854 AAAAAATTAC
60412864 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
60412878 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
60412892 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
60412909 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
60412921 CTTTTT
1 CTTTTT
60412927 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:60412897 original size:17 final size:18
Alignment explanation
Indices: 60412875--60412921 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
60412865 TTTTTCTTTC
60412875 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
60412892 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
60412912 TTTCTTTTTC
1 CTTCTTTTTC
60412922 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:60412982 original size:3 final size:3
Alignment explanation
Indices: 60412963--60413030 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
60412953 TCCTCCTCTC
* * *
60412963 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT C-C CTT CTT C-C CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
60413006 CTT CTCT CTT TTT TTT CTT CTT CTT
1 CTT CT-T CTT CTT CTT CTT CTT CTT
60413031 TGCCGAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:60412984 original size:16 final size:16
Alignment explanation
Indices: 60412963--60413031 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
60412953 TCCTCCTCTC
60412963 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
*
60412979 CTTC-TTCTC-TTCTT
1 CTTCTTTTTCTTTCTT
* * *
60412993 C-CCTTCTTCCCTTCTT
1 CTTCTT-TTTCTTTCTT
60413009 CTCTCTTTTT-TTTCTT
1 CT-TCTTTTTCTTTCTT
60413025 CTTCTTT
1 CTTCTTT
60413032 GCCGAAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
13 1 0.02
14 7 0.17
15 11 0.27
16 17 0.41
17 2 0.05
18 3 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:60412988 original size:27 final size:25
Alignment explanation
Indices: 60412949--60413030 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 25
60412939 CGCAGGCCTC
* *
60412949 CTTCTCCTCCTCTCCTTCTTTTTCTTT
1 CTTCTTCTTCTCT-CTTCTTTTTC-TT
**
60412976 CTTCTTCTTCTCTTCTTC-CCTTCTT
1 CTTCTTCTTCTC-TCTTCTTTTTCTT
* *
60413001 C-CCTTCTTCTCTCTTTTTTTTCTT
1 CTTCTTCTTCTCTCTTCTTTTTCTT
60413025 CTTCTT
1 CTTCTT
60413031 TGCCGAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 4 0.09
24 15 0.35
25 6 0.14
26 3 0.07
27 14 0.33
28 1 0.02
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (25 bp):
CTTCTTCTTCTCTCTTCTTTTTCTT
Found at i:60412991 original size:8 final size:8
Alignment explanation
Indices: 60412978--60413012 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
60412968 TTTTCTTTCT
60412978 TCTTCTTC
1 TCTTCTTC
60412986 TCTTCTTC
1 TCTTCTTC
*
60412994 CCTTCTTC
1 TCTTCTTC
*
60413002 CCTTCTTC
1 TCTTCTTC
60413010 TCT
1 TCT
60413013 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (8 bp):
TCTTCTTC
Found at i:60422874 original size:47 final size:47
Alignment explanation
Indices: 60422815--60423250 Score: 675
Period size: 47 Copynumber: 9.4 Consensus size: 47
60422805 GATGTACAAG
* * *
60422815 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
60422862 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
60422909 GTGTGTATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
60422955 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
60423002 GTGTATATATGTGATAAGGCCGAGTGGCC-ATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
60423048 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
60423095 GTGTATATATGAGATAAGACCTAATGGCCAA--TG-TGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
60423139 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
60423186 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
60423233 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
60423251 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 23, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
44 41 0.11
45 2 0.01
46 90 0.25
47 228 0.63
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:60422947 original size:93 final size:93
Alignment explanation
Indices: 60422815--60423250 Score: 680
Period size: 93 Copynumber: 4.7 Consensus size: 93
60422805 GATGTACAAG
*
60422815 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60422880 GCCGAATGGCCAATGTGATGAATGTGAAA
65 GCCGAATGGCCAATGTGATGAATGTGAAA
*
60422909 GTGTGTATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60422973 GCCGAATGGCCAATGTGATGAATGTGAAA
65 GCCGAATGGCCAATGTGATGAATGTGAAA
* *
60423002 GTGTATATATGTGATAAGGCCGAGTGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 GTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
60423067 CCGAATGGCCAATGTGATGAATGTGAAA
66 CCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
60423095 GTGTATATATGAGATAAGACCTAATGGCCA-ATG-TGAATGTGAAAGTGTATATATGAGATAAGA
1 GTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * * *
60423158 CCTAATGGCCGATGTGATGGATGTGAAG
66 CCGAATGGCCAATGTGATGAATGTGAAA
* * *
60423186 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60423251 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
91 78 0.25
92 3 0.01
93 184 0.58
94 52 0.16
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (93 bp):
GTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAA
Found at i:60423030 original size:140 final size:140
Alignment explanation
Indices: 60422815--60423250 Score: 682
Period size: 140 Copynumber: 3.1 Consensus size: 140
60422805 GATGTACAAG
* *
60422815 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * *
60422880 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGG-CTAATGGCCGATGTGA
66 GCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
60422944 TGAATGTGAAA
130 TGAATGTGAAA
*
60422955 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
60423020 GCCGAGTGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
66 GCCGAATGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
60423085 GAATGTGAAA
131 GAATGTGAAA
* * *
60423095 GTGTATATATGAGATAAGACCTAATGGCCAA--TG-TGAATGTGAAAGTGTATATATGAGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * *
60423157 ACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
*
60423222 TGGATGTGAAA
130 TGAATGTGAAA
*
60423233 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
60423251 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
137 36 0.13
138 79 0.29
139 35 0.13
140 125 0.45
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (140 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGAAA
Found at i:60423173 original size:38 final size:40
Alignment explanation
Indices: 60423085--60423174 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 40
60423075 CCAATGTGAT
60423085 GAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAA
1 GAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCC-A
60423126 TGTGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCC-
1 ---GAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCA
60423168 G-ATGTGA
1 GAATGTGA
60423175 TGGATGTGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
38 6 0.13
39 1 0.02
44 39 0.85
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (40 bp):
GAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCA
Found at i:60440478 original size:20 final size:20
Alignment explanation
Indices: 60440455--60440494 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60440445 AAATGCTAAA
**
60440455 AGAGGCACTGAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
60440475 AGAGGCACCAAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
60440495 CCGTACAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAATC
Found at i:60442366 original size:24 final size:24
Alignment explanation
Indices: 60442268--60442367 Score: 146
Period size: 24 Copynumber: 4.2 Consensus size: 24
60442258 AGTCTGTCAA
60442268 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
*
60442292 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
* * *
60442316 GATAAGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
* *
60442340 GAGAGGATTTAGGAGATGATTAGG
1 GAGAGGATTTAGGAGTTGATAAGG
60442364 GAGA
1 GAGA
60442368 ACAGTGTTGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
GAGAGGATTTAGGAGTTGATAAGG
Found at i:60443814 original size:27 final size:27
Alignment explanation
Indices: 60443775--60443884 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
60443765 GGAAGCGTCT
* *
60443775 TGGTGGCTATGCCACAACTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
60443802 TGGTGGCTCTGCCA-AATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
60443829 TGGTGGCTCTGCCACAATTATCT-ATTC
1 TGGTGGCTCTGCCACAATTATCTGA-TC
* * *
60443856 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
60443882 TGG
1 TGG
60443885 CAGCCGTGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 14 0.19
27 55 0.76
28 3 0.04
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:60443858 original size:54 final size:53
Alignment explanation
Indices: 60443775--60443884 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
60443765 GGAAGCGTCT
*
60443775 TGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCAAATATATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCAAAT-TATCTGTTC
* * * *
60443829 TGGTGGCTCTGCCACAATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGA-TCTGGTGACTCTGCCAAATTATCTGTTC
60443882 TGG
1 TGG
60443885 CAGCCGTGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 13 0.26
54 37 0.74
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCAAATTATCTGTTC
Found at i:60449904 original size:29 final size:29
Alignment explanation
Indices: 60449871--60449929 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
60449861 GGAGCTTTAG
*
60449871 TTAATTTTAGTTCCATAGGAAAAAGGGGT
1 TTAATTTTAGTTCCATAAGAAAAAGGGGT
*
60449900 TTAATTTTAGTTCCATAAGAAAAATGGGT
1 TTAATTTTAGTTCCATAAGAAAAAGGGGT
60449929 T
1 T
60449930 CTGCTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (29 bp):
TTAATTTTAGTTCCATAAGAAAAAGGGGT
Found at i:60450241 original size:24 final size:24
Alignment explanation
Indices: 60450142--60450242 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
60450132 AAGTCTGTCA
60450142 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
60450166 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* * *
60450190 GGATAGGATTTAGGAGCTGATAAC
1 GGAGAGGATTTAGGAGTTGATAAG
*
60450214 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGTTGATAAG
60450238 GGAGA
1 GGAGA
60450243 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.26
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:60451688 original size:27 final size:27
Alignment explanation
Indices: 60451648--60451758 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
60451638 AGGAAGCGTC
* * *
60451648 CTGGTGGCTATGCCACAACTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
60451675 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
60451702 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
60451729 CTGCTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
60451755 CTGG
1 CTGG
60451759 CAGTCGTGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:60459375 original size:20 final size:19
Alignment explanation
Indices: 60459328--60459375 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
60459318 AGGATCCGAA
60459328 TTTTCAAAAAGATAAATGC
1 TTTTCAAAAAGATAAATGC
60459347 TTTTCAAAAAGATAAATGC
1 TTTTCAAAAAGATAAATGC
60459366 TTTTCAAAAA
1 TTTTCAAAAA
60459376 ACCACATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTTCAAAAAGATAAATGC
Found at i:60461515 original size:19 final size:19
Alignment explanation
Indices: 60461479--60461517 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
60461469 TTTTCATCAT
* *
60461479 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
60461498 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
60461517 A
1 A
60461518 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:60462038 original size:28 final size:28
Alignment explanation
Indices: 60461969--60462070 Score: 132
Period size: 28 Copynumber: 3.6 Consensus size: 28
60461959 ATACAGAAAA
* * *
60461969 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
* *
60461998 TGTGGCAGTGCCACCAGAACAAATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
60462026 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
60462054 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
60462071 GACGCTTCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 49 0.77
29 15 0.23
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:60462223 original size:28 final size:28
Alignment explanation
Indices: 60462176--60462240 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
60462166 AAATTAACCC
*
60462176 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
60462204 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
60462232 TAGGGGTAT
1 TAGGGGTAT
60462241 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:60477286 original size:28 final size:28
Alignment explanation
Indices: 60477225--60477322 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
60477215 TCACAAATTG
** * *
60477225 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
60477254 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
** *
60477282 GCACTAAGTGTGTGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
60477310 GCACTAAGTGTGC
1 GCACTAAGTGTGC
60477323 GGGCTTATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.71
29 16 0.28
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:60482174 original size:19 final size:19
Alignment explanation
Indices: 60482138--60482176 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
60482128 TTTTCATCAT
* *
60482138 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
60482157 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
60482176 A
1 A
60482177 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:60482687 original size:28 final size:28
Alignment explanation
Indices: 60482639--60482729 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
60482629 GTGACAGAGT
*
60482639 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
60482668 CACCAGAACAGATAAATTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
60482696 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
60482724 CACCAG
1 CACCAG
60482730 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:60482882 original size:28 final size:28
Alignment explanation
Indices: 60482835--60482899 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
60482825 AAATTAACCC
*
60482835 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
60482863 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
60482891 TAGGGGTAT
1 TAGGGGTAT
60482900 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:60485807 original size:27 final size:27
Alignment explanation
Indices: 60485769--60485831 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
60485759 AGAATTAAGT
* *
60485769 CGTAAGTAAGTCCATAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
60485796 CGTAAATAAGTCCACAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
*
60485823 CATAAATAA
1 CGTAAATAA
60485832 ATTTCTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (27 bp):
CGTAAATAAGTCCACAGTATTTCAATA
Found at i:60503094 original size:46 final size:48
Alignment explanation
Indices: 60502950--60503170 Score: 173
Period size: 47 Copynumber: 4.7 Consensus size: 48
60502940 TAAAGTGCCA
* * * *
60502950 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCATATCTCA--A-CTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAC-TCTCTCAGTAGC-CG
* *
60502997 ATGCCATGTCCCAGACATGGTCTTACA-TTG-ACTATCATCTC-GTAGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAC--TC-TCTCAGTAGCCG
60503045 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAGT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-TCTCAGTAGCCG
* * * *
60503091 ATGCCATGTCCTAGACATGGTCTTACACTTGC-TTC-CAT-AATATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTC-TCAGTA--GCCG
60503139 ATG-CATGTCCCAGACAT-GTCTTACACTAGCAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAC
60503171 ACACAAGTGA
Statistics
Matches: 144, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
45 4 0.03
46 37 0.26
47 76 0.53
48 26 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTCTCAGTAGCCG
Found at i:60503115 original size:94 final size:94
Alignment explanation
Indices: 60502995--60503170 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 94
60502985 TATCTCAACT
* *
60502995 CGATGCCATGTCCCAGACATGGTCTTACA-TTGACTAT-CAT-CTCGTAGCAGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTTG-CT-TCCATAAT-ATAGCAGATGCATGTCCCA
60503057 GACATGTCTTACACTAGCACTCGTCTCAGTGC
63 GACATGTCTTACACTAGCACTCGTCTCAGTGC
* * *
60503089 CGATGCCATGTCCTAGACATGGTCTTACACTTGCTTCCATAATATGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTTGCTTCCATAATATAGCAGATGCATGTCCCAGAC
60503154 ATGTCTTACACTAGCAC
66 ATGTCTTACACTAGCAC
60503171 ACACAAGTGA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
93 1 0.01
94 69 0.93
95 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTTGCTTCCATAATATAGCAGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAGTGC
Found at i:60510758 original size:21 final size:21
Alignment explanation
Indices: 60510707--60510758 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
60510697 AACAGGGCAT
* *
60510707 ACGCCCGTATGGAGGGGTAAC
1 ACGCCCGTGTGGAAGGGTAAC
*
60510728 ATGCCCGTGTGGAAGGGTAAC
1 ACGCCCGTGTGGAAGGGTAAC
*
60510749 ACGCCTGTGT
1 ACGCCCGTGT
60510759 CCCCTACCCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (21 bp):
ACGCCCGTGTGGAAGGGTAAC
Found at i:60511904 original size:46 final size:46
Alignment explanation
Indices: 60511836--60512000 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
60511826 GTGCCAATGC
60511836 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTA-CATCTCG-AGGCCGATG
* * * *
60511883 CATGTCCTAGGCATGTCTTACATTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGCCGATG
* * * *
60511929 TATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTC-AGTGCTGAAG
1 CATGTCCCAGACATGTCTTACACT-G-ACTTACATCTCGAG-GCCGATG
60511975 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACAT-GTCTTACACT
60512001 AGCTTCCGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 55 0.56
47 29 0.30
48 11 0.11
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGCCGATG
Found at i:60512414 original size:30 final size:30
Alignment explanation
Indices: 60512373--60512431 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
60512363 TTTTACATCT
* *
60512373 TTGGTAAAATGACCATTTTGCCCCTAGGCC
1 TTGGCAAAATGACAATTTTGCCCCTAGGCC
*
60512403 TTGGCAAAATGACAATTTTTCCCCTAGGC
1 TTGGCAAAATGACAATTTTGCCCCTAGGC
60512432 TCGAAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (30 bp):
TTGGCAAAATGACAATTTTGCCCCTAGGCC
Found at i:60513131 original size:17 final size:19
Alignment explanation
Indices: 60513089--60513132 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
60513079 ATGAAATTTT
*
60513089 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
60513108 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
60513126 AA-TATTA
1 AATTATTA
60513133 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:60514980 original size:28 final size:28
Alignment explanation
Indices: 60514948--60515016 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
60514938 GCGTAGATCA
60514948 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
60514976 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
60515004 CGATA-TACCCCTA
1 CGAAATTACCCCTA
60515017 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:60517896 original size:99 final size:99
Alignment explanation
Indices: 60517751--60517944 Score: 235
Period size: 99 Copynumber: 2.0 Consensus size: 99
60517741 TAGCCAGGCC
* ** * *** *
60517751 GTGTAACCTTCAAACTAAGCACACACGGCTGTGTCCCAGCCTATGTCCTCACTTGCATAGCTCAC
1 GTGTAACCTTCAAACTAAGCACACACAGCTGCATCCCAGCCCATGTCCTCACCCACATAACTCAC
*
60517816 TGAGTAGGGTCACACGGGCGTGTCATACGCTCGT
66 TGAGTAGGGTCACACAGGCGTGTCATACGCTCGT
* * * * * * *
60517850 GTGTAACCTTCGAACTAAGGATACACAGTTGCATCTCAGCCCATGTCCTCACCCACGTAACTTAC
1 GTGTAACCTTCAAACTAAGCACACACAGCTGCATCCCAGCCCATGTCCTCACCCACATAACTCAC
*
60517915 TGAGTAGGGTCACACAGTCGTGTCATACGC
66 TGAGTAGGGTCACACAGGCGTGTCATACGC
60517945 CTGTGTGCCA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (99 bp):
GTGTAACCTTCAAACTAAGCACACACAGCTGCATCCCAGCCCATGTCCTCACCCACATAACTCAC
TGAGTAGGGTCACACAGGCGTGTCATACGCTCGT
Found at i:60522206 original size:42 final size:43
Alignment explanation
Indices: 60522127--60522264 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 43
60522117 TTCTAGATGT
* * *
60522127 GGTCTTACATGT-AATCAAATATCGATGCC-ACTATCCCAGACAG
1 GGTCTTACACGTAAATCAAA-GTCGATGCCAAC-GTCCCAGACAG
* *
60522170 GGTCTTACACG-AATTC-AAGTACGATGCCAACGTCCCAGACAT
1 GGTCTTACACGTAAATCAAAGT-CGATGCCAACGTCCCAGACAG
*
60522212 GGTCTAACACGTAAATCATAAGTCGATGCCAACGTCCCAGAC-G
1 GGTCTTACACGTAAATCA-AAGTCGATGCCAACGTCCCAGACAG
60522255 TGGTCTTACA
1 -GGTCTTACA
60522265 TGATAACACA
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.35
43 19 0.24
44 27 0.34
45 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAAGTCGATGCCAACGTCCCAGACAG
Found at i:60522252 original size:44 final size:42
Alignment explanation
Indices: 60522160--60522260 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 42
60522150 GATGCCACTA
* * *
60522160 TCCCAGACAGGGTCTTACACGAATTCAAGTACGATGCCAACG
1 TCCCAGACATGGTCTAACACGAAATCAAGTACGATGCCAACG
60522202 TCCCAGACATGGTCTAACACGTAAATCATAAGT-CGATGCCAACG
1 TCCCAGACATGGTCTAACACG-AAATC--AAGTACGATGCCAACG
*
60522246 TCCCAGACGTGGTCT
1 TCCCAGACATGGTCT
60522261 TACATGATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
42 19 0.37
43 4 0.08
44 25 0.48
45 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (42 bp):
TCCCAGACATGGTCTAACACGAAATCAAGTACGATGCCAACG
Found at i:60530858 original size:24 final size:24
Alignment explanation
Indices: 60530830--60530881 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
60530820 CCAAACTCAC
60530830 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
60530854 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
60530878 TTTT
1 TTTT
60530882 CTTTTCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATCTCACTTTCGTTTTCAA
Found at i:60532717 original size:11 final size:11
Alignment explanation
Indices: 60532701--60532734 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
60532691 TAGACATCCT
60532701 TTGAAGCTTCC
1 TTGAAGCTTCC
*
60532712 TTGAAGGTTCC
1 TTGAAGCTTCC
*
60532723 TTGAAGTTTCC
1 TTGAAGCTTCC
60532734 T
1 T
60532735 AGCATGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:60533532 original size:40 final size:42
Alignment explanation
Indices: 60533468--60533546 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
60533458 AATTAAAATA
**
60533468 AAATAGCATCAAGCTCAATAAGCTAGGATT-GAGCTGAAGTG
1 AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
*
60533509 AAATAG-ATCAAG-TACAATGAGCTAAAATTCGAGCTGAA
1 AAATAGCATCAAGCT-CAATAAGCTAAAATTCGAGCTGAA
60533547 TCAAGCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 18 0.55
41 14 0.42
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (42 bp):
AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
Found at i:60538147 original size:68 final size:66
Alignment explanation
Indices: 60538075--60538221 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
60538065 CATCATGTGT
** * *
60538075 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTG-T-ACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCATGATACCAAGTGATGACACCA
60538138 TGTAG
62 TGTAG
** * *
60538143 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAATGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCAAGTG-ATGACACCATGT
60538208 AG
65 AG
60538210 ACAAGAGAGCTA
1 ACAAGAGAGCTA
60538222 TGAGATAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 26 0.38
65 3 0.04
66 3 0.04
67 23 0.34
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCAAGTGATGACACCATGTA
G
Done.