Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 205 of 214
Found at i:60170539 original size:27 final size:27
Alignment explanation
Indices: 60170482--60170540 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
60170472 TTTTAGTCCT
* * *
60170482 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTAGTGCCGCCAATCACA
* * *
60170509 TTGGCACCTTTAGTGCCGCCAATGAGA
1 TTGGCACCATTAGTGCCGCCAATCACA
60170536 TTGGC
1 TTGGC
60170541 CTGATCAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (27 bp):
TTGGCACCATTAGTGCCGCCAATCACA
Found at i:60170626 original size:26 final size:27
Alignment explanation
Indices: 60170594--60170654 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
60170584 TTTTTTTGGT
* *
60170594 ATATTTTGATAAAT-AAAAAATTTATA
1 ATATTTTGAAAAATAAAAAAAGTTATA
60170620 ATATTTTGAAAAATAAAAAAAAGTTATA
1 ATATTTTGAAAAAT-AAAAAAAGTTATA
60170648 ATATTTT
1 ATATTTT
60170655 AATTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.42
28 18 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (27 bp):
ATATTTTGAAAAATAAAAAAAGTTATA
Found at i:60171226 original size:38 final size:38
Alignment explanation
Indices: 60171175--60171248 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
60171165 TCCTACATTG
* *
60171175 ACAATAATATCTATGTAAATTGAATTAAAACTTAATTA
1 ACAATAATATCTATATAAATCGAATTAAAACTTAATTA
60171213 ACAATAATATCTATATAAATCGAATTAAAACTTAAT
1 ACAATAATATCTATATAAATCGAATTAAAACTTAAT
60171249 GAATTGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.35
Consensus pattern (38 bp):
ACAATAATATCTATATAAATCGAATTAAAACTTAATTA
Found at i:60182167 original size:28 final size:29
Alignment explanation
Indices: 60182127--60182187 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
60182117 TTGATTTTTT
60182127 TTAATCTACA-TTTTTTTTAAGATGTTAC
1 TTAATCTACATTTTTTTTTAAGATGTTAC
60182155 TTAATCTACATTTTTTTTTAAGATGTTAC
1 TTAATCTACATTTTTTTTTAAGATGTTAC
60182184 TTAA
1 TTAA
60182188 AATTTTTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.54
Consensus pattern (29 bp):
TTAATCTACATTTTTTTTTAAGATGTTAC
Found at i:60182192 original size:25 final size:27
Alignment explanation
Indices: 60182133--60182194 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
60182123 TTTTTTAATC
60182133 TACA-TTTTTTTTAAGATGTTACTTAA
1 TACATTTTTTTTTAAGATGTTACTTAA
60182159 TCTACATTTTTTTTTAAGATGTTACTTAA
1 --TACATTTTTTTTTAAGATGTTACTTAA
60182188 -A-ATTTTT
1 TACATTTTT
60182195 AAGTCCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 6 0.18
26 1 0.03
28 4 0.12
29 22 0.67
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (27 bp):
TACATTTTTTTTTAAGATGTTACTTAA
Found at i:60190840 original size:32 final size:26
Alignment explanation
Indices: 60190769--60190828 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
60190759 TTCCGTTCTT
60190769 TTTCTTCCGTCACCGCATCCACCTCG
1 TTTCTTCCGTCACCGCATCCACCTCG
60190795 TTTCTTCCGTCACCGCATCCACCTCG
1 TTTCTTCCGTCACCGCATCCACCTCG
60190821 TTTCTTCC
1 TTTCTTCC
60190829 CCTTCCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.10, C:0.45, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTCTTCCGTCACCGCATCCACCTCG
Found at i:60191766 original size:83 final size:83
Alignment explanation
Indices: 60191603--60191782 Score: 190
Period size: 83 Copynumber: 2.2 Consensus size: 83
60191593 GTAAATCTTT
* ** *
60191603 TAAAAAATTAATTTAAAATCCTTTAAAATTTATAAAAATTTAAATTAGTAAAAGTAAAATTATAT
1 TAAAAATTTAATTT-AAATCCTTTAAAATTTATAAAAATAGAAATTAGTAAAAATAAAATTATAT
* *
60191668 TTTGACTTCCTTAAAACTAA
65 TTTGACTTCCATAAAAAT-A
* *
60191688 TAAAAATTTAATTT-AATCTTTTAAAATTTAT-AAAATAGAAA-TATTAAAATAATAAAATTATA
1 TAAAAATTTAATTTAAATCCTTTAAAATTTATAAAAATAGAAATTAGT-AAA-AATAAAATTATA
*
60191750 TTTTTACTAT-CATAAAAATA
64 TTTTGACT-TCCATAAAAATA
*
60191770 T-AAAATCTAATTT
1 TAAAAATTTAATTT
60191783 CTAGCTAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
81 14 0.17
82 13 0.16
83 41 0.50
84 1 0.01
85 13 0.16
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (83 bp):
TAAAAATTTAATTTAAATCCTTTAAAATTTATAAAAATAGAAATTAGTAAAAATAAAATTATATT
TTGACTTCCATAAAAATA
Found at i:60192115 original size:13 final size:13
Alignment explanation
Indices: 60192080--60192120 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
60192070 GAGATCTTTG
60192080 TAATTTG-AAATCT
1 TAATTTGAAAAT-T
60192093 TAAGTTTGAAAATT
1 TAA-TTTGAAAATT
60192107 TAATTTGAAAATT
1 TAATTTGAAAATT
60192120 T
1 T
60192121 GGAAACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 14 0.54
14 8 0.31
15 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAATTTGAAAATT
Found at i:60193902 original size:13 final size:13
Alignment explanation
Indices: 60193884--60193913 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60193874 AGCCCAAACT
*
60193884 CAATTACCTAACC
1 CAATTACCCAACC
60193897 CAATTACCCAACC
1 CAATTACCCAACC
60193910 CAAT
1 CAAT
60193914 AAAACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:60194065 original size:9 final size:9
Alignment explanation
Indices: 60194053--60194120 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
60194043 AAAATAAAAA
*
60194053 AATTTGGGT
1 AATTCGGGT
60194062 AATTCGGGT
1 AATTCGGGT
*
60194071 ATTTTTC-GGT
1 A--ATTCGGGT
*
60194081 AATTCGGTT
1 AATTCGGGT
*
60194090 AATTTGGGT
1 AATTCGGGT
60194099 AATTCGGGT
1 AATTCGGGT
*
60194108 AATTCGAGT
1 AATTCGGGT
60194117 AATT
1 AATT
60194121 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 3 0.06
9 38 0.79
10 4 0.08
11 3 0.06
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (9 bp):
AATTCGGGT
Found at i:60194083 original size:19 final size:18
Alignment explanation
Indices: 60194053--60194120 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
60194043 AAAATAAAAA
*
60194053 AATTTGGGTAATTCGGGT
1 AATTTCGGTAATTCGGGT
* *
60194071 ATTTTTCGGTAATTCGGTT
1 A-ATTTCGGTAATTCGGGT
*
60194090 AATTTGGGTAATTCGGGT
1 AATTTCGGTAATTCGGGT
60194108 AA-TTCGAGTAATT
1 AATTTCG-GTAATT
60194121 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 3 0.07
18 23 0.56
19 15 0.37
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (18 bp):
AATTTCGGTAATTCGGGT
Found at i:60194101 original size:18 final size:18
Alignment explanation
Indices: 60194053--60194111 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
60194043 AAAATAAAAA
60194053 AATTTGGGTAATTCGGGT
1 AATTTGGGTAATTCGGGT
* * *
60194071 ATTTTTCGGTAATTCGGTT
1 A-ATTTGGGTAATTCGGGT
60194090 AATTTGGGTAATTCGGGT
1 AATTTGGGTAATTCGGGT
60194108 AATT
1 AATT
60194112 CGAGTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (18 bp):
AATTTGGGTAATTCGGGT
Found at i:60203848 original size:19 final size:19
Alignment explanation
Indices: 60203806--60203848 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
60203796 TGCGGTTAGG
** *
60203806 AATATATGAATTTGATTAA
1 AATATATGAATTAAAATAA
60203825 AATATATGAATTAAAATAA
1 AATATATGAATTAAAATAA
*
60203844 GATAT
1 AATAT
60203849 TATTGATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (19 bp):
AATATATGAATTAAAATAA
Found at i:60212448 original size:19 final size:19
Alignment explanation
Indices: 60212424--60212463 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60212414 GACTGCTCGT
*
60212424 ATCACTCGACCTTATATCA
1 ATCACTCAACCTTATATCA
* *
60212443 ATCACTCAACTTTGTATCA
1 ATCACTCAACCTTATATCA
60212462 AT
1 AT
60212464 TTGACAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCACTCAACCTTATATCA
Found at i:60217603 original size:46 final size:46
Alignment explanation
Indices: 60217585--60217824 Score: 225
Period size: 46 Copynumber: 5.3 Consensus size: 46
60217575 TGACAAGTGG
* * *
60217585 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
60217631 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
60217677 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
60217729 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
60217775 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
60217812 AAAGTGATAAGTG
1 AAAGTGATAAGTG
60217825 GCTACACTTA
Statistics
Matches: 179, Mismatches: 6, Indels: 25
0.85 0.03 0.12
Matches are distributed among these distances:
37 34 0.19
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 96 0.54
47 1 0.01
52 44 0.25
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:60217604 original size:52 final size:48
Alignment explanation
Indices: 60217585--60217787 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
60217575 TGACAAGTGG
* *
60217585 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
60217631 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
60217683 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
60217729 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
60217775 AAAGTGATAAGTG
1 AAAGTGATAAGTG
60217788 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:60217639 original size:98 final size:98
Alignment explanation
Indices: 60217519--60217787 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
60217509 TTTGAGTACT
*
60217519 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
60217584 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
60217617 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
60217682 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
60217715 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
60217780 GATAAGTG
65 GAAAAGTG
60217788 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:60217795 original size:37 final size:37
Alignment explanation
Indices: 60217751--60217896 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
60217741 GATAGCTTTA
60217751 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
60217788 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
60217825 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
60217862 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
60217897 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:60219213 original size:49 final size:49
Alignment explanation
Indices: 60219152--60219344 Score: 314
Period size: 49 Copynumber: 3.9 Consensus size: 49
60219142 ATGTGAACAT
60219152 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
60219202 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
60219251 GTGACATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
60219300 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
60219345 AGAAAACGAA
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 130 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:60222552 original size:46 final size:46
Alignment explanation
Indices: 60222534--60222773 Score: 225
Period size: 46 Copynumber: 5.3 Consensus size: 46
60222524 TGACAAGTGG
* * *
60222534 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
60222580 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
60222626 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
60222678 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
60222724 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
60222761 AAAGTGATAAGTG
1 AAAGTGATAAGTG
60222774 GCTACACTTA
Statistics
Matches: 179, Mismatches: 6, Indels: 25
0.85 0.03 0.12
Matches are distributed among these distances:
37 34 0.19
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 96 0.54
47 1 0.01
52 44 0.25
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:60222553 original size:52 final size:48
Alignment explanation
Indices: 60222534--60222736 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
60222524 TGACAAGTGG
* *
60222534 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
60222580 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
60222632 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
60222678 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
60222724 AAAGTGATAAGTG
1 AAAGTGATAAGTG
60222737 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:60222588 original size:98 final size:98
Alignment explanation
Indices: 60222468--60222736 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
60222458 TTTGAGTACT
*
60222468 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
60222533 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
60222566 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
60222631 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
60222664 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
60222729 GATAAGTG
65 GAAAAGTG
60222737 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:60222744 original size:37 final size:37
Alignment explanation
Indices: 60222700--60222845 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
60222690 GATAGCTTTA
60222700 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
60222737 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
60222774 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
60222811 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
60222846 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:60232286 original size:29 final size:27
Alignment explanation
Indices: 60232272--60232345 Score: 60
Period size: 29 Copynumber: 2.6 Consensus size: 27
60232262 TTTTTTTTAA
*
60232272 TTTTTAAATTTTAAAATA-CTTTTTAATT
1 TTTT-AAATTTTAAAATATTTTTTTAA-T
* **
60232300 TTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTAAATTTTAAAATATTTTTTTAAT
*
60232327 ACTTTTTAATTTTAAAATA
1 --TTTTAAATTTTAAAATA
60232346 AATTTTTGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 13 0.33
28 9 0.23
29 17 0.44
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTAAATTTTAAAATATTTTTTTAAT
Found at i:60232302 original size:27 final size:25
Alignment explanation
Indices: 60232265--60232345 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 25
60232255 AAAATAATTT
*
60232265 TTTTTAATTTTTAAATTTTAAAATA
1 TTTTTAATTTTTTAATTTTAAAATA
60232290 CTTTTTAATTTTTTTAATTTTAAAATA
1 -TTTTTAA-TTTTTTAATTTTAAAATA
60232317 TTTTTAAAATACTTTTTAATTTTAAAATA
1 TTTTT--AAT--TTTTTAATTTTAAAATA
60232346 AATTTTTGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
26 12 0.24
27 18 0.37
28 2 0.04
29 17 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTTAATTTTTTAATTTTAAAATA
Found at i:60232322 original size:38 final size:35
Alignment explanation
Indices: 60232263--60232339 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 35
60232253 CTAAAATAAT
*
60232263 TTTTTTTAATTTTTAAATTTTAAAATACTTTTTAA
1 TTTTTTTAATTTTAAAATTTTAAAATACTTTTTAA
60232298 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
1 TTTTTTTAATTTT-AAA-A-TTTTAAAATACTTTTTAA
60232336 TTTT
1 TTTT
60232340 AAAATAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
35 13 0.34
36 2 0.05
37 1 0.03
38 22 0.58
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (35 bp):
TTTTTTTAATTTTAAAATTTTAAAATACTTTTTAA
Found at i:60232323 original size:11 final size:12
Alignment explanation
Indices: 60232307--60232335 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60232297 ATTTTTTTAA
60232307 TTTTAAAATA-T
1 TTTTAAAATACT
60232318 TTTTAAAATACT
1 TTTTAAAATACT
60232330 TTTTAA
1 TTTTAA
60232336 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:60234679 original size:23 final size:21
Alignment explanation
Indices: 60234653--60234693 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
60234643 AATTAAATTA
60234653 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
60234674 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
60234694 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:60234891 original size:26 final size:25
Alignment explanation
Indices: 60234862--60234911 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
60234852 TATATTTTTA
60234862 TTAAATTATATTTAATAATTATTATT
1 TTAAATTATATTTAAT-ATTATTATT
*
60234888 TTAAATTATATTTTATATTATTAT
1 TTAAATTATATTTAATATTATTAT
60234912 ATATTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAATTATATTTAATATTATTATT
Found at i:60234977 original size:120 final size:118
Alignment explanation
Indices: 60234668--60235122 Score: 700
Period size: 120 Copynumber: 3.9 Consensus size: 118
60234658 ATTATGATTT
60234668 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGA-TTT-GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
60234733 ATTATATATTTTTATCT-AATTATATTTAATAAT-A--ATTTTAAATTATATTTTG
64 ATTATATATTTTTAT-TAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
60234785 TAGTATTATATATTATGATTTGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TAGTATTATATATTATGATTTGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
*
60234850 TATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTA
66 TATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
*
60234903 TATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGA-TTT-GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * *
60234968 ATTATATATTTTTATTAAATTATATTTCATAATAATAACTTTAAATTATATTTTA
64 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
60235023 TAGTATTATATA-T-T-A--TG---ATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TAGTATTATATATTATGATTTGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * *
60235080 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
66 TATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
60235123 ATATGATTAA
Statistics
Matches: 319, Mismatches: 13, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
110 77 0.24
113 1 0.00
114 2 0.01
115 73 0.23
116 4 0.01
117 19 0.06
118 35 0.11
119 4 0.01
120 104 0.33
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (118 bp):
TAGTATTATATATTATGATTTGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
TATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
Found at i:60235094 original size:18 final size:17
Alignment explanation
Indices: 60235068--60235102 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60235058 AATATTAAGA
*
60235068 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60235085 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60235103 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60235351 original size:16 final size:16
Alignment explanation
Indices: 60235330--60235360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60235320 TTGAATTGCT
*
60235330 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
60235346 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
60235361 TAATACAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.32, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:60248779 original size:107 final size:107
Alignment explanation
Indices: 60248634--60249053 Score: 680
Period size: 107 Copynumber: 3.9 Consensus size: 107
60248624 TTCATTCAAA
* *
60248634 TTCAAAATAAGGCAATATTCTTGCGTTTGGAAAATTCGAGCAAACGTGCCCTAACGTGTTGGGTT
1 TTCAAAATAAGGCAATATT-TTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
60248699 TCAATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
*
60248742 TTCAAAATAAGGCAATATTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAACGTGCTGGGTTT
1 TTCAAAATAAGGCAATATTTTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
*
60248807 CGATTTTTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
*
60248849 TTCAAAATAAGGCAATATTGTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTCAAAATAAGGCAATATTTTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
* * *
60248914 CGATTTCTCGCTCGACCAAATAGCCAAATATCCTTTTAAATT
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
** * * **
60248956 TTCAAGGTGAGGCAGTATTTTGCGTTTGG-AAATTCGAGGGAACGTGCCCTAACGTGCTGGGTTT
1 TTCAAAATAAGGCAATATTTTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
*
60249020 CGATTTCTCGTTTGACCAAATAGCCAAATATCCT
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCT
60249054 ATTAAATTTC
Statistics
Matches: 292, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
106 65 0.22
107 208 0.71
108 19 0.07
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (107 bp):
TTCAAAATAAGGCAATATTTTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAACT
Found at i:60275970 original size:21 final size:21
Alignment explanation
Indices: 60275946--60276011 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
60275936 TCCTACTGAC
60275946 TCAATAGTGGATTTTCTTGTG
1 TCAATAGTGGATTTTCTTGTG
* **
60275967 TCAATA----ATTTCCTACTGAC
1 TCAATAGTGGATTTTCT--TGTG
60275986 TCAATAGTGGATTTTCTTGTG
1 TCAATAGTGGATTTTCTTGTG
60276007 TCAAT
1 TCAAT
60276012 TGGATATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
17 6 0.18
19 8 0.24
21 13 0.39
23 6 0.18
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAATAGTGGATTTTCTTGTG
Found at i:60275984 original size:40 final size:40
Alignment explanation
Indices: 60275929--60276011 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
60275919 ATGGAATAGA
60275929 AATAATTTCCTACTGACTCAATAGTGGATTTTCTTGTGTC
1 AATAATTTCCTACTGACTCAATAGTGGATTTTCTTGTGTC
60275969 AATAATTTCCTACTGACTCAATAGTGGATTTTCTTGTGTC
1 AATAATTTCCTACTGACTCAATAGTGGATTTTCTTGTGTC
60276009 AAT
1 AAT
60276012 TGGATATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (40 bp):
AATAATTTCCTACTGACTCAATAGTGGATTTTCTTGTGTC
Found at i:60277367 original size:19 final size:19
Alignment explanation
Indices: 60277343--60277379 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
60277333 GCATGACCTC
60277343 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
60277362 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
60277380 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:60279422 original size:18 final size:17
Alignment explanation
Indices: 60279396--60279430 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60279386 AATATTAAGA
*
60279396 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60279413 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60279431 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60279442 original size:120 final size:120
Alignment explanation
Indices: 60279289--60279572 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
60279279 TAATTGAAAA
* * *
60279289 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
60279353 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
60279408 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
60279473 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
60279528 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
60279573 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:60279544 original size:18 final size:17
Alignment explanation
Indices: 60279516--60279550 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60279506 ATTATTAAGA
*
60279516 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60279533 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60279551 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60279550 original size:16 final size:16
Alignment explanation
Indices: 60279516--60279570 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
60279506 ATTATTAAGA
60279516 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
60279533 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
60279549 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
60279563 ATGTTTAA
1 AT-TTTAA
60279571 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:60279807 original size:16 final size:16
Alignment explanation
Indices: 60279786--60279837 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
60279776 GATTTGCTAT
60279786 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
60279802 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
60279818 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60279834 TACA
1 TACA
60279838 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60284755 original size:8 final size:8
Alignment explanation
Indices: 60284744--60284775 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
60284734 TTAAATATTT
60284744 ATAAAATA
1 ATAAAATA
60284752 ATAAAATA
1 ATAAAATA
60284760 ATAAAATA
1 ATAAAATA
60284768 ATAAAATA
1 ATAAAATA
60284776 GAAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAAAATA
Found at i:60285721 original size:22 final size:22
Alignment explanation
Indices: 60285690--60285732 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
60285680 ATAAAATTGT
*
60285690 AGAAGTTTTTAAAATTTATTTA
1 AGAAGCTTTTAAAATTTATTTA
60285712 AGAAGCTTTTAAAATTTATTT
1 AGAAGCTTTTAAAATTTATTT
60285733 GAGTATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
AGAAGCTTTTAAAATTTATTTA
Found at i:60286232 original size:20 final size:21
Alignment explanation
Indices: 60286207--60286246 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
60286197 AATATTTTTT
*
60286207 AAATATTTAAGC-CTTTTAAA
1 AAATATATAAGCACTTTTAAA
*
60286227 AAATATATAATCACTTTTAA
1 AAATATATAAGCACTTTTAA
60286247 TTATAGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATATATAAGCACTTTTAAA
Found at i:60286802 original size:12 final size:11
Alignment explanation
Indices: 60286775--60286801 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60286765 CTGATATACG
60286775 AAAAAGAAAAA
1 AAAAAGAAAAA
60286786 AAAAAGAAAAA
1 AAAAAGAAAAA
60286797 AAAAA
1 AAAAA
60286802 ATTTTGGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:60286937 original size:212 final size:208
Alignment explanation
Indices: 60286781--60287164 Score: 522
Period size: 218 Copynumber: 1.8 Consensus size: 208
60286771 TACGAAAAAG
* * *
60286781 AAAAAAA-AAAGAAA-AAA-AAAAATTTTGGGTGCTGGCCTTTCAATGGCCGGCACCCAGTGAAC
1 AAAAAAATAAATAAATAAATAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAAC
* * * * *
60286843 AGTAAAAAAATTTCTTTTTTTTCGTGTAAGAATCAGATATAAAAATACGAAAAAAATAATAATAA
66 AGTAAAAAAA-----ATTTTTCCGTGTAAGAATCAAATATAAAAATAAG-AAAAAA-AATAAAAA
***
60286908 TAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAATTTTTTTTCGTA
124 TAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT--A-AGTAATTTTTTAAAGTA
60286973 TCAGAATCAGATATAAAAATACA
186 TCAGAATCAGATATAAAAATACA
*
60286996 AAAAAAATAAATAAATAAATAAAATTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTGAAC
1 AAAAAAATAAATAAATAAATAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAAC
* *
60287061 AGTAAAAAAAATTTTTCCGTGTCAGAATCAAATATAAAAATAAGAAAAAAAATAAAAATAAAATT
66 AGTAAAAAAAATTTTTCCGTGTAAGAATCAAATATAAAAATAAGAAAAAAAATAAAAATAAAACT
60287126 TTTTTGTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
131 TTTTTG-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
60287165 CACAGTAAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
210 1 0.01
211 19 0.12
212 37 0.24
213 29 0.19
215 7 0.05
216 6 0.04
217 3 0.02
218 52 0.34
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (208 bp):
AAAAAAATAAATAAATAAATAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAAC
AGTAAAAAAAATTTTTCCGTGTAAGAATCAAATATAAAAATAAGAAAAAAAATAAAAATAAAACT
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAGTAATTTTTTAAAGTATCAGAATCAG
ATATAAAAATACA
Found at i:60287043 original size:105 final size:105
Alignment explanation
Indices: 60286781--60287234 Score: 476
Period size: 107 Copynumber: 4.2 Consensus size: 105
60286771 TACGAAAAAG
* ** *
60286781 AAAAAAA-AAAGAAAAA-AAAAAATTTTGGGTGCTGGCCTTTCAATGGCCGGCACCCAGTGAACA
1 AAAAAAATAAATAAAAATAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACA
* *
60286844 GTAAAAAAATTTCTTTTTTTTCGTGTAAGAATCAGATATAAAAATACG
66 GT----AAA----TTTTTTTTCGTGTCAGAATCAGATATAAAAATACA
*
60286892 AAAAAAAT-AATAATAATAAAACTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAAC
1 AAAAAAATAAATAAAAATAAAA-TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAAC
*
60286956 AGT-AATTTTTTTTCGTATCAGAATCAGATATAAAAATACA
65 AGTAAATTTTTTTTCGTGTCAGAATCAGATATAAAAATACA
*
60286996 AAAAAAATAAATAAATAAATAAAA-TTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTGAA
1 AAAAAAATAAAT-AA-AAATAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAA
** * *
60287060 CAGTAAAAAAAATTTTTCCGTGTCAGAATCAAATATAAAAAT--A
64 CAGT---AAATTTTTTTTCGTGTCAGAATCAGATATAAAAATACA
*
60287103 AGAAAAA-AAATAAAAATAAAATTTTTTTGTGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-AC
1 AAAAAAATAAATAAAAATAAAA-TTTTTTG-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTGA-
*
60287166 ACAGTAAAAAAATTTTATTTTTTTCGTGTCAAAATCAGATATAAAAATACA
63 ACAGT----AAA---T-TTTTTTTCGTGTCAGAATCAGATATAAAAATACA
*
60287217 AAAAAAATAAAAAAAAAT
1 AAAAAAATAAATAAAAAT
60287235 TTAGGACTTG
Statistics
Matches: 297, Mismatches: 24, Indels: 40
0.82 0.07 0.11
Matches are distributed among these distances:
104 48 0.16
105 48 0.16
106 13 0.04
107 49 0.16
108 8 0.03
109 29 0.10
111 13 0.04
112 31 0.10
113 42 0.14
114 7 0.02
115 9 0.03
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (105 bp):
AAAAAAATAAATAAAAATAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACA
GTAAATTTTTTTTCGTGTCAGAATCAGATATAAAAATACA
Found at i:60287453 original size:106 final size:106
Alignment explanation
Indices: 60287343--60287758 Score: 475
Period size: 106 Copynumber: 4.0 Consensus size: 106
60287333 AAATAGAAAT
* *
60287343 TTTTTTTATTTTTATCGTATTTTTATATCTGATTCTAACACGAAAAAAAAGAAAAAAAATTTTAC
1 TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTAACACGAAAAAAAAGAAAAAAAAATTTAC
60287408 TGTGT-ACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAA
66 TGT-TCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAA
* *
60287449 TTTTTTTATTTTTTTTGTATTTTTATATCTGATTCTGACACGAAAAAAAAGAAAAAAAAATTTAC
1 TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTAACACGAAAAAAAAGAAAAAAAAATTTAC
* *
60287514 TGTTCACTGGGTGCCGGCCATTGACAGGCGAGCATC-AAAA
66 TGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAA
* * **
60287554 -----TT-TTTTTTTCGTATTTTTATATATGATTCTGACATAAAAAAAAAAAGAAAAAAAAATTT
1 TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCT-A-ACACGAAAAAAAAGAAAAAAAAATTT
* *
60287613 ATTGTTCACTGGGTGCCGGCCATTGATAGGCCAGCACCAAAAAAA
64 ACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACC--AAAAA
** *** * *
60287658 AATTAAAATTTTTTTTCGTATTTTTATATCTAACTCTAACACG------AA-AAAAAAAAATTTA
1 TTTTTTTA-TTTTTTTCGTATTTTTATATCTGATTCTAACACGAAAAAAAAGAAAAAAAAATTTA
* *
60287716 CTGTTTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAA
65 CTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAA
60287759 AAAGTTTTTT
Statistics
Matches: 270, Mismatches: 26, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
99 26 0.10
100 2 0.01
101 62 0.23
102 46 0.17
103 4 0.01
104 4 0.01
105 5 0.02
106 93 0.34
109 2 0.01
110 1 0.00
111 25 0.09
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (106 bp):
TTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTAACACGAAAAAAAAGAAAAAAAAATTTAC
TGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAA
Found at i:60287873 original size:93 final size:93
Alignment explanation
Indices: 60287750--60287955 Score: 387
Period size: 93 Copynumber: 2.2 Consensus size: 93
60287740 ATAGGCCAGC
*
60287750 ACCCAAAAAAA-AGTTTTTTTTTCTTTTTCGTATATCAGTATTATACAATTTTTTTAAAAAAATA
1 ACCCAAAAAAATAATTTTTTTTTCTTTTTCGTATATCAGTATTATACAATTTTTTTAAAAAAATA
60287814 CATGGGTTCCGGACATTAACAAACCAAA
66 CATGGGTTCCGGACATTAACAAACCAAA
60287842 ACCCAAAAAAATAATTTTTTTTTCTTTTTCGTATATCAGTATTATACAATTTTTTTAAAAAAATA
1 ACCCAAAAAAATAATTTTTTTTTCTTTTTCGTATATCAGTATTATACAATTTTTTTAAAAAAATA
*
60287907 CATGGGTTCCGGATATTAACAAACCAAA
66 CATGGGTTCCGGACATTAACAAACCAAA
60287935 ACCCAAAAAAATAATTTTTTT
1 ACCCAAAAAAATAATTTTTTT
60287956 AAGTCTGACA
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 11 0.10
93 100 0.90
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (93 bp):
ACCCAAAAAAATAATTTTTTTTTCTTTTTCGTATATCAGTATTATACAATTTTTTTAAAAAAATA
CATGGGTTCCGGACATTAACAAACCAAA
Found at i:60289389 original size:12 final size:11
Alignment explanation
Indices: 60289360--60289388 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
60289350 TCCTTTTCCT
60289360 TCTTTTTTCTC
1 TCTTTTTTCTC
60289371 TC-TTTTTCTC
1 TCTTTTTTCTC
60289381 TCTTTTTT
1 TCTTTTTT
60289389 TGTTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:60297232 original size:15 final size:15
Alignment explanation
Indices: 60297212--60297250 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
60297202 CCTTCCCAAA
60297212 CCCAAACAAAACAAG
1 CCCAAACAAAACAAG
**
60297227 CCCAAACTAACCCAAG
1 CCCAAAC-AAAACAAG
60297243 CCCAAACA
1 CCCAAACA
60297251 CCTAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.51, C:0.41, G:0.05, T:0.03
Consensus pattern (15 bp):
CCCAAACAAAACAAG
Found at i:60297668 original size:13 final size:11
Alignment explanation
Indices: 60297635--60297660 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60297625 TTCTAACCCC
60297635 TTTTTTATTTT
1 TTTTTTATTTT
60297646 TTTTTTATTTT
1 TTTTTTATTTT
60297657 TTTT
1 TTTT
60297661 GTTCATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:60298271 original size:3 final size:3
Alignment explanation
Indices: 60298263--60298311 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
60298253 TGTATTTAGG
* *
60298263 TTA TTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60298311 T
1 T
60298312 CTATGTCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60298656 original size:25 final size:25
Alignment explanation
Indices: 60298624--60298675 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
60298614 GATATCGTTG
60298624 TTTTATTTGATATTTATTTATTCAT
1 TTTTATTTGATATTTATTTATTCAT
60298649 TTTTATTTGATATTTATTTATTCAT
1 TTTTATTTGATATTTATTTATTCAT
60298674 TT
1 TT
60298676 ATTGAAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTATTTGATATTTATTTATTCAT
Found at i:60300147 original size:20 final size:20
Alignment explanation
Indices: 60300124--60300162 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60300114 CAGGAAATGT
60300124 ATGTATATAAAATATAAAAA
1 ATGTATATAAAATATAAAAA
* *
60300144 ATGTATATATATTATAAAA
1 ATGTATATAAAATATAAAA
60300163 TGTATATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATGTATATAAAATATAAAAA
Found at i:60300314 original size:3 final size:3
Alignment explanation
Indices: 60300306--60300365 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
60300296 GCCTATATGT
60300306 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
*
60300355 ATA ATG ATA AT
1 ATA ATA ATA AT
60300366 TCAATTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60312111 original size:31 final size:30
Alignment explanation
Indices: 60312075--60312143 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
60312065 TATTTTGAGC
* * *
60312075 TAAATTTGGCCCTCAGCCATTTAAAAAAAG
1 TAAATTTGACCATCAACCATTTAAAAAAAG
* *
60312105 TCAAATTTAACCATCAACCTTTTAAAAAAAG
1 T-AAATTTGACCATCAACCATTTAAAAAAAG
60312136 TAAATTTG
1 TAAATTTG
60312144 CTATTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (30 bp):
TAAATTTGACCATCAACCATTTAAAAAAAG
Found at i:60312965 original size:29 final size:28
Alignment explanation
Indices: 60312933--60312993 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
60312923 AAAAGCCGTT
60312933 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
60312962 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
60312990 TTTT
1 TTTT
60312994 CTGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:60333532 original size:18 final size:18
Alignment explanation
Indices: 60333498--60333535 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
60333488 CTTTGATAAA
*
60333498 TTTATTTAATATTAAAAT
1 TTTATTTAATATAAAAAT
60333516 TTTATTTCAATA-AAAAAT
1 TTTATTT-AATATAAAAAT
60333534 TT
1 TT
60333536 AACATTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATTTAATATAAAAAT
Found at i:60333622 original size:17 final size:18
Alignment explanation
Indices: 60333586--60333623 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
60333576 TTATTAACAC
* *
60333586 TATTTTATTTAATATGAA
1 TATTTTAATTAATATAAA
60333604 TATTTTAATT-ATATAAA
1 TATTTTAATTAATATAAA
60333621 TAT
1 TAT
60333624 AAATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTTAATTAATATAAA
Found at i:60336002 original size:17 final size:17
Alignment explanation
Indices: 60335980--60336012 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60335970 AATGGATCAT
60335980 GGTTTATCTTTAGTTCC
1 GGTTTATCTTTAGTTCC
60335997 GGTTTATCTTTAGTTC
1 GGTTTATCTTTAGTTC
60336013 TCAATTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (17 bp):
GGTTTATCTTTAGTTCC
Found at i:60336821 original size:43 final size:43
Alignment explanation
Indices: 60336732--60336830 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
60336722 TAGCTCTCTC
*
60336732 TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAGCATGG
1 TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAACATGG
* * * *
60336775 TTATGATTACCATTAGTGTTG-CTTAATTGGACATTTAACGTTG
1 TTATAACTACCATTAGTG-TGCCTTAATTGGACATTTAACATGG
60336818 TTATAACTACCAT
1 TTATAACTACCAT
60336831 CAAACTTTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (43 bp):
TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAACATGG
Found at i:60337481 original size:44 final size:43
Alignment explanation
Indices: 60337428--60337571 Score: 101
Period size: 44 Copynumber: 3.2 Consensus size: 43
60337418 ATATTTAATA
*
60337428 ATAATAATTTTAAATTATACAAATTCATAAAACAAAATTTATT
1 ATAAGAATTTTAAATTATACAAATTCATAAAACAAAATTTATT
* * * * ** * *
60337471 ATCAAGAATTTTATGAAATTATATATTATT-ATTATATTATATTTAATA
1 AT-AAGAA-TTT-T-AAATTATACA-AATTCATAAAACAAAATTT-ATT
** *
60337519 ATAATTATTTTAAATTATACAAATTCATATAACAAAATTTATT
1 ATAAGAATTTTAAATTATACAAATTCATAAAACAAAATTTATT
*
60337562 AGTAATAATT
1 A-TAAGAATT
60337572 ATTTTAAATT
Statistics
Matches: 72, Mismatches: 21, Indels: 15
0.67 0.19 0.14
Matches are distributed among these distances:
43 8 0.11
44 28 0.39
45 4 0.06
46 4 0.06
47 21 0.29
48 7 0.10
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (43 bp):
ATAAGAATTTTAAATTATACAAATTCATAAAACAAAATTTATT
Found at i:60337570 original size:47 final size:46
Alignment explanation
Indices: 60337425--60337581 Score: 153
Period size: 47 Copynumber: 3.4 Consensus size: 46
60337415 ATTATATTTA
* *
60337425 ATAATAATAATTTTAAATTATACAAATTCATAAAACAAAATTTATT
1 ATAATAATTATTTTAAATTATACAAATTCATATAACAAAATTTATT
* * * * ** *
60337471 ATCAAGAATT-TTATGAAATTATATATTATT-AT-TATATTATATTTA--
1 AT-AATAATTATT-TTAAATTATACA-AATTCATATA-ACAAAATTTATT
60337516 ATAATAATTATTTTAAATTATACAAATTCATATAACAAAATTTATT
1 ATAATAATTATTTTAAATTATACAAATTCATATAACAAAATTTATT
60337562 AGTAATAATTATTTTAAATT
1 A-TAATAATTATTTTAAATT
60337582 TTATTAAATC
Statistics
Matches: 85, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
43 3 0.04
44 25 0.29
45 6 0.07
46 6 0.07
47 42 0.49
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (46 bp):
ATAATAATTATTTTAAATTATACAAATTCATATAACAAAATTTATT
Found at i:60337581 original size:91 final size:93
Alignment explanation
Indices: 60337362--60337562 Score: 303
Period size: 91 Copynumber: 2.3 Consensus size: 93
60337352 TGGTTTTAGT
* *
60337362 AAATTCATATAAGAAAATTTATTATCAAGAA-TTT-T---ATTA-A-ATTATATATTATTATTAT
1 AAATTCATAAAACAAAATTTATTATCAAGAATTTTATGAAATTATATATTATATATTATTATTAT
60337420 ATTTAATAATAATAATTTTAAATTATAC
66 ATTTAATAATAATAATTTTAAATTATAC
60337448 AAATTCATAAAACAAAATTTATTATCAAGAATTTTATGAAATTATATATTAT-TATTA-TATTAT
1 AAATTCATAAAACAAAATTTATTATCAAGAATTTTATGAAATTATATATTATATATTATTATTAT
*
60337511 ATTTAATAATAATTATTTTAAATTATAC
66 ATTTAATAATAATAATTTTAAATTATAC
*
60337539 AAATTCATATAACAAAATTTATTA
1 AAATTCATAAAACAAAATTTATTA
60337563 GTAATAATTA
Statistics
Matches: 104, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
86 29 0.28
87 3 0.03
88 1 0.01
91 60 0.58
92 6 0.06
93 5 0.05
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (93 bp):
AAATTCATAAAACAAAATTTATTATCAAGAATTTTATGAAATTATATATTATATATTATTATTAT
ATTTAATAATAATAATTTTAAATTATAC
Found at i:60337705 original size:15 final size:16
Alignment explanation
Indices: 60337677--60337706 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60337667 TAAAATCATA
60337677 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
60337693 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
60337707 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:60337726 original size:18 final size:17
Alignment explanation
Indices: 60337698--60337732 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60337688 ATTATTAAGA
*
60337698 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60337715 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60337733 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60337781 original size:120 final size:120
Alignment explanation
Indices: 60337578--60337986 Score: 730
Period size: 120 Copynumber: 3.4 Consensus size: 120
60337568 AATTATTTTA
*
60337578 AATTTTATTAAATCATATATTTTAATTAAAATAT-TTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
60337642 ATAGTATCATATATTATGATTTTAGTAAAATCATATAAGAATATTTATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
60337697 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
60337762 ATAGTATCATATGTTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
*
60337817 AATTTTATTGAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
60337882 ATAATATCATATATTATGATTTTAGGAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
*
60337937 ACTTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
60337987 GTTAAAATAT
Statistics
Matches: 278, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
119 33 0.12
120 245 0.88
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:60337813 original size:66 final size:63
Alignment explanation
Indices: 60337622--60337933 Score: 202
Period size: 63 Copynumber: 5.1 Consensus size: 63
60337612 TTTAATAATA
* *
60337622 ATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAATCATATAAGAATATT
1 ATTATTTCAAATTATATTTTATAATATCATAT-TTATGATTTTAG-AAATTCATATAAGAATA-T
60337687 T
63 T
* * * * *
60337688 ATTA-TTAAGAATT-T-TATTA-AATTAT-ATATTT-T-A-ATTA-AAATAT-ATTTAATAATA-
1 ATTATTTCA-AATTATATTTTATAA-TATCATATTTATGATTTTAGAAAT-TCATATAAGAATAT
60337742 -
63 T
*
60337742 ATTATTTCAAATTATATTTTATAGTATCATATGTTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTCAAATTATATTTTATAATATCATAT-TTATGATTTTAG-AAATTCATATAAGAATATT
* * * * * * *
60337807 GATTA-TTAAGAATTTTA-TTGA-ATTAT-ATATTT-T-A-ATTA-AAATAT-ATTTAATAATA-
1 -ATTATTTCA-AATTATATTTTATAATATCATATTTATGATTTTAGAAAT-TCATATAAGAATAT
60337862 -
63 T
60337862 ATTATTTCAAATTATATTTTATAATATCATATATTATGATTTTAGGAAATTCATATAAGAATATT
1 ATTATTTCAAATTATATTTTATAATATCATAT-TTATGATTTTA-GAAATTCATATAAGAATATT
60337927 AATTATT
1 -ATTATT
60337934 AAGACTTTTA
Statistics
Matches: 185, Mismatches: 27, Indels: 68
0.66 0.10 0.24
Matches are distributed among these distances:
54 18 0.10
55 10 0.05
56 11 0.06
57 34 0.18
58 6 0.03
59 8 0.04
60 4 0.02
61 8 0.04
62 6 0.03
63 35 0.19
64 11 0.06
65 10 0.05
66 24 0.13
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (63 bp):
ATTATTTCAAATTATATTTTATAATATCATATTTATGATTTTAGAAATTCATATAAGAATATT
Found at i:60337966 original size:18 final size:17
Alignment explanation
Indices: 60337939--60337972 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60337929 TTATTAAGAC
*
60337939 TTTTATTAAATTATATA
1 TTTTATTAAAATATATA
60337956 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
60337973 TTAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATA
Found at i:60338243 original size:9 final size:9
Alignment explanation
Indices: 60338229--60338258 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
60338219 TCGACCTTGA
60338229 TTTGTTTTC
1 TTTGTTTTC
60338238 TTTGTTTTC
1 TTTGTTTTC
*
60338247 TTTGTTTCC
1 TTTGTTTTC
60338256 TTT
1 TTT
60338259 AATTTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (9 bp):
TTTGTTTTC
Found at i:60338857 original size:25 final size:25
Alignment explanation
Indices: 60338829--60338883 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
60338819 CGAATTATAT
*
60338829 ATTAAATATATATATTT-TATTTTTA
1 ATTAAATATATAT-TTTATATATTTA
60338854 ATTAAATATATATTTTATATATTTA
1 ATTAAATATATATTTTATATATTTA
*
60338879 TTTAA
1 ATTAA
60338884 TATGGGTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTAAATATATATTTTATATATTTA
Found at i:60341096 original size:24 final size:23
Alignment explanation
Indices: 60341064--60341115 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
60341054 ATTCTTGGAG
60341064 TTTTTTTTTCCTCCAAGAAAGCAA
1 TTTTTTTTT-CTCCAAGAAAGCAA
60341088 TTTTTTTTTCTCCAAGAAAGCAA
1 TTTTTTTTTCTCCAAGAAAGCAA
*
60341111 CTTTT
1 TTTTT
60341116 AGTGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTTTTTTTCTCCAAGAAAGCAA
Found at i:60342070 original size:18 final size:19
Alignment explanation
Indices: 60342047--60342086 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
60342037 CTTTACGTTA
*
60342047 AATTTTTGAATG-TTTTAT
1 AATTTTTAAATGATTTTAT
*
60342065 AATTTTTAAATGATTTTTT
1 AATTTTTAAATGATTTTAT
60342084 AAT
1 AAT
60342087 GTGGCATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
AATTTTTAAATGATTTTAT
Found at i:60346707 original size:26 final size:26
Alignment explanation
Indices: 60346656--60346708 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
60346646 TTTATTCGTA
**
60346656 ATTAATATATTTTAACTTTTTCCTTT
1 ATTAATATATTTTAACTTTTAACTTT
60346682 ATTAATATATTTTAA-TTTTGAACTTT
1 ATTAATATATTTTAACTTTT-AACTTT
60346708 A
1 A
60346709 GATTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTAATATATTTTAACTTTTAACTTT
Found at i:60349233 original size:3 final size:3
Alignment explanation
Indices: 60349225--60349250 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60349215 CATAAAAAAT
60349225 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
60349251 GGGAGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:60352153 original size:19 final size:19
Alignment explanation
Indices: 60352131--60352185 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 19
60352121 AAAATTCAAA
60352131 AAAAATATAAAAGTTATTT
1 AAAAATATAAAAGTTATTT
*
60352150 -AAAA-ATAAATGTTA-TT
1 AAAAATATAAAAGTTATTT
* *
60352166 AAAAATTCTAAAAATTATTT
1 AAAAA-TATAAAAGTTATTT
60352186 TGTTAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 4 0.14
19 7 0.25
20 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATATAAAAGTTATTT
Found at i:60352169 original size:16 final size:17
Alignment explanation
Indices: 60352132--60352171 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
60352122 AAATTCAAAA
60352132 AAAATATAAAAGTTATTT
1 AAAA-ATAAAAGTTATTT
*
60352150 AAAAATAAATGTTA-TT
1 AAAAATAAAAGTTATTT
60352166 AAAAAT
1 AAAAAT
60352172 TCTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 9 0.43
18 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AAAAATAAAAGTTATTT
Found at i:60353464 original size:26 final size:27
Alignment explanation
Indices: 60353435--60353492 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
60353425 CTTTTAGAAA
60353435 TATTTA-AATATATTATATATCATTCC
1 TATTTAGAATATATTATATATCATTCC
*
60353461 TATTTAGGAATATATTATATATCTTTCC
1 TATTTA-GAATATATTATATATCATTCC
60353489 TATT
1 TATT
60353493 CCTACGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.21
28 23 0.79
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTTAGAATATATTATATATCATTCC
Found at i:60363009 original size:31 final size:31
Alignment explanation
Indices: 60362916--60363011 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
60362906 GGCAAATTAC
*
60362916 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
60362947 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
60362979 AAGAGTAACTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
60363010 AA
1 AA
60363012 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:60366159 original size:11 final size:11
Alignment explanation
Indices: 60366143--60366241 Score: 79
Period size: 11 Copynumber: 9.5 Consensus size: 11
60366133 GTAGGCAACT
60366143 TTTTTTTTGCG
1 TTTTTTTTGCG
60366154 TTTTTTTTGC-
1 TTTTTTTTGCG
*
60366164 ---TTTTTGCT
1 TTTTTTTTGCG
60366172 TTTTTTTTGCG
1 TTTTTTTTGCG
**
60366183 CTTTTTACT-C-
1 -TTTTTTTTGCG
*
60366193 TCTTTTTTGCG
1 TTTTTTTTGCG
*
60366204 CTTTTTTTTGCT
1 -TTTTTTTTGCG
60366216 TTTTTTTTGC-
1 TTTTTTTTGCG
60366226 -TTTTTTTGCG
1 TTTTTTTTGCG
60366236 TTTTTT
1 TTTTTT
60366242 ACTCTCTCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
7 7 0.10
9 14 0.20
10 1 0.01
11 33 0.47
12 15 0.21
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGCG
Found at i:60366169 original size:18 final size:18
Alignment explanation
Indices: 60366146--60366181 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60366136 GGCAACTTTT
60366146 TTTTTGCGTTTTTTTTGC
1 TTTTTGCGTTTTTTTTGC
*
60366164 TTTTTGCTTTTTTTTTGC
1 TTTTTGCGTTTTTTTTGC
60366182 GCTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.14, T:0.75
Consensus pattern (18 bp):
TTTTTGCGTTTTTTTTGC
Found at i:60366221 original size:53 final size:53
Alignment explanation
Indices: 60366145--60366282 Score: 187
Period size: 53 Copynumber: 2.6 Consensus size: 53
60366135 AGGCAACTTT
**
60366145 TTTTTTGCG-TTTTTTTTGCTTTTTGCTT-TTTTTTTGCGCTTTTTA-CTCTC
1 TTTTTTGCGCTTTTTTTTGCTTTTTTTTTCTTTTTTTGCGCTTTTTACCTCTC
*
60366195 TTTTTTGCGCTTTTTTTTGCTTTTTTTTTGCTTTTTTTGCGTTTTTTACTCTCTC
1 TTTTTTGCGCTTTTTTTTGCTTTTTTTTT-CTTTTTTTGCGCTTTTTAC-CTCTC
60366250 TTTTTTGCGC--TTTTTTGCTTTTTTTTTGCTTTT
1 TTTTTTGCGCTTTTTTTTGCTTTTTTTTT-CTTTT
60366283 ATTTAAAGAA
Statistics
Matches: 80, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
50 9 0.11
51 17 0.21
53 39 0.49
55 15 0.19
ACGTcount: A:0.01, C:0.15, G:0.12, T:0.72
Consensus pattern (53 bp):
TTTTTTGCGCTTTTTTTTGCTTTTTTTTTCTTTTTTTGCGCTTTTTACCTCTC
Found at i:60366924 original size:31 final size:31
Alignment explanation
Indices: 60366831--60366926 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
60366821 GGCAAATTAC
* *
60366831 AAGAGTAATTGAATTCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
60366862 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
60366894 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
60366925 AA
1 AA
60366927 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:60374054 original size:8 final size:8
Alignment explanation
Indices: 60374040--60374092 Score: 72
Period size: 8 Copynumber: 6.8 Consensus size: 8
60374030 AAAGTTAAAA
60374040 TATAATAT
1 TATAATAT
*
60374048 CATAATAT
1 TATAATAT
60374056 TATAATAT
1 TATAATAT
60374064 TATAATA-
1 TATAATAT
*
60374071 TATATTAT
1 TATAATAT
*
60374079 TATATTAT
1 TATAATAT
60374087 TATAAT
1 TATAAT
60374093 TAAATAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 6 0.15
8 34 0.85
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (8 bp):
TATAATAT
Found at i:60374075 original size:28 final size:28
Alignment explanation
Indices: 60374011--60374086 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
60374001 GGATAAGTGT
60374011 ATATATATTATAAATATT-TAAAGTTAAA
1 ATATATATTAT-AATATTATAAAGTTAAA
* *
60374039 ATATAATATCATAATATTATAATA-TTATA
1 ATAT-ATATTATAATATTATAA-AGTTAAA
*
60374068 ATATATATTATTATATTAT
1 ATATATATTATAATATTAT
60374087 TATAATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 23 0.56
29 17 0.41
30 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATATATTATAATATTATAAAGTTAAA
Found at i:60374141 original size:26 final size:27
Alignment explanation
Indices: 60374101--60374151 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
60374091 ATTAAATAAA
*
60374101 AGAAAAAGAATAGAAAAA-GAAAGACC
1 AGAAAAAGAAGAGAAAAAGGAAAGACC
*
60374127 AGAAACAGAAGAGAAAAAGGAAAGA
1 AGAAAAAGAAGAGAAAAAGGAAAGA
60374152 AAAGGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.69, C:0.06, G:0.24, T:0.02
Consensus pattern (27 bp):
AGAAAAAGAAGAGAAAAAGGAAAGACC
Found at i:60374844 original size:24 final size:24
Alignment explanation
Indices: 60374817--60374863 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
60374807 ATTGAAATAG
60374817 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
60374841 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
60374864 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:60376735 original size:22 final size:22
Alignment explanation
Indices: 60376705--60376746 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
60376695 AAAATTGAAG
*
60376705 TAATTGAAAATATTCTACTTTT
1 TAATAGAAAATATTCTACTTTT
60376727 TAATAGAAAATATTCTACTT
1 TAATAGAAAATATTCTACTT
60376747 AATTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (22 bp):
TAATAGAAAATATTCTACTTTT
Found at i:60380080 original size:29 final size:29
Alignment explanation
Indices: 60380037--60380143 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
60380027 GCTTTTTGTA
60380037 CTGTTAATGCACTTCGGTGCCACTCTGTT
1 CTGTTAATGCACTTCGGTGCCACTCTGTT
* * * * *
60380066 TTGTTAAAGCACTTCAGTGTCATTCTGTT
1 CTGTTAATGCACTTCGGTGCCACTCTGTT
** *
60380095 CTAATATTGCACTTCGGTGCCACTCTGTT
1 CTGTTAATGCACTTCGGTGCCACTCTGTT
* * * *
60380124 CTATCATTGCACTTTGGTGC
1 CTGTTAATGCACTTCGGTGC
60380144 ATCTCTTTAT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (29 bp):
CTGTTAATGCACTTCGGTGCCACTCTGTT
Found at i:60381771 original size:24 final size:23
Alignment explanation
Indices: 60381727--60381772 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60381717 CCACTTAGTT
* *
60381727 AAATTTAAAATAAAGTCAAACTA
1 AAATTTAAAATAAAATAAAACTA
*
60381750 AAATTTTAAATAAAAATAAAACT
1 AAATTTAAAAT-AAAATAAAACT
60381773 CTGTCGATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTTAAAATAAAATAAAACTA
Found at i:60384337 original size:3 final size:3
Alignment explanation
Indices: 60384329--60384357 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60384319 CCTGGGATTT
60384329 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
60384358 ATTTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:60387449 original size:13 final size:13
Alignment explanation
Indices: 60387431--60387460 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60387421 TCATTTCAGT
60387431 CATTTTCCATCTC
1 CATTTTCCATCTC
60387444 CATTTTCCATCTC
1 CATTTTCCATCTC
60387457 CATT
1 CATT
60387461 AAAGGCAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.47
Consensus pattern (13 bp):
CATTTTCCATCTC
Found at i:60390018 original size:25 final size:25
Alignment explanation
Indices: 60389984--60390037 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
60389974 ACTTGGATGG
60389984 ATGTTGTCTCGCCTGCATTTTGAAA
1 ATGTTGTCTCGCCTGCATTTTGAAA
60390009 ATGTTGTCTCGCCTGCATTTTGAAA
1 ATGTTGTCTCGCCTGCATTTTGAAA
60390034 ATGT
1 ATGT
60390038 CTGGGCTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (25 bp):
ATGTTGTCTCGCCTGCATTTTGAAA
Found at i:60395911 original size:26 final size:27
Alignment explanation
Indices: 60395878--60395942 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
60395868 GTGAATATTG
*
60395878 TATA-TATTTATATATAATATTATTTT
1 TATATTATTTATATATAATATTATTAT
*
60395904 TA-ATTATTGTAT-TTTAATATTATTAT
1 TATATTATT-TATATATAATATTATTAT
*
60395930 TATATTATATATA
1 TATATTATTTATA
60395943 CTTCTTCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 23 0.72
27 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TATATTATTTATATATAATATTATTAT
Found at i:60395929 original size:3 final size:3
Alignment explanation
Indices: 60395895--60395986 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
60395885 TTATATATAA
* * *
60395895 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
60395937 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60395983 TAT T
1 TAT T
60395987 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:60413866 original size:68 final size:68
Alignment explanation
Indices: 60413747--60413918 Score: 204
Period size: 68 Copynumber: 2.5 Consensus size: 68
60413737 CTTTCCAAGG
**
60413747 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
60413811 -TTAA
65 GTT-A
** * *
60413815 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
60413880 GTTT
65 GTTA
* ** *
60413884 TAAATTGACTCATATTGCGAGAGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCT
60413919 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
68 67 0.74
69 21 0.23
70 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTATG
TTA
Found at i:60414540 original size:156 final size:151
Alignment explanation
Indices: 60414284--60414812 Score: 540
Period size: 156 Copynumber: 3.5 Consensus size: 151
60414274 TTTCTGTTTC
60414284 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACA--CTGAGGT-ATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
** * *
60414345 G--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
60414408 CAATTCCTGTTCAATTTATGTTTTCA
131 CAATTCCTGTTC-A-TTATG---TCA
60414434 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
60414499 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
60414564 CAAATTCTACT-TTCA--A----A
131 C-AATTC--CTGTTCATTATGTCA
* * * * *
60414581 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCACTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-AATTTCAAT
** *
60414644 TTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCA
62 TTCTG--TTT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
* *
60414709 CGCTGAGGTATTTTCAATTACTG----TT-TGGCA
117 CGCTGAGGTATTTTCAATTCCTGTTCATTATGTCA
* * * * *
60414739 AAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
60414804 GTTTTTCAA
66 GTTTTTCAA
60414813 TTTATGTTTT
Statistics
Matches: 321, Mismatches: 26, Indels: 68
0.77 0.06 0.16
Matches are distributed among these distances:
146 4 0.01
147 41 0.13
148 2 0.01
149 13 0.04
150 38 0.12
151 7 0.02
152 3 0.01
153 10 0.03
154 17 0.05
156 72 0.22
157 8 0.02
158 45 0.14
159 61 0.19
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (151 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
CAATTCCTGTTCATTATGTCA
Found at i:60414552 original size:73 final size:72
Alignment explanation
Indices: 60413922--60414808 Score: 1049
Period size: 73 Copynumber: 12.2 Consensus size: 72
60413912 TAAGCCTTTT
* *
60413922 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
60413986 GTAATTTC
65 GTAATTTC
**
60413994 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414059 TAATTTC
66 TAATTTC
60414066 AATTTCTGTTTTCAAAAATCAACTCATATTGC--GA-GTGAGTTGAGCCTCA-GACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414127 TAATTTC
66 TAATTTC
**
60414134 AATTTCTGTTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414197 T-ATTTC
66 TAATTTC
60414203 AATTT-TGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414265 TAATTTC
66 TAATTTC
60414272 AATTTCTG-TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACA--CTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414332 T-ATTTC
66 TAATTTC
* *
60414338 AATTTCTG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414402 TATTTTCAATTCCTGTTC
66 -----T-AA----T-TTC
*
60414420 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
60414485 TAATTTC
66 TAATTTC
* * *
60414492 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
60414557 GTATTTTC
65 GTAATTTC
* ** * * *
60414565 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TG
1 AATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
* *
60414628 TTGAGTCACTTTC
63 -AG-GT-AATTTC
** * *
60414641 AATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG
1 AATTTCTG---TT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
60414706 GCACGCTGAGGTATTTTC
55 ACACGCTGAGGTAATTTC
* * * * *
60414724 AATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
60414789 GTATTTTC
65 GTAATTTC
*
60414797 CATTTCTGTTTT
1 AATTTCTGTTTT
60414809 TCAATTTATG
Statistics
Matches: 721, Mismatches: 52, Indels: 84
0.84 0.06 0.10
Matches are distributed among these distances:
66 17 0.02
67 64 0.09
68 90 0.12
69 82 0.11
70 36 0.05
71 5 0.01
72 108 0.15
73 130 0.18
74 41 0.06
75 3 0.00
76 11 0.02
77 3 0.00
78 1 0.00
79 4 0.01
80 3 0.00
81 3 0.00
82 10 0.01
83 66 0.09
84 2 0.00
85 38 0.05
86 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:60414696 original size:232 final size:225
Alignment explanation
Indices: 60414200--60414796 Score: 773
Period size: 232 Copynumber: 2.6 Consensus size: 225
60414190 GCTGAGGTAT
*
60414200 TTCAAT-TTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGA
1 TTCAATGTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
60414263 GGTAATTTCAATTTCTG--TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-
66 GGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC
* * * *
60414323 ACACTGAGGTA-TTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
131 ACGCTGAGGTATTTTCAAATTCTCTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
*
60414387 CAAGACACGTTGAGGTATTTTCAATTCCTG
196 CAAGACACGTTGAGGTACTTTCAATTCCTG
*
60414417 TTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 TTCAATGTATGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
60414482 AGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
65 AGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG
*
60414547 GCACGCCGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
129 GCACGCTGAGGTATTTTCAAATTCT-CTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTG
** * *
60414612 AGCCT-TGGCTCACGTGTTGA-GTCACTTTCAATTTCTG
191 AGCCTCAAG-ACAC--GTTGAGGT-ACTTTCAATTCCTG
** * * * * *
60414649 TTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 -TTCAATGTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * ** * *
60414714 AGGTATTTTCAATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG
65 AGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG
* *
60414779 ACATGCTGAGGTATTTTC
129 GCACGCTGAGGTATTTTC
60414797 CATTTCTGTT
Statistics
Matches: 332, Mismatches: 30, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
217 6 0.02
218 8 0.02
219 38 0.11
220 27 0.08
222 4 0.01
223 37 0.11
225 1 0.00
226 9 0.03
227 10 0.03
228 4 0.01
229 1 0.00
230 39 0.12
231 2 0.01
232 134 0.40
233 12 0.04
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (225 bp):
TTCAATGTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC
ACGCTGAGGTATTTTCAAATTCTCTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
CAAGACACGTTGAGGTACTTTCAATTCCTG
Found at i:60414699 original size:159 final size:159
Alignment explanation
Indices: 60414501--60414886 Score: 451
Period size: 159 Copynumber: 2.4 Consensus size: 159
60414491 CAATTTCTGT
*
60414501 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
* * * * *
60414566 AATT-CTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACGTGT
66 AATTACT-CTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGG---ACATGC
*
60414629 TGA-GTCACTTTCAATTTCTGTTTTT-ATGTCTG
127 TGAGGT-ACTTTCAATTTCTGTTTTTAATGTATG
* *
60414661 TTTTC-TAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
* *** *
60414724 AATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
66 AATTACTCTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAG
* * *
60414789 GTATTTTCCATTTCTGTTTTTCAATTTATG
131 GTACTTTCAATTTCTGTTTTT-AATGTATG
* * * * * *
60414819 TTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGC--ACGCCGAGGTATTTT
60414884 CAA
64 CAA
60414887 TAGATGTTTT
Statistics
Matches: 192, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
156 24 0.12
157 2 0.01
158 51 0.27
159 94 0.49
160 5 0.03
161 15 0.08
162 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (159 bp):
TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
AATTACTCTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAG
GTACTTTCAATTTCTGTTTTTAATGTATG
Found at i:60417231 original size:13 final size:12
Alignment explanation
Indices: 60417189--60417244 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
60417179 GAATATGTAT
* *
60417189 ATATTATATATA
1 ATATTATTTTTA
60417201 ATATTATTTTTA
1 ATATTATTTTTA
*
60417213 ATTATTGTATTTTA
1 A-TATTAT-TTTTA
*
60417227 ATATTATTATT-
1 ATATTATTTTTA
60417238 ATATTAT
1 ATATTAT
60417245 ATATACTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
11 7 0.19
12 14 0.38
13 10 0.27
14 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
ATATTATTTTTA
Found at i:60417233 original size:38 final size:38
Alignment explanation
Indices: 60417189--60417283 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
60417179 GAATATGTAT
* *
60417189 ATATTATATATAATATTATTTTTAATTATT-GTATTTTA
1 ATATTAT-TATAATATTATATATAATTATTCGTATTTTA
* * *
60417227 ATATTATTATTATATTATATATACTTCTTCGTATTTTA
1 ATATTATTATAATATTATATATAATTATTCGTATTTTA
* *
60417265 TTATTATTAGTATTATTAT
1 ATATTATTA-TAATATTAT
60417284 CATTATTCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
37 17 0.36
38 23 0.49
39 7 0.15
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (38 bp):
ATATTATTATAATATTATATATAATTATTCGTATTTTA
Found at i:60423141 original size:20 final size:19
Alignment explanation
Indices: 60423089--60423157 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
60423079 TTATATAGAT
*
60423089 ATATTTTTATAATTTAT-A
1 ATATTTTTATAATTTTTAA
60423107 AT-TTCTTCTAT-ATTTTTAA
1 ATATT-TT-TATAATTTTTAA
60423126 ATATTTTATATAATTTTTAA
1 ATATTTT-TATAATTTTTAA
60423146 ATATTTTTATAA
1 ATATTTTTATAA
60423158 AAAATAGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.05
18 9 0.20
19 16 0.36
20 17 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTTATAATTTTTAA
Found at i:60423153 original size:11 final size:10
Alignment explanation
Indices: 60423116--60423154 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
60423106 AATTTCTTCT
60423116 ATATTTTTAA
1 ATATTTTTAA
*
60423126 ATA-TTTTAT
1 ATATTTTTAA
60423135 ATAATTTTTAA
1 AT-ATTTTTAA
60423146 ATATTTTTA
1 ATATTTTTA
60423155 TAAAAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:60424057 original size:10 final size:10
Alignment explanation
Indices: 60424042--60424070 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
60424032 TGGGTATCTA
60424042 ATTTTTTTTT
1 ATTTTTTTTT
60424052 A-TTTTTTTT
1 ATTTTTTTTT
60424061 ATTTTTTTTT
1 ATTTTTTTTT
60424071 GATACGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:60424058 original size:9 final size:9
Alignment explanation
Indices: 60424044--60424069 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
60424034 GGTATCTAAT
60424044 TTTTTTTTA
1 TTTTTTTTA
60424053 TTTTTTTTA
1 TTTTTTTTA
60424062 TTTTTTTT
1 TTTTTTTT
60424070 TGATACGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:60430323 original size:22 final size:23
Alignment explanation
Indices: 60430288--60430332 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
60430278 CTGCGTTGTG
60430288 GATAAACCACCACTGATT-TGCA
1 GATAAACCACCACTGATTGTGCA
* * *
60430310 GATAAACTATCACTTATTGTGCA
1 GATAAACCACCACTGATTGTGCA
60430333 TACACAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (23 bp):
GATAAACCACCACTGATTGTGCA
Found at i:60431742 original size:22 final size:22
Alignment explanation
Indices: 60431717--60431758 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
60431707 CATCTTAATA
60431717 TTAATATTAATATTTTTAAATT
1 TTAATATTAATATTTTTAAATT
* *
60431739 TTAATATTTATGTTTTTAAA
1 TTAATATTAATATTTTTAAA
60431759 CCTTGCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAATATTAATATTTTTAAATT
Found at i:60432014 original size:43 final size:43
Alignment explanation
Indices: 60431953--60432044 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
60431943 TGTATAAGAG
60431953 AAAGAAAAAATAAGCTTTCGATTGGTGCATGCAGTGTGAATAA
1 AAAGAAAAAATAAGCTTTCGATTGGTGCATGCAGTGTGAATAA
*
60431996 AAAGAAAAAATGAGCTTTCGATTGGTGCATGCAGTGTGAATAA
1 AAAGAAAAAATAAGCTTTCGATTGGTGCATGCAGTGTGAATAA
60432039 AGAAGA
1 A-AAGA
60432045 CCATATTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.24
Consensus pattern (43 bp):
AAAGAAAAAATAAGCTTTCGATTGGTGCATGCAGTGTGAATAA
Found at i:60456311 original size:10 final size:11
Alignment explanation
Indices: 60456296--60456324 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
60456286 GCCAAAGATG
60456296 TGAATTGAAT-
1 TGAATTGAATA
60456306 TGAATTGAATA
1 TGAATTGAATA
60456317 TGAATTGA
1 TGAATTGA
60456325 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:60456680 original size:24 final size:25
Alignment explanation
Indices: 60456642--60456694 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
60456632 CAGCTCGAAA
** *
60456642 GAGCATCCCGTTA-TTAGCTCTCAT
1 GAGCATCCCAATATTTAGCTCTCAC
*
60456666 GAGCATCCCAATATTTGGCTCTCAC
1 GAGCATCCCAATATTTAGCTCTCAC
60456691 GAGC
1 GAGC
60456695 TTTCCGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (25 bp):
GAGCATCCCAATATTTAGCTCTCAC
Found at i:60456891 original size:24 final size:24
Alignment explanation
Indices: 60456799--60456917 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 24
60456789 CTCTTATGAG
* * *
60456799 CTTCCCGATATACGGCTCTCCGGAG
1 CTTCCCGAT-TATGGCTCTCCAGAA
* * * *
60456824 CTTCCCGATTAAAGGTTCTTTCATGAG
1 CTTCCCGATT-ATGGCTC-TCCA-GAA
*
60456851 CTTCCTGATTAATGGCTCTCCAGAA
1 CTTCCCGATT-ATGGCTCTCCAGAA
* **
60456876 CTTCCCGA-TATTGGCTCGCTTGAA
1 CTTCCCGATTA-TGGCTCTCCAGAA
60456900 CTTCCCGATTATGGCTCT
1 CTTCCCGATTATGGCTCT
60456918 TATAAGCTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 26 0.35
25 25 0.33
26 5 0.07
27 18 0.24
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (24 bp):
CTTCCCGATTATGGCTCTCCAGAA
Found at i:60457941 original size:7 final size:7
Alignment explanation
Indices: 60457931--60457996 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
60457921 AAAGTTAAAA
60457931 TATATAT
1 TATATAT
60457938 TATAATAT
1 TAT-ATAT
60457946 TATAATAT
1 TAT-ATAT
*
60457954 TATATCT
1 TATATAT
60457961 TA-ATTAT
1 TATA-TAT
60457968 TAAGTATAT
1 T-A-TATAT
60457977 ATATTATAT
1 -TA-TATAT
60457986 TATATAT
1 TATATAT
60457993 TATA
1 TATA
60457997 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:60457947 original size:8 final size:8
Alignment explanation
Indices: 60457934--60457999 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
60457924 GTTAAAATAT
60457934 ATATTATA
1 ATATTATA
60457942 ATATTATA
1 ATATTATA
60457950 ATATTAT-
1 ATATTATA
*
60457957 ATCTTA-A
1 ATATTATA
*
60457964 TTATTA-A
1 ATATTATA
*
60457971 GTATATATATT
1 --ATAT-TATA
60457982 ATATTAT-
1 ATATTATA
60457989 ATATTATA
1 ATATTATA
60457997 ATA
1 ATA
60458000 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:60457966 original size:27 final size:26
Alignment explanation
Indices: 60457931--60457999 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
60457921 AAAGTTAAAA
60457931 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
60457959 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
60457986 TATATATTATAATA
1 TATATATTATAATA
60458000 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:60458009 original size:30 final size:32
Alignment explanation
Indices: 60457941--60458009 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
60457931 TATATATTAT
* *
60457941 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
60457974 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
60458004 AATATA
1 AATATA
60458010 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:60458102 original size:14 final size:14
Alignment explanation
Indices: 60458079--60458115 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
60458069 ATAAGGAAAC
60458079 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
60458092 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
60458106 -GAGAAA-AAAA
1 AGAGAAAGAAAA
60458116 TTAAGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:60458109 original size:15 final size:13
Alignment explanation
Indices: 60458079--60458115 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
60458069 ATAAGGAAAC
60458079 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
60458092 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
60458106 -GAGAA-AAAAA
1 AGAGAAGAAAAA
60458116 TTAAGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:60460697 original size:25 final size:25
Alignment explanation
Indices: 60460668--60460720 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
60460658 TTAGCGCGCG
* * **
60460668 CTCTGATTATTAGCACGTTGGTGCT
1 CTCTGATTACTAACACGTCAGTGCT
60460693 CTCTGATTACTAACACGTCAGTGCT
1 CTCTGATTACTAACACGTCAGTGCT
60460718 CTC
1 CTC
60460721 CATTTAGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (25 bp):
CTCTGATTACTAACACGTCAGTGCT
Done.