Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 229 of 284
Found at i:76296443 original size:23 final size:23
Alignment explanation
Indices: 76296306--76296433 Score: 193
Period size: 23 Copynumber: 5.6 Consensus size: 23
76296296 ATTAATACCC
* * *
76296306 TTAACTTAAAATCTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
76296329 TTTAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
76296352 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
76296375 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
76296398 TTAAATTAAAAACCCGAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
76296421 TTAAATTAAAAAC
1 TTAAATTAAAAAC
76296434 AAAACCCTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 95 1.00
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:76296443 original size:69 final size:69
Alignment explanation
Indices: 76296306--76296439 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
76296296 ATTAATACCC
* * * **
76296306 TTAACTTAAAATCTCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCGAACCTAATTAAATTAAAAACCAAAAC
76296371 CTAA
66 CTAA
76296375 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCGAACCTAATTAAATTAAAAA-CAAAAC
1 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCGAACCTAATTAAATTAAAAACCAAAAC
76296439 C
66 C
76296440 CTAACCTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 5 0.08
69 55 0.92
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.28
Consensus pattern (69 bp):
TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCGAACCTAATTAAATTAAAAACCAAAAC
CTAA
Found at i:76296584 original size:22 final size:22
Alignment explanation
Indices: 76296559--76296624 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
76296549 TTTATCAATT
*
76296559 AACCCTTAACTTAAAAACACTA
1 AACCCTTAACTTAAAAACCCTA
76296581 AACCCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
*
76296602 AACTCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
76296624 A
1 A
76296625 CCTAATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCCTA
Found at i:76296609 original size:21 final size:21
Alignment explanation
Indices: 76296558--76296626 Score: 111
Period size: 21 Copynumber: 3.2 Consensus size: 21
76296548 ATTTATCAAT
*
76296558 TAACCCTTAACTTAAAAACAC
1 TAACCCTTAACTTAAAAACCC
76296579 TAAACCCTTAACTTAAAAACCC
1 T-AACCCTTAACTTAAAAACCC
*
76296601 TAACTCTTAACTTAAAAACCC
1 TAACCCTTAACTTAAAAACCC
76296622 TAACC
1 TAACC
76296627 TAATTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 24 0.55
22 20 0.45
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCC
Found at i:76296653 original size:22 final size:21
Alignment explanation
Indices: 76296614--76296655 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76296604 CTCTTAACTT
*
76296614 AAAAACCCTAACCTAATTAAA
1 AAAAACCCTAACCAAATTAAA
*
76296635 AAAAACCCTAAACGAAATTAA
1 AAAAACCCT-AACCAAATTAA
76296656 TAATTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.21, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAACCCTAACCAAATTAAA
Found at i:76296840 original size:61 final size:61
Alignment explanation
Indices: 76296765--76297070 Score: 234
Period size: 61 Copynumber: 5.2 Consensus size: 61
76296755 TACAATTTAT
76296765 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
* * * * ** * * ** * *
76296826 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAAT-AC-AAT-TTAT
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-GTT-TTGACTGGTACTAA
76296880 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
* * * * ** * * ** * *
76296941 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAAT-AC-AAT-TTAT
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-GTT-TTGACTGGTACTAA
76296995 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
76297056 CAATTAATAATTTTA
1 CAATTAATAATTTTA
76297071 TATAATTTGA
Statistics
Matches: 175, Mismatches: 48, Indels: 44
0.66 0.18 0.16
Matches are distributed among these distances:
54 36 0.21
55 12 0.07
56 18 0.10
57 14 0.08
58 14 0.08
59 18 0.10
60 12 0.07
61 51 0.29
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (61 bp):
CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
Found at i:76296862 original size:115 final size:115
Alignment explanation
Indices: 76296650--76297123 Score: 887
Period size: 115 Copynumber: 4.1 Consensus size: 115
76296640 CCCTAAACGA
* **
76296650 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
76296715 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
76296766 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
76296831 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
76296881 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
76296946 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
76296996 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
76297061 AATAATTTTATATAATTTGATAATTTTTACTAA-CTATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAA-TTTTACTAATC-ATTAATACAATTTATC
76297112 AATTAATAATTT
1 AATTAATAATTT
76297124 CACAAACTTA
Statistics
Matches: 353, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
115 273 0.77
116 80 0.23
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:76300354 original size:124 final size:124
Alignment explanation
Indices: 76300133--76300633 Score: 878
Period size: 124 Copynumber: 4.0 Consensus size: 124
76300123 CCCAAACATG
* * *
76300133 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTTCAC-AAATTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGA-TTTCACAAAATT-TTCTCAAATAGCATCCT
76300197 GCTAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
64 GCTAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
76300258 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
76300323 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
76300382 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
76300447 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
76300506 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
* * * *** *
76300571 TAGAAGCGATTTTATACTATTTGATCAGAAACGTTAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAA-AAAAAATTATTTCTTCCATGAC
76300631 CTA
1 CTA
76300634 AAAACCCTAA
Statistics
Matches: 364, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
124 307 0.84
125 57 0.16
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACTAGGGCGTGATTTCACAAAATTTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:76301371 original size:74 final size:74
Alignment explanation
Indices: 76301283--76301426 Score: 288
Period size: 74 Copynumber: 1.9 Consensus size: 74
76301273 TCTCGGGTAG
76301283 AAAAAAAAAAAAGGACGTTTGCTCGCATTTGTTAATCAAAGATTGTTTTATTAGGAAACATAACT
1 AAAAAAAAAAAAGGACGTTTGCTCGCATTTGTTAATCAAAGATTGTTTTATTAGGAAACATAACT
76301348 GAGCTAGAA
66 GAGCTAGAA
76301357 AAAAAAAAAAAAGGACGTTTGCTCGCATTTGTTAATCAAAGATTGTTTTATTAGGAAACATAACT
1 AAAAAAAAAAAAGGACGTTTGCTCGCATTTGTTAATCAAAGATTGTTTTATTAGGAAACATAACT
76301422 GAGCT
66 GAGCT
76301427 TTGAAATAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAAAAAAAAAAGGACGTTTGCTCGCATTTGTTAATCAAAGATTGTTTTATTAGGAAACATAACT
GAGCTAGAA
Found at i:76301552 original size:12 final size:13
Alignment explanation
Indices: 76301535--76301566 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
76301525 TTCATGAGTC
76301535 TTTATTTTTA-TT
1 TTTATTTTTACTT
76301547 TTTATTTTTACTT
1 TTTATTTTTACTT
76301560 TTT-TTTT
1 TTTATTTT
76301567 CAAGTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTACTT
Found at i:76307420 original size:13 final size:13
Alignment explanation
Indices: 76307402--76307429 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76307392 CATTTTGAGT
76307402 TAAATCATGGGTC
1 TAAATCATGGGTC
76307415 TAAATCATGGGTC
1 TAAATCATGGGTC
76307428 TA
1 TA
76307430 CTTACATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (13 bp):
TAAATCATGGGTC
Found at i:76322034 original size:17 final size:17
Alignment explanation
Indices: 76322011--76322049 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
76322001 AAAAGTAAAA
*
76322011 AAAAATTTATAAAAATTT
1 AAAATTTTATAAAAA-TT
*
76322029 AAAATTTTGTAAAAATT
1 AAAATTTTATAAAAATT
76322046 AAAA
1 AAAA
76322050 CACACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATTTTATAAAAATT
Found at i:76337651 original size:30 final size:30
Alignment explanation
Indices: 76337617--76337686 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
76337607 TTTCGCTGTA
76337617 AATTGTGTTTTGGCAAAAGAAATAATTCAT
1 AATTGTGTTTTGGCAAAAGAAATAATTCAT
76337647 AATTGTGTTTTGGCAAAAGAAATAATTCAT
1 AATTGTGTTTTGGCAAAAGAAATAATTCAT
76337677 AA-TGT-TTTTG
1 AATTGTGTTTTG
76337687 ACAACAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 5 0.12
29 3 0.08
30 32 0.80
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (30 bp):
AATTGTGTTTTGGCAAAAGAAATAATTCAT
Found at i:76351163 original size:25 final size:25
Alignment explanation
Indices: 76351135--76351184 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
76351125 ACATGTTGAG
76351135 TTAGATCTGTTCTTTGTTAGAGAGA
1 TTAGATCTGTTCTTTGTTAGAGAGA
76351160 TTAGATCTGTTCTTTGTTAGAGAGA
1 TTAGATCTGTTCTTTGTTAGAGAGA
76351185 AGATTGCGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (25 bp):
TTAGATCTGTTCTTTGTTAGAGAGA
Found at i:76352206 original size:21 final size:20
Alignment explanation
Indices: 76352174--76352212 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
76352164 TTGCAAAAAA
*
76352174 ATAAAAATTATAACAAATCT
1 ATAAAAATTATAAAAAATCT
76352194 ATAAAAATATATAAAAAAT
1 ATAAAAAT-TATAAAAAAT
76352213 GTAGGTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAATTATAAAAAATCT
Found at i:76352666 original size:23 final size:24
Alignment explanation
Indices: 76352622--76352666 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
76352612 GATAAAATAA
* *
76352622 TTTTTTCTGTAAATAACTAAGTTT
1 TTTTTTCTATAAATAACCAAGTTT
76352646 TTTTTTCTATAAA-AACCAAGT
1 TTTTTTCTATAAATAACCAAGT
76352667 AATTTCATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (24 bp):
TTTTTTCTATAAATAACCAAGTTT
Found at i:76353010 original size:32 final size:32
Alignment explanation
Indices: 76352966--76353028 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
76352956 CATTAATGGG
76352966 GAGTGGCTAAAATGAAAAAACTATCTAACAAC
1 GAGTGGCTAAAATGAAAAAACTATCTAACAAC
* *
76352998 GAGTGG-TCAAAATGAGAAAGCTATCTAACAA
1 GAGTGGCT-AAAATGAAAAAACTATCTAACAA
76353029 TAATGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (32 bp):
GAGTGGCTAAAATGAAAAAACTATCTAACAAC
Found at i:76353617 original size:12 final size:12
Alignment explanation
Indices: 76353599--76353634 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
76353589 TTCACGAACA
76353599 AGCTCGTTTATT
1 AGCTCGTTTATT
* *
76353611 GGCTCGTTTATA
1 AGCTCGTTTATT
76353623 AGCTCGTTTATT
1 AGCTCGTTTATT
76353635 TATTAATGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (12 bp):
AGCTCGTTTATT
Found at i:76353863 original size:23 final size:23
Alignment explanation
Indices: 76353818--76353863 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
76353808 AACATTGTTC
* *
76353818 GTGAACATGTTCGATTAAGTTAA
1 GTGAACATGTTCGATGAAATTAA
76353841 GTGAACATGTTCG-TGAACATTAA
1 GTGAACATGTTCGATGAA-ATTAA
76353864 ACAAACGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (23 bp):
GTGAACATGTTCGATGAAATTAA
Found at i:76365213 original size:253 final size:253
Alignment explanation
Indices: 76364759--76365269 Score: 923
Period size: 253 Copynumber: 2.0 Consensus size: 253
76364749 TCTCAATAGA
* *
76364759 AAATTTTCTAAGGCATCAAAATAAATTGAAAACAAACTCGAAAGAGAAAGAAGCCATGAACGAAC
1 AAATTCTCTAAGGCATCAAAATAAATTGAAAACAAACTCGAAAGAGAAAGAAGCCATAAACGAAC
** *
76364824 AAAAAGTCACAGAAAAATAGCGCATACAAGGTGTTTGAGTAAATTTTCTCAAAGTATCTCCATTA
66 AAAAAGTCACAGAAAAATAGCGCATACAAGGTGTTTGAGTAAATGCTCTCAAAGTATCTCAATTA
76364889 CTTTGAAGGATTACAATTGAATGATTACAAATAAGGGGGAAGACCTCTATTCATAGTTGAGCTCC
131 CTTTGAAGGATTACAATTGAATGATTACAAATAAGGGGGAAGACCTCTATTCATAGTTGAGCTCC
**
76364954 TCTAGATCCAACGGTACAAATTGAGTTATATCAATAGTTGAGATTTGTGTATATTTAC
196 TCTAGATCCAACGGTACAAATTGAGTTATATCAATAGTTGAGATTTGTACATATTTAC
*
76365012 AAATTCTCTAAGGCATCGAAATAAATTGAAAACAAACTCGAAAGAGAAAGAAGCCATAAACGAAC
1 AAATTCTCTAAGGCATCAAAATAAATTGAAAACAAACTCGAAAGAGAAAGAAGCCATAAACGAAC
* *
76365077 AAAAAGTCACAGAAAAATATCGCATACAAGGTGTTTGATTAAATGCTCTCAAAGTATCTCAATTA
66 AAAAAGTCACAGAAAAATAGCGCATACAAGGTGTTTGAGTAAATGCTCTCAAAGTATCTCAATTA
76365142 CTTTGAAGGATTACAATTGAATGATTACAAATAAGGGGGAAGACCTCTATTCATAGTTGAGCTCC
131 CTTTGAAGGATTACAATTGAATGATTACAAATAAGGGGGAAGACCTCTATTCATAGTTGAGCTCC
*
76365207 TCTAGATCCAATGGTACAAATTGAGTTATATCAATAGTTGAGATTTGTACATATTTAC
196 TCTAGATCCAACGGTACAAATTGAGTTATATCAATAGTTGAGATTTGTACATATTTAC
76365265 AAATT
1 AAATT
76365270 GAGAGTCCTA
Statistics
Matches: 247, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
253 247 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (253 bp):
AAATTCTCTAAGGCATCAAAATAAATTGAAAACAAACTCGAAAGAGAAAGAAGCCATAAACGAAC
AAAAAGTCACAGAAAAATAGCGCATACAAGGTGTTTGAGTAAATGCTCTCAAAGTATCTCAATTA
CTTTGAAGGATTACAATTGAATGATTACAAATAAGGGGGAAGACCTCTATTCATAGTTGAGCTCC
TCTAGATCCAACGGTACAAATTGAGTTATATCAATAGTTGAGATTTGTACATATTTAC
Found at i:76365991 original size:6 final size:6
Alignment explanation
Indices: 76365976--76366009 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
76365966 CAAGGATAAA
76365976 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAA
76366010 GTATGTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:76365997 original size:12 final size:13
Alignment explanation
Indices: 76365975--76366009 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
76365965 TCAAGGATAA
76365975 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
76365987 -AAAAATAAAAAT
1 AAAAAATAAAAAT
76365999 AAAAAATAAAA
1 AAAAAATAAAA
76366010 GTATGTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 10 0.48
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:76373665 original size:40 final size:41
Alignment explanation
Indices: 76373616--76373701 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 41
76373606 AATATATTTA
* *
76373616 TTTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTAAT
1 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
76373656 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAT
76373698 TTTT
1 TTTT
76373702 AAAAATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 30 0.71
42 12 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.66
Consensus pattern (41 bp):
TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
Found at i:76373678 original size:10 final size:11
Alignment explanation
Indices: 76373666--76373717 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
76373656 TTTTTTTTAA
76373666 TTTTAAAATAT
1 TTTTAAAATAT
76373677 TTTTAAAATACT
1 TTTTAAAATA-T
**
76373689 TTTT-TTA-AT
1 TTTTAAAATAT
76373698 TTTTAAAA-AT
1 TTTTAAAATAT
76373708 TTTTAAAATA
1 TTTTAAAATA
76373718 AAAATGGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 12 0.35
11 12 0.35
12 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:76373695 original size:31 final size:31
Alignment explanation
Indices: 76373657--76373717 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
76373647 CTTTTTAATT
76373657 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
76373688 TTTTTTTAATTTTTAAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
76373718 AAAATGGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:76378589 original size:41 final size:41
Alignment explanation
Indices: 76378528--76378686 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 41
76378518 TGAAAATAAG
*
76378528 ATGTTTCAGACTTTACGTCTAAG-AGGCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGTCT-AGCAGGCTTGATGCCGATGAA
76378569 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAA
* ** *
76378610 TTACTTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGC-TTGATGCCGATGAA
* * * * * *
76378651 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCG
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCG
76378687 GTGTTTTATA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.04
41 94 0.93
42 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAA
Found at i:76378645 original size:82 final size:82
Alignment explanation
Indices: 76378532--76378686 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 82
76378522 AATAAGATGT
* *
76378532 TTCAGACTTTACGTCTAAGAGGCTTGATGCCGATGAAATGTTTCAGACTTTATGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAAGAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
76378597 TGATGCCGATGAATTAC
66 TGATGCCGATGAATTAC
* * * * *
76378614 TTCAGACTTTATGTCT-AGCAGGCTTTG-TGCCGGTGAAATGTATCGGGCTTTGTGCCTAGCAGG
1 TTCAGACTTTACGTCTAAG-AGGC-TTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGG
*
76378677 CTTTATGCCG
64 CTTGATGCCG
76378687 GTGTTTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 2 0.03
82 58 0.92
83 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAAGAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
TGATGCCGATGAATTAC
Found at i:76383482 original size:21 final size:20
Alignment explanation
Indices: 76383455--76383516 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
76383445 ATTTAATCCC
76383455 TTTTTCATCTTTTTTATTAT
1 TTTTTCATCTTTTTTATTAT
* *
76383475 TTTCTTCAT-TATTTTAATAT
1 TTT-TTCATCTTTTTTATTAT
* *
76383495 ATTATCATCTTTTATTATTAT
1 TTTTTCATCTTTT-TTATTAT
76383516 T
1 T
76383517 ATTGTTATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.12
20 17 0.53
21 11 0.34
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCATCTTTTTTATTAT
Found at i:76383514 original size:3 final size:3
Alignment explanation
Indices: 76383468--76383569 Score: 59
Period size: 3 Copynumber: 34.3 Consensus size: 3
76383458 TTCATCTTTT
* * * *
76383468 TTA TTA TT- TTC TTCA TTA TT- TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
76383512 TTA TTA TTG TTA TTA TTA -TA TTTA CTA TTA TTA GTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
76383557 TCA TTA TTG TTA T
1 TTA TTA TTA TTA T
76383570 GTCGTTATAT
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
2 8 0.11
3 61 0.82
4 5 0.07
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:76383946 original size:4 final size:4
Alignment explanation
Indices: 76383937--76383999 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
76383927 TTGCATAAAT
76383937 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
76383985 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
76384000 TATATATATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:76393214 original size:143 final size:143
Alignment explanation
Indices: 76392956--76393215 Score: 317
Period size: 143 Copynumber: 1.8 Consensus size: 143
76392946 TTACAAACCT
* * *
76392956 TATACCCCTAAAGTTGCAGCGGGTCAGATTGAATCCACCATAGCGAATCTTATCTTCCTGAAGTT
1 TATACCCCTAAAGTTGCAGCGGGTCAGATTGAATCCACAACAGCAAATCTTATCTTCCTGAAGTT
** ** * ** * * *
76393021 GTAGTGGAGTAGATTGAAGCTACAAATCCTATACCCTTGAAGTTGTAGTGGTCAGATTGAAGTCA
66 CAACAGAACAAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGTCAGATTGAAGTCA
76393086 TCATAATGAATCC
131 TCATAATGAATCC
* * * *
76393099 TATACCTCTGAAGTTGCAGTGGGTCAGATTGAGA-CTACAACAGCAAATCTTATCTTCCTGAAGT
1 TATACCCCTAAAGTTGCAGCGGGTCAGATTGA-ATCCACAACAGCAAATCTTATCTTCCTGAAGT
* *
76393163 TACAACAGAACAAGA-TGAAGGTACCAATCCTATACCCCTAAAGTTGCAGTGGT
65 T-CAACAGAACAAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGT
76393216 TTGGAATGAA
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
143 89 0.93
144 7 0.07
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (143 bp):
TATACCCCTAAAGTTGCAGCGGGTCAGATTGAATCCACAACAGCAAATCTTATCTTCCTGAAGTT
CAACAGAACAAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGTCAGATTGAAGTCA
TCATAATGAATCC
Found at i:76396399 original size:29 final size:30
Alignment explanation
Indices: 76396365--76396462 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 30
76396355 TCTTTGAATG
76396365 TGTATAATTGAATCAAAATAAAAATTC-TA
1 TGTATAATTGAATCAAAATAAAAATTCATA
* * * *
76396394 TGTATATGTTTGAACCACAATCAAAATTTCATA
1 TGTATA--ATTGAATCAAAAT-AAAAATTCATA
76396427 TGTATAATT-ACATC-AAATAAAAATTCATA
1 TGTATAATTGA-ATCAAAATAAAAATTCATA
*
76396456 TATATAA
1 TGTATAA
76396463 CTATGTATCG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
29 22 0.40
30 4 0.07
31 14 0.25
32 7 0.13
33 8 0.15
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (30 bp):
TGTATAATTGAATCAAAATAAAAATTCATA
Found at i:76399626 original size:22 final size:22
Alignment explanation
Indices: 76399596--76399666 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
76399586 TATTACTACT
* *
76399596 AAAGAGAATAATATTGAAGGTA
1 AAAGTGAATATTATTGAAGGTA
76399618 AAAGTGAATTATTTCCATTGAAGGTA
1 AAAGTGAA-TA-TT--ATTGAAGGTA
*
76399644 TAAGTGAATATTATTGAAGGTA
1 AAAGTGAATATTATTGAAGGTA
76399666 A
1 A
76399667 TAGCATCGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 17 0.41
23 2 0.05
24 3 0.07
25 2 0.05
26 17 0.41
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (22 bp):
AAAGTGAATATTATTGAAGGTA
Found at i:76402719 original size:21 final size:21
Alignment explanation
Indices: 76402687--76402727 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
76402677 GAACATTTGG
76402687 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
76402708 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
76402728 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:76405188 original size:10 final size:10
Alignment explanation
Indices: 76405173--76405197 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
76405163 TCTATTTTTC
76405173 TACTAGTAAT
1 TACTAGTAAT
76405183 TACTAGTAAT
1 TACTAGTAAT
76405193 TACTA
1 TACTA
76405198 TTGTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (10 bp):
TACTAGTAAT
Found at i:76409305 original size:22 final size:22
Alignment explanation
Indices: 76409256--76409305 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
76409246 TCTTACTTTT
*
76409256 TCAATTCAGTCTCAACTCTCTC
1 TCAATTCAGTCTCAACTCTCAC
* * *
76409278 TTAATTCATTCTCAATTCTCAC
1 TCAATTCAGTCTCAACTCTCAC
76409300 TCAATT
1 TCAATT
76409306 TTAAATCCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.42
Consensus pattern (22 bp):
TCAATTCAGTCTCAACTCTCAC
Found at i:76409357 original size:26 final size:26
Alignment explanation
Indices: 76409328--76409384 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
76409318 TCAACTCTCA
76409328 TTTTTT-ATTAAAATTGTATTAAGAT
1 TTTTTTAATTAAAATTGTATTAAGAT
** *
76409353 TTTTTTAATTAATTTTGTATTACGAT
1 TTTTTTAATTAAAATTGTATTAAGAT
76409379 TTTTTT
1 TTTTTT
76409385 CATATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (26 bp):
TTTTTTAATTAAAATTGTATTAAGAT
Found at i:76409509 original size:26 final size:26
Alignment explanation
Indices: 76409471--76409528 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
76409461 AATGGTAAGA
*
76409471 ATTTT-TTATTATATT-TAATTTAATT
1 ATTTTGTTATTATATTGAAATTTAA-T
*
76409496 ATTTTGTTGTTATATTGAAATTTAAT
1 ATTTTGTTATTATATTGAAATTTAAT
76409522 ATTTTGT
1 ATTTTGT
76409529 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 17 0.59
27 7 0.24
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (26 bp):
ATTTTGTTATTATATTGAAATTTAAT
Found at i:76424366 original size:16 final size:16
Alignment explanation
Indices: 76424345--76424398 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
76424335 TTTGGTTCGC
76424345 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
76424361 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
*
76424377 AGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
76424393 CGTAAT
1 TGTAAT
76424399 AGGTAATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.02, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:76424467 original size:44 final size:46
Alignment explanation
Indices: 76424380--76424472 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
76424370 ATAGATGAGT
*
76424380 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
76424426 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
76424470 AAT
1 AAT
76424473 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:76424468 original size:39 final size:44
Alignment explanation
Indices: 76424380--76424485 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
76424370 ATAGATGAGT
*
76424380 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
76424426 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
*
76424465 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
76424486 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:76426056 original size:158 final size:159
Alignment explanation
Indices: 76425820--76426140 Score: 554
Period size: 158 Copynumber: 2.0 Consensus size: 159
76425810 TAAAAAGATA
* * *
76425820 TCATGGTCTTCAAATGAAAACTAGATAAAATAGTTTAACTTTGAAAGTCCGTTATGTAGAGGAAA
1 TCATGGTCTCCAAATAAAAACTAGATAAAATAGTTTAACTTTGAAAGTCCATTATGTAGAGGAAA
* * *
76425885 GTCGTGCATCAACTACGACATCACAATTGAA-TTTGTCTTAAATCTTCATACATTTTCCCAAAGC
66 GCCGTGCATCAACTACGACATCACAATTGAATTTTATCTTAAATCTTCATACATTTCCCCAAAGC
*
76425949 AGTCTCTCATACCATTTGAAGACTCCCAT
131 AGTCTCCCATACCATTTGAAGACTCCCAT
76425978 TCATGGTCTCCAAATAAAAACTAGATAAAATAGTTTAACTTTGAAAGTCCATTATGTAGAGGAAA
1 TCATGGTCTCCAAATAAAAACTAGATAAAATAGTTTAACTTTGAAAGTCCATTATGTAGAGGAAA
*
76426043 GCCGTGCATCAACTACGACATCACAATTGAATTTTTATCTTAAATCTTCATATATTTCCCCAAAG
66 GCCGTGCATCAACTACGACATCACAATTGAA-TTTTATCTTAAATCTTCATACATTTCCCCAAAG
76426108 CAGTCTCCCATACCATTTGAAGACTCCCAT
130 CAGTCTCCCATACCATTTGAAGACTCCCAT
76426138 TCA
1 TCA
76426141 AGATATTGAA
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
158 92 0.60
160 61 0.40
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (159 bp):
TCATGGTCTCCAAATAAAAACTAGATAAAATAGTTTAACTTTGAAAGTCCATTATGTAGAGGAAA
GCCGTGCATCAACTACGACATCACAATTGAATTTTATCTTAAATCTTCATACATTTCCCCAAAGC
AGTCTCCCATACCATTTGAAGACTCCCAT
Found at i:76430562 original size:3 final size:3
Alignment explanation
Indices: 76430554--76430586 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
76430544 GATACATTTA
*
76430554 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
76430587 TTAGGTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:76441181 original size:16 final size:16
Alignment explanation
Indices: 76441160--76441192 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76441150 CAACCTATCA
76441160 TCCTCATCATTGTTAT
1 TCCTCATCATTGTTAT
76441176 TCCTCATCATTGTTAT
1 TCCTCATCATTGTTAT
76441192 T
1 T
76441193 TGGAGGTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (16 bp):
TCCTCATCATTGTTAT
Found at i:76447354 original size:14 final size:14
Alignment explanation
Indices: 76447337--76447370 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
76447327 AAAAATCGGT
76447337 TAAAAAATTTATAA
1 TAAAAAATTTATAA
76447351 TAAAAAATTTATAA
1 TAAAAAATTTATAA
76447365 -AAAAAA
1 TAAAAAA
76447371 AGATATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAAATTTATAA
Found at i:76448482 original size:120 final size:120
Alignment explanation
Indices: 76448269--76448511 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
76448259 TACACGTGGT
* *
76448269 TGCCATGTGTTGTTGGCTAATTGGTCTATCATTCACATAAGTAAAATTTAATGGTCAAATTTGGT
1 TGCCATGTGTTGTCGGCTAATCGGTCTATCATTCACATAAGTAAAATTTAATGGTCAAATTTGGT
*
76448334 AACATCAATGGAGGAGTTTGATTGATTATTTTTCATTTTTAAAGGCTCAATTGGG
66 AACATCAATGGAGGAGTTTGATTGATTATTTTTCATCTTTAAAGGCTCAATTGGG
76448389 TGCCATGTGTTGTCGGCTAATCGGTCTATCATTCACATAAGTAAAATTTAATGGTCAAATTTGGT
1 TGCCATGTGTTGTCGGCTAATCGGTCTATCATTCACATAAGTAAAATTTAATGGTCAAATTTGGT
76448454 AACATCAATGGAGGAGTTTGATTGATTATTTTTCATCTTTAAAGGCTCAATTGGG
66 AACATCAATGGAGGAGTTTGATTGATTATTTTTCATCTTTAAAGGCTCAATTGGG
76448509 TGC
1 TGC
76448512 TAAATTTTGT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (120 bp):
TGCCATGTGTTGTCGGCTAATCGGTCTATCATTCACATAAGTAAAATTTAATGGTCAAATTTGGT
AACATCAATGGAGGAGTTTGATTGATTATTTTTCATCTTTAAAGGCTCAATTGGG
Found at i:76448664 original size:4 final size:4
Alignment explanation
Indices: 76448647--76448705 Score: 100
Period size: 4 Copynumber: 14.8 Consensus size: 4
76448637 ATAGTACAAA
* *
76448647 TATC TATT TATC TATC TATC TATC TATC TATC TATC TATC TATC CATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
76448695 TATC TATC TAT
1 TATC TATC TAT
76448706 ACATACATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:76453465 original size:9 final size:9
Alignment explanation
Indices: 76453453--76453478 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
76453443 AAATAACACA
76453453 TGCACCTAT
1 TGCACCTAT
76453462 TGCACCTAT
1 TGCACCTAT
76453471 TGCACCTA
1 TGCACCTA
76453479 CAAAGTTTGA
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:0.23, C:0.35, G:0.12, T:0.31
Consensus pattern (9 bp):
TGCACCTAT
Found at i:76466161 original size:25 final size:24
Alignment explanation
Indices: 76466133--76466215 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
76466123 GCTCTCTCTC
**
76466133 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCAT-T
*
76466158 GAGCCATGTAACGGGAAGCTCATT
1 GAGCCATATAACGGGAAGCTCATT
** *
76466182 CGAGCTGTATAACGGGAAGCTCATAA
1 -GAGCCATATAACGGGAAGCTCAT-T
76466208 GAGCCATA
1 GAGCCATA
76466216 ATTGAGAAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (24 bp):
GAGCCATATAACGGGAAGCTCATT
Found at i:76468635 original size:148 final size:148
Alignment explanation
Indices: 76468374--76468641 Score: 385
Period size: 148 Copynumber: 1.8 Consensus size: 148
76468364 ATCCCTGGGA
* * *
76468374 CTTGTGGAGGGGACACTACGGTGTTCGAGCATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
1 CTTGCGGAAGGGACACTACGGTGTTCGAACATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
* * *
76468439 AGATAGATAGGGAAATGGAATTTTCATTAGATTCTGCAATCCGGTATTGTTGGGTTCAAACTGAG
66 AGATAGATAGGGAAATGGAATTTTCATTAGATTCTACAATCCGATATTGCTGGGTTCAAACTGAG
76468504 ATATGTGAAGTTCCAAGC
131 ATATGTGAAGTTCCAAGC
* * * * * *
76468522 CTTGCGGAAGGGACGCTTCGGTGTTGGAACATCAAGGTTAAAAGTGGCAAAATGGAGGAAATGAT
1 CTTGCGGAAGGGACACTACGGTGTTCGAACATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
* * *
76468587 GGATAGATAGGGAAATGTAATTTTCATTAGATT-TCACAATTCGATATTGCTGGGT
66 AGATAGATAGGGAAATGGAATTTTCATTAGATTCT-ACAATCCGATATTGCTGGGT
76468642 ATAAACCGGG
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
147 1 0.01
148 103 0.99
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (148 bp):
CTTGCGGAAGGGACACTACGGTGTTCGAACATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
AGATAGATAGGGAAATGGAATTTTCATTAGATTCTACAATCCGATATTGCTGGGTTCAAACTGAG
ATATGTGAAGTTCCAAGC
Found at i:76468694 original size:148 final size:148
Alignment explanation
Indices: 76468374--76468710 Score: 374
Period size: 148 Copynumber: 2.3 Consensus size: 148
76468364 ATCCCTGGGA
* * * *
76468374 CTTGTGGAGGGGACACTACGGTGTTCGAGCATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
1 CTTGCGGAAGGGACACTTCAGTGTTCGAGCATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
* * * *
76468439 AGATAGATAGGGAAATGGAATTTTCATTAGATTCTGCAATCCGGTATTGTTGGGTTCAAACTGAG
66 AGATAGATAGGGAAATGGAATTTTCATTAGATTCTACAATCCGATATTGCTGGGTTCAAACCGAG
76468504 ATATGTGAAGTTCCAAGC
131 ATATGTGAAGTTCCAAGC
* * * * * * *
76468522 CTTGCGGAAGGGACGCTTCGGTGTTGGAACATCAAGGTTAAAAGTGGCAAAATGGAGGAAATGAT
1 CTTGCGGAAGGGACACTTCAGTGTTCGAGCATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
* * *
76468587 GGATAGATAGGGAAATGTAATTTTCATTAGATT-TCACAATTCGATATTGCTGGGTAT-AAACCG
66 AGATAGATAGGGAAATGGAATTTTCATTAGATTCT-ACAATCCGATATTGCTGGGT-TCAAACCG
* * ***
76468650 GGATGTGTGAAGCTT-TGGGC
129 AGATATGTGAAG-TTCCAAGC
** * * *
76468670 CTTGCGGGGGGGATACTTTAGTGTTTGAGCATCAAGGTTAA
1 CTTGCGGAAGGGACACTTCAGTGTTCGAGCATCAAGGTTAA
76468711 GTAATGATAT
Statistics
Matches: 157, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
147 1 0.01
148 153 0.97
149 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (148 bp):
CTTGCGGAAGGGACACTTCAGTGTTCGAGCATCAAGGTTAAAAGTGGCAAAATAGAGGAAACGAC
AGATAGATAGGGAAATGGAATTTTCATTAGATTCTACAATCCGATATTGCTGGGTTCAAACCGAG
ATATGTGAAGTTCCAAGC
Found at i:76470882 original size:24 final size:24
Alignment explanation
Indices: 76470731--76470898 Score: 78
Period size: 26 Copynumber: 6.8 Consensus size: 24
76470721 CAGCTTTTAT
* * *
76470731 GAGCGTCCCGTTATATGGCTTTTCG
1 GAGCTTCCCATTA-ATGGCTCTTCG
* *
76470756 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -GAGCTTCCC-ATTAATGGCTCTTCG
* *
76470782 TGAGCTTCCTAATTAATGGCTC-TCTA
1 -GAGCTTCC-CATTAATGGCTCTTC-G
76470808 GAGCTTCCCGA-T-ATGGCTCGCTT-G
1 GAGCTTCCC-ATTAATGGCT--CTTCG
* * * *
76470832 AAG-TTCCCGA-TATATAGCTATCCG
1 GAGCTTCCC-ATTA-ATGGCTCTTCG
76470856 GAGCTTCCCATTAATGGCTCTTCG
1 GAGCTTCCCATTAATGGCTCTTCG
* *
76470880 GAGCTACCCATTATTGGCT
1 GAGCTTCCCATTAATGGCT
76470899 TGCATGAGCT
Statistics
Matches: 109, Mismatches: 21, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
23 15 0.14
24 32 0.29
25 23 0.21
26 36 0.33
27 3 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCATTAATGGCTCTTCG
Found at i:76470957 original size:25 final size:25
Alignment explanation
Indices: 76470890--76470999 Score: 89
Period size: 25 Copynumber: 4.5 Consensus size: 25
76470880 GAGCTACCCA
* * *
76470890 TTAT-TGGCTTGCATGAGCTTCTTG
1 TTATATGGCTCGCATAAGCTTCCTG
* ** * *
76470914 AT-TATGGCTCTTATGAGCTTCCCG
1 TTATATGGCTCGCATAAGCTTCCTG
* *
76470938 TTATATAGCTCGGATAAGCTTCCTG
1 TTATATGGCTCGCATAAGCTTCCTG
* * *
76470963 TTACATGGCTCACATGAGCTTCCTG
1 TTATATGGCTCGCATAAGCTTCCTG
76470988 TTATATGGCTCG
1 TTATATGGCTCG
76471000 AGAGAGGGTT
Statistics
Matches: 65, Mismatches: 19, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
23 1 0.02
24 17 0.26
25 47 0.72
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
TTATATGGCTCGCATAAGCTTCCTG
Found at i:76475542 original size:17 final size:17
Alignment explanation
Indices: 76475520--76475553 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
76475510 TTCACCTTTA
76475520 TATAAAGCATCCATTTG
1 TATAAAGCATCCATTTG
76475537 TATAAAGCATCCATTTG
1 TATAAAGCATCCATTTG
76475554 GTGTTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TATAAAGCATCCATTTG
Found at i:76476286 original size:3 final size:3
Alignment explanation
Indices: 76476278--76476351 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
76476268 AGAGATAATG
76476278 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
76476326 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
76476352 TAATCCTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:76479019 original size:24 final size:24
Alignment explanation
Indices: 76478987--76479048 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
76478977 ATCCCCACAT
* *
76478987 GAGTGTAGGGTTGGACAGGAGATG
1 GAGTGTAGGGTTGGACAGGAAATA
76479011 GAGTGTAGGGTTGGACAGGAAATA
1 GAGTGTAGGGTTGGACAGGAAATA
*
76479035 GAGTGCAGGGTTGG
1 GAGTGTAGGGTTGG
76479049 TGTGGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.05, G:0.48, T:0.21
Consensus pattern (24 bp):
GAGTGTAGGGTTGGACAGGAAATA
Found at i:76486375 original size:22 final size:21
Alignment explanation
Indices: 76486333--76486382 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
76486323 ACTGAGTATT
* * *
76486333 TTAGGTACAATGCAGATCTTA
1 TTAGATACAATGCAAAACTTA
76486354 TTAGATACATATGCAAAACTTA
1 TTAGATACA-ATGCAAAACTTA
*
76486376 TCAGATA
1 TTAGATA
76486383 TAAATGCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
TTAGATACAATGCAAAACTTA
Found at i:76486389 original size:22 final size:22
Alignment explanation
Indices: 76486341--76486390 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
76486331 TTTTAGGTAC
* * *
76486341 AATGCAGATCTTATTAGATACA
1 AATGCAAAACTTATCAGATACA
* *
76486363 TATGCAAAACTTATCAGATATA
1 AATGCAAAACTTATCAGATACA
76486385 AATGCA
1 AATGCA
76486391 GATTCCTACC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (22 bp):
AATGCAAAACTTATCAGATACA
Found at i:76487994 original size:22 final size:22
Alignment explanation
Indices: 76487968--76488017 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
76487958 AAGTTAAACT
**
76487968 CAAGCTCGAGCTTGGTAATATA
1 CAAGCTCGAGCTTGACAATATA
*
76487990 CAAGCTCGAGCTTGACAATATT
1 CAAGCTCGAGCTTGACAATATA
76488012 CAAGCT
1 CAAGCT
76488018 TGGCTTCGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (22 bp):
CAAGCTCGAGCTTGACAATATA
Found at i:76491188 original size:18 final size:18
Alignment explanation
Indices: 76491165--76491199 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76491155 ATATTAGAAT
* *
76491165 TTATAAGCATGTATAAAA
1 TTATAAGAATATATAAAA
76491183 TTATAAGAATATATAAA
1 TTATAAGAATATATAAA
76491200 TAATTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
TTATAAGAATATATAAAA
Found at i:76497002 original size:18 final size:18
Alignment explanation
Indices: 76496981--76497017 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
76496971 CAATTTACAC
76496981 TAATTAAACAACAAACAT
1 TAATTAAACAACAAACAT
76496999 TAATTAAACAACAAACAT
1 TAATTAAACAACAAACAT
76497017 T
1 T
76497018 CTTTTATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (18 bp):
TAATTAAACAACAAACAT
Found at i:76503315 original size:46 final size:46
Alignment explanation
Indices: 76503248--76503387 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
76503238 ACAATGCTAT
* * * *
76503248 AACTCAGTATAGTTTCCTTCACTGAAATACCATACATACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
76503294 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
76503340 AACTCAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
76503386 AA
1 AA
76503388 TTTTCCATGG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:76504636 original size:17 final size:17
Alignment explanation
Indices: 76504614--76504661 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
76504604 AAATTCTTTT
76504614 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
76504631 TAAATCACATAATTCAC
1 TAAATCACAAAATTCAC
*
76504648 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
76504662 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:76518701 original size:17 final size:18
Alignment explanation
Indices: 76518668--76518701 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
76518658 TTAATCATGA
*
76518668 TTTAATAAATTAATTAAG
1 TTTAATAAATAAATTAAG
76518686 TTTAAT-AATAAATTAA
1 TTTAATAAATAAATTAA
76518702 TCATGCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTAATAAATAAATTAAG
Found at i:76518714 original size:21 final size:20
Alignment explanation
Indices: 76518656--76518724 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
76518646 GCTTATGCTT
*
76518656 AATTAATCATG-ATTTAATA
1 AATTAATCATGTATATAATA
* * *
76518675 AATTAATTAAGTTTAATAATA
1 AATTAATCATGTAT-ATAATA
76518696 AATTAATCATGCTATATAAGTGA
1 AATTAATCATG-TATATAA-T-A
76518719 AATTAA
1 AATTAA
76518725 GTAGAGAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 18 0.47
22 3 0.08
23 7 0.18
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (20 bp):
AATTAATCATGTATATAATA
Found at i:76519471 original size:49 final size:48
Alignment explanation
Indices: 76519418--76519527 Score: 123
Period size: 49 Copynumber: 2.3 Consensus size: 48
76519408 TGAAAGTCAT
* ** *
76519418 CATTTTCGAGCCATCGAGGATGGTAGAATATTGAAATAGTGCAAAACAC
1 CATTTTCGAGCCATCCAGGATAATAAAATATTG-AATAGTGCAAAACAC
* * *
76519467 CATTTTC-AGGCCATCCAGGATAATAAAATATTGAATAGTGTAAACCAT
1 CATTTTCGA-GCCATCCAGGATAATAAAATATTGAATAGTGCAAAACAC
*
76519515 CATTGTCGAGCCA
1 CATTTTCGAGCCA
76519528 CCCGAGATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 23 0.45
49 28 0.55
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (48 bp):
CATTTTCGAGCCATCCAGGATAATAAAATATTGAATAGTGCAAAACAC
Found at i:76527052 original size:22 final size:23
Alignment explanation
Indices: 76527024--76527078 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
76527014 GCCCAGAATA
* *
76527024 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
76527046 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
76527068 CCTGCACCCAA
1 CCTGCAGCCAA
76527079 GCACCATCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.25
22 20 0.71
23 1 0.04
ACGTcount: A:0.25, C:0.47, G:0.09, T:0.18
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:76528209 original size:101 final size:100
Alignment explanation
Indices: 76528023--76528207 Score: 219
Period size: 101 Copynumber: 1.8 Consensus size: 100
76528013 ACATGTTGGT
* * * *
76528023 CTGAGTAACCGGGGTGAGGTGCTTGGCTACCATCTCTCTTCGCGTCAAAAGATTCGATGTGTTCT
1 CTGAGTAACCGGGGTGAGGTGCTTGGCTACCATCTCTATTCACGTCAAAAGATTCGATATGTCCT
*
76528088 TAAGAAAAAATTATAATAAATTAGGAGTCTGCTGGG
66 AAAGAAAAAA-TATAATAAATTAGGAGTCTGCTGGG
* * ** *
76528124 CTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTATTCACGTCAAAAGGTTCAGTATAT-TC
1 CTGAGTAACCGGGGTGAGGTGCTTGGCTACCATCTCTATTCACGTCAAAAGATTC-G-ATATGTC
76528188 CTAAAGCATAAAAAATATAA
64 CTAAAG---AAAAAATATAA
76528208 ATAATAAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
101 48 0.70
102 7 0.10
103 3 0.04
104 5 0.07
105 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (100 bp):
CTGAGTAACCGGGGTGAGGTGCTTGGCTACCATCTCTATTCACGTCAAAAGATTCGATATGTCCT
AAAGAAAAAATATAATAAATTAGGAGTCTGCTGGG
Found at i:76528247 original size:22 final size:22
Alignment explanation
Indices: 76528199--76528254 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
76528189 TAAAGCATAA
* *
76528199 AAAATATAAAT-AATAAATAAAT
1 AAAA-ATAAATAAATAAAGAAAG
*
76528221 CAAAATAAATAAATAAAGAAAG
1 AAAAATAAATAAATAAAGAAAG
*
76528243 AAAAATATATAA
1 AAAAATAAATAA
76528255 TTTGGAGACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAATAAATAAATAAAGAAAG
Found at i:76528828 original size:15 final size:15
Alignment explanation
Indices: 76528803--76528837 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
76528793 GACTCTATTT
*
76528803 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
76528817 TAATTAATATTAAGA
1 TAATTAATATTAAGA
76528832 TAATTA
1 TAATTA
76528838 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:76531440 original size:4 final size:4
Alignment explanation
Indices: 76531427--76531456 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
76531417 ATGTTCTTAT
76531427 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
76531457 TTATGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:76531440 original size:12 final size:11
Alignment explanation
Indices: 76531427--76531460 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
76531417 ATGTTCTTAT
76531427 TTTATTATTTA
1 TTTATTATTTA
76531438 TTTATTTATTTA
1 TTTA-TTATTTA
76531450 TTTATT-TTTA
1 TTTATTATTTA
76531460 T
1 T
76531461 GTTGAAGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 6 0.27
12 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:76536964 original size:10 final size:10
Alignment explanation
Indices: 76536949--76536982 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
76536939 TGTTGTTTTA
76536949 TTTTTTTCTT
1 TTTTTTTCTT
76536959 TTTTTTTCTT
1 TTTTTTTCTT
*
76536969 TTTTCTCTCTT
1 TTTT-TTTCTT
76536980 TTT
1 TTT
76536983 CCCTTGTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:76536981 original size:17 final size:17
Alignment explanation
Indices: 76536950--76536983 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76536940 GTTGTTTTAT
* *
76536950 TTTTTTCTTTTTTTTTC
1 TTTTTTCTCTCTTTTTC
76536967 TTTTTTCTCTCTTTTTC
1 TTTTTTCTCTCTTTTTC
76536984 CCTTGTGGCC
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:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTCTCTTTTTC
Found at i:76547710 original size:25 final size:25
Alignment explanation
Indices: 76547682--76547730 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
76547672 AGAACGTCCC
* * *
76547682 ATTATTTAGCTCTTATGAGCATCCT
1 ATTATATAGCTCTCACGAGCATCCT
*
76547707 ATTATATGGCTCTCACGAGCATCC
1 ATTATATAGCTCTCACGAGCATCC
76547731 CGATTAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTATATAGCTCTCACGAGCATCCT
Found at i:76547740 original size:25 final size:25
Alignment explanation
Indices: 76547690--76547884 Score: 145
Period size: 25 Copynumber: 7.9 Consensus size: 25
76547680 CCATTATTTA
* * *
76547690 GCTCTTATGAGCAT-CCTATTATATG
1 GCTCTCATGAGCTTCCCGATTA-ATG
* *
76547715 GCTCTCACGAGCATCCCGATTAATG
1 GCTCTCATGAGCTTCCCGATTAATG
* * *
76547740 GCTCTCTTGAGCTTCCCG-TTTATT
1 GCTCTCATGAGCTTCCCGATTAATG
76547764 GCTCAT-ATGAGCTTCCTC-A-TAATTG
1 GCTC-TCATGAGCTTCC-CGATTAA-TG
**
76547789 GCTCTCCGGAGCTTCCCGA-TAATTG
1 GCTCTCATGAGCTTCCCGATTAA-TG
**
76547814 GCTCTCATGAGCTTCTTGATTAATG
1 GCTCTCATGAGCTTCCCGATTAATG
*
76547839 GCTCTC-TGGAGCTTCCCGA-TATTG
1 GCTCTCAT-GAGCTTCCCGATTAATG
* *
76547863 GCTCGCATGAGCTTTCCGATTA
1 GCTCTCATGAGCTTCCCGATTA
76547885 CGGCTCTAAT
Statistics
Matches: 137, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
24 41 0.30
25 87 0.64
26 9 0.07
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATTAATG
Found at i:76547794 original size:49 final size:50
Alignment explanation
Indices: 76547713--76547876 Score: 185
Period size: 49 Copynumber: 3.3 Consensus size: 50
76547703 TCCTATTATA
* * * * *
76547713 TGGCTCTCACGAGCATCC-CGATTAATGGCTCTCTTGAGCTTCCCGTTTAT
1 TGGCTCTCATGAGCTTCCTC-ATTAATGGCTCTCTGGAGCTTCCCGATAAT
*
76547763 T-GCTCAT-ATGAGCTTCCTCA-TAATTGGCTCTCCGGAGCTTCCCGATAAT
1 TGGCTC-TCATGAGCTTCCTCATTAA-TGGCTCTCTGGAGCTTCCCGATAAT
* *
76547812 TGGCTCTCATGAGCTTCTTGATTAATGGCTCTCTGGAGCTTCCCGAT-AT
1 TGGCTCTCATGAGCTTCCTCATTAATGGCTCTCTGGAGCTTCCCGATAAT
*
76547861 TGGCTCGCATGAGCTT
1 TGGCTCTCATGAGCTT
76547877 TCCGATTACG
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
48 3 0.03
49 53 0.54
50 39 0.40
51 3 0.03
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.34
Consensus pattern (50 bp):
TGGCTCTCATGAGCTTCCTCATTAATGGCTCTCTGGAGCTTCCCGATAAT
Found at i:76547816 original size:74 final size:74
Alignment explanation
Indices: 76547690--76547828 Score: 185
Period size: 74 Copynumber: 1.9 Consensus size: 74
76547680 CCATTATTTA
* * *
76547690 GCTCTTATGAGCATCCTATTATATGGCTCTCACGAGCATCCCGATTAATGGCTCTCTTGAGCTTC
1 GCTCATATGAGCATCCTATAATATGGCTCTCACGAGCATCCCGATTAATGGCTCTCATGAGCTTC
76547755 CCGTTTATT
66 CCGTTTATT
* *
76547764 GCTCATATGAGCTTCCTCATAAT-TGGCTCTC-CGGAGCTTCCCGA-TAATTGGCTCTCATGAGC
1 GCTCATATGAGCATCCT-ATAATATGGCTCTCAC-GAGCATCCCGATTAA-TGGCTCTCATGAGC
76547826 TTC
63 TTC
76547829 TTGATTAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
73 4 0.07
74 49 0.86
75 4 0.07
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.35
Consensus pattern (74 bp):
GCTCATATGAGCATCCTATAATATGGCTCTCACGAGCATCCCGATTAATGGCTCTCATGAGCTTC
CCGTTTATT
Found at i:76547863 original size:74 final size:74
Alignment explanation
Indices: 76547690--76547884 Score: 168
Period size: 74 Copynumber: 2.6 Consensus size: 74
76547680 CCATTATTTA
* * * *
76547690 GCTCTTATGAGCATCCT-ATTATATGGCTCTCACGAGCATCCCGATTAATGGCTCTCTTGAGCTT
1 GCTCATATGAGCTTCCTCATAAT-TGGCTCTCACGAGCATCCCGATTAATGGCTCTCATGAGCTT
* *
76547754 CCCGTTTATT
65 CCCGTTAATG
*
76547764 GCTCATATGAGCTTCCTCATAATTGGCTCTC-CGGAGCTTCCCGA-TAATTGGCTCTCATGAGCT
1 GCTCATATGAGCTTCCTCATAATTGGCTCTCAC-GAGCATCCCGATTAA-TGGCTCTCATGAGCT
**
76547827 TCTTGATTAATG
64 TCCCG-TTAATG
* * * * *
76547839 GCTC-TCTGGAGCTTCC-CGAT-ATTGGCTCGCATGAGCTTTCCGATTA
1 GCTCATAT-GAGCTTCCTC-ATAATTGGCTCTCACGAGCATCCCGATTA
76547885 CGGCTCTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
73 4 0.04
74 72 0.72
75 24 0.24
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (74 bp):
GCTCATATGAGCTTCCTCATAATTGGCTCTCACGAGCATCCCGATTAATGGCTCTCATGAGCTTC
CCGTTAATG
Found at i:76553565 original size:37 final size:37
Alignment explanation
Indices: 76553524--76553699 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
76553514 TTTGAGTACT
76553524 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76553561 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76553598 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76553635 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
76553672 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
76553700 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:76553771 original size:45 final size:46
Alignment explanation
Indices: 76553662--76553785 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
76553652 GTGATAAGTG
* *
76553662 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
76553708 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
76553753 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
76553786 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:76561264 original size:37 final size:37
Alignment explanation
Indices: 76561223--76561398 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
76561213 TTTGAGTACT
76561223 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76561260 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76561297 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
76561334 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
76561371 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
76561399 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:76561470 original size:45 final size:46
Alignment explanation
Indices: 76561361--76561484 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
76561351 GTGATAAGTG
* *
76561361 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
76561407 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
76561452 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
76561485 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:76564172 original size:14 final size:14
Alignment explanation
Indices: 76564153--76564183 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76564143 ATTTATATCA
76564153 ATTGTTATTAGTAC
1 ATTGTTATTAGTAC
76564167 ATTGTTATTAGTAC
1 ATTGTTATTAGTAC
76564181 ATT
1 ATT
76564184 TTAGTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (14 bp):
ATTGTTATTAGTAC
Found at i:76565097 original size:17 final size:18
Alignment explanation
Indices: 76565075--76565113 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
76565065 TAAAAATAAT
*
76565075 AAAATTTATGT-TTTTTA
1 AAAATTTATATATTTTTA
76565092 AAAATTTATATATTTTTA
1 AAAATTTATATATTTTTA
76565110 AAAA
1 AAAA
76565114 ATTCTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAAATTTATATATTTTTA
Found at i:76568851 original size:25 final size:23
Alignment explanation
Indices: 76568788--76568852 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
76568778 AGGCGCAACC
*
76568788 ATTTTTTTTATATTAAAATATTTT
1 ATTTATTTT-TATTAAAATATTTT
* * *
76568812 -TTTACTTTAAATAAAATATTATT
1 ATTTATTTTTATTAAAATATT-TT
76568835 AATTTATTTTTATTAAAA
1 -ATTTATTTTTATTAAAA
76568853 ATGTTAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
22 10 0.32
23 8 0.26
25 13 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTATTTTTATTAAAATATTTT
Found at i:76568968 original size:27 final size:27
Alignment explanation
Indices: 76568923--76568976 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
76568913 TTTGAAACCA
*
76568923 GTCGCGCTTGTCAGATAGGCGCCACTG
1 GTCGCGCTTGACAGATAGGCGCCACTG
*
76568950 GTCGCGCTTGACA-AGTAGGTGCCACTG
1 GTCGCGCTTGACAGA-TAGGCGCCACTG
76568977 TCTCCTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (27 bp):
GTCGCGCTTGACAGATAGGCGCCACTG
Found at i:76569195 original size:60 final size:60
Alignment explanation
Indices: 76569102--76569220 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
76569092 TTGTTTTTTA
* *
76569102 TAATTATTTTAAAAGTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAAGTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTTG
* *
76569162 TAATTCTTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAAGTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTT
76569221 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAAGTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTTG
Found at i:76569482 original size:18 final size:19
Alignment explanation
Indices: 76569439--76569485 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
76569429 AGGCGCCAAC
*
76569439 AATAAAACAATATTTAAAA
1 AATAAAAAAATATTTAAAA
*
76569458 AATAAAAAAATATTT-TAA
1 AATAAAAAAATATTTAAAA
*
76569476 TATAAAAAAA
1 AATAAAAAAA
76569486 ATGATTGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAAAAAAATATTTAAAA
Found at i:76570636 original size:18 final size:18
Alignment explanation
Indices: 76570601--76570638 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
76570591 CTTTTTTTAA
*
76570601 TTACAATTTTTATTATTT
1 TTACAATTTTTATAATTT
76570619 TTACAATTATTT-TAATTT
1 TTACAATT-TTTATAATTT
76570637 TT
1 TT
76570639 TAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
TTACAATTTTTATAATTT
Found at i:76570710 original size:9 final size:9
Alignment explanation
Indices: 76570698--76570757 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
76570688 TTGTAAGTTT
*
76570698 TTTTTTTAA
1 TTTTTATAA
76570707 TTTTTATAA
1 TTTTTATAA
*
76570716 --TTTATAT
1 TTTTTATAA
*
76570723 TTTTTCTAA
1 TTTTTATAA
* *
76570732 ATTTTATAT
1 TTTTTATAA
76570741 TTTTTATGAA
1 TTTTTAT-AA
76570751 TTTTTAT
1 TTTTTAT
76570758 GTATTTATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
7 6 0.15
9 25 0.64
10 8 0.21
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:76570757 original size:19 final size:18
Alignment explanation
Indices: 76570707--76570754 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
76570697 TTTTTTTTAA
76570707 TTTTTAT-AA-TTTATAT
1 TTTTTATAAATTTTATAT
*
76570723 TTTTTCTAAATTTTATAT
1 TTTTTATAAATTTTATAT
*
76570741 TTTTTATGAATTTT
1 TTTTTATAAATTTT
76570755 TATGTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 6 0.22
17 2 0.07
18 19 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATAAATTTTATAT
Found at i:76576508 original size:5 final size:5
Alignment explanation
Indices: 76576498--76576522 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
76576488 AAGCTGCTAG
76576498 TGAAA TGAAA TGAAA TGAAA TGAAA
1 TGAAA TGAAA TGAAA TGAAA TGAAA
76576523 ACAAAATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
TGAAA
Found at i:76578142 original size:29 final size:31
Alignment explanation
Indices: 76578077--76578135 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
76578067 GGGATAGAGA
76578077 AAAAGAAGTATAAACATATTGGGCCATTTACG
1 AAAA-AAGTATAAACATATTGGGCCATTTACG
* *
76578109 CAAAAAGTA-AAA-ATATTGGGTCATTTA
1 AAAAAAGTATAAACATATTGGGCCATTTA
76578136 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 3 0.12
31 5 0.20
32 3 0.12
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (31 bp):
AAAAAAGTATAAACATATTGGGCCATTTACG
Found at i:76578233 original size:21 final size:21
Alignment explanation
Indices: 76578194--76578233 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
76578184 CAACGTGGCA
*
76578194 AGTTAACTGGCCATATCAACT
1 AGTTAACTGGCCACATCAACT
*
76578215 AGTTAACTGGCCACGTCAA
1 AGTTAACTGGCCACATCAA
76578234 TGGTTCCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAACT
Found at i:76578321 original size:31 final size:30
Alignment explanation
Indices: 76578270--76578338 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
76578260 ATGTTAATAG
* *
76578270 GTGACTGATTTGTCACTTTTCGATAACGTT-A
1 GTGACTGATTTATCACTTTTC-A-AAAGTTGA
* *
76578301 GTGACTGATTTATTATTTTTCAAAAGTTGA
1 GTGACTGATTTATCACTTTTCAAAAGTTGA
76578331 GTGACTGA
1 GTGACTGA
76578339 ATTGAAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 10 0.30
31 18 0.55
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (30 bp):
GTGACTGATTTATCACTTTTCAAAAGTTGA
Found at i:76580663 original size:33 final size:33
Alignment explanation
Indices: 76580618--76580690 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
76580608 GAATAAGTTG
*
76580618 TTTTGTTGTCATTTCG-TTATTATATTGCTACTA
1 TTTTGTTATCATTTCGCTT-TTATATTGCTACTA
* *
76580651 TTTTGTTATCATTTTGCTTTTATATTGTTACTA
1 TTTTGTTATCATTTCGCTTTTATATTGCTACTA
76580684 TTTTGTT
1 TTTTGTT
76580691 GTTAATGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 34 0.94
34 2 0.06
ACGTcount: A:0.16, C:0.10, G:0.11, T:0.63
Consensus pattern (33 bp):
TTTTGTTATCATTTCGCTTTTATATTGCTACTA
Found at i:76582825 original size:25 final size:25
Alignment explanation
Indices: 76582797--76582893 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 25
76582787 TGTGAGTTGT
* *
76582797 ATATCGGGAAGCTTTTGCGAGCCAA
1 ATATCGGGAAGCTTATGAGAGCCAA
* * *
76582822 ATATTGTGAAGCTTATGTGAGCCAA
1 ATATCGGGAAGCTTATGAGAGCCAA
* * *
76582847 ATATCAGAAAGCTAATGAGAGCCAA
1 ATATCGGGAAGCTTATGAGAGCCAA
* * * *
76582872 GTATTGGGAAGCTCAAGAGAGC
1 ATATCGGGAAGCTTATGAGAGC
76582894 TGTGGTGTGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (25 bp):
ATATCGGGAAGCTTATGAGAGCCAA
Found at i:76585195 original size:3 final size:3
Alignment explanation
Indices: 76585187--76585240 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
76585177 ATAGTTATCA
76585187 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
76585235 TAT TAT
1 TAT TAT
76585241 ATTTTTGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:76587582 original size:17 final size:17
Alignment explanation
Indices: 76587539--76587595 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
76587529 AGAAAACGGC
76587539 TAAAAACCC-TAAACCT
1 TAAAAACCCTTAAACCT
*
76587555 TAAAAAACCTTAAACCCT
1 TAAAAACCCTTAAA-CCT
*
76587573 T-AAAACCCTTAAAATCT
1 TAAAAACCCTT-AAACCT
76587590 TAAAAA
1 TAAAAA
76587596 TACCGAGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.24
17 15 0.44
18 11 0.32
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAAACCCTTAAACCT
Found at i:76588656 original size:14 final size:14
Alignment explanation
Indices: 76588639--76588689 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
76588629 TAATATATTT
76588639 ATATTAAAATTTAA
1 ATATTAAAATTTAA
76588653 ATATT-AAATATTAA
1 ATATTAAAAT-TTAA
* *
76588667 ATTATTTATATTTAGA
1 A-TATTAAAATTTA-A
76588683 ATATTAA
1 ATATTAA
76588690 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 12 0.39
16 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
ATATTAAAATTTAA
Found at i:76588685 original size:23 final size:21
Alignment explanation
Indices: 76588640--76588689 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
76588630 AATATATTTA
76588640 TATTAAAATTTAAATATTAAA
1 TATTAAAATTTAAATATTAAA
*
76588661 TATTAAATTATTTATAT-TTAGAA
1 TATTAAA--ATTTAAATATTA-AA
76588684 TATTAA
1 TATTAA
76588690 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 3 0.12
23 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTAAAATTTAAATATTAAA
Found at i:76589797 original size:6 final size:6
Alignment explanation
Indices: 76589786--76589823 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
76589776 GATAGCTGAG
76589786 GGCTAA GGCTAA GGCTAA GGCTAA GGCTAA GGCTAA GG
1 GGCTAA GGCTAA GGCTAA GGCTAA GGCTAA GGCTAA GG
76589824 TACCCCACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.37, T:0.16
Consensus pattern (6 bp):
GGCTAA
Found at i:76592401 original size:78 final size:78
Alignment explanation
Indices: 76592272--76592428 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
76592262 AAATTTGAAA
* * *
76592272 GTTTTCTTATAGAAAAGGTATTAACCTCTACGAACTGAATGAGGTGACAACAAATTACCAATATC
1 GTTTTCTTATAAAAAAGGTATTAACCTCTACAAACTGAATGAGATGACAACAAATTACCAATATC
76592337 CAAGTTCATCCAC
66 CAAGTTCATCCAC
*
76592350 GTTTTCTTATAAAAAAGGTATTAACCTCTACAAACTGAATGAGATGACAACAATTTACCAATATC
1 GTTTTCTTATAAAAAAGGTATTAACCTCTACAAACTGAATGAGATGACAACAAATTACCAATATC
76592415 CAAGTTCATCCAC
66 CAAGTTCATCCAC
76592428 G
1 G
76592429 GACTGGACAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (78 bp):
GTTTTCTTATAAAAAAGGTATTAACCTCTACAAACTGAATGAGATGACAACAAATTACCAATATC
CAAGTTCATCCAC
Found at i:76594203 original size:27 final size:27
Alignment explanation
Indices: 76594173--76594229 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
76594163 TTAATGGGAT
76594173 ATTATGTACTTATTATATTGCTCTTTA
1 ATTATGTACTTATTATATTGCTCTTTA
* *
76594200 ATTATTTATTTATTATATTGCTCTTTA
1 ATTATGTACTTATTATATTGCTCTTTA
76594227 ATT
1 ATT
76594230 GCTGGGGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTATGTACTTATTATATTGCTCTTTA
Found at i:76598021 original size:2 final size:2
Alignment explanation
Indices: 76598016--76598046 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
76598006 GTGTGTGTGT
76598016 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
76598047 TTACCATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:76611727 original size:31 final size:31
Alignment explanation
Indices: 76611689--76611758 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
76611679 TTTCAAAATA
76611689 CTCAAATAAAG-GCCAAAAT-TTTTTAATAGTG
1 CTCAAATAAAGAGCC-AAATCTTTTT-ATAGTG
*
76611720 CTCAAAT-AAGAGTCAAATCTTTTTATAGTG
1 CTCAAATAAAGAGCCAAATCTTTTTATAGTG
*
76611750 CTTAAATAA
1 CTCAAATAA
76611759 TGGTTTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (31 bp):
CTCAAATAAAGAGCCAAATCTTTTTATAGTG
Found at i:76625527 original size:50 final size:50
Alignment explanation
Indices: 76625452--76625555 Score: 174
Period size: 50 Copynumber: 2.1 Consensus size: 50
76625442 TCTTAGCCAA
76625452 AAAAACCCCACAACAATCCTCAGCCTACCTCATATCCTTCCAGTAGAAAG
1 AAAAACCCCACAACAATCCTCAGCCTACCTCATATCCTTCCAGTAGAAAG
* *
76625502 AAAAACCCCACAACAATCC-CTAGCCTACCTCATGTCCTTCCGGTAGAAAG
1 AAAAACCCCACAACAATCCTC-AGCCTACCTCATATCCTTCCAGTAGAAAG
76625552 AAAA
1 AAAA
76625556 TAAACCCCTC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
49 1 0.02
50 50 0.98
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (50 bp):
AAAAACCCCACAACAATCCTCAGCCTACCTCATATCCTTCCAGTAGAAAG
Found at i:76633288 original size:26 final size:26
Alignment explanation
Indices: 76633242--76633293 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
76633232 TAGGTGCCAA
*
76633242 TGAATAAAATAATAATATATATTTTT
1 TGAATAAAATAATAATATATACTTTT
*
76633268 TGAATAAAAT-ATAATTTTATACTTTT
1 TGAATAAAATAATAA-TATATACTTTT
76633294 CCGGGTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (26 bp):
TGAATAAAATAATAATATATACTTTT
Found at i:76633374 original size:27 final size:27
Alignment explanation
Indices: 76633333--76633408 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
76633323 TAGTATTGAC
76633333 GCCTATCTGGAAGGCACCAATGGTGGT
1 GCCTATCTGGAAGGCACCAATGGTGGT
* *
76633360 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCACCAATGGTGGT
* *
76633387 GCC-ATACTGAAAGGCGCCAATG
1 GCCTAT-CTGGAAGGCACCAATG
76633409 CTGTGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (27 bp):
GCCTATCTGGAAGGCACCAATGGTGGT
Found at i:76633502 original size:22 final size:21
Alignment explanation
Indices: 76633474--76633518 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
76633464 CGGAAGAAAG
*
76633474 AAGAAGGAAGGAAGCAGAAGAA
1 AAGAAGGAAGGAA-AAGAAGAA
*
76633496 AAGAAGGAATGAAAAGAAGAA
1 AAGAAGGAAGGAAAAGAAGAA
76633517 AA
1 AA
76633519 AAATTAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAAGGAAGGAAAAGAAGAA
Found at i:76644712 original size:16 final size:16
Alignment explanation
Indices: 76644699--76644738 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
76644689 TTTCTTTTTT
76644699 TTTTCTTTATTTTTCA
1 TTTTCTTTATTTTTCA
76644715 TTTTCTTTATTTTTCA
1 TTTTCTTTATTTTTCA
*
76644731 TTCTCTTT
1 TTTTCTTT
76644739 TGCTTATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCTTTATTTTTCA
Found at i:76644739 original size:27 final size:27
Alignment explanation
Indices: 76644667--76644739 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 27
76644657 GGGCTATTTA
76644667 TTTATTTTT-ATGTTCTTTTAACTTTCT
1 TTTATTTTTCAT-TTCTTTTAACTTTCT
* * * *
76644694 TTTTTTTTTC-TTTATTTTTCATTTTC-
1 TTTATTTTTCATTT-CTTTTAACTTTCT
76644720 TTTATTTTTCATTCTCTTTT
1 TTTATTTTTCATT-TCTTTT
76644740 GCTTATCCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
26 11 0.31
27 24 0.67
28 1 0.03
ACGTcount: A:0.11, C:0.12, G:0.01, T:0.75
Consensus pattern (27 bp):
TTTATTTTTCATTTCTTTTAACTTTCT
Found at i:76646914 original size:25 final size:25
Alignment explanation
Indices: 76646886--76646978 Score: 127
Period size: 25 Copynumber: 3.7 Consensus size: 25
76646876 CTTTAGCGCA
76646886 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTATTAGCACGTTGGTG
76646911 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTATTAGCACGTTGGTG
* *
76646936 CTTTCTGA-TATTTAGCACATTGGTG
1 CTCTCTGATTA-TTAGCACGTTGGTG
*
76646961 CTCTTTGATGT-TTAGCAC
1 CTCTCTGAT-TATTAGCAC
76646979 ATCTGGCTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.03
25 58 0.95
27 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTTGGTG
Found at i:76651990 original size:29 final size:30
Alignment explanation
Indices: 76651957--76652013 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
76651947 TAATTTAATT
76651957 TGCAATTGTATACATGAAA-TTTGATTTTG
1 TGCAATTGTATACATGAAATTTTGATTTTG
*
76651986 TGCAATTTTATACATGAAATTTTGATTT
1 TGCAATTGTATACATGAAATTTTGATTT
76652014 GATCCAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGCAATTGTATACATGAAATTTTGATTTTG
Found at i:76652022 original size:30 final size:29
Alignment explanation
Indices: 76651959--76652022 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
76651949 ATTTAATTTG
*
76651959 CAATTGTATACATGAAATTTGATTTTGTG
1 CAATTGTATACATGAAATTTGATTTTGTC
*
76651988 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATGAAA-TTTGATTTTG-TC
76652018 CAATT
1 CAATT
76652023 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAAATTTGATTTTGTC
Found at i:76652238 original size:29 final size:31
Alignment explanation
Indices: 76652201--76652267 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
76652191 TTAGAGTTTT
* * *
76652201 ATGTGTATAATTGCA-TC-AAATTAAAGTTC
1 ATGTATATAATTGCACACTAAATCAAAGTTC
76652230 ATGTATATAATTGCACACTAAATCAAAGTTC
1 ATGTATATAATTGCACACTAAATCAAAGTTC
76652261 ATGTATA
1 ATGTATA
76652268 ATTTTGAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 14 0.42
30 1 0.03
31 18 0.55
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
ATGTATATAATTGCACACTAAATCAAAGTTC
Found at i:76652268 original size:29 final size:27
Alignment explanation
Indices: 76652204--76652270 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 27
76652194 GAGTTTTATG
* *
76652204 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCAACAAATCAAAGTTCA
76652231 TGTATATAATTGCACACTAAATCAAAGTTCA
1 TG--TATAATTGCA-AC-AAATCAAAGTTCA
76652262 TGTATAATT
1 TGTATAATT
76652271 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
29 17 0.50
30 1 0.03
31 14 0.41
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCAACAAATCAAAGTTCA
Found at i:76653854 original size:20 final size:17
Alignment explanation
Indices: 76653812--76653848 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
76653802 TTCACGTGCT
76653812 TGGGATCGTGAATTTCG
1 TGGGATCGTGAATTTCG
76653829 TGGGATCGTGAATTTCG
1 TGGGATCGTGAATTTCG
76653846 TGG
1 TGG
76653849 TGGGATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.38, T:0.35
Consensus pattern (17 bp):
TGGGATCGTGAATTTCG
Found at i:76662001 original size:29 final size:30
Alignment explanation
Indices: 76661952--76662026 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
76661942 ATTATTAAAT
**
76661952 TTAATTTAATACTT-ATTTGATAATATT-TA
1 TTAATTTAATA-TTAAAGTGATAATATTATA
*
76661981 TTAATTTAATATTAAAGTGATTATATTAATA
1 TTAATTTAATATTAAAGTGATAATATT-ATA
76662012 TTAAATTTAAT-TTAA
1 TT-AATTTAATATTAA
76662027 TAATTATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 21 0.54
31 8 0.21
32 8 0.21
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTAAAGTGATAATATTATA
Done.