Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 112 of 120
Found at i:33239743 original size:130 final size:129
Alignment explanation
Indices: 33239515--33239826 Score: 360
Period size: 130 Copynumber: 2.4 Consensus size: 129
33239505 ATTGTGCACT
* * * * * *
33239515 AATTCAACTATGTAATG-ACGAAAATACTCTTATTTTACAAAGTAAACTATACTATGTTAAGGGT
1 AATTTAACTAAGTAATGAAC-AAAATACACTTATTTTACAAAGTAAATTATA-TATCTTAAGAGT
* *
33239579 ATTTTTGCCATCTCAACTAATATTAAACCCTTTACTAAATTTGGTGTCACGAGTCAATTATGCAC
64 ATTTTTGCCATCTCAACTAATATTAAACCCTTTACTAAATTTGGTGTCACGAGTCAACTATACAC
33239644 C
129 C
* * *
33239645 AA-TTAAGCTAAGTAAT-AACAATATTACATTTATTTTACAAAGTAAATTATATAATCTTGAGAG
1 AATTTAA-CTAAGTAATGAACAA-AATACACTTATTTTACAAAGTAAATTATAT-ATCTTAAGAG
* * * * * * *
33239708 TATTTTTGTCATCTCCACTAATATTAAATCTTTTACTGAATTTGGTGTCATGAGTCAACTGTACA
63 TATTTTTGCCATCTCAACTAATATTAAACCCTTTACTAAATTTGGTGTCACGAGTCAACTATACA
*
33239773 TC
128 CC
** *
33239775 AATTTAACTAAGTAATGATGAAAATACCCTTATTTTACAAAGTAAATTATAT
1 AATTTAACTAAGTAATGAACAAAATACACTTATTTTACAAAGTAAATTATAT
33239827 TATGTGGAGT
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
129 6 0.04
130 139 0.91
131 7 0.05
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (129 bp):
AATTTAACTAAGTAATGAACAAAATACACTTATTTTACAAAGTAAATTATATATCTTAAGAGTAT
TTTTGCCATCTCAACTAATATTAAACCCTTTACTAAATTTGGTGTCACGAGTCAACTATACACC
Found at i:33243471 original size:5 final size:5
Alignment explanation
Indices: 33243461--33243491 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
33243451 TTAAAGGAGG
33243461 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
33243492 AGGGGTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:33253045 original size:125 final size:125
Alignment explanation
Indices: 33252880--33253257 Score: 641
Period size: 125 Copynumber: 3.0 Consensus size: 125
33252870 CGATTATTGT
*
33252880 TTGGATAATTGAATTTTAAGTAATGAATGCTTAGTGAATGATCCGATTTAAGTGTTTATTTCAAC
1 TTGGATAATTGAATTTTAAGTAATGAATGCTTAGTGAATGATCCAATTTAAGTGTTTATTTCAAC
* * * *
33252945 AAATGAATGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTCCTTTATCGA
66 AAATGAAAGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTGCTTTGTTGA
* *
33253005 TTGGATAAATGAATTTTAAGTAATGAATGCTTAGTGAATGATTCAATTTAAGTGTTTATTTCAAC
1 TTGGATAATTGAATTTTAAGTAATGAATGCTTAGTGAATGATCCAATTTAAGTGTTTATTTCAAC
*
33253070 AAATGAACGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTGCTTTGTTGA
66 AAATGAAAGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTGCTTTGTTGA
*
33253130 TTGGATAATTGAATTTTAAGTAATGAATGCCTAGTGAATGATCCAATTTAAGTGTTTATTTCAAC
1 TTGGATAATTGAATTTTAAGTAATGAATGCTTAGTGAATGATCCAATTTAAGTGTTTATTTCAAC
* * *
33253195 AAATGAAAGAAAA-TTTATCCATTTCTCAGATTCAATTGCAATGAACTGTGCTTTGTTGA
66 AAATGAAAGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTGCTTTGTTGA
33253254 TTGG
1 TTGG
33253258 GAATTACAAG
Statistics
Matches: 239, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
124 47 0.20
125 192 0.80
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (125 bp):
TTGGATAATTGAATTTTAAGTAATGAATGCTTAGTGAATGATCCAATTTAAGTGTTTATTTCAAC
AAATGAAAGAAAATTTTATACATTTCTTAGATTCAATTGTAATGAACTGTGCTTTGTTGA
Found at i:33255740 original size:34 final size:33
Alignment explanation
Indices: 33255672--33255742 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
33255662 TAATTGAATC
**
33255672 AATTTCATAATTTTTAATATATATTTTTTGTAA
1 AATTTCATAATTTTTAATATATATTTAATGTAA
* *
33255705 AATTTTATGAATTTTTAATAATTTATTTAAT-TAA
1 AATTTCAT-AATTTTTAAT-ATATATTTAATGTAA
33255739 AATT
1 AATT
33255743 GGATAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.22
34 17 0.53
35 8 0.25
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (33 bp):
AATTTCATAATTTTTAATATATATTTAATGTAA
Found at i:33257601 original size:122 final size:122
Alignment explanation
Indices: 33257176--33258487 Score: 1614
Period size: 122 Copynumber: 10.7 Consensus size: 122
33257166 CACTTCAATG
* * * * * * *
33257176 TCAGCTCATAGAAATTAACATTTAGCTGCCTCATTGAGTTCCATTTTGTATGGGTAGGTTAGAGG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGT-CAATTTCTATTGGTAGGTTAGAAG
* * *
33257241 TAGCCAATTCATATTAGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTCGGTTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * ** *
33257299 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTTCATTTTGTATCAGTAGCTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGG-TCAATTTCTATTGGTAGGTTAGAAG
* *
33257364 TAGCCAATTCATATTTGTCCAGAGCTGCAGAAACATAAAAACCTATTCACTTTGATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * * * **
33257422 TTAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGTTCCATTTCGTATCAGTAGGTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAATTTC-TATTGGTAGGTTAGAAG
* * *
33257487 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACAT-GAAATCTATTCATTTTGATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * * **
33257544 TCAGCTCACAGGAATGAACATTCAGCTGGCTCATTGAGGTCTGTTTTCTATTGGTAGGTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTC-AATTTCTATTGGTAGGTTAGAAG
* * * **
33257609 TAGGCAATTCATATTTGTTGAGAGCTACAGAAACAT-AAAACCTATTCACATCAATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * * * *
33257666 TCAGCTCACTGAAATGAACATTTTGCTGCCTCATTTAGGTCTATTTCATATTGGTTGGTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAATTTC-TATTGGTAGGTTAGAAG
* *
33257731 TAGCCAATTCATTATTAGTTCAGTGCTACAGAAAACATAAAAACCTATTCACTTTCGATTT
65 TAGCCAATTCA-TATTTGTTCAGAGCTACAG-AAACATAAAAACCTATTCACTTT-GATTT
* * * * *
33257792 TCGGCTCACAGAAATGATCATTTAGCTGCTTCATTGAGGT-ACATTTCGTATCGGTAGGTCAGAA
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCA-ATTTC-TATTGGTAGGTTAGAA
* * * ** *
33257856 GTAGGCAATTCATATTTGTTCAGGGTTATGGAAACATAAAAA-CTATTCAATTTGATTT
64 GTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
** * * * *
33257914 TCAGCTCATGGAAATGAACATTTAGCTGCCTTATTGAGGTCCATCTTGTACTGGTAGGTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAAT-TTCTATTGGTAGGTTAGAAG
*
33257979 TAGGCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* *
33258037 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGAT-ACATTTCGTATTGGTAGGTCAGAA
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCA-ATTTC-TATTGGTAGGTTAGAA
* * * *
33258101 GTAGCCAATTCATATTTGTTCAGGGTTACGGAAACAT-AAAATCTATTCACTTTGATTT
64 GTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
** * * *
33258159 TCAGCTCATGGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTTGTATCGGTAGGTTAGAAG
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGT-CAATTTCTATTGGTAGGTTAGAAG
*
33258224 TAGGCAATTCATATTTGTTCAGAGCTACAGAAACAT-AAAACCTATTCACTTTGATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * * * * *
33258281 TCAGCTCACAGAAACGAACATTTAGCTGCCTCTTTGAGGTCCATTTCGTATTGGTATGTTATAAC
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAATTTC-TATTGGTAGGTTAGAAG
* * *
33258346 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAATCTATTCGCTCTCGATTT
65 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACT-TTGATTT
* * * * *
33258405 TCAGCTCAAAGAAATGAACATTTAGCTGCCTCATCGAGGTCCATTTC-ATAGCAGTAGGTTAAAA
1 TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAATTTCTATTG--GTAGGTTAGAA
*
33258469 GTAGCCAACTCATATTTGT
64 GTAGCCAATTCATATTTGT
33258488 GTTTATTTCA
Statistics
Matches: 1027, Mismatches: 141, Indels: 41
0.85 0.12 0.03
Matches are distributed among these distances:
121 8 0.01
122 488 0.48
123 342 0.33
124 94 0.09
125 28 0.03
126 67 0.07
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (122 bp):
TCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCAATTTCTATTGGTAGGTTAGAAGT
AGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
Found at i:33257624 original size:245 final size:245
Alignment explanation
Indices: 33257176--33258487 Score: 1769
Period size: 245 Copynumber: 5.3 Consensus size: 245
33257166 CACTTCAATG
* * * * *
33257176 TCAGCTCATAGAAATTAACATTTAGCTGCCTCATTGAGTTCCATTTTGTATGGGTAGGTTAGAGG
1 TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAAG
* * *
33257241 TAGCCAATTCATATTAGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTCGGTTTTCAGCTC
66 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGCTC
* ** *
33257306 ACAGAAATGAACATTTAGCTGCCTCATTGAGGTTCATTTTGTATCAGTAGCTTAGAAGTAGCCAA
131 ACAGAAATGAACATTTAGCTGCCTCATTGAGG-TCATTTCGTATTGGTAGGTTAGAAGTAGCCAA
* *
33257371 TTCATATTTGTCCAGAGCTGCAGAAACATAAAAACCTATTCACTTTGATTT
195 TTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * *
33257422 TTAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGTTCCATTTCGTATCAGTAGGTTAGAAG
1 TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAAG
* * *
33257487 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACAT-GAAATCTATTCATTTTGATTTTCAGCTC
66 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGCTC
* * * * *
33257551 ACAGGAATGAACATTCAGCTGGCTCATTGAGGTCTGTTTTC-TATTGGTAGGTTAGAAGTAGGCA
131 ACAGAAATGAACATTTAGCTGCCTCATTGAGGTC--ATTTCGTATTGGTAGGTTAGAAGTAGCCA
* * **
33257615 ATTCATATTTGTTGAGAGCTACAGAAACAT-AAAACCTATTCACATCAATTT
194 ATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* * * * * *
33257666 TCAGCTCACT-GAAATGAACATTTTGCTGCCTCATTTAGGTCTATTTCATATTGGTTGGTTAGAA
1 TCAGCTCA-TAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAA
* * *
33257730 GTAGCCAATTCATTATTAGTTCAGTGCTACAGAAAACATAAAAACCTATTCACTTTCGATTTTCG
65 GTAGCCAATTCA-TATTTGTTCAGAGCTACAG-AAACATAAAAACCTATTCACTTT-GATTTTCA
* * * *
33257795 GCTCACAGAAATGATCATTTAGCTGCTTCATTGAGGTACATTTCGTATCGGTAGGTCAGAAGTAG
127 GCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGT-CATTTCGTATTGGTAGGTTAGAAGTAG
* * * ** *
33257860 GCAATTCATATTTGTTCAGGGTTATGGAAACATAAAAA-CTATTCAATTTGATTT
191 CCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* *
33257914 TCAGCTCATGGAAATGAACATTTAGCTGCCTTATTGAGGTCCATCTT-GTA-CTGGTAGGTTAGA
1 TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCAT-TTCGTATC-GGTAGGTTAGA
*
33257977 AGTAGGCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGC
64 AGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGC
* *
33258042 TCACAGAAATGAACATTTAGCTGCCTCATTGAGATACATTTCGTATTGGTAGGTCAGAAGTAGCC
129 TCACAGAAATGAACATTTAGCTGCCTCATTGAGGT-CATTTCGTATTGGTAGGTTAGAAGTAGCC
* * * *
33258107 AATTCATATTTGTTCAGGGTTACGGAAACAT-AAAATCTATTCACTTTGATTT
193 AATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
* *
33258159 TCAGCTCATGGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTTGTATCGGTAGGTTAGAAG
1 TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAAG
*
33258224 TAGGCAATTCATATTTGTTCAGAGCTACAGAAACAT-AAAACCTATTCACTTTGATTTTCAGCTC
66 TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGCTC
* * * * *
33258288 ACAGAAACGAACATTTAGCTGCCTCTTTGAGGTCCATTTCGTATTGGTATGTTATAACTAGCCAA
131 ACAGAAATGAACATTTAGCTGCCTCATTGAGGT-CATTTCGTATTGGTAGGTTAGAAGTAGCCAA
* * *
33258353 TTCATATTTGTTCAGAGCTACAGAAACATAAAAATCTATTCGCTCTCGATTT
195 TTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACT-TTGATTT
* * * * * *
33258405 TCAGCTCAAAGAAATGAACATTTAGCTGCCTCATCGAGGTCCATTTCATAGCAGTAGGTTAAAAG
1 TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAAG
*
33258470 TAGCCAACTCATATTTGT
66 TAGCCAATTCATATTTGT
33258488 GTTTATTTCA
Statistics
Matches: 947, Mismatches: 101, Indels: 36
0.87 0.09 0.03
Matches are distributed among these distances:
244 202 0.21
245 338 0.36
246 206 0.22
247 35 0.04
248 159 0.17
249 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (245 bp):
TCAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATCGGTAGGTTAGAAG
TAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTTTCAGCTC
ACAGAAATGAACATTTAGCTGCCTCATTGAGGTCATTTCGTATTGGTAGGTTAGAAGTAGCCAAT
TCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATTCACTTTGATTT
Found at i:33258561 original size:90 final size:90
Alignment explanation
Indices: 33258403--33258797 Score: 501
Period size: 90 Copynumber: 4.5 Consensus size: 90
33258393 CGCTCTCGAT
* * * *** * *
33258403 TTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATCGAGGTCCATTTCATAGCAGTAGGTTAAA
1 TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAGA
*
33258468 AGTAGCCAACTCATATTTGTGTTTA
66 AGTAGCCAACTCATATTTGTGTTGA
* * *
33258493 TTTCAGCTCACAGGAATGAACATTTAGCTGCCACATTGTGGTCCATTTCGTATTGGTAGCTTAGA
1 TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAGA
33258558 AGTAGCCAACTCATATTTGTGTTGA
66 AGTAGCCAACTCATATTTGTGTTGA
33258583 TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAGA
1 TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAGA
* *
33258648 AGTAGTCAACTCATATTTGT-TACGA
66 AGTAGCCAACTCATATTTGTGT-TGA
* *
33258673 TTTTCAGCTCATAGAAATGAACATTTAGCTGTCTCATTGAGGTCCATTTCGTA----T--C----
1 -TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAG
*
33258728 -AGTAGCCAACTCATATTTGT-TTCAA
65 AAGTAGCCAACTCATATTTGTGTT-GA
*
33258753 TTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCGTTGAGGTCC
1 -TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCC
33258798 TACAGCGATG
Statistics
Matches: 277, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
80 63 0.23
85 1 0.00
87 1 0.00
89 1 0.00
90 161 0.58
91 50 0.18
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (90 bp):
TTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTAGA
AGTAGCCAACTCATATTTGTGTTGA
Found at i:33258781 original size:80 final size:80
Alignment explanation
Indices: 33258648--33258797 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 80
33258638 GTAGCTTAGA
* * * *
33258648 AGTAGTCAACTCATATTTGTTACGATTTTCAGCTCATAGAAATGAACATTTAGCTGTCTCATTGA
1 AGTAGCCAACTCATATTTGTTACAATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGA
33258713 GGTCCATTTCGTATC
66 GGTCCATTTCGTATC
* *
33258728 AGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCGTTGA
1 AGTAGCCAACTCATATTTGTTACAATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGA
33258793 GGTCC
66 GGTCC
33258798 TACAGCGATG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (80 bp):
AGTAGCCAACTCATATTTGTTACAATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGA
GGTCCATTTCGTATC
Found at i:33266500 original size:15 final size:17
Alignment explanation
Indices: 33266480--33266518 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
33266470 TAAATCTAAG
33266480 AATTTAAAAA-AAA-TA
1 AATTTAAAAAGAAACTA
*
33266495 AATTTAAAAAGAAACTC
1 AATTTAAAAAGAAACTA
33266512 AATTTAA
1 AATTTAA
33266519 GTATCAGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 3 0.14
17 8 0.38
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (17 bp):
AATTTAAAAAGAAACTA
Found at i:33267274 original size:23 final size:23
Alignment explanation
Indices: 33267246--33267299 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33267236 CGTCCATCAT
*
33267246 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTAGACCTTCGAGAAGC
*
33267269 TGCTGACTAGATCTTCGAGAAGC
1 TGCTGACTAGACCTTCGAGAAGC
*
33267292 TACTGACT
1 TGCTGACT
33267300 GGATGTCACG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
TGCTGACTAGACCTTCGAGAAGC
Found at i:33268079 original size:9 final size:9
Alignment explanation
Indices: 33268038--33268131 Score: 50
Period size: 9 Copynumber: 10.7 Consensus size: 9
33268028 AGCAATCAAG
33268038 TTTTTTTC-
1 TTTTTTTCT
* *
33268046 TTTTTCTCC
1 TTTTTTTCT
*
33268055 GTTTTTTCT
1 TTTTTTTCT
* *
33268064 CTCTTTTCT
1 TTTTTTTCT
33268073 TTTTTTTCT
1 TTTTTTTCT
***
33268082 TTTCGATC-
1 TTTTTTTCT
* *
33268090 -CTTTTGCT
1 TTTTTTTCT
33268098 TTTTTTTCCT
1 TTTTTTT-CT
*
33268108 TTTTTTTGT
1 TTTTTTTCT
*
33268117 TCTTTTTCT
1 TTTTTTTCT
33268126 TTTTTT
1 TTTTTT
33268132 CTTCTTTATT
Statistics
Matches: 60, Mismatches: 22, Indels: 7
0.67 0.25 0.08
Matches are distributed among these distances:
7 2 0.03
8 7 0.12
9 42 0.70
10 9 0.15
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.77
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:33269569 original size:17 final size:17
Alignment explanation
Indices: 33269547--33269580 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33269537 CTAAGAATTT
33269547 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
33269564 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
33269581 GTATCAGCCT
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:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:33270362 original size:23 final size:23
Alignment explanation
Indices: 33270311--33270364 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
33270301 CGTCCATCCT
** *
33270311 TGCTGACTAGACCTTCTGGAAGT
1 TGCTGACTAGACCTTCTAAAAGC
* *
33270334 TACTGACTAGATCTTCTAAAAGC
1 TGCTGACTAGACCTTCTAAAAGC
33270357 TGCTGACT
1 TGCTGACT
33270365 GGATGTCACG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (23 bp):
TGCTGACTAGACCTTCTAAAAGC
Found at i:33276246 original size:6 final size:6
Alignment explanation
Indices: 33276231--33276271 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
33276221 TCAAAATAAT
* *
33276231 GCATCG GCATCT GCATCA GCATCA GCATCA GCATCA GCATC
1 GCATCA GCATCA GCATCA GCATCA GCATCA GCATCA GCATC
33276272 GTCCTGCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.20
Consensus pattern (6 bp):
GCATCA
Found at i:33282805 original size:2 final size:2
Alignment explanation
Indices: 33282798--33282822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33282788 GTAATTGCTT
33282798 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
33282823 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33286778 original size:172 final size:172
Alignment explanation
Indices: 33286439--33286782 Score: 618
Period size: 171 Copynumber: 2.0 Consensus size: 172
33286429 AGAAAAAGAG
33286439 CTAAGAAATCTAATACAAGTTCTACTACAGATGTGGAAGTTGTTGAAATTAAAGATGGAGGAACT
1 CTAAGAAATCTAATACAAGTTCTACTACAGATGTGGAAGTTGTTGAAATTAAAGATGGAGGAACT
* *
33286504 AAAAGGAAGCTTGGTAAGGCAATCACCTCGAACTAGATTGATTACTTATTTCGATGTTGGATTTT
66 AAAAGGAAGCTTGGTAAGGCAATCACCTCAAACTAGATTGATTACTTATTTCGAAGTTGGATTTT
33286569 ACTTGAACATTACAAACTTTCTTCTCTATAGAAAAAAGGGAA
131 ACTTGAACATTACAAACTTTCTTCTCTATAGAAAAAAGGGAA
33286611 CTAAGAAATCTAATACAAGTTCTACTACAGATGTGGAAGTTGTTGAAATTAAAGATGGAGGAACT
1 CTAAGAAATCTAATACAAGTTCTACTACAGATGTGGAAGTTGTTGAAATTAAAGATGGAGGAACT
* * *
33286676 AAAAGGAAGTTTGGT-AGGGAATCACCTCAAACTAGATTGATTACTTATTTCTAAGTTGGATTTT
66 AAAAGGAAGCTTGGTAAGGCAATCACCTCAAACTAGATTGATTACTTATTTCGAAGTTGGATTTT
* *
33286740 ACTTGAACATTGCAAACTTTCTTCTCTATAGAAAAAAAGGAA
131 ACTTGAACATTACAAACTTTCTTCTCTATAGAAAAAAGGGAA
33286782 C
1 C
33286783 ACAAGGACTT
Statistics
Matches: 165, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
171 86 0.52
172 79 0.48
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (172 bp):
CTAAGAAATCTAATACAAGTTCTACTACAGATGTGGAAGTTGTTGAAATTAAAGATGGAGGAACT
AAAAGGAAGCTTGGTAAGGCAATCACCTCAAACTAGATTGATTACTTATTTCGAAGTTGGATTTT
ACTTGAACATTACAAACTTTCTTCTCTATAGAAAAAAGGGAA
Found at i:33298082 original size:29 final size:26
Alignment explanation
Indices: 33298027--33298098 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
33298017 TCACATCAAC
*
33298027 AAATGATTTTAAAA-T-TAA-T-TTA
1 AAATTATTTTAAAATTATAATTGTTA
33298049 AAATTATTTTTTAAAATATATAATTGTTA
1 AAATTA--TTTTAAAAT-TATAATTGTTA
33298078 AAATTATTTTAAAATTATAAT
1 AAATTATTTTAAAATTATAAT
33298099 CATCATCATC
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
22 5 0.12
24 8 0.19
26 7 0.17
27 12 0.29
28 1 0.02
29 9 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
AAATTATTTTAAAATTATAATTGTTA
Found at i:33298091 original size:11 final size:11
Alignment explanation
Indices: 33298027--33298095 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 11
33298017 TCACATCAAC
*
33298027 AAATGATTTTA
1 AAATTATTTTA
*
33298038 AAATTAATTTA
1 AAATTATTTTA
33298049 AAATTATTTTTTAA
1 AAATTA--TTTT-A
33298063 AATATATAATTGTTA
1 AA-AT-T-ATT-TTA
33298078 AAATTATTTTA
1 AAATTATTTTA
33298089 AAATTAT
1 AAATTAT
33298096 AATCATCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
11 25 0.52
12 3 0.06
13 4 0.08
14 5 0.10
15 7 0.15
16 3 0.06
17 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:33298334 original size:3 final size:3
Alignment explanation
Indices: 33298326--33298374 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
33298316 TATGAAAGTA
33298326 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
33298374 C
1 C
33298375 ATACCTCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:33299479 original size:29 final size:29
Alignment explanation
Indices: 33299446--33299514 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
33299436 AAGTTATGGG
* *
33299446 TTTAGTTTATCTACTTTT-ATTTTATCAAT
1 TTTAGTTT-TATACTTTTAATTTGATCAAT
*
33299475 TTTAGTCTTTATACTTTTCAATTTGATTAAT
1 TTTAGT-TTTATACTTTT-AATTTGATCAAT
33299506 TTTAGTTTT
1 TTTAGTTTT
33299515 TTATATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 14 0.41
30 5 0.15
31 15 0.44
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (29 bp):
TTTAGTTTTATACTTTTAATTTGATCAAT
Found at i:33305421 original size:16 final size:18
Alignment explanation
Indices: 33305395--33305428 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33305385 TTAATTTAAA
33305395 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
33305412 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
33305429 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:33307611 original size:31 final size:31
Alignment explanation
Indices: 33307575--33307731 Score: 121
Period size: 31 Copynumber: 5.2 Consensus size: 31
33307565 GTACCTAATT
* ** *
33307575 TTTTTTGTCATTTTGGTATTTAAACTTGACAC
1 TTTTTTCT-ATTTTGGTACCTAAACTTAACAC
* *
33307607 TTTTTCCTAATTTGGTACCTAAACTTAACAC
1 TTTTTTCTATTTTGGTACCTAAACTTAACAC
*
33307638 TTTTTTCTATTTTGGTACCT-AA-TT----T
1 TTTTTTCTATTTTGGTACCTAAACTTAACAC
* * * *
33307663 TTTTTGTCCAATTTT-ATACTTAAACTTGACAC
1 TTTTT-T-CTATTTTGGTACCTAAACTTAACAC
* *
33307695 TTTTTTCTAATTTGGTACCTAAACTTCACAC
1 TTTTTTCTATTTTGGTACCTAAACTTAACAC
33307726 TTTTTT
1 TTTTTT
33307732 TTAAGTTGAT
Statistics
Matches: 98, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
25 5 0.05
26 5 0.05
27 8 0.08
28 2 0.02
29 2 0.02
30 7 0.07
31 58 0.59
32 11 0.11
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTTCTATTTTGGTACCTAAACTTAACAC
Found at i:33307705 original size:88 final size:87
Alignment explanation
Indices: 33307537--33307731 Score: 302
Period size: 88 Copynumber: 2.2 Consensus size: 87
33307527 ATTTAGTATT
* * *
33307537 TAAACTTAAACATTTTTTTTCTATTTTGGTACCTAATTTTTTTTGTCATTTTGGTATTTAAACTT
1 TAAACTT-AACA-CTTTTTTCTATTTTGGTACCTAATTTTTTTTGTCATTTTGATACTTAAACTT
33307602 GACACTTTTTCCTAATTTGGTACC
64 GACACTTTTTCCTAATTTGGTACC
33307626 TAAACTTAACACTTTTTTCTATTTTGGTACCTAATTTTTTTTGTCCAATTTT-ATACTTAAACTT
1 TAAACTTAACACTTTTTTCTATTTTGGTACCTAATTTTTTTTGT-C-ATTTTGATACTTAAACTT
*
33307690 GACACTTTTTTCTAATTTGGTACC
64 GACACTTTTTCCTAATTTGGTACC
*
33307714 TAAACTTCACACTTTTTT
1 TAAACTTAACACTTTTTT
33307732 TTAAGTTGAT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
87 32 0.32
88 55 0.56
89 12 0.12
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (87 bp):
TAAACTTAACACTTTTTTCTATTTTGGTACCTAATTTTTTTTGTCATTTTGATACTTAAACTTGA
CACTTTTTCCTAATTTGGTACC
Found at i:33307749 original size:31 final size:31
Alignment explanation
Indices: 33307678--33307751 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
33307668 GTCCAATTTT
* *
33307678 ATACTTAAACTTGACACTTTTTTCTAATTTG
1 ATACTTAAACTTCACACTTTTTTCTAAGTTG
* * *
33307709 GTACCTAAACTTCACACTTTTTTTTAAGTTG
1 ATACTTAAACTTCACACTTTTTTCTAAGTTG
33307740 ATACTTAAACTT
1 ATACTTAAACTT
33307752 TTTGGGGTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (31 bp):
ATACTTAAACTTCACACTTTTTTCTAAGTTG
Found at i:33307754 original size:88 final size:88
Alignment explanation
Indices: 33307537--33307754 Score: 242
Period size: 88 Copynumber: 2.5 Consensus size: 88
33307527 ATTTAGTATT
* ** * ** * *
33307537 TAAACTTAAACATTTTTTTTCTATTTTGGTACCTAATTTTTTTTGT-C-ATTTTGGTATTTAAAC
1 TAAACTT-AACA-CTTTTTTCTAAGTTGATACCTAAACTTTTTTGTCCAATTTT-ATACTTAAAC
33307600 TTGACACTTTTTCCTAATTTGGTACC
63 TTGACACTTTTTCCTAATTTGGTACC
** * **
33307626 TAAACTTAACACTTTTTTCTATTTTGGTACCTAATTTTTTTTGTCCAATTTTATACTTAAACTTG
1 TAAACTTAACACTTTTTTCTAAGTTGATACCTAAACTTTTTTGTCCAATTTTATACTTAAACTTG
*
33307691 ACACTTTTTTCTAATTTGGTACC
66 ACACTTTTTCCTAATTTGGTACC
* * *
33307714 TAAACTTCACACTTTTTTTTAAGTTGATACTTAAACTTTTT
1 TAAACTTAACACTTTTTTCTAAGTTGATACCTAAACTTTTT
33307755 GGGGTTCAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
87 32 0.28
88 71 0.62
89 12 0.10
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (88 bp):
TAAACTTAACACTTTTTTCTAAGTTGATACCTAAACTTTTTTGTCCAATTTTATACTTAAACTTG
ACACTTTTTCCTAATTTGGTACC
Found at i:33307785 original size:88 final size:88
Alignment explanation
Indices: 33307595--33307805 Score: 237
Period size: 88 Copynumber: 2.4 Consensus size: 88
33307585 TTTTGGTATT
* ** *
33307595 TAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTAACACTTTTTTCTATTTTGGTACCTAA
1 TAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTAACACTTTTTTCTAAGTTGATACCTAA
*** * *
33307660 TTTTTTTTGTCCAATTTTATACT
66 TTTTTGGGGTCCAATTTGATACC
* * *
33307683 TAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTCACACTTTTTTTTAAGTTGATACTTAA
1 TAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTAACACTTTTTTCTAAGTTGATACCT-A
* *
33307748 ACTTTTTGGGGTTCAATTTGGTACC
65 A-TTTTTGGGGTCCAATTTGATACC
* *
33307773 TGAACTT-A-ACTTTTTTCCTAATTTGATACCTAA
1 TAAACTTGACACTTTTTT-CTAATTTGGTACCTAA
33307806 TATTTTTTAA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
88 64 0.62
89 18 0.17
90 22 0.21
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (88 bp):
TAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTAACACTTTTTTCTAAGTTGATACCTAA
TTTTTGGGGTCCAATTTGATACC
Found at i:33313323 original size:2 final size:2
Alignment explanation
Indices: 33313316--33313361 Score: 56
Period size: 2 Copynumber: 21.0 Consensus size: 2
33313306 AAACTTTGTA
33313316 AT AT AT AT AT AT AT AT AT GAT AT AT GAT AT AT GAT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT -AT AT AT -AT AT
33313360 AT
1 AT
33313362 GATAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 32 0.80
3 8 0.20
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33313340 original size:7 final size:7
Alignment explanation
Indices: 33313316--33313365 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
33313306 AAACTTTGTA
33313316 ATATAT-
1 ATATATG
33313322 ATATAT-
1 ATATATG
33313328 ATATATG
1 ATATATG
33313335 ATATATG
1 ATATATG
33313342 ATATATG
1 ATATATG
33313349 ATATATG
1 ATATATG
33313356 ATATATG
1 ATATATG
33313363 ATA
1 ATA
33313366 AAAAAATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 12 0.28
7 31 0.72
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (7 bp):
ATATATG
Found at i:33315363 original size:19 final size:19
Alignment explanation
Indices: 33315339--33315377 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33315329 TATTTATATA
33315339 ATTAAAATATAAATAGATT
1 ATTAAAATATAAATAGATT
* *
33315358 ATTAAAATATTAATATATT
1 ATTAAAATATAAATAGATT
33315377 A
1 A
33315378 AGAATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTAAAATATAAATAGATT
Found at i:33315552 original size:22 final size:22
Alignment explanation
Indices: 33315524--33315577 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
33315514 GTATGTTTAA
33315524 TAATATTGAATATTATA-ATAT
1 TAATATTGAATATTATAGATAT
*
33315545 TACATATT-AATATTTTAGATAT
1 TA-ATATTGAATATTATAGATAT
*
33315567 TAAAATTGAAT
1 TAATATTGAAT
33315578 GTTTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
TAATATTGAATATTATAGATAT
Found at i:33315754 original size:19 final size:21
Alignment explanation
Indices: 33315705--33315755 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
33315695 TTTCAAAAAA
33315705 AAATTATTTTTTATTAATTTGT
1 AAATTATTTTTTATTAA-TTGT
* *
33315727 AAATCATTTTTTATTGA-T-T
1 AAATTATTTTTTATTAATTGT
33315746 AAATTATTTT
1 AAATTATTTT
33315756 CCATGAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.38
20 1 0.04
22 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
AAATTATTTTTTATTAATTGT
Found at i:33324287 original size:20 final size:20
Alignment explanation
Indices: 33324249--33324287 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33324239 TAATGATTAC
**
33324249 TGATTGAACTGACTAAAAAT
1 TGATTGAACCAACTAAAAAT
33324269 TGATTGAACCAACTGAAAA
1 TGATTGAACCAACT-AAAA
33324288 CCAGTTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (20 bp):
TGATTGAACCAACTAAAAAT
Found at i:33328842 original size:29 final size:29
Alignment explanation
Indices: 33328800--33328856 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
33328790 ATAATTTATA
33328800 TTTTTATAATTTTTAAAATATTAAATTAAT
1 TTTTTATAATTTTTAAAA-ATTAAATTAAT
*
33328830 TTTTTATTATTTTTAAAAATTAAATTA
1 TTTTTATAATTTTTAAAAATTAAATTA
33328857 TAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTTATAATTTTTAAAAATTAAATTAAT
Found at i:33328863 original size:29 final size:30
Alignment explanation
Indices: 33328795--33328874 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
33328785 TTTGAATAAT
*
33328795 TTATATTTTTATAATTTTTAAAATATTAAA
1 TTATATTTTTATTATTTTTAAAATATTAAA
33328825 TTA-ATTTTTTATTATTTTTAAAA-ATTAAA
1 TTATA-TTTTTATTATTTTTAAAATATTAAA
*
33328854 TTATAATTTTATT-TTTATTAA
1 TTATATTTTTATTATTT-TTAA
33328875 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 3 0.07
29 21 0.47
30 21 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTATATTTTTATTATTTTTAAAATATTAAA
Found at i:33328892 original size:9 final size:10
Alignment explanation
Indices: 33328880--33328913 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
33328870 ATTAATTTAA
33328880 AATTTTAAA-
1 AATTTTAAAT
33328889 AATTTTAAAT
1 AATTTTAAAT
33328899 AA-TTTAAAT
1 AATTTTAAAT
33328908 AATTTT
1 AATTTT
33328914 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTTAAAT
Found at i:33339419 original size:22 final size:22
Alignment explanation
Indices: 33339382--33339437 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 22
33339372 TTATTTATTG
*
33339382 ATATATTTTAATTAATTAAACATAT
1 ATATATTTTAATTAA-T--ACAAAT
33339407 AATATATTTTAATTAATACAAAT
1 -ATATATTTTAATTAATACAAAT
33339430 ATATATTT
1 ATATATTT
33339438 AAGTTGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
25 1 0.03
26 15 0.52
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATTTTAATTAATACAAAT
Found at i:33340083 original size:24 final size:23
Alignment explanation
Indices: 33340056--33340110 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
33340046 AAGTGCTCAC
*
33340056 TTTAAAAAATAATAATTTA-TTATT
1 TTTAAAAAAT--TAATTTATTTAAT
*
33340080 TTTAAATAGATTAATTTATTTAAT
1 TTTAAA-AAATTAATTTATTTAAT
33340104 TTTAAAA
1 TTTAAAA
33340111 TTGAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 8 0.30
24 16 0.59
25 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAAAAATTAATTTATTTAAT
Found at i:33347520 original size:19 final size:20
Alignment explanation
Indices: 33347476--33347521 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
33347466 ATTAAAAACC
*
33347476 AAAT-TTAACTAAAAAATGT
1 AAATATTAACAAAAAAATGT
*
33347495 CAA-ATTAACAAAAAAAT-T
1 AAATATTAACAAAAAAATGT
33347513 AAATATTAA
1 AAATATTAA
33347522 AAACTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATATTAACAAAAAAATGT
Found at i:33351917 original size:18 final size:17
Alignment explanation
Indices: 33351886--33351920 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33351876 AAGGATGGTT
33351886 AGATGATGAGCCTGAGG
1 AGATGATGAGCCTGAGG
*
33351903 AGATAGATGATCCTGAGG
1 AGAT-GATGAGCCTGAGG
33351921 CAACCAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.11, G:0.37, T:0.20
Consensus pattern (17 bp):
AGATGATGAGCCTGAGG
Found at i:33360616 original size:23 final size:23
Alignment explanation
Indices: 33360586--33360643 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
33360576 CTTTTATCTA
33360586 AACAATGGTTGACCATGGTGGGG
1 AACAATGGTTGACCATGGTGGGG
33360609 AACAATGGTTGACCATGGTGGGG
1 AACAATGGTTGACCATGGTGGGG
33360632 AACAATGGTTGA
1 AACAATGGTTGA
33360644 TATAACTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.22
Consensus pattern (23 bp):
AACAATGGTTGACCATGGTGGGG
Found at i:33361560 original size:17 final size:17
Alignment explanation
Indices: 33361521--33361562 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
33361511 ATTTAACTTT
33361521 TAAAATT-TTATAAAAA
1 TAAAATTATTATAAAAA
33361537 TATAAATTATTA-AAATAA
1 TA-AAATTATTATAAA-AA
33361555 TAAAATTA
1 TAAAATTA
33361563 CATTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATTATTATAAAAA
Found at i:33362584 original size:59 final size:59
Alignment explanation
Indices: 33362519--33362667 Score: 192
Period size: 59 Copynumber: 2.5 Consensus size: 59
33362509 AAAAAAAGAT
* * * ***
33362519 TAAGAAAAAGAGTCAAGTTCAGGTATCAAATTGGACCCCAAAAAGTTTAGGTACCAAAC
1 TAAGAAAAAGTGTCAAGTTTAGGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAAC
* *
33362578 TAAGAAAAAGTGTCAA-TTTTGAGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAAT
1 TAAGAAAAAGTGTCAAGTTTAG-GTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAAC
* *
33362637 TAAGAAAAATTGTCAAGTTTAGGTACCAAAT
1 TAAGAAAAAGTGTCAAGTTTAGGTATCAAAT
33362668 ATTAGATTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 3 0.04
59 70 0.91
60 4 0.05
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (59 bp):
TAAGAAAAAGTGTCAAGTTTAGGTATCAAATTAGACAAAAAAAAGTTTAGGTACCAAAC
Found at i:33362658 original size:31 final size:30
Alignment explanation
Indices: 33362561--33362667 Score: 105
Period size: 31 Copynumber: 3.6 Consensus size: 30
33362551 GGACCCCAAA
*
33362561 AAGTTTAGGTACCAAACTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAA-TGTC
* * **
33362592 AA-TTTTGAGTATCAAATT-AGACAAAA--AA
1 AAGTTTAG-GTACCAAATTAAGA-AAAATGTC
33362620 AAGTTTAGGTACCAAATTAAGAAAAATTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAA-TGTC
33362651 AAGTTTAGGTACCAAAT
1 AAGTTTAGGTACCAAAT
33362668 ATTAGATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
28 15 0.25
29 7 0.12
30 7 0.12
31 31 0.52
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAAGAAAAATGTC
Found at i:33366722 original size:18 final size:19
Alignment explanation
Indices: 33366686--33366728 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
33366676 CATAAATTAT
33366686 AAAAAT-TTAAAACTGTAA
1 AAAAATATTAAAACTGTAA
* *
33366704 ACAAATATTAATACT-TAA
1 AAAAATATTAAAACTGTAA
33366722 AAAAATA
1 AAAAATA
33366729 AATATCGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATATTAAAACTGTAA
Found at i:33371402 original size:2 final size:2
Alignment explanation
Indices: 33371397--33371438 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
33371387 CAAAAAAATA
* * *
33371397 AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33371439 GTGTGTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:33373881 original size:21 final size:22
Alignment explanation
Indices: 33373828--33373881 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
33373818 TGTAATAATT
*
33373828 TTAAAATTTTTACGATAATAAAA
1 TTAAAATTTTTAC-AAAATAAAA
* * *
33373851 ATATAATTTTTA-AAAATTAAA
1 TTAAAATTTTTACAAAATAAAA
33373872 TTAAAATTTT
1 TTAAAATTTT
33373882 ATCATTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 15 0.60
23 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAAATTTTTACAAAATAAAA
Found at i:33381961 original size:18 final size:18
Alignment explanation
Indices: 33381938--33381975 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
33381928 TAATATAGTT
33381938 TTATTCG-GTTTATTCGAA
1 TTATTCGAG-TTATTCGAA
*
33381956 TTATTCGAGTTATTTGAA
1 TTATTCGAGTTATTCGAA
33381974 TT
1 TT
33381976 CGAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:33382063 original size:23 final size:23
Alignment explanation
Indices: 33382019--33382064 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33382009 AAAAAAAATT
**
33382019 TAACTCGATTCGTTTAACTTAAA
1 TAACTCGATTCGAATAACTTAAA
*
33382042 TAACTCGATTCGAATAATTTAAA
1 TAACTCGATTCGAATAACTTAAA
33382065 ATTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (23 bp):
TAACTCGATTCGAATAACTTAAA
Found at i:33384769 original size:188 final size:188
Alignment explanation
Indices: 33384357--33384823 Score: 584
Period size: 188 Copynumber: 2.5 Consensus size: 188
33384347 GTAGGCAGAG
** ** *
33384357 GCCTTGGCCCCTCAAAAATGGCAGATTTACCATTTAAC-TCTTTAATTTTTTATGAAATTATAGG
1 GCCTTGGCCCCTCAAAAATGATAGATTTGTCATTTAACTTC-TTAATTTTTTATGAAATTACAGG
* * *
33384421 TTAGTATAATGATAAAATTCACTTTAGCCTCCTAATAATTTATGATTCTTCTCTGCCCCCCTACA
65 TCAATATAATGATAAAATTCACTTTAGCCTCCTAATAACTTATGATTCTTCTCTGCCCCCCTACA
* * * * *
33384486 ACAATTTTCTAGCCTCGTCCTTGGCTGAACGGAGACGAAGACCAAAGGGGCAGCTAGGA
130 ACAATTTTCTAACCCCATCCTTGGATGAACGGAGACGAAGACAAAAGGGGCAGCTAGGA
* * * * *
33384545 GCCTTGGTCCCTAAAAAATGATAGATTTGTCATTTAACTTCATAAGTTTTTATGAAATTACATGT
1 GCCTTGGCCCCTCAAAAATGATAGATTTGTCATTTAACTTCTTAATTTTTTATGAAATTACAGGT
* * * *
33384610 CAATATATTGGTAAAATTACACTTT-GACCTCCTAATAACTTATGATTCTTCTTTGGCCCCCTAC
66 CAATATAATGATAAAATT-CACTTTAG-CCTCCTAATAACTTATGATTCTTCTCTGCCCCCCTAC
33384674 AACAATTTTCTAACCCCATCCTTGGATGAACGGAGACGAAGACAAAAGGGGCAAG-TA-GA
129 AACAATTTTCTAACCCCATCCTTGGATGAACGGAGACGAAGACAAAAGGGGC-AGCTAGGA
* * * *
33384733 TG-TTTGGCCCCTCAAAAATGATAAATTTGTCATTTAACTTCTTAATTTTTTATGAAATTATAAG
1 -GCCTTGGCCCCTCAAAAATGATAGATTTGTCATTTAACTTCTTAATTTTTTATGAAATTACAGG
* * *
33384797 TTAGTATAATGACAAAATTACACTTTA
65 TCAATATAATGATAAAATT-CACTTTA
33384824 AACCTTAAAT
Statistics
Matches: 238, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
188 144 0.61
189 92 0.39
190 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (188 bp):
GCCTTGGCCCCTCAAAAATGATAGATTTGTCATTTAACTTCTTAATTTTTTATGAAATTACAGGT
CAATATAATGATAAAATTCACTTTAGCCTCCTAATAACTTATGATTCTTCTCTGCCCCCCTACAA
CAATTTTCTAACCCCATCCTTGGATGAACGGAGACGAAGACAAAAGGGGCAGCTAGGA
Found at i:33388875 original size:25 final size:25
Alignment explanation
Indices: 33388841--33388892 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
33388831 AGAAATAATC
* *
33388841 TTTCAGTTAAACTTTGTTTATTTGT
1 TTTCAATTAAACTCTGTTTATTTGT
33388866 TTTCAATTAAACTCTGTTTATTTGT
1 TTTCAATTAAACTCTGTTTATTTGT
33388891 TT
1 TT
33388893 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (25 bp):
TTTCAATTAAACTCTGTTTATTTGT
Found at i:33395223 original size:35 final size:35
Alignment explanation
Indices: 33395157--33395227 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
33395147 ATAAGGTACA
** *
33395157 TGTGGCATGTCATGTGTAACTCTCCAATTATTCCG
1 TGTGGCATACCATGTGTAACTCTACAATTATTCCG
* *
33395192 TGTGGCATACCATGTGTAACTCTATAGTTATTCCG
1 TGTGGCATACCATGTGTAACTCTACAATTATTCCG
33395227 T
1 T
33395228 CAGCTACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (35 bp):
TGTGGCATACCATGTGTAACTCTACAATTATTCCG
Found at i:33397142 original size:19 final size:20
Alignment explanation
Indices: 33397095--33397142 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
33397085 ATATCTAGAA
33397095 TTTAA-TTATTTTTTTTATT
1 TTTAATTTATTTTTTTTATT
33397114 TTTAAGAATTTA-TTTTTTTATT
1 TTT---AATTTATTTTTTTTATT
33397136 TTTAATT
1 TTTAATT
33397143 CAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTAATTTATTTTTTTTATT
Found at i:33398065 original size:31 final size:35
Alignment explanation
Indices: 33398030--33398104 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
33398020 TAAAAAAATT
* *
33398030 ATTTAATAATTATC-T-TA-A-CAATATTTTATTA
1 ATTTAATAATTATCTTGTAGATAAATATTCTATTA
*
33398061 ATTTAATATTTATCTTGTAGATAAATATTCTATTA
1 ATTTAATAATTATCTTGTAGATAAATATTCTATTA
33398096 ATTTAATAA
1 ATTTAATAA
33398105 AATTTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 13 0.36
32 1 0.03
33 2 0.06
34 1 0.03
35 19 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (35 bp):
ATTTAATAATTATCTTGTAGATAAATATTCTATTA
Found at i:33399610 original size:21 final size:21
Alignment explanation
Indices: 33399586--33399626 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33399576 AAACCGAGTC
33399586 AGAACAGCAACAACCACAACA
1 AGAACAGCAACAACCACAACA
* *
33399607 AGAACAGCTACAACTACAAC
1 AGAACAGCAACAACCACAAC
33399627 TACAAGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.32, G:0.10, T:0.05
Consensus pattern (21 bp):
AGAACAGCAACAACCACAACA
Found at i:33411671 original size:22 final size:22
Alignment explanation
Indices: 33411646--33411688 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
33411636 AATTTTATAA
*
33411646 AATTAT-TAATATATTTTTTTAT
1 AATTATATAAT-TATTTATTTAT
*
33411668 AATTTTATAATTATTTATTTA
1 AATTATATAATTATTTATTTA
33411689 ATTACTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATATAATTATTTATTTAT
Found at i:33411675 original size:24 final size:22
Alignment explanation
Indices: 33411638--33411688 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
33411628 GTTAAATAAA
33411638 TTTTATAAAATTATTAATATATTT
1 TTTTATAAAATTA-TAAT-TATTT
**
33411662 TTTTATAATTTTATAATTATTT
1 TTTTATAAAATTATAATTATTT
*
33411684 ATTTA
1 TTTTA
33411689 ATTACTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATAAAATTATAATTATTT
Found at i:33413673 original size:200 final size:200
Alignment explanation
Indices: 33413122--33414027 Score: 1366
Period size: 201 Copynumber: 4.6 Consensus size: 200
33413112 CTTTTACCCC
* * * ** * * * * *
33413122 TTATAACAAAAGCTTTCAATCCCAATTTGTAAATGGCTAAACAATAACTAAAGATGCTCATACAA
1 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAACAACTAAAGATGCTTATACAA
33413187 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGT
66 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGT
* *
33413252 ATGATCGATCAGCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGCGCAACTAATATA
131 ATGATCGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATATA
33413317 CAACT
196 CAACT
33413322 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAAACAACTAAAGATGCTTATACA
1 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATAC-AACAACTAAAGATGCTTATACA
* * *
33413387 AGATGTTAACATTAACATCTTTCAATCGTCTTCCCTGGATTAAAAACACTTGCTTTAAAACGATG
65 AGATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATG
* * * *
33413452 TATGATCGATCACCAGAGAAATTTCTTTTCCTTTCACTAAATCAGAGTTTTTGAGCAACTAATAC
130 TATGATCGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
33413517 ACAACT
195 ACAACT
* * **
33413523 TTATAACACAAGTTTTCTATCCGGATTTGTATATAGCTATACTATGACTAAAGATGCTTATACAA
1 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAACAACTAAAGATGCTTATACAA
*
33413588 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAGAAACTTGCTTT-AAACTGATG
66 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAAC-GATG
* *
33413652 TATGGTCAATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
130 TATGATCGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
33413717 ACAACT
195 ACAACT
* *
33413723 TTATAACACAAGTTTTCGATCCGGATGTGTATATAGCTATACAAACAACTAAAGATGCTTACACA
1 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATAC-AACAACTAAAGATGCTTATACA
* * * *
33413788 AGATGTTACCATTAACGTCTTTCAATCATCTTCCCCGGATTAAAAAAAATTGCTTGAAAACGATG
65 AGATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATG
*
33413853 TATGATTGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
130 TATGATCGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
*
33413918 ACGACT
195 ACAACT
*
33413924 TTATAACACAAGTTTTCGATCTGGA----T-T-T-G-TAT--AACAACTAAAGATGCTTATACAA
1 TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAACAACTAAAGATGCTTATACAA
* * *
33413979 TATGTTACCACTACCATCTTTCAATCGTCTTCCCCGGATTAAAAAAACT
66 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACT
33414028 ATTAATATAA
Statistics
Matches: 646, Mismatches: 56, Indels: 18
0.90 0.08 0.03
Matches are distributed among these distances:
190 65 0.10
193 3 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 1 0.00
199 4 0.01
200 214 0.33
201 352 0.54
202 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (200 bp):
TTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAACAACTAAAGATGCTTATACAA
GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGT
ATGATCGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATATA
CAACT
Found at i:33413866 original size:401 final size:397
Alignment explanation
Indices: 33413122--33414027 Score: 1394
Period size: 401 Copynumber: 2.3 Consensus size: 397
33413112 CTTTTACCCC
* * ** * *
33413122 TTATAACAAAAGCTTTCAATCCCAATTTGTAAATGGCTAAACAATAACTAAAGATGCTCATACAA
1 TTATAACACAAGTTTTCAATCCGGATTTGT-AATAGCT-AAC-AT-ACTAAAGATGCTTATACAA
33413187 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGT
62 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGT
* * *
33413252 ATGATCGATCAGCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGCGCAACTAATATA
127 ATGATCAATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATATA
*
33413317 CAACTTTATAACACAAGTTTTCGATCCGGATTTGTATATAGCTATACAAACAACTAAAGATGCTT
192 CAACTTTATAACACAAGTTTTCGATCCGGATGTGTATATAGCTATACAAACAACTAAAGATGCTT
* * * * * *
33413382 ATACAAGATGTTAACATTAACATCTTTCAATCGTCTTCCCTGGATTAAAAACACTTGCTTTAAAA
257 ACACAAGATGTTAACATTAACATCTTTCAATCATCTTCCCCGGATTAAAAAAAATTGCTTGAAAA
* *
33413447 CGATGTATGATCGATCACCAGAGAAATTTCTTTTCCTTTCACTAAATCAGAGTTTTTGAGCAACT
322 CGATGTATGATCGATCACCAGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACT
33413512 AATACACAACT
387 AATACACAACT
*
33413523 TTATAACACAAGTTTTCTATCCGGATTTGTATATAGCTATACTATGACTAAAGATGCTTATACAA
1 TTATAACACAAGTTTTCAATCCGGATTTGTA-ATAGCTA-AC-AT-ACTAAAGATGCTTATACAA
*
33413588 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAGAAACTTGCTTT-AAACTGATG
62 GATGTTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAAC-GATG
*
33413652 TATGGTCAATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
126 TATGATCAATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATAT
33413717 ACAACTTTATAACACAAGTTTTCGATCCGGATGTGTATATAGCTATACAAACAACTAAAGATGCT
191 ACAACTTTATAACACAAGTTTTCGATCCGGATGTGTATATAGCTATACAAACAACTAAAGATGCT
* *
33413782 TACACAAGATGTTACCATTAACGTCTTTCAATCATCTTCCCCGGATTAAAAAAAATTGCTTGAAA
256 TACACAAGATGTTAACATTAACATCTTTCAATCATCTTCCCCGGATTAAAAAAAATTGCTTGAAA
* *
33413847 ACGATGTATGATTGATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAAC
321 ACGATGTATGATCGATCACCAGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAAC
* *
33413912 TAATATACGACT
386 TAATACACAACT
* * *
33413924 TTATAACACAAGTTTTCGATCTGGATTTG---TA--TAACA-ACTAAAGATGCTTATACAATATG
1 TTATAACACAAGTTTTCAATCCGGATTTGTAATAGCTAACATACTAAAGATGCTTATACAAGATG
* *
33413983 TTACCACTACCATCTTTCAATCGTCTTCCCCGGATTAAAAAAACT
66 TTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACT
33414028 ATTAATATAA
Statistics
Matches: 467, Mismatches: 35, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
391 64 0.14
393 1 0.00
394 2 0.00
395 2 0.00
397 2 0.00
400 6 0.01
401 390 0.84
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (397 bp):
TTATAACACAAGTTTTCAATCCGGATTTGTAATAGCTAACATACTAAAGATGCTTATACAAGATG
TTACCATTAACATCTTTCAATCGTCTTCCCCGGATTAAAAAAACTTGCTTTAAAACGATGTATGA
TCAATCACCGGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATATACAAC
TTTATAACACAAGTTTTCGATCCGGATGTGTATATAGCTATACAAACAACTAAAGATGCTTACAC
AAGATGTTAACATTAACATCTTTCAATCATCTTCCCCGGATTAAAAAAAATTGCTTGAAAACGAT
GTATGATCGATCACCAGAGAAATTTCTTTTCCTTTCACTAAATCAAAGTTTTCGAGCAACTAATA
CACAACT
Found at i:33425577 original size:23 final size:23
Alignment explanation
Indices: 33425528--33425739 Score: 183
Period size: 23 Copynumber: 9.5 Consensus size: 23
33425518 TAAACGGAAC
* * *
33425528 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
33425550 GAACAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
33425573 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
33425593 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
33425612 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
33425635 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
33425658 AATAACAGAGAGCACGA-AACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
33425683 AAACAGAGAGCACGA-AACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
*
33425706 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
33425729 AATCAGAGAGC
1 AAACAGAGAGC
33425740 GCGCTAGTGT
Statistics
Matches: 157, Mismatches: 21, Indels: 23
0.78 0.10 0.11
Matches are distributed among these distances:
16 10 0.06
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 12 0.08
23 109 0.69
24 2 0.01
25 16 0.10
26 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:33425604 original size:39 final size:39
Alignment explanation
Indices: 33425557--33425631 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
33425547 ACTGAACAGA
*
33425557 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
33425596 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
33425632 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:33425715 original size:71 final size:68
Alignment explanation
Indices: 33425607--33425739 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 68
33425597 AGCACACAAA
* * *
33425607 GTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAATAACAGAGAGCA
1 GTGCTAAACAGAGAGCACAC-AAGTGCTAAACAGAGAGCACACACAGTGCTAAT--CAGAGAGCA
33425672 CGAAAC
63 CGAAAC
33425678 GTGCTAAACAGAGAGCACGA-AACGTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 GTGCTAAACAGAGAGCAC-ACAA-GTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGC
33425740 GCGCTAGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
69 8 0.14
70 2 0.04
71 46 0.81
72 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (68 bp):
GTGCTAAACAGAGAGCACACAAGTGCTAAACAGAGAGCACACACAGTGCTAATCAGAGAGCACGA
AAC
Found at i:33430063 original size:17 final size:17
Alignment explanation
Indices: 33430038--33430078 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33430028 ATTGTGTGTG
*
33430038 TGAATTGTTATGTCTAA
1 TGAACTGTTATGTCTAA
*
33430055 TGAACTGTTATTTCTAA
1 TGAACTGTTATGTCTAA
*
33430072 TAAACTG
1 TGAACTG
33430079 ATTTGGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (17 bp):
TGAACTGTTATGTCTAA
Found at i:33435416 original size:2 final size:2
Alignment explanation
Indices: 33435409--33435438 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33435399 TATCAACCTT
33435409 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33435439 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33435443 original size:2 final size:2
Alignment explanation
Indices: 33435438--33435478 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33435428 ATATATATAT
33435438 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
33435479 ACCCTAGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33440708 original size:19 final size:20
Alignment explanation
Indices: 33440668--33440713 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
33440658 GTGATAGTAC
*
33440668 AAATAAT-TTAAAAATTATA
1 AAATAATATTAAAAAATATA
33440687 AAATAATATTAAAAAATA-A
1 AAATAATATTAAAAAATATA
*
33440706 AAAAAATA
1 AAATAATA
33440714 GAGTAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATATTAAAAAATATA
Found at i:33445932 original size:5 final size:5
Alignment explanation
Indices: 33445922--33445972 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
33445912 TTGGAATTTA
* *
33445922 TCTTT TCTTT TCTTT TCTTC TCTTT TCTTT T-TTT T-TTT T-TTT TCATT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
33445969 TCTT
1 TCTT
33445973 GTTTTTCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
4 12 0.29
5 29 0.71
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:33445971 original size:32 final size:31
Alignment explanation
Indices: 33445924--33445987 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
33445914 GGAATTTATC
* *
33445924 TTTTCTTTTCTTTTCTTCTCTTTTCTTTTTTT
1 TTTTCTTTTCATTTCTTCT-TTTTCATTTTTT
* *
33445956 TTTTTTTTTCATTTCTTGTTTTTCATTTTTT
1 TTTTCTTTTCATTTCTTCTTTTTCATTTTTT
33445987 T
1 T
33445988 AATTTTGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (31 bp):
TTTTCTTTTCATTTCTTCTTTTTCATTTTTT
Found at i:33445984 original size:22 final size:22
Alignment explanation
Indices: 33445945--33445986 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33445935 TTTCTTCTCT
* **
33445945 TTTCTTTTTTTTTTTTTTTTCA
1 TTTCTTGTTTTTCATTTTTTCA
33445967 TTTCTTGTTTTTCATTTTTT
1 TTTCTTGTTTTTCATTTTTT
33445987 TAATTTTGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTCTTGTTTTTCATTTTTTCA
Found at i:33455530 original size:12 final size:12
Alignment explanation
Indices: 33455515--33455555 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
33455505 TTCAGCTTTG
33455515 TCTTCATCTTCC
1 TCTTCATCTTCC
*
33455527 TCTTCA---TCA
1 TCTTCATCTTCC
33455536 TCTTCATCTTCC
1 TCTTCATCTTCC
33455548 TCTTCATC
1 TCTTCATC
33455556 ATTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.12, C:0.39, G:0.00, T:0.49
Consensus pattern (12 bp):
TCTTCATCTTCC
Found at i:33455541 original size:21 final size:21
Alignment explanation
Indices: 33455515--33455563 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
33455505 TTCAGCTTTG
33455515 TCTTCATCTTCCTCTTCATCA
1 TCTTCATCTTCCTCTTCATCA
33455536 TCTTCATCTTCCTCTTCATCA
1 TCTTCATCTTCCTCTTCATCA
*
33455557 TTTTCAT
1 TCTTCAT
33455564 TTACATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (21 bp):
TCTTCATCTTCCTCTTCATCA
Found at i:33455747 original size:13 final size:12
Alignment explanation
Indices: 33455729--33455758 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
33455719 TTACATGTTT
33455729 TAAATAACAACAA
1 TAAATAACAA-AA
33455742 TAAATAACAAAA
1 TAAATAACAAAA
33455754 TAAAT
1 TAAAT
33455759 TTTACCGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAATAACAAAA
Found at i:33461747 original size:21 final size:21
Alignment explanation
Indices: 33461723--33461763 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33461713 TATTGATGTT
* *
33461723 CTGAAATTTAAAATTCCAATA
1 CTGAAAATAAAAATTCCAATA
*
33461744 CTGAAAATAAAAATTGCAAT
1 CTGAAAATAAAAATTCCAAT
33461764 GGGGTAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (21 bp):
CTGAAAATAAAAATTCCAATA
Found at i:33469475 original size:60 final size:61
Alignment explanation
Indices: 33469362--33469476 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 61
33469352 TTATTTTAAA
* * * *
33469362 TTTTAGAGTTAGGACTAAATTGATAGATTTTGCAAATATTGAGGGCCAAATTTATCGAATG
1 TTTTAGAATTAGGACTAAATTGATAAATTTTGCAAACATCGAGGGCCAAATTTATCGAATG
**
33469423 TTTTAGAATTAGGACTAAA-TGATAAATTTT-CTAAACATCGAGGGTTAAATTTAT
1 TTTTAGAATTAGGACTAAATTGATAAATTTTGC-AAACATCGAGGGCCAAATTTAT
33469477 TATTTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 28 0.60
61 18 0.38
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (61 bp):
TTTTAGAATTAGGACTAAATTGATAAATTTTGCAAACATCGAGGGCCAAATTTATCGAATG
Found at i:33474629 original size:3 final size:3
Alignment explanation
Indices: 33474621--33474655 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33474611 TATTTAATTT
33474621 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33474656 GTCAATACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33476703 original size:66 final size:66
Alignment explanation
Indices: 33476597--33476731 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
33476587 GTTTTGTTTT
33476597 TGTTGATTTATTTCTTATCGTAGACGGAAAACAGAGGATTAAATTGAACAAAGTTACAAAAATGG
1 TGTTGATTTATTTCTTATCGTAGACGGAAAACAGAGGATTAAATTGAACAAAGTTACAAAAATGG
33476662 A
66 A
*
33476663 TGTTGATTTATTTCTTATCGTAGACGGAAAACATAGGATTAAATTGAACAAAGTTACAAAAATGG
1 TGTTGATTTATTTCTTATCGTAGACGGAAAACAGAGGATTAAATTGAACAAAGTTACAAAAATGG
33476728 A
66 A
33476729 TGT
1 TGT
33476732 CCTTTTCCGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (66 bp):
TGTTGATTTATTTCTTATCGTAGACGGAAAACAGAGGATTAAATTGAACAAAGTTACAAAAATGG
A
Found at i:33479149 original size:151 final size:150
Alignment explanation
Indices: 33478549--33480594 Score: 2502
Period size: 151 Copynumber: 13.5 Consensus size: 150
33478539 AAAGTTTAAT
* * * * * *
33478549 TTAGTTAAGTTTGAATTTTGATTATGCATTTGAAAACGTA-TAA-AATAA-ATAAATTTCGAAAG
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTG-AAATGTATTAAGAA-AACATAAATTTCAAAAT
* * *
33478611 CTTAGGAATTTATGATTTTATAAGGTATGAGAAGCT-AGATTTGGATTTTTCATTTGTTATATTA
64 CTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGA-ATTTGGATTTTTCATTTGTTATATTG
33478675 ATTTTGAGCTATGAAAAG-CAAA
128 ATTTTGAGCTATGAAAAGCCAAA
* * * * *
33478697 TTTGTTAAGGCTGAACTTTGATTATGTATTTTGAAATGTA-TAAGAAAACACAAATTTCGAAAGC
1 TTAGTTAAGGTTGAACTTTGATTATGTA-TTTGAAATGTATTAAGAAAACATAAATTTCAAAATC
* * *
33478761 TTAGGAATTTATGATTTTATAAGGTATGAGAAGCTGAATTTGGATATTTCATTTGTTATATTGAT
65 TTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGAT
33478826 TTTGAGCTATGAAAAAGCCAAA
130 TTTGAGCTATG-AAAAGCCAAA
* * * * *
33478848 TTAGTTAAGGTTTAACTTTGATTCTGTATTTGAAATGTA-TAAGAAAGCATGAATGTCAAAATCT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
* * * *
33478912 TAGGTCGATTT-TAGTATTTTATAAGCTATGAAAAGCTGACTTTGGAATTTTCATTTGTCATATT
66 TAGG--AATTTAT-G-ATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATT
* * * *
33478976 AATTTTGAGATATGAAAGGCCAAG
127 GATTTTGAGCTATGAAAAGCCAAA
* * * *
33479000 TTAGCTAAGGTTGAACTTTGATCATGTATTTGAAATGTATTAAGAAAACACAAATTTCGAAATCT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
* * * * * * *
33479065 TAGGATTTTATGGTTTTATAAGGTATGAGAAGTTAAATTTGGAAATTTTCATTTGTTATATTGAT
66 TAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGG-ATTTTTCATTTGTTATATTGAT
*
33479130 TTTGAGCTATGAAATGCCAAA
130 TTTGAGCTATGAAAAGCCAAA
* * *
33479151 TTAGTCAAGGTTGAACTTTGATTATGTATTTGAAATGTATT-AGAAAA-ATGAATTTCAAAATTT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
* * *
33479214 TAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAGTTTGGAATTTTCATTTGTTGTATTGATT
66 TAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGATT
*
33479279 TTGAGTTATGAAAAGCCAAA
131 TTGAGCTATGAAAAGCCAAA
* ** * * *
33479299 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATATAACAAAAAAACATGAATTTCAAGATCT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
** * **
33479364 TATAAATTTATGATTTTATAAGGTATGAGAAA-CTGAATTTGTTTTTTTCATTTGTTATATTGAT
66 TAGGAATTTATGATTTTATAAGCTATGA-AAAGCTGAATTTGGATTTTTCATTTGTTATATTGAT
*
33479428 TTTGAGCTATGAAAAGCTAAA
130 TTTGAGCTATGAAAAGCCAAA
* *
33479449 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTTAAAAAAACATGAATTTCAAAATC
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTA-TTAAGAAAACATAAATTTCAAAATC
* * * *
33479514 TTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATATTTCATTTGTTATATTGAT
65 TTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGAT
33479579 TTTGAGCT-TGAAAAAGCCAAA
130 TTTGAGCTATG-AAAAGCCAAA
* * *
33479600 TTAGTTAAGGTTGAGCTTTGATTATGTATTTGAAATGTA-GAAGAAAACATGAATTTCAAAATCT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
* *
33479664 TAGGAATTTATGATTTTATAAGCTATGAAAAGATGAATTTGGATTTTTCATTTGTTGTATTGATT
66 TAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGATT
33479729 TTGAGTCT-TGAAAAGCCAAA
131 TTGAG-CTATGAAAAGCCAAA
* * * *** *
33479749 TTAGTTAAGGTTGAACTCTGACTATGTATTTGAAATGTATTAAAAAAACATATTAGAAAAACATG
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAAC--A-TA-AATTTCA-A
* * * * * *
33479814 AAT-TTCA-AAATCTTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGAATTTTCA
61 AATCTT-AGGAAT-TT----A-TGA---TTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCA
33479877 TTTGTTATATTGATTTTGAGCT-TGAAAAAGCCAAA
116 TTTGTTATATTGATTTTGAGCTATG-AAAAGCCAAA
* * *
33479912 TTGGTTAAGGTTGAAATTTGATTATGTATTTGAAATGTATATAAGAAAACA-AGAATTTCGAAAT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTAT-TAAGAAAACATA-AATTTCAAAAT
*
33479976 CTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTTTATT-A
64 CTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGA
* *
33480040 ATTTGATCTATGAAAAGGCCAAA
129 TTTTGAGCTATGAAAA-GCCAAA
33480063 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATATAAGAAAACA-AGAATTTCAAAAT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTAT-TAAGAAAACATA-AATTTCAAAAT
* *
33480127 CTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCAGTTGTTTTATT-A
64 CTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGA
* *
33480191 ATTCGAGCTATGAAAAGGCCAAA
129 TTTTGAGCTATGAAAA-GCCAAA
* *
33480214 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAAAGAAACATTAATTTCAAAATC
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGA-AAACATAAATTTCAAAATC
* * * * *
33480279 TTAAGAATCTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTTATTTGTTATATTTAC
65 TTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGAT
* * * *
33480344 TATGAGCTATTATAAGACAAA
130 TTTGAGCTATGAAAAGCCAAA
* * *
33480365 TTAGTTAAGGTTGAACTTTTATTATGTATTTGAAATGTATTAAAAGAAACATTAATTTCAAAATC
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGA-AAACATAAATTTCAAAATC
* *
33480430 TTAAGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTTATTTGTTATATAT-A
65 TTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATAT-TGA
* * *
33480494 CTATGAGCTATGAAAAGACAAA
129 TTTTGAGCTATGAAAAGCCAAA
** * *
33480516 TTAGTTAAGGTTGAACCCTGATTATGTATTTGAAATGTA-T-AGAAATACATGAATTTCAAAATT
1 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAA-ACATAAATTTCAAAATC
33480579 TTAGGAATTTATGATT
65 TTAGGAATTTATGATT
33480595 ACAAAATGTG
Statistics
Matches: 1677, Mismatches: 174, Indels: 93
0.86 0.09 0.05
Matches are distributed among these distances:
148 113 0.07
149 309 0.18
150 225 0.13
151 740 0.44
152 63 0.04
153 80 0.05
154 11 0.01
155 7 0.00
159 7 0.00
160 12 0.01
162 5 0.00
163 97 0.06
164 8 0.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (150 bp):
TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAGAAAACATAAATTTCAAAATCT
TAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTCATTTGTTATATTGATT
TTGAGCTATGAAAAGCCAAA
Found at i:33480451 original size:916 final size:897
Alignment explanation
Indices: 33478549--33480594 Score: 2778
Period size: 916 Copynumber: 2.3 Consensus size: 897
33478539 AAAGTTTAAT
* * * * * *
33478549 TTAGTTAAGTTTGAA-TTTTGATTATGCATTTGAAAACGTA-TAAAATAA-ATAAATTTCGAAAG
1 TTAGTTAAGGTTGAACTTTT-ATTATGTATTTG-AAATGTATTAAAAAAACATAAATTTCAAAAT
*
33478611 CTTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAGATTTGGATTTTTCATTTGTTATATTAA
64 CTTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATTTTTCATTTGTTATATT-A
* *
33478676 TTTTGAGCTATGAAAAGCAAATTTGTTAAGGCTGAACTTTGATTATGTATTTTGAAATGTATAAG
128 TTTTGAGCTATGAAAAGCAAATTAGTTAAGGTTGAACTTTGATTATGTA-TTTGAAATGTA-AAG
** * * * * *
33478741 AAAACACAAATTTCGAAAGCTTAGGAATTTATGATTTTATAAGGTATGAGAAGCTGAATTTGGAT
191 AAAACATGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGATGAATTTGGAT
* * *
33478806 ATTTCATTTGTTATATTGATTTTGAGCTATGAAAAAGCCAAATTAGTTAAGGTTTAACTTTGATT
256 ATTTCATTTGTTATATTGATTTTGAGCTATGAAAAAGCCAAATTAGTTAAGGTTGAACTCTGACT
* * *
33478871 CTGTATTTGAAATGTATAAGAAAGCATGAATGTCAAAATCTTAGGTCGATTTTAGTATTTTATAA
321 ATGTATTTGAAATGTATAAGAAAACATGAATGTCAAAATCTTAGG-CAATTTTAGTATTTTATAA
* * * *
33478936 GCTATGAAAAGCTGACTTTGGAATTTTCATTTGTCATATTAATTTTGAGATATGAAAGGCCAAGT
385 GCTATGAAAAGCTAAATTTGGAATTTTCATTTGTCATATTAATTTTGAGATATGAAAAGCCAAAT
*
33479001 TAGCTAAGGTTGAACTTTGATCATGTATTTGAAATGTATTAAGAAAACACAAATTTCGAAATCTT
450 TAGCTAAGGTTGAAATTTGATCATGTATTTGAAATGTATTAAGAAAACACAAATTTCGAAATCTT
* * * * * *
33479066 AGGATTTTATGGTTTTATAAGGTATGAGAAGTTAAATTTGGAAATTTTCATTTGTTATATTGATT
515 AGGAATTTATGATTTTATAAGCTATGAAAAGCTAAATTTGGAAATTTTCATTTGTTATATTGAAT
*
33479131 TTGAGCTATGAAATGCCAAATTAGTCAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAGAA
580 TTGAGCTATGAAAGGCCAAATTAGTCAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAGAA
* * *
33479196 AAATGAATTTCAAAATTTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAGTTTGGAATTT
645 AAAAGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGAATTT
* * * *
33479261 TCATTTGTTGTATTGATTTTGAGTTATGAAAAGCCAAATTAGTTAAGGTTGAACTTTGATTATGT
710 TCAGTTGTTGTATTGAATTCGAGCTATGAAAAGCCAAATTAGTTAAGGTTGAACTTTGATTATGT
* * *
33479326 ATTTGAAATATAACAAAAAAACATGAATTTCAAGATCTTATAAATTTATGATTTTATAAGGTATG
775 ATTTGAAATATAACAAAAAAACATGAATTTCAAAATCTTATAAATCTATGATTTTATAAGCTATG
* * *
33479391 AGAAACTGAATTTGTTTTTTTCATTTGTTATATTGATTTTGAGCTATGAAAAGCTAAA
840 AGAAACTGAATTTGATTTTTTCATTTGTTATATTGACTATGAGCTATGAAAAGCTAAA
* *
33479449 TTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTTAAAAAAACATGAATTTCAAAATC
1 TTAGTTAAGGTTGAACTTTTATTATGTATTTGAAATGTA-TTAAAAAAACATAAATTTCAAAATC
*
33479514 TTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATATTTCATTTGTTATATTGAT
65 TTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATTTTTCATTTGTTATATT-AT
*
33479579 TTTGAGCT-TGAAAAAGCCAAATTAGTTAAGGTTGAGCTTTGATTATGTATTTGAAATGTAGAAG
129 TTTGAGCTATG-AAAAG-CAAATTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTA-AAG
33479643 AAAACATGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGATGAATTTGGAT
191 AAAACATGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGATGAATTTGGAT
* *
33479708 TTTTCATTTGTTGTATTGATTTTGAGTCT-TG-AAAAGCCAAATTAGTTAAGGTTGAACTCTGAC
256 ATTTCATTTGTTATATTGATTTTGAG-CTATGAAAAAGCCAAATTAGTTAAGGTTGAACTCTGAC
*
33479771 TATGTATTTGAAATGTATTAAAAAAACATATTAGAAAAACATGAATTTCAAAATCTTAGG-AA-T
320 TATGTATTTGAAATG---T--------ATA--AG-AAAACATGAATGTCAAAATCTTAGGCAATT
* * * * *
33479834 TTA-TGATTTTATAAGGTATGAGAAGCTAAATTTGGAATTTTCATTTGTTATATTGATTTTGAGC
371 TTAGT-ATTTTATAAGCTATGAAAAGCTAAATTTGGAATTTTCATTTGTCATATTAATTTTGAGA
* * *
33479898 T-TGAAAAAGCCAAATTGGTTAAGGTTGAAATTTGATTATGTATTTGAAATGTATATAAGAAAAC
435 TATG-AAAAGCCAAATTAGCTAAGGTTGAAATTTGATCATGTATTTGAAATGTAT-TAAGAAAAC
* *
33479962 A-AGAATTTCGAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGG-ATTTT
498 ACA-AATTTCGAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTAAATTTGGAAATTT
* * *
33480025 TCATTTGTTTTATT-AATTTGATCTATGAAAAGGCCAAATTAGTTAAGGTTGAACTTTGATTATG
562 TCATTTGTTATATTGAATTTGAGCTATG-AAAGGCCAAATTAGTCAAGGTTGAACTTTGATTATG
33480089 TATTTGAAATGTATATAAGAAAACAAGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTA
626 TATTTGAAATGTAT-T-AGAAAA-AAGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTA
* *
33480154 TGAAAAGCTGAATTTGGATTTTTCAGTTGTTTTATT-AATTCGAGCTATGAAAAGGCCAAATTAG
688 TGAAAAGCTGAATTTGGAATTTTCAGTTGTTGTATTGAATTCGAGCTATGAAAA-GCCAAATTAG
* ** *
33480218 TTAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAAAAGAAACATTAATTTCAAAATCTTA-
752 TTAAGGTTGAACTTTGATTATGTATTTGAAATATAACAAAA-AAACATGAATTTCAAAATCTTAT
*
33480282 AGAATCTATGATTTTATAAGCTATGA-AAAGCTGAATTTGGATTTTTT-ATTTGTTATATTTACT
816 A-AATCTATGATTTTATAAGCTATGAGAAA-CTGAATTT-GATTTTTTCATTTGTTATATTGACT
* *
33480345 ATGAGCTATTATAAGAC-AAA
878 ATGAGCTATGAAAAG-CTAAA
*
33480365 TTAGTTAAGGTTGAACTTTTATTATGTATTTGAAATGTATTAAAAGAAACATTAATTTCAAAATC
1 TTAGTTAAGGTTGAACTTTTATTATGTATTTGAAATGTATTAAAA-AAACATAAATTTCAAAATC
* * * * * *
33480430 TTAAGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGATTTTTTATTTGTTATATATAC
65 TTAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATTTTTCATTTGTTATAT-TAT
* ** *
33480495 TATGAGCTATGAAAAGACAAATTAGTTAAGGTTGAACCCTGATTATGTATTTGAAATGTATAGAA
129 TTTGAGCTATGAAAAG-CAAATTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTAAAGAA
*
33480560 ATACATGAATTTCAAAATTTTAGGAATTTATGATT
193 A-ACATGAATTTCAAAATCTTAGGAATTTATGATT
33480595 ACAAAATGTG
Statistics
Matches: 1013, Mismatches: 94, Indels: 62
0.87 0.08 0.05
Matches are distributed among these distances:
899 6 0.01
900 25 0.02
901 55 0.05
902 185 0.18
903 31 0.03
904 1 0.00
911 14 0.01
912 170 0.17
913 61 0.06
914 22 0.02
915 157 0.15
916 275 0.27
917 11 0.01
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (897 bp):
TTAGTTAAGGTTGAACTTTTATTATGTATTTGAAATGTATTAAAAAAACATAAATTTCAAAATCT
TAGGAATTTATGATTTTATAAGGTATGAGAAGCTAAATTTGGATTTTTCATTTGTTATATTATTT
TGAGCTATGAAAAGCAAATTAGTTAAGGTTGAACTTTGATTATGTATTTGAAATGTAAAGAAAAC
ATGAATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGATGAATTTGGATATTTC
ATTTGTTATATTGATTTTGAGCTATGAAAAAGCCAAATTAGTTAAGGTTGAACTCTGACTATGTA
TTTGAAATGTATAAGAAAACATGAATGTCAAAATCTTAGGCAATTTTAGTATTTTATAAGCTATG
AAAAGCTAAATTTGGAATTTTCATTTGTCATATTAATTTTGAGATATGAAAAGCCAAATTAGCTA
AGGTTGAAATTTGATCATGTATTTGAAATGTATTAAGAAAACACAAATTTCGAAATCTTAGGAAT
TTATGATTTTATAAGCTATGAAAAGCTAAATTTGGAAATTTTCATTTGTTATATTGAATTTGAGC
TATGAAAGGCCAAATTAGTCAAGGTTGAACTTTGATTATGTATTTGAAATGTATTAGAAAAAAGA
ATTTCAAAATCTTAGGAATTTATGATTTTATAAGCTATGAAAAGCTGAATTTGGAATTTTCAGTT
GTTGTATTGAATTCGAGCTATGAAAAGCCAAATTAGTTAAGGTTGAACTTTGATTATGTATTTGA
AATATAACAAAAAAACATGAATTTCAAAATCTTATAAATCTATGATTTTATAAGCTATGAGAAAC
TGAATTTGATTTTTTCATTTGTTATATTGACTATGAGCTATGAAAAGCTAAA
Found at i:33487675 original size:29 final size:29
Alignment explanation
Indices: 33487619--33487696 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
33487609 ATTTATCTCT
* * *
33487619 TATTATATTTTAATAATTTATATTTGAAA
1 TATTATTTTTTAATGATTTATATATGAAA
33487648 TATTATTTTTTAATGATTT-TATCATGAAA
1 TATTATTTTTTAATGATTTATAT-ATGAAA
*
33487677 TGTTAATTGTTGTTAATGAT
1 TATT-ATT-TT-TTAATGAT
33487697 ATAATAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.07
29 25 0.61
30 3 0.07
31 2 0.05
32 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (29 bp):
TATTATTTTTTAATGATTTATATATGAAA
Found at i:33487915 original size:21 final size:21
Alignment explanation
Indices: 33487876--33487916 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33487866 GTTACCTAAA
* *
33487876 TCAAACATGTGTTATGAAAAC
1 TCAAACATGTCTTACGAAAAC
*
33487897 TCAAACATTTCTTACGAAAA
1 TCAAACATGTCTTACGAAAA
33487917 TTCGATCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
TCAAACATGTCTTACGAAAAC
Found at i:33495684 original size:3 final size:3
Alignment explanation
Indices: 33495676--33495716 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
33495666 GAAGTGTTGC
* * *
33495676 ATG ATG ATG ATG ATG ATG ATG ATG ATC ATG GTG GTG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
33495717 TTTGTGCTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:33505967 original size:16 final size:17
Alignment explanation
Indices: 33505938--33505970 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33505928 CAAAACAACT
33505938 ATAAAAATACTTTAAAA
1 ATAAAAATACTTTAAAA
*
33505955 ATAAAAA-ATTTTAAAA
1 ATAAAAATACTTTAAAA
33505971 TTACCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAATACTTTAAAA
Found at i:33506108 original size:9 final size:9
Alignment explanation
Indices: 33506083--33506117 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
33506073 TTAAAAAATT
33506083 AAAATTTTCA
1 AAAATTTT-A
*
33506093 TAAATTTTA
1 AAAATTTTA
33506102 AAAATTTTA
1 AAAATTTTA
33506111 AAAATTT
1 AAAATTT
33506118 GTTTGTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AAAATTTTA
Found at i:33510262 original size:16 final size:16
Alignment explanation
Indices: 33510214--33510262 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
33510204 GATTCACTGG
33510214 AATGGAATAG-GATTGT
1 AATGGAATAGAG-TTGT
* *
33510230 AATAGAATATAGTTGT
1 AATGGAATAGAGTTGT
*
33510246 AATGGAATAGAGCTGT
1 AATGGAATAGAGTTGT
33510262 A
1 A
33510263 GCCTATAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGTTGT
Found at i:33512318 original size:16 final size:16
Alignment explanation
Indices: 33512285--33512318 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33512275 ATTCATTTCC
*
33512285 AATTTTTTATACTCAT
1 AATTTTTTATACTAAT
*
33512301 AATTTTTTATATTAAT
1 AATTTTTTATACTAAT
33512317 AA
1 AA
33512319 AAAATAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTTTATACTAAT
Found at i:33513155 original size:24 final size:24
Alignment explanation
Indices: 33513107--33513155 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
33513097 CATACTAATT
* *
33513107 TATGAAATTTTTAATTATAAAATC
1 TATGAAATTTCTAATGATAAAATC
33513131 TATGAAATTTCTAATGA-AAAGATC
1 TATGAAATTTCTAATGATAAA-ATC
33513155 T
1 T
33513156 TTGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (24 bp):
TATGAAATTTCTAATGATAAAATC
Found at i:33516485 original size:38 final size:38
Alignment explanation
Indices: 33516434--33516510 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
33516424 CATTTTATCT
*
33516434 TTCAAAATATAAAAAAATTTATTTAATCCCTTAAAAAA
1 TTCAAAATATAAAAAAAATTATTTAATCCCTTAAAAAA
* * *
33516472 TTCAAAATGTAAAAAAAATTATTTAATCTCTTCAAAAA
1 TTCAAAATATAAAAAAAATTATTTAATCCCTTAAAAAA
33516510 T
1 T
33516511 AATAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.35
Consensus pattern (38 bp):
TTCAAAATATAAAAAAAATTATTTAATCCCTTAAAAAA
Found at i:33520096 original size:15 final size:17
Alignment explanation
Indices: 33520071--33520102 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33520061 ATTGAATCAA
33520071 ATTTGAATTT-AATAAT
1 ATTTGAATTTAAATAAT
33520087 ATTT-AATTTAAATAAT
1 ATTTGAATTTAAATAAT
33520103 TCATGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTGAATTTAAATAAT
Found at i:33520994 original size:30 final size:31
Alignment explanation
Indices: 33520959--33521041 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
33520949 GTTTTTATAC
* *
33520959 TTTAATTTGATTAATTTTAGTCGTTGTA-TT
1 TTTAATTTGATAAATTTTAGTCCTTGTACTT
* *
33520989 TTTAATTTGGTCAATTTTAGTCCTTGTACTT
1 TTTAATTTGATAAATTTTAGTCCTTGTACTT
*
33521020 TTTGAATTTTA-AAATTTTAGTC
1 TTT-AATTTGATAAATTTTAGTC
33521042 TTGACCCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 25 0.56
31 15 0.33
32 5 0.11
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTAATTTGATAAATTTTAGTCCTTGTACTT
Found at i:33521735 original size:20 final size:20
Alignment explanation
Indices: 33521696--33521736 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33521686 ATTCTCATTT
* **
33521696 GAAATTTATAATTAGGAATA
1 GAAAATTATAATTACAAATA
33521716 GAAAATTATAATTACAAATA
1 GAAAATTATAATTACAAATA
33521736 G
1 G
33521737 CTTTATATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (20 bp):
GAAAATTATAATTACAAATA
Found at i:33526674 original size:32 final size:32
Alignment explanation
Indices: 33526630--33526692 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
33526620 CAATCAACAT
**
33526630 GAGTTATCAAATTAAACTAATTAATTTATAAC
1 GAGTTATCAAATTAAACTAACCAATTTATAAC
* *
33526662 GAGTTA-CTAAATTCAAGTAACCAATTTATAA
1 GAGTTATC-AAATTAAACTAACCAATTTATAA
33526693 GTTTATGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (32 bp):
GAGTTATCAAATTAAACTAACCAATTTATAAC
Found at i:33529237 original size:22 final size:22
Alignment explanation
Indices: 33529212--33529254 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33529202 TTTTATCTTG
33529212 TTATTGTAAT-TCGTCAAAAAAT
1 TTATTGTAATAT-GTCAAAAAAT
*
33529234 TTATTTTAATATGTCAAAAAA
1 TTATTGTAATATGTCAAAAAA
33529255 ATTTCTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (22 bp):
TTATTGTAATATGTCAAAAAAT
Found at i:33531812 original size:15 final size:14
Alignment explanation
Indices: 33531786--33531815 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33531776 TTTCCAATAA
33531786 AAGAAAAAGAGAAG
1 AAGAAAAAGAGAAG
33531800 AAGAAAAAGGAGAAG
1 AAGAAAAA-GAGAAG
33531815 A
1 A
33531816 GGAGAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAAG
Found at i:33541703 original size:24 final size:25
Alignment explanation
Indices: 33541676--33541737 Score: 65
Period size: 29 Copynumber: 2.4 Consensus size: 25
33541666 AAATTTTCAA
33541676 ATATATAATAAAT-AAAAATTATGT
1 ATATATAATAAATCAAAAATTATGT
*
33541700 ATATTATAATATTAAATCAAAATTTATGT
1 ATA-TAT-A-A-TAAATCAAAAATTATGT
33541729 ATA-ATAATA
1 ATATATAATA
33541738 CACATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
24 5 0.16
25 4 0.12
26 2 0.06
27 3 0.09
28 5 0.16
29 13 0.41
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (25 bp):
ATATATAATAAATCAAAAATTATGT
Found at i:33541729 original size:29 final size:30
Alignment explanation
Indices: 33541684--33541779 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 30
33541674 AAATATATAA
*
33541684 TAAAT-AAAAATTATGTAT-ATTATAATAT
1 TAAATCAAAATTTATGTATAATTATAATAT
* *
33541712 TAAATCAAAATTTATGTATAATAATACACAT
1 TAAATCAAAATTTATGTATAATTATA-ATAT
* * * *
33541743 TATATTAAAATTTATATATAATTTTAAATAT
1 TAAATCAAAATTTATGTATAATTAT-AATAT
33541774 TAAATC
1 TAAATC
33541780 TTATCGAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 5 0.09
29 12 0.23
30 5 0.09
31 30 0.57
32 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (30 bp):
TAAATCAAAATTTATGTATAATTATAATAT
Found at i:33551053 original size:226 final size:226
Alignment explanation
Indices: 33550659--33551105 Score: 894
Period size: 226 Copynumber: 2.0 Consensus size: 226
33550649 CCCAAAGAAG
33550659 GACCAAATTCATGTAGAATGTTTCAAAAGCTCTATAACTCTACACCTTTCTATAGCATTTAATAA
1 GACCAAATTCATGTAGAATGTTTCAAAAGCTCTATAACTCTACACCTTTCTATAGCATTTAATAA
33550724 GGTTAGGTGAGAAGGTTCTAGAATGTGATATTGACCATCCATTAGGATTAATTGTAACTGTTGGA
66 GGTTAGGTGAGAAGGTTCTAGAATGTGATATTGACCATCCATTAGGATTAATTGTAACTGTTGGA
33550789 TCATTTGGGGCTTGCTTATATAAGTAGAGACTCCCTTCACTTATTTGTATATTCAAGCTAGCTTT
131 TCATTTGGGGCTTGCTTATATAAGTAGAGACTCCCTTCACTTATTTGTATATTCAAGCTAGCTTT
33550854 GAGTAATAGAAACACTTCCATGTGTGATATT
196 GAGTAATAGAAACACTTCCATGTGTGATATT
33550885 GACCAAATTCATGTAGAATGTTTCAAAAGCTCTATAACTCTACACCTTTCTATAGCATTTAATAA
1 GACCAAATTCATGTAGAATGTTTCAAAAGCTCTATAACTCTACACCTTTCTATAGCATTTAATAA
33550950 GGTTAGGTGAGAAGGTTCTAGAATGTGATATTGACCATCCATTAGGATTAATTGTAACTGTTGGA
66 GGTTAGGTGAGAAGGTTCTAGAATGTGATATTGACCATCCATTAGGATTAATTGTAACTGTTGGA
33551015 TCATTTGGGGCTTGCTTATATAAGTAGAGACTCCCTTCACTTATTTGTATATTCAAGCTAGCTTT
131 TCATTTGGGGCTTGCTTATATAAGTAGAGACTCCCTTCACTTATTTGTATATTCAAGCTAGCTTT
33551080 GAGTAATAGAAACACTTCCATGTGTG
196 GAGTAATAGAAACACTTCCATGTGTG
33551106 CCAAACCTCT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
226 221 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (226 bp):
GACCAAATTCATGTAGAATGTTTCAAAAGCTCTATAACTCTACACCTTTCTATAGCATTTAATAA
GGTTAGGTGAGAAGGTTCTAGAATGTGATATTGACCATCCATTAGGATTAATTGTAACTGTTGGA
TCATTTGGGGCTTGCTTATATAAGTAGAGACTCCCTTCACTTATTTGTATATTCAAGCTAGCTTT
GAGTAATAGAAACACTTCCATGTGTGATATT
Found at i:33553767 original size:34 final size:34
Alignment explanation
Indices: 33553722--33553826 Score: 176
Period size: 34 Copynumber: 3.1 Consensus size: 34
33553712 CAAGTAAGTA
*
33553722 TTAG-TTTTCACCTTTTGTGATAACGTGTTGTTT
1 TTAGTTTTTCACCTTTTGTGATAATGTGTTGTTT
33553755 TTAGTTTTTCACCTTTTGTGATAATGTGTTGTTT
1 TTAGTTTTTCACCTTTTGTGATAATGTGTTGTTT
*
33553789 TTAGTTTTTCACCTTTTGTGATAATGTTTTGTTAT
1 TTAGTTTTTCACCTTTTGTGATAATGTGTTGTT-T
33553824 TTA
1 TTA
33553827 AATGTTGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 4 0.06
34 60 0.88
35 4 0.06
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.58
Consensus pattern (34 bp):
TTAGTTTTTCACCTTTTGTGATAATGTGTTGTTT
Found at i:33555667 original size:19 final size:19
Alignment explanation
Indices: 33555630--33555669 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
33555620 AGTTGATTAG
33555630 TTTTTGCTACTTGTCCTGCT
1 TTTTTGCTACTTG-CCTGCT
33555650 TTTTTGCGTACTTG-CTGCT
1 TTTTTGC-TACTTGCCTGCT
33555669 T
1 T
33555670 CTAAACTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.05, C:0.23, G:0.17, T:0.55
Consensus pattern (19 bp):
TTTTTGCTACTTGCCTGCT
Found at i:33574581 original size:58 final size:58
Alignment explanation
Indices: 33574417--33574579 Score: 199
Period size: 59 Copynumber: 2.8 Consensus size: 58
33574407 AAAAAATTTG
* *
33574417 GGTGCTGGCCATGCAATGG-CGACACCTCTTTTTTGTCAGATAAAAAATATAATTTTTTT
1 GGTGTTGGCCATGCAATGGTCGACACC-CTTTTTTATCAGATAAAAAATATAA-TTTTTT
* * * *
33574476 TGTGTTAGCCATTGC-ATTGTCGACACCCTTTTTTATCAGATAAAAAATCTAA-TTTTT
1 GGTGTTGGCCA-TGCAATGGTCGACACCCTTTTTTATCAGATAAAAAATATAATTTTTT
*
33574533 GGATGTTGGCCATGCAATGGTCGACACCCTCTTTT-TCAGATAAAAAA
1 GG-TGTTGGCCATGCAATGGTCGACACCCTTTTTTATCAGATAAAAAA
33574580 ATTTTAAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
57 21 0.23
58 25 0.28
59 34 0.38
60 10 0.11
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (58 bp):
GGTGTTGGCCATGCAATGGTCGACACCCTTTTTTATCAGATAAAAAATATAATTTTTT
Found at i:33574644 original size:55 final size:54
Alignment explanation
Indices: 33574546--33574651 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 54
33574536 TGTTGGCCAT
* *
33574546 GCAATGGTCGACACCCTCTTTTTCAGATAAAAAAATTTTAAAATTTTTTGGTGG
1 GCAATGGCCGACACCCTCTTTCTCAGATAAAAAAATTTTAAAATTTTTTGGTGG
**
33574600 GCAATGGCCGACACCC-CTTGGTCTCAGATAAAAATTTTTTAAAATTTTTTGG
1 GCAATGGCCGACACCCTCTT--TCTCAGATAAAAAAATTTTAAAATTTTTTGG
33574652 CGTTGGCCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 3 0.07
54 15 0.33
55 28 0.61
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (54 bp):
GCAATGGCCGACACCCTCTTTCTCAGATAAAAAAATTTTAAAATTTTTTGGTGG
Found at i:33574876 original size:31 final size:30
Alignment explanation
Indices: 33574836--33574896 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
33574826 GTACAATCGA
*
33574836 ATTTTGGAGTTGAGCTATATACTGTCATGT
1 ATTTTGGAGTTGAACTATATACTGTCATGT
*
33574866 ATTTTCGGAGTTGAATTATATACTGTCATGT
1 ATTTT-GGAGTTGAACTATATACTGTCATGT
33574897 GAAGCGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (30 bp):
ATTTTGGAGTTGAACTATATACTGTCATGT
Found at i:33578656 original size:86 final size:86
Alignment explanation
Indices: 33578530--33578907 Score: 531
Period size: 85 Copynumber: 4.5 Consensus size: 86
33578520 AATATAATAT
* * *
33578530 TATTTAAATAAAAAA-A-TATTATTATATTACAATTTATATCAAATATTGTGTTCATTTGACAAG
1 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAG
**
33578593 ACATTATTTA-TCAAATTTTCA
66 ACATTATTTACT-AAATTTAAA
* *
33578614 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAAT
1 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAG
33578679 ACATTATTTACTAAATTTAAA
66 ACATTATTTACTAAATTTAAA
* * *
33578700 TATTTAAAT-AAAAAGATTATTATTATAATACAATTTATATCAAATATTGTGTTGATTTGACAAG
1 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAG
* **
33578764 ATATTATTTA-TCAAATTTTCA
66 ACATTATTTACT-AAATTTAAA
* *
33578785 TATTTAAATAAAAAAGA-TA--ATTATAATACAATTTTTATCAAATAATGT-TTGATTTGACAAT
1 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAG
*
33578846 ATATTATTTACTAAATTTAAA
66 ACATTATTTACTAAATTTAAA
33578867 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTAT
1 TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTAT
33578908 TAGATTTTAA
Statistics
Matches: 264, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
82 46 0.17
83 30 0.11
84 16 0.06
85 96 0.36
86 75 0.28
87 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (86 bp):
TATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAG
ACATTATTTACTAAATTTAAA
Found at i:33578892 original size:171 final size:171
Alignment explanation
Indices: 33578530--33578903 Score: 620
Period size: 171 Copynumber: 2.2 Consensus size: 171
33578520 AATATAATAT
33578530 TATTTAAATAAAAAA-ATATTATTA-TATTACAATTTATATCAAATATTGTGTTCATTTGACAAG
1 TATTTAAATAAAAAAGATATTATTATTATTACAATTTATATCAAATATTGTGTTCATTTGACAAG
*
33578593 ACATTATTTATCAAATTTTCATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAA
66 ACATTATTTATCAAATTTTCATATTTAAATAAAAAAGATTA-TATTATAATACAATTTTTATCAA
33578658 ATAATGTATTGATTTGACAATACATTATTTACTAAATTTAAA
130 ATAATGTATTGATTTGACAATACATTATTTACTAAATTTAAA
* *
33578700 TATTTAAAT-AAAAAGATTATTATTA-TAATACAATTTATATCAAATATTGTGTTGATTTGACAA
1 TATTTAAATAAAAAAGA-TATTATTATTATTACAATTTATATCAAATATTGTGTTCATTTGACAA
*
33578763 GATATTATTTATCAAATTTTCATATTTAAATAAAAAAGA-TA-ATTATAATACAATTTTTATCAA
65 GACATTATTTATCAAATTTTCATATTTAAATAAAAAAGATTATATTATAATACAATTTTTATCAA
*
33578826 ATAATGT-TTGATTTGACAATATATTATTTACTAAATTTAAA
130 ATAATGTATTGATTTGACAATACATTATTTACTAAATTTAAA
33578867 TATTTAAATAAAAAAGATTATTATTA-TATTACAATTT
1 TATTTAAATAAAAAAGA-TATTATTATTATTACAATTT
33578904 TTATTAGATT
Statistics
Matches: 195, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
167 42 0.22
168 54 0.28
169 5 0.03
170 12 0.06
171 82 0.42
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (171 bp):
TATTTAAATAAAAAAGATATTATTATTATTACAATTTATATCAAATATTGTGTTCATTTGACAAG
ACATTATTTATCAAATTTTCATATTTAAATAAAAAAGATTATATTATAATACAATTTTTATCAAA
TAATGTATTGATTTGACAATACATTATTTACTAAATTTAAA
Found at i:33579033 original size:22 final size:22
Alignment explanation
Indices: 33579005--33579063 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
33578995 TGGACCACCC
*
33579005 AAATTTCAGCTCACCTAATCCG
1 AAATTTCAGCTCACCTAAACCG
*
33579027 AAATTTCAGTTCACCTAAACCG
1 AAATTTCAGCTCACCTAAACCG
* *
33579049 AAATTCCAACTCACC
1 AAATTTCAGCTCACC
33579064 AACACCTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.32, G:0.07, T:0.25
Consensus pattern (22 bp):
AAATTTCAGCTCACCTAAACCG
Found at i:33581764 original size:23 final size:22
Alignment explanation
Indices: 33581695--33581841 Score: 118
Period size: 23 Copynumber: 6.3 Consensus size: 22
33581685 CAGAACAAAT
*
33581695 AGAGAGCAC-CAAAGTACT-AAC
1 AGAGAGCACAC-AAGTGCTAAAC
* *
33581716 AGAGAGCACATAAGTGCTGGGCAAC
1 AGAGAGCACACAAGTGCT---AAAC
33581741 AGAGAGCACACATAGTGCTAAAC
1 AGAGAGCACACA-AGTGCTAAAC
* * *
33581764 AGAGAGTACACAAAGTACTAATC
1 AGAGAGCACAC-AAGTGCTAAAC
33581787 AGAGAGCACACACAGTGCTAATAAC
1 AGAGAGCACACA-AGTGCT-A-AAC
* *
33581812 AGAGAGCACGAGACGTGCTAAAC
1 AGAGAGCAC-ACAAGTGCTAAAC
33581835 AGAGAGC
1 AGAGAGC
33581842 GCGCTAGTGT
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
21 15 0.15
22 1 0.01
23 46 0.45
24 3 0.03
25 30 0.29
26 8 0.08
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (22 bp):
AGAGAGCACACAAGTGCTAAAC
Found at i:33581769 original size:25 final size:24
Alignment explanation
Indices: 33581741--33581840 Score: 75
Period size: 25 Copynumber: 4.2 Consensus size: 24
33581731 GCTGGGCAAC
33581741 AGAGAGCACACATAGTGCTAAACAG
1 AGAGAGCACACA-AGTGCTAAACAG
* *
33581766 AGAGTA-CACA-AAGTACTAATC--
1 AGAG-AGCACACAAGTGCTAAACAG
*
33581787 AGAGAGCACACACAGTGCTAATA-AC
1 AGAGAGCACACA-AGTGCTAA-ACAG
* *
33581812 AGAGAGCACGAGACGTGCTAAACAG
1 AGAGAGCAC-ACAAGTGCTAAACAG
33581837 AGAG
1 AGAG
33581841 CGCGCTAGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
20 1 0.02
21 8 0.14
22 1 0.02
23 15 0.25
24 2 0.03
25 29 0.49
26 3 0.05
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (24 bp):
AGAGAGCACACAAGTGCTAAACAG
Found at i:33581813 original size:71 final size:69
Alignment explanation
Indices: 33581695--33581841 Score: 181
Period size: 71 Copynumber: 2.1 Consensus size: 69
33581685 CAGAACAAAT
* **
33581695 AGAGAGCACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCAC-ACATAGTGC
1 AGAGAGCACCAAAGTACTAACAGAGAGCACACAAGTGCTGAACAACAGAGAGCACGACA-AGTGC
33581759 TAAAC
65 TAAAC
* * * *
33581764 AGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT-AATAACAGAGAGCACGAGACGT
1 AGAGAGCAC-CAAAGTACTAA-CAGAGAGCACACA-AGTGCTGAACAACAGAGAGCACGACAAGT
33581828 GCTAAAC
63 GCTAAAC
33581835 AGAGAGC
1 AGAGAGC
33581842 GCGCTAGTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
69 8 0.12
70 11 0.17
71 39 0.59
72 8 0.12
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (69 bp):
AGAGAGCACCAAAGTACTAACAGAGAGCACACAAGTGCTGAACAACAGAGAGCACGACAAGTGCT
AAAC
Found at i:33581838 original size:48 final size:45
Alignment explanation
Indices: 33581738--33581841 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 45
33581728 AGTGCTGGGC
*
33581738 AACAGAGAGCACACATAGTGCTAAACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTAAACAGAGAG-ACACAAAGTACTA
* * *
33581784 ATCAGAGAGCACACACAGTGCTAATAACAGAGAG-CACGAGACGTGCTA
1 AACAGAGAGCACACACAGTGCT-A-AACAGAGAGACAC-A-AAGTACTA
33581832 AACAGAGAGC
1 AACAGAGAGC
33581842 GCGCTAGTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
46 23 0.47
47 2 0.04
48 24 0.49
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (45 bp):
AACAGAGAGCACACACAGTGCTAAACAGAGAGACACAAAGTACTA
Found at i:33583689 original size:28 final size:29
Alignment explanation
Indices: 33583639--33583706 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
33583629 ATTTCGTTTT
*
33583639 TATTTTAAATTTAATTTCCAATTTCCT-TA
1 TATTTT-AATTTAATTTCCAATTCCCTGTA
** *
33583668 TATTTTAATTTTTTTTCTAATTCCCTGTA
1 TATTTTAATTTAATTTCCAATTCCCTGTA
*
33583697 TATTCTAATT
1 TATTTTAATT
33583707 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.59
Consensus pattern (29 bp):
TATTTTAATTTAATTTCCAATTCCCTGTA
Found at i:33584816 original size:60 final size:58
Alignment explanation
Indices: 33584519--33584843 Score: 267
Period size: 60 Copynumber: 5.4 Consensus size: 58
33584509 AAGGAAAGTT
* * * ** * **
33584519 GGTGTCGGCCATTACATGGCCAACACCAAAAAATTTATTTTTTTTACCAAATAAAAAGGG
1 GGTGTCGACCA-TGCATGGCCAACACAAAAAAATTTAAATTTTTTATCTGA-AAAAAGGG
* *
33584579 GGTGTCGATCATGGCACGGCCAACATCAAAAAAATTTGAAATTTTTTATCTG-AAAAAGGG
1 GGTGTCGACCAT-GCATGGCCAACA-CAAAAAAATTT-AAATTTTTTATCTGAAAAAAGGG
* ** * *
33584639 GGCGTCGACCATGGCATGGCCAACACCAAAAATTTTTTAAATTTTTTTATCTGAGAACAGGG
1 GGTGTCGACCAT-GCATGGCCAACA-CAAAAA-AATTTAAA-TTTTTTATCTGAAAAAAGGG
* ** ** *
33584701 GGTGTCGACCATTGCATGGCTAACACCCAAAAA-TTGGATTTTTTATCTGATAAAAAAGG
1 GGTGTCGACCA-TGCATGGCCAACACAAAAAAATTTAAATTTTTTATCTGA-AAAAAGGG
* * * *
33584760 GGTGTCGGCCATGCAATGGCCAACACAAAAAAAATTATATTTTTTATCTGACAAAAAAGG
1 GGTGTCGACCATGC-ATGGCCAACACAAAAAAATTTAAATTTTTTATCTGA-AAAAAGGG
* *
33584820 GGTGTCGGCCATTGCATGACCAAC
1 GGTGTCGACCA-TGCATGGCCAAC
33584844 GCCCAATTTT
Statistics
Matches: 217, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
58 15 0.07
59 34 0.16
60 100 0.46
61 31 0.14
62 36 0.17
63 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (58 bp):
GGTGTCGACCATGCATGGCCAACACAAAAAAATTTAAATTTTTTATCTGAAAAAAGGG
Found at i:33584849 original size:119 final size:119
Alignment explanation
Indices: 33584533--33584849 Score: 272
Period size: 119 Copynumber: 2.7 Consensus size: 119
33584523 TCGGCCATTA
* * ** * *
33584533 CATGGCCAACACC--AAA-AAATTTATTTTTTTTA-CCAAATAAAAAGGGGGTGTCGATCATGGC
1 CATGGCCAACACCAAAAATAAATTAAATTTTTTTATCTGAA-AAAAA-GGGGTGTCGACCATTGC
* * ** * *
33584594 ACGGCCAACATCAAAAAAATTTGAAATTTTTTATCTGAAAAAGGGGGCGTCGACCATGG
64 ATGACCAACA-CCCAAAAA-TTG-GATTTTTTATCTGAAAAAAGGGGCGTCGACCATGG
*** * * *
33584653 CATGGCCAACACCAAAAATTTTTTAAATTTTTTTATCTGAGAACAGGGGGTGTCGACCATTGCAT
1 CATGGCCAACACCAAAAATAAATTAAATTTTTTTATCTGAAAAAAAGGGGTGTCGACCATTGCAT
* * * *
33584718 GGCTAACACCCAAAAATTGGATTTTTTATCTGATAAAAAAGGGGTGTCGGCCAT-G
66 GACCAACACCCAAAAATTGGATTTTTTATCTG--AAAAAAGGGGCGTCGACCATGG
* *
33584773 CAATGGCCAACA-CAAAAA-AAATTATA-TTTTTTATCTGACAAAAAAGGGGTGTCGGCCATTGC
1 C-ATGGCCAACACCAAAAATAAATTAAATTTTTTTATCTGA-AAAAAAGGGGTGTCGACCATTGC
*
33584835 ATGACCAACGCCCAA
64 ATGACCAACACCCAA
33584850 TTTTTTTTAA
Statistics
Matches: 158, Mismatches: 31, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
118 12 0.08
119 47 0.30
120 24 0.15
121 33 0.21
122 26 0.16
123 14 0.09
124 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (119 bp):
CATGGCCAACACCAAAAATAAATTAAATTTTTTTATCTGAAAAAAAGGGGTGTCGACCATTGCAT
GACCAACACCCAAAAATTGGATTTTTTATCTGAAAAAAGGGGCGTCGACCATGG
Found at i:33588055 original size:21 final size:22
Alignment explanation
Indices: 33588031--33588093 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 22
33588021 TTCTTCCAAA
*
33588031 ATAATAAAAATTTATAAATA-T
1 ATAATAAAAATTTATAAAAATT
33588052 ATAAT-AAAATTTA-AAAAATT
1 ATAATAAAAATTTATAAAAATT
33588072 ATAATTAAAAATAGTTATAAAA
1 ATAA-TAAAAAT--TTATAAAA
33588094 TTAAAAGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.11
20 13 0.37
21 6 0.17
22 5 0.14
24 3 0.09
25 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAATAAAAATTTATAAAAATT
Found at i:33591038 original size:20 final size:21
Alignment explanation
Indices: 33591005--33591043 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33590995 GCGGCATCGT
*
33591005 GAGAGAAAGTGAAGGAAAACA
1 GAGAGAAAGAGAAGGAAAACA
33591026 GAGA-AAAGAGAAGGAAAA
1 GAGAGAAAGAGAAGGAAAA
33591044 GTTTTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.33, T:0.03
Consensus pattern (21 bp):
GAGAGAAAGAGAAGGAAAACA
Found at i:33591493 original size:22 final size:22
Alignment explanation
Indices: 33591468--33591510 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33591458 AAATTATTAT
33591468 ATTTA-TATATTCAAATTTAATA
1 ATTTATTA-ATTCAAATTTAATA
*
33591490 ATTTATTAATTTAAATTTAAT
1 ATTTATTAATTCAAATTTAAT
33591511 TTTTAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATTAATTCAAATTTAATA
Found at i:33599633 original size:14 final size:14
Alignment explanation
Indices: 33599614--33599641 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33599604 AATTAAATGA
33599614 AAATTTTTTTATTT
1 AAATTTTTTTATTT
33599628 AAATTTTTTTATTT
1 AAATTTTTTTATTT
33599642 TTTATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
AAATTTTTTTATTT
Found at i:33606479 original size:63 final size:64
Alignment explanation
Indices: 33606365--33606557 Score: 325
Period size: 63 Copynumber: 3.0 Consensus size: 64
33606355 TTTGGTCGAC
* *
33606365 ATAGAAATTTGGAGTTTAATTCTTATAATTTGGCATAAATTTATCTGTTTATTTTTAAAATGTT
1 ATAGAAATTTGGAGTTTAATTCTTGTAATTTGGCATAAATTTATCTTTTTATTTTTAAAATGTT
*
33606429 ATAGAAATTTGGCGTTTAATTCTTGT-ATTTGGCATAAATTTATCTTTTTATTTTTAAAATGTT
1 ATAGAAATTTGGAGTTTAATTCTTGTAATTTGGCATAAATTTATCTTTTTATTTTTAAAATGTT
* * *
33606492 TTAGAAATTTGGAGTTTAATTCTTGTAAATTGGCATAAATTTATCTTTTTATTTTTAAATTGTT
1 ATAGAAATTTGGAGTTTAATTCTTGTAATTTGGCATAAATTTATCTTTTTATTTTTAAAATGTT
33606556 AT
1 AT
33606558 TAATAGATCC
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 60 0.50
64 60 0.50
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (64 bp):
ATAGAAATTTGGAGTTTAATTCTTGTAATTTGGCATAAATTTATCTTTTTATTTTTAAAATGTT
Found at i:33624446 original size:3 final size:3
Alignment explanation
Indices: 33624438--33624473 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
33624428 CCTGGTTGGT
* *
33624438 GAA GAA GAA GAA GAA GAA GAA GCA GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33624474 AGATTTGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.03, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33626036 original size:14 final size:16
Alignment explanation
Indices: 33626007--33626040 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
33625997 TTAAATGTTT
33626007 AATATTATTATTAAAA
1 AATATTATTATTAAAA
33626023 AATATT-TT-TTAAAA
1 AATATTATTATTAAAA
33626037 AATA
1 AATA
33626041 AAATGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 2 0.11
16 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTATTATTAAAA
Found at i:33633591 original size:25 final size:25
Alignment explanation
Indices: 33633553--33633604 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
33633543 AATAAGATTG
*
33633553 ATCTTTGCCGGTACATGCATGGTCA
1 ATCTTTGCCAGTACATGCATGGTCA
33633578 ATCTTTGCCAGTACATGCATGGTCA
1 ATCTTTGCCAGTACATGCATGGTCA
33633603 AT
1 AT
33633605 ACATGGAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
ATCTTTGCCAGTACATGCATGGTCA
Found at i:33650851 original size:15 final size:16
Alignment explanation
Indices: 33650833--33650863 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33650823 AAACTCAAAC
33650833 TTAAAA-CTAAAATGA
1 TTAAAACCTAAAATGA
33650848 TTAAAACCTAAAATGA
1 TTAAAACCTAAAATGA
33650864 CATAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTAAAACCTAAAATGA
Found at i:33653974 original size:37 final size:37
Alignment explanation
Indices: 33653924--33653994 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
33653914 TTATTCATTA
*
33653924 ATCTACAATACATACAATTTTATAATTAATAATATAT
1 ATCTACAATACATACAATATTATAATTAATAATATAT
*
33653961 ATCTACAATACATACTATATTATAATTAATAATA
1 ATCTACAATACATACAATATTATAATTAATAATA
33653995 ACATTGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.39
Consensus pattern (37 bp):
ATCTACAATACATACAATATTATAATTAATAATATAT
Done.