Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 56 of 240
Found at i:18757169 original size:13 final size:13
Alignment explanation
Indices: 18757151--18757175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18757141 TCAAACGATT
18757151 AAATTTTCACACG
1 AAATTTTCACACG
18757164 AAATTTTCACAC
1 AAATTTTCACAC
18757176 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:18761427 original size:19 final size:20
Alignment explanation
Indices: 18761392--18761429 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18761382 AGAAAAAAAA
18761392 ACAACCTATAACATATATTT
1 ACAACCTATAACATATATTT
18761412 ACAA-CTAT-ACACTATATT
1 ACAACCTATAACA-TATATT
18761430 CTTTAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (20 bp):
ACAACCTATAACATATATTT
Found at i:18764041 original size:13 final size:13
Alignment explanation
Indices: 18764012--18764040 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18764002 TCTTTATTAC
18764012 TTTTGAAAAGTGA
1 TTTTGAAAAGTGA
18764025 TTTTGAAAAGTG-
1 TTTTGAAAAGTGA
18764037 TTTT
1 TTTT
18764041 TAGGAGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (13 bp):
TTTTGAAAAGTGA
Found at i:18769271 original size:31 final size:31
Alignment explanation
Indices: 18769232--18769300 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
18769222 CTTAACATAC
**
18769232 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
*
18769263 CAGTGACTTAAATAAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
18769294 CAATGAC
1 CAATGAC
18769301 CAAATTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:18772659 original size:27 final size:27
Alignment explanation
Indices: 18772629--18772680 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18772619 GGACATGGGT
* *
18772629 TGTCACACGGTCATTCCACACACAGGA
1 TGTCACACAGTCATGCCACACACAGGA
*
18772656 TGTCACACAGTCGTGCCACACACAG
1 TGTCACACAGTCATGCCACACACAG
18772681 TCGTGTGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (27 bp):
TGTCACACAGTCATGCCACACACAGGA
Found at i:18781512 original size:16 final size:17
Alignment explanation
Indices: 18781491--18781522 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18781481 AAATATGCAA
18781491 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18781507 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18781523 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18781749 original size:43 final size:42
Alignment explanation
Indices: 18781679--18781804 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 42
18781669 AAAAGACTCG
*
18781679 TACAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACA
1 TACAATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACA
* *
18781721 TATCAATGCCACTGTCCCATACAGGGTCTTACACG-AATCAAA
1 TA-CAATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACA
* * * *
18781763 TACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA
1 TACAATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACA
18781805 AGTCGATACC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 28 0.39
42 17 0.24
43 25 0.35
44 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
TACAATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACA
Found at i:18781832 original size:43 final size:41
Alignment explanation
Indices: 18781683--18781852 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 41
18781673 GACTCGTACA
* * *
18781683 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACA-ATCG
* *
18781726 ATGCC-ACTGTCCCATACAG-GGTCTTACACGAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAACACAAT-CG
* *
18781767 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACAA-TCG
*
18781810 ATACCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AACACA-ATCG
18781853 GAAATCCTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.02
41 26 0.24
42 13 0.12
43 63 0.59
44 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAACACAATCG
Found at i:18781833 original size:84 final size:84
Alignment explanation
Indices: 18781683--18781840 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
18781673 GACTCGTACA
* * * * *
18781683 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCATACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATACCACTGTCCCAGACAGGGT
18781748 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* *
18781767 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATACCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATACC-ACTGTCCCAGACAG-
18781829 GGTCTTACACGA
63 GGTCTTACACGA
18781841 TAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATACCACTGTCCCAGACAGGGT
CTTACACGAATCAAATACG
Found at i:18785334 original size:20 final size:21
Alignment explanation
Indices: 18785311--18785367 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
18785301 GAAAAAGTAC
* *
18785311 TAAACATAACCTAA-AAACAT
1 TAAAAATAAACTAAGAAACAT
*
18785331 TAAAAATAAACTAAGACACAT
1 TAAAAATAAACTAAGAAACAT
18785352 TAAAAATAAACTAAGA
1 TAAAAATAAACTAAGA
18785368 CTCATTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.63, C:0.14, G:0.04, T:0.19
Consensus pattern (21 bp):
TAAAAATAAACTAAGAAACAT
Found at i:18785353 original size:21 final size:21
Alignment explanation
Indices: 18785327--18785373 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18785317 TAACCTAAAA
18785327 ACATTAAAAATAAACTAAGAC
1 ACATTAAAAATAAACTAAGAC
18785348 ACATTAAAAATAAACTAAGAC
1 ACATTAAAAATAAACTAAGAC
*
18785369 TCATT
1 ACATT
18785374 TTACAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.23
Consensus pattern (21 bp):
ACATTAAAAATAAACTAAGAC
Found at i:18788311 original size:92 final size:90
Alignment explanation
Indices: 18788072--18788347 Score: 293
Period size: 91 Copynumber: 3.0 Consensus size: 90
18788062 TTTCAGAGAT
* * * *
18788072 TTTGGCAGGTTATCGGGGGAGAATATTTAGCCTACAGGTTTTGTACTATGCGTATCTAGCGTGTT
1 TTTGGCATGTTATC-GGGGAGAATATTTAGCCTAC-GGTTTTGCACTATGTGCATCTAGCGTGTT
* * *
18788137 ATCGGTTGTAATAACTTTTATGAACAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
* * * * *
18788164 TTTGGCAT-TTATAGGAGGAGAACATTTAGCCTAAGGGTTTTACACTATGTGCATCTAACGTGTT
1 TTTGGCATGTTATCGG-GGAGAATATTTAGCCT-ACGGTTTTGCACTATGTGCATCTAGCGTGTT
* * * *
18788228 ATTGATTGAAATAGCTCTTATTAGCAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
* * * * *
18788255 TTTGGCATGTTATCGGGGAAGAATATTTAACCTACGTGCTTTGCACTATGTGCATCTGGCGTATA
1 TTTGGCATGTTATCGGGG-AGAATATTTAGCCTACG-GTTTTGCACTATGTGCATCTAGCGTGTT
*
18788320 ATCGGTTGAAATATCTCTTATGAGCAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
18788347 T
1 T
18788348 CTAGTGTGTT
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
90 2 0.01
91 75 0.50
92 72 0.48
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (90 bp):
TTTGGCATGTTATCGGGGAGAATATTTAGCCTACGGTTTTGCACTATGTGCATCTAGCGTGTTAT
CGGTTGAAATAACTCTTATGAGCAA
Found at i:18788397 original size:38 final size:38
Alignment explanation
Indices: 18788320--18788399 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
18788310 CTGGCGTATA
* * ***
18788320 ATCGGTTGAAATATCTCTTATGAGCAATCTAGTGTGTT
1 ATCGGTTGAAATAGCTCTTATAAGCAATCTAGCACGTT
* *
18788358 ATCGGTTGGAATAGCTCTTATAAGCAATCTGGCACGTT
1 ATCGGTTGAAATAGCTCTTATAAGCAATCTAGCACGTT
18788396 ATCG
1 ATCG
18788400 AATGGATACC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (38 bp):
ATCGGTTGAAATAGCTCTTATAAGCAATCTAGCACGTT
Found at i:18789924 original size:10 final size:10
Alignment explanation
Indices: 18789897--18789942 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
18789887 TAGATTTGCG
18789897 TTTATGTTTAT
1 TTTAT-TTTAT
*
18789908 GTTTATTTCAT
1 -TTTATTTTAT
18789919 TTTATTTTATT
1 TTTATTTTA-T
18789930 TTTATTTTAT
1 TTTATTTTAT
18789940 TTT
1 TTT
18789943 CTACATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 12 0.39
11 14 0.45
12 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:18789925 original size:5 final size:5
Alignment explanation
Indices: 18789897--18789942 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
18789887 TAGATTTGCG
*
18789897 TTTAT GTTTAT GTTTAT TTCAT TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT -TTTAT -TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
18789943 CTACATAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 21 0.57
6 16 0.43
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:18789936 original size:16 final size:15
Alignment explanation
Indices: 18789897--18789942 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
18789887 TAGATTTGCG
18789897 TTTATGTTTATGTTTAT
1 TTTAT-TTTAT-TTTAT
*
18789914 TTCATTTTATTTTATT
1 TTTATTTTATTTTA-T
18789930 TTTATTTTATTTT
1 TTTATTTTATTTT
18789943 CTACATAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:18797205 original size:100 final size:100
Alignment explanation
Indices: 18797032--18797949 Score: 882
Period size: 100 Copynumber: 9.2 Consensus size: 100
18797022 CATAGTTTGT
* * * * *
18797032 AATTAAAATATTGAAGCCACAACGGCGAATCTTA-CTCTCCTAGGCGGTGCAATGGAACAAATTG
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCT-TCCCAGGCGATGCAGTGGAACAGATTG
* ** ** *
18797096 AAGCCACAACGGCGAATCTCACTTCCCCGGTATTGT
65 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
18797132 AATTAAAATATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGTAGTGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
*
18797197 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * *
18797232 AATTAAAAGATTGAAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
* *
18797297 AGCTACAACGGTGAATCTCGCTTCCCCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* ** * * * **
18797332 AATTAAAA-ATTGAAGTCACAACGGTAAATCTTACTTTCCCAGGTGGTGCAACGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
* * *
18797396 AGCTACAACGACAAATCTCGCTTCCCCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * *
18797431 AATTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCCCAGAC-AGTGCAATGGAACAGATTA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATTG
* *
18797495 AAGCTACAATGGTGAATCTTGCTTCCCCGACATTGC
65 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * * * * *
18797531 AATTGAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGTGGTGCAGTGGAGCAAATTAA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
* * * *
18797596 AGCTACGACGGCGAATCTTACTTCCCTGATATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * *
18797631 AATTAAAAATATTGAAGCCGCAACGGCGAATCTTA-CTTCCCTGGC-AGTACAGTGGAGCAGATT
1 AATT-AAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
* * * **
18797694 AAAGCTACAACGGTGAATCTTGCTTCCCTGATTTTGC
64 GAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * * * * * *
18797731 AATTTAAAAGATTGAAGTCGCAATGACGAATCTTA-CTTCTCTGGC-AGTGCAATGGAGCATATT
1 AA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
* * * * * * * *
18797794 AAAGATACGACGACAAATTTTACTTCCCCGATATTGC
64 GAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * ** *
18797831 AATTTAAAAGATTGAAGCCGCAATGACGAATCTTA-CTTCCTTGGC-AGTGTAGTGGAACAGATT
1 AA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
** * *
18797894 GAAGCTACAACGATGAATTTTGTTTCCCCGACATTGC
64 GAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
*
18797931 AGTTTAAAAAGATTGAAGC
1 A-ATT-AAAAGATTGAAGC
18797950 TATACATTGC
Statistics
Matches: 705, Mismatches: 104, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
99 90 0.13
100 571 0.81
101 44 0.06
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
Found at i:18797582 original size:299 final size:299
Alignment explanation
Indices: 18797032--18797949 Score: 1052
Period size: 299 Copynumber: 3.1 Consensus size: 299
18797022 CATAGTTTGT
* * *
18797032 AATTAAAATATTGAAGCCACAACGGCGAATCTTACTCTCCTAGGCGGTGCAATGGAACAAATTGA
1 AATTAAAATATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTGA
* * * * * *
18797097 AGCCACAACGGCGAATCTCACTTCCCCGGTATTGTAATTAAAATATTGAGGCCACAACGGCGAAT
66 AGCTACAACGGCGAATCTCGCTTCCCCGATATTGCAATTAAAAGATTGAAGCCACAACGGCGAAT
* * *
18797162 CTTACCTTCCCAGGC-GATGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGA
131 CTTA-CTTCCCAGGCAG-TGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGA
* *
18797226 CATTGCAATTAAAAGATTGAAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAACA
194 CATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACA
*
18797291 GATTGAAGCTACAACGGTGAATCTCGCTTCCCCGACATTGC
259 GATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* ** * *
18797332 AATTAAAA-ATTGAAGTCACAACGGTAAATCTTACTTTCCCAGGTGGTGCAACGGAACAGATTGA
1 AATTAAAATATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTGA
* * * *
18797396 AGCTACAACGACAAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAAT
66 AGCTACAACGGCGAATCTCGCTTCCCCGATATTGCAATTAAAAGATTGAAGCCACAACGGCGAAT
* *
18797461 CTTACTTTCCCAGACAGTGCAATGGAACAGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGAC
131 CTTAC-TTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGAC
* * * * *
18797526 ATTGCAATTGAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGTGGTGCAGTGGAGCAA
195 ATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAG
* * * * * *
18797591 ATTAAAGCTACGACGGCGAATCTTACTTCCCTGATATTGC
260 ATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * * * * * *
18797631 AATTAAAAATATTGAAGCCGCAACGGCGAATCTTAC-TTCCCTGGCAGTACAGTGGAGCAGATTA
1 AATT-AAAATATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTG
* * * * * * * *
18797695 AAGCTACAACGGTGAATCTTGCTTCCCTGATTTTGCAATTTAAAAGATTGAAGTCGCAATGACGA
65 AAGCTACAACGGCGAATCTCGCTTCCCCGATATTGCAA-TTAAAAGATTGAAGCCACAACGGCGA
* * * * * * *** * *
18797760 ATCTTACTTCTCTGGCAGTGCAATGGAGCATATTAAAGATACGACGACAAATTTTACTTCCCCGA
129 ATCTTACTTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGA
* * * * ** * *
18797825 TATTGCAATTTAAAAGATTGAAGCCGCAATGACGAATCTTAC-TTCCTTGGCAGTGTAGTGGAAC
194 CATTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAAC
* * *
18797889 AGATTGAAGCTACAACGATGAATTTTGTTTCCCCGACATTGC
258 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* *
18797931 AGTTTAAAAAGATTGAAGC
1 A-ATT-AAAATATTGAAGC
18797950 TATACATTGC
Statistics
Matches: 513, Mismatches: 98, Indels: 13
0.82 0.16 0.02
Matches are distributed among these distances:
298 1 0.00
299 254 0.50
300 164 0.32
301 94 0.18
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (299 bp):
AATTAAAATATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTGA
AGCTACAACGGCGAATCTCGCTTCCCCGATATTGCAATTAAAAGATTGAAGCCACAACGGCGAAT
CTTACTTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACA
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
Found at i:18797694 original size:200 final size:199
Alignment explanation
Indices: 18797032--18797949 Score: 996
Period size: 200 Copynumber: 4.6 Consensus size: 199
18797022 CATAGTTTGT
* * * *
18797032 AATTAAAATATTGAAGCCACAACGGCGAATCTTAC-TCTCCTAGGCGGTGCAATGGAACAAATTG
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTC-CCT-GGCAGTGCAGTGGAACAGATTG
* * ** ** * * *
18797096 AAGCCACAACGGCGAATCTCACTTCCCCGGTATTGTAATTAAAATATTGAGGCCACAACGGCGAA
64 AAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCGAA
* * * * * *** *
18797161 TCTTACCTTCCCAGGCGATGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGA
129 TCTTACTTTCCCAGGCGGTGCAATGGAACAGATTAAAGCTACAACGACAAATCTTACTTCCCCGA
18797226 CATTGC
194 CATTGC
* * * *
18797232 AATTAAAAGATTGAAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCAGTGCAGTGGAACAGATTGA
* * **
18797297 AGCTACAACGGTGAATCTCGCTTCCCCGACATTGCAATTAAAA-ATTGAAGTCACAACGGTAAAT
65 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCGAAT
* * * **
18797361 CTTACTTTCCCAGGTGGTGCAACGGAACAGATTGAAGCTACAACGACAAATCTCGCTTCCCCGAC
130 CTTACTTTCCCAGGCGGTGCAATGGAACAGATTAAAGCTACAACGACAAATCTTACTTCCCCGAC
18797426 ATTGC
195 ATTGC
* * * * *
18797431 AATTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCCCAGACAGTGCAATGGAACAGATTAA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCAGTGCAGTGGAACAGATTGA
* *
18797496 AGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTGAAAGATTGAAGCCACAACGGCGAAT
65 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCGAAT
* * * * * * * * * *
18797561 CTTACTTTCCCAAGTGGTGCAGTGGAGCAAATTAAAGCTACGACGGCGAATCTTACTTCCCTGAT
130 CTTACTTTCCCAGGCGGTGCAATGGAACAGATTAAAGCTACAACGACAAATCTTACTTCCCCGAC
18797626 ATTGC
195 ATTGC
* * * * *
18797631 AATTAAAAATATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTAA
1 AATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGA
* ** * * * *
18797696 AGCTACAACGGTGAATCTTGCTTCCCTGATTTTGCAATTTAAAAGATTGAAGTCGCAATGACGAA
65 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAA-TTAAAAGATTGAAGCCACAACGGCGAA
* * * * * * * *
18797761 TCTTAC-TTCTCTGGCAGTGCAATGGAGCATATTAAAGATACGACGACAAATTTTACTTCCCCGA
129 TCTTACTTTCCCAGGCGGTGCAATGGAACAGATTAAAGCTACAACGACAAATCTTACTTCCCCGA
*
18797825 TATTGC
194 CATTGC
* * * * *
18797831 AATTTAAAAGATTGAAGCCGCAATGACGAATCTTACTTCCTTGGCAGTGTAGTGGAACAGATTGA
1 AA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGA
* * * *
18797896 AGCTACAACGATGAATTTTGTTTCCCCGACATTGCAGTTTAAAAAGATTGAAGC
65 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCA-ATT-AAAAGATTGAAGC
18797950 TATACATTGC
Statistics
Matches: 615, Mismatches: 95, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
199 177 0.29
200 364 0.59
201 72 0.12
202 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (199 bp):
AATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAA
GCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCGAATC
TTACTTTCCCAGGCGGTGCAATGGAACAGATTAAAGCTACAACGACAAATCTTACTTCCCCGACA
TTGC
Found at i:18797722 original size:50 final size:50
Alignment explanation
Indices: 18797045--18797905 Score: 381
Period size: 50 Copynumber: 17.2 Consensus size: 50
18797035 TAAAATATTG
* * * *
18797045 AAGCCACAACGGCGAATCTTAC-TCTCCTAGGCGGTGCAATGGAACAAATTG
1 AAGCCACAACGGCGAATCTTACTTC-CCT-GACAGTGCAATGGAACAGATTA
* * ** * * * * * *
18797096 AAGCCACAACGGCGAATCTCACTTCCCCGGTATTGTAAT-TAAAATATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * * * *
18797145 AGGCCACAACGGCGAATCTTACCTTCCCAGGC-GATGTAGTGGAACAGATTG
1 AAGCCACAACGGCGAATCTTA-CTTCCCTGACAG-TGCAATGGAACAGATTA
* * * * * * * *
18797196 AAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAAT-TAAAAGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * * * * *
18797245 AAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTG
1 AAGCCACAACGGCGAATCTTAC-TTCCCTGACAGTGCAATGGAACAGATTA
* * ** * * * * *
18797296 AAGCTACAACGGTGAATCTCGCTTCCCCGACATTGCAAT-TAA-AAATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* ** * *** * *
18797344 AAGTCACAACGGTAAATCTTACTTTCCCAGGTGGTGCAACGGAACAGATTG
1 AAGCCACAACGGCGAATCTTAC-TTCCCTGACAGTGCAATGGAACAGATTA
* * * ** * * * * *
18797395 AAGCTACAACGACAAATCTCGCTTCCCCGACATTGCAAT-TAAAAGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* *
18797444 AAGCCACAACGGCAAATCTTACTTTCCCAGACAGTGCAATGGAACAGATTA
1 AAGCCACAACGGCGAATCTTAC-TTCCCTGACAGTGCAATGGAACAGATTA
* * * * * * * *
18797495 AAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTGAA-AGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* ** * * *
18797544 AAGCCACAACGGCGAATCTTACTTTCCC-AAGTGGTGCAGTGGAGCAAATTA
1 AAGCCACAACGGCGAATCTTAC-TTCCCTGA-CAGTGCAATGGAACAGATTA
* * * * ** * * *
18797595 AAGCTACGACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * * *
18797645 AAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTA
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * *** ** * *
18797695 AAGCTACAACGGTGAATCTTGCTTCCCTGATTTTGCAATTTAAAAGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * * * * * *
18797745 AAGTCGCAATGACGAATCTTACTTCTCTGGCAGTGCAATGGAGCATATTA
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
** * * * * * * * ** * *
18797795 AAGATACGACGACAAATTTTACTTCCCCGATATTGCAATTTAAAAGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
* * * * * * * *
18797845 AAGCCGCAATGACGAATCTTACTTCCTTGGCAGTGTAGTGGAACAGATTG
1 AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
*
18797895 AAGCTACAACG
1 AAGCCACAACG
18797906 ATGAATTTTG
Statistics
Matches: 585, Mismatches: 209, Indels: 33
0.71 0.25 0.04
Matches are distributed among these distances:
48 22 0.04
49 114 0.19
50 306 0.52
51 141 0.24
52 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
AAGCCACAACGGCGAATCTTACTTCCCTGACAGTGCAATGGAACAGATTA
Found at i:18798062 original size:44 final size:42
Alignment explanation
Indices: 18798004--18798329 Score: 296
Period size: 44 Copynumber: 7.6 Consensus size: 42
18797994 TCATATCAAG
*
18798004 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * * *
18798048 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAAC-CA-A
* * * * * * *
18798092 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGAT-CACATCCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAACCAA
*
18798133 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * * * *
18798177 TCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAAC-CA-A
* * * * * *
18798221 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGAT-CACATCCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAACCAA
*
18798262 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * *
18798306 TCATATCTTCCAGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
18798330 AAGCGGATTA
Statistics
Matches: 226, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
41 56 0.25
42 12 0.05
43 18 0.08
44 140 0.62
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAACCAA
Found at i:18798142 original size:85 final size:85
Alignment explanation
Indices: 18797974--18798381 Score: 319
Period size: 85 Copynumber: 4.8 Consensus size: 85
18797964 ATTATATCTT
* * * * * *
18797974 TGAAGTTGCAGTAGAGTAGA-TCATATCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 TGAAGTTGCAGTGGAGCAGATTAAAATCACAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T
* * * *
18798037 GAAGAAACTAATCCTATCTCCC
65 TAA-AATCCAATCTTATCTCCC
* * * *
18798059 TGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-
1 TGAAGTTGCAGTGGAGCAGATTAAAATCACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
* *
18798123 TCACATCCAATCTTATCTCCC
65 TAAAATCCAATCTTATCTCCC
* * *
18798144 TGAAGTTGCAGTGGAGCAGACTGAAGAA--ACTAATCCTATCTCCCTGAAGTTGCAGT-GAAGCG
1 TGAAGTTGCAGTGGAGCAGA-TTAA-AATCAC-AATCTTATCTCCCTGAAGTTGCAGTAG-AGCA
*
18798206 GATTAAAATCACAGATCTTATCTCTC
62 GATTAAAATC-CA-ATCTTATCTCCC
* * * * * *
18798232 TAAAGTTGCAGTAGAGCAGA-TCACATC-CAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT
1 TGAAGTTGCAGTGGAGCAGATTAAAATCACAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
* * *
18798295 GAAGAAACCAATCATATCTTCC
66 -AA-AATCCAATCTTATCTCCC
* * * * * * * *
18798317 AGAAGTTGCAGTGAAGCGGATTAAAATGATAGGTCTTATCTCTCTGAAGTTGCAGAAGAGCAGAT
1 TGAAGTTGCAGTGGAGCAGATTAAAATCACA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
18798382 CACATCAGAC
Statistics
Matches: 253, Mismatches: 52, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
84 1 0.00
85 132 0.52
86 27 0.11
87 9 0.04
88 84 0.33
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (85 bp):
TGAAGTTGCAGTGGAGCAGATTAAAATCACAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
AAAATCCAATCTTATCTCCC
Found at i:18798189 original size:129 final size:129
Alignment explanation
Indices: 18797976--18798387 Score: 673
Period size: 129 Copynumber: 3.2 Consensus size: 129
18797966 TATATCTTTG
* *
18797976 AAGTTGCAGTAGAGTAGATCATAT-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
1 AAGTTGCAGTAGAGCAGATCACATCCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
*
18798040 GAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTA
65 GAAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
*
18798105 AAGTTGCAGTAGAGTAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
18798170 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
66 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
* *
18798234 AAGTTGCAGTAGAGCAGATCACATCCAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * *
18798299 AAACCAATCATATCTTCCAGAAGTTGCAGTGAAGCGGATTAAAATGATAGGTCTTATCTCTCTG
66 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
*
18798363 AAGTTGCAGAAGAGCAGATCACATC
1 AAGTTGCAGTAGAGCAGATCACATC
18798388 AGACTTTATG
Statistics
Matches: 268, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
129 265 0.99
130 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (129 bp):
AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
Found at i:18801659 original size:9 final size:9
Alignment explanation
Indices: 18801645--18801675 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18801635 GTTAAATGAA
18801645 TCGAGTTAT
1 TCGAGTTAT
*
18801654 TCGAGTTAA
1 TCGAGTTAT
18801663 TCGAGTTAT
1 TCGAGTTAT
18801672 TCGA
1 TCGA
18801676 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:18802312 original size:9 final size:9
Alignment explanation
Indices: 18802298--18802326 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
18802288 AATTTCACAT
18802298 TTTATATTA
1 TTTATATTA
18802307 TTTATATTA
1 TTTATATTA
18802316 TTTATATTA
1 TTTATATTA
18802325 TT
1 TT
18802327 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:18804640 original size:35 final size:34
Alignment explanation
Indices: 18804591--18804661 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
18804581 TACTGATTTA
18804591 ATATAAATATATAAT-TATTATT-TAACATATATAT
1 ATATAAATATATAATAT-TTATTATAACA-ATATAT
* *
18804625 ATATAACTAATATAATATTTTTTATAACAATATAT
1 ATATAAAT-ATATAATATTTATTATAACAATATAT
18804660 AT
1 AT
18804662 TCTAACCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 7 0.22
35 19 0.59
36 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (34 bp):
ATATAAATATATAATATTTATTATAACAATATAT
Found at i:18811062 original size:13 final size:13
Alignment explanation
Indices: 18811044--18811072 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18811034 AACATTTCCC
18811044 TCGTTGGGTTAAT
1 TCGTTGGGTTAAT
18811057 TCGTTGGGTTAAT
1 TCGTTGGGTTAAT
18811070 TCG
1 TCG
18811073 AGGGTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.10, G:0.31, T:0.45
Consensus pattern (13 bp):
TCGTTGGGTTAAT
Found at i:18815826 original size:18 final size:17
Alignment explanation
Indices: 18815803--18815852 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
18815793 ACTAGAAATC
18815803 ATATTTTTATTGTTTTGT
1 ATATTTTTATTGTTTT-T
*
18815821 ATA-TTTTCTT-TTTTT
1 ATATTTTTATTGTTTTT
18815836 ATGATTTTTA-TGTTTTT
1 AT-ATTTTTATTGTTTTT
18815853 TATGATTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.11
16 6 0.22
17 15 0.56
18 3 0.11
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (17 bp):
ATATTTTTATTGTTTTT
Found at i:18815853 original size:18 final size:18
Alignment explanation
Indices: 18815805--18815859 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
18815795 TAGAAATCAT
*
18815805 ATTTTTATTGTTTTGTAT-
1 ATTTTTA-TGTTTTTTATG
*
18815823 A-TTTTCT-TTTTTTATG
1 ATTTTTATGTTTTTTATG
18815839 ATTTTTATGTTTTTTATG
1 ATTTTTATGTTTTTTATG
18815857 ATT
1 ATT
18815860 AGATGACGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.23
16 2 0.06
17 9 0.29
18 13 0.42
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (18 bp):
ATTTTTATGTTTTTTATG
Found at i:18816011 original size:3 final size:3
Alignment explanation
Indices: 18815961--18815992 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18815951 TCTTGATTTA
18815961 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18815993 ACTTTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18827502 original size:27 final size:24
Alignment explanation
Indices: 18827455--18827503 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 24
18827445 GCACAAAGTG
18827455 CAAAGTGCAAATAACGATAAGCAC
1 CAAAGTGCAAATAACGATAAGCAC
18827479 CAAAGTGCGAAATAATACGATAAGC
1 CAAAGTGC-AAAT-A-ACGATAAGC
18827504 GCGCTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 4 0.18
26 1 0.05
27 9 0.41
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (24 bp):
CAAAGTGCAAATAACGATAAGCAC
Found at i:18828683 original size:13 final size:13
Alignment explanation
Indices: 18828661--18828694 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18828651 GTATTCAATT
*
18828661 CAATCCAATTACC
1 CAATCTAATTACC
18828674 CAATCTAATTACC
1 CAATCTAATTACC
*
18828687 CAACCTAA
1 CAATCTAA
18828695 CCCAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATCTAATTACC
Found at i:18828822 original size:9 final size:9
Alignment explanation
Indices: 18828810--18828850 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
18828800 TGAATTAGGT
18828810 TAATTCGGG
1 TAATTCGGG
*
18828819 TAATTCGGT
1 TAATTCGGG
*
18828828 TAATTCGAG
1 TAATTCGGG
*
18828837 TAATTCGGT
1 TAATTCGGG
18828846 TAATT
1 TAATT
18828851 TAGTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:18828828 original size:18 final size:18
Alignment explanation
Indices: 18828802--18828868 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
18828792 TGTATGATTG
* *
18828802 AATTAGGTTAATTCGGGT
1 AATTCGGTTAATTCGAGT
18828820 AATTCGGTTAATTCGAGT
1 AATTCGGTTAATTCGAGT
*
18828838 AATTCGGTTAATT-TAGTT
1 AATTCGGTTAATTCGAG-T
*
18828856 AATTTGGTTAATT
1 AATTCGGTTAATT
18828869 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 2 0.05
18 42 0.95
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (18 bp):
AATTCGGTTAATTCGAGT
Found at i:18828867 original size:27 final size:27
Alignment explanation
Indices: 18828802--18828868 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
18828792 TGTATGATTG
*
18828802 AATTAGGTTAATTCGGGTAATTCGGTT
1 AATTAGGTTAATTCGGGTAATTCAGTT
* * *
18828829 AATTCGAG-TAATTCGGTTAATTTAGTT
1 AATTAG-GTTAATTCGGGTAATTCAGTT
*
18828856 AATTTGGTTAATT
1 AATTAGGTTAATT
18828869 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
AATTAGGTTAATTCGGGTAATTCAGTT
Found at i:18832679 original size:21 final size:21
Alignment explanation
Indices: 18832643--18832702 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
18832633 ATAAAAATAT
18832643 AAAAATTTATTAAAAATTAGAAA
1 AAAAATTTA-T-AAAATTAGAAA
18832666 AAAAATTTATAAAATATAGAAA
1 AAAAATTTATAAAAT-TAGAAA
*
18832688 AAAAA-TTGTAAAATT
1 AAAAATTTATAAAATT
18832703 TTATAAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.37
22 12 0.34
23 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAATTTATAAAATTAGAAA
Found at i:18832710 original size:22 final size:22
Alignment explanation
Indices: 18832643--18832694 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 22
18832633 ATAAAAATAT
18832643 AAAAATTTATTAAAA-ATTAGAAA
1 AAAAATTTA-TAAAATA-TAGAAA
18832666 AAAAATTTATAAAATATAGAAA
1 AAAAATTTATAAAATATAGAAA
18832688 AAAAATT
1 AAAAATT
18832695 GTAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAATTTATAAAATATAGAAA
Found at i:18833320 original size:92 final size:91
Alignment explanation
Indices: 18833163--18833329 Score: 223
Period size: 92 Copynumber: 1.8 Consensus size: 91
18833153 CAGTCAAAAT
* *
18833163 GTCTTTTTGATGCATTTTAACAATTCAAATACTTAATAGAGTGCAAAAAAAAAACAGGCGCTTAA
1 GTCTTTTTGATGCATTTGAACAATTCAAATACCTAATAGAGTGCAAAAAAAAAACAGGCGCTTAA
18833228 TTTTTTATTTTTTGAAAAAGTTTAAAG
66 TTTTTT-TTTTTTGAAAAAGTTTAAAG
* * * *
18833255 GTCTTTTTGATGCATGTTGAA-AGTTCTAGTACCTAATTGAGTGCAAAAAAAAAGTA-AGG-GCT
1 GTCTTTTTGATGCAT-TTGAACAATTCAAATACCTAATAGAGTGCAAAAAAAAA--ACAGGCGCT
18833317 TAATTTTTTTTTT
63 TAATTTTTTTTTT
18833330 AAGTTTGAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
91 4 0.06
92 54 0.82
93 7 0.11
94 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (91 bp):
GTCTTTTTGATGCATTTGAACAATTCAAATACCTAATAGAGTGCAAAAAAAAAACAGGCGCTTAA
TTTTTTTTTTTTGAAAAAGTTTAAAG
Found at i:18833543 original size:62 final size:63
Alignment explanation
Indices: 18833438--18833563 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 63
18833428 AATTGAGTAA
18833438 AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
1 AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
* * *
18833501 AAGGTGATACCAATTCAGTC-AAACTTTAAATAATAGTGTAAATAACTTATATAACCCTCACC
1 AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
18833563 A
1 A
18833564 CTACAAAAGT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 41 0.68
63 19 0.32
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (63 bp):
AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
Found at i:18835773 original size:3 final size:3
Alignment explanation
Indices: 18835760--18835792 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
18835750 GCAATCGCCT
18835760 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
18835793 TGGTGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18839031 original size:31 final size:31
Alignment explanation
Indices: 18838988--18839050 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
18838978 TTATTCTATA
18838988 AAGGCTGATGTTGTAGATACCACAAATATGT
1 AAGGCTGATGTTGTAGATACCACAAATATGT
*
18839019 AAGGTTGATGTTGTAGATACCACAAATATGT
1 AAGGCTGATGTTGTAGATACCACAAATATGT
18839050 A
1 A
18839051 GAGGGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (31 bp):
AAGGCTGATGTTGTAGATACCACAAATATGT
Found at i:18843540 original size:22 final size:23
Alignment explanation
Indices: 18843488--18843541 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
18843478 GCTGATAAAT
* *
18843488 AGTAGGCTCTATTAAGCTGAAAC
1 AGTAAGCTCTAATAAGCTGAAAC
* *
18843511 GGTAAGCTCTAATGAGCTG-AAC
1 AGTAAGCTCTAATAAGCTGAAAC
18843533 AGTAAGCTC
1 AGTAAGCTC
18843542 ATACGAGTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTAATAAGCTGAAAC
Found at i:18843570 original size:46 final size:47
Alignment explanation
Indices: 18843512--18843603 Score: 132
Period size: 48 Copynumber: 2.0 Consensus size: 47
18843502 AGCTGAAACG
* *
18843512 GTAAGCTCTAATGAGCTG-AACAGTAAGCTCATACGAGTTGAAATTT
1 GTAAACTCTAATGAGCTGAAACAGTAAGCTCATACGAGCTGAAATTT
* *
18843558 GTAAACTCTAATGAGCTGAAAACAGTAGGCTCTTACGAGCTGAAAT
1 GTAAACTCTAATGAGCTG-AAACAGTAAGCTCATACGAGCTGAAAT
18843604 ATCGGTAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 17 0.43
48 23 0.57
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (47 bp):
GTAAACTCTAATGAGCTGAAACAGTAAGCTCATACGAGCTGAAATTT
Found at i:18843590 original size:24 final size:24
Alignment explanation
Indices: 18843475--18843602 Score: 84
Period size: 24 Copynumber: 5.4 Consensus size: 24
18843465 AAACTCCTCC
* * *
18843475 TGAGCTGATAAATAGTAGGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAA
* *
18843500 TAAGCTG-AAACGGTAAGCTCTAA
1 TGAGCTGAAAACAGTAAGCTCTAA
18843523 TGAGCTG--AACAGTAAGCTC-ATA
1 TGAGCTGAAAACAGTAAGCTCTA-A
* * *** *
18843545 CGAGTTGAAATTTGTAAACTCTAA
1 TGAGCTGAAAACAGTAAGCTCTAA
* *
18843569 TGAGCTGAAAACAGTAGGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTAA
*
18843593 CGAGCTGAAA
1 TGAGCTGAAA
18843603 TATCGGTAAG
Statistics
Matches: 77, Mismatches: 22, Indels: 9
0.71 0.20 0.08
Matches are distributed among these distances:
21 1 0.01
22 17 0.22
23 18 0.23
24 34 0.44
25 7 0.09
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAA
Found at i:18843847 original size:67 final size:67
Alignment explanation
Indices: 18843772--18844201 Score: 662
Period size: 67 Copynumber: 6.4 Consensus size: 67
18843762 AATAATTCAA
* *
18843772 TTTCTCAAATCACATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
18843837 AC
66 AC
* * * * * * *
18843839 CTTCTCAAAACAAATGCATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCACAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
18843904 AC
66 AC
* *
18843906 TTTCTCAAATCACATACATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
18843971 AC
66 AC
* * * * * *
18843973 TTTCTCAAATCATATACATATAATCCATGCAATTAAATATATACATTTAATTACTCAATTCACAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
18844038 AC
66 AC
*
18844040 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
*
18844105 AT
66 AC
*
18844107 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
18844172 AC
66 AC
* *
18844174 TTTCTCAAATCATATACAAATAATCAAT
1 TTTCTCAAATCACATACATATAATCAAT
18844202 AGTTTCTCAA
Statistics
Matches: 334, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 334 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (67 bp):
TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
AC
Found at i:18844068 original size:36 final size:35
Alignment explanation
Indices: 18844027--18844137 Score: 94
Period size: 36 Copynumber: 3.2 Consensus size: 35
18844017 ATTTAATTAC
18844027 TCAATTCACATACTTTCTCAAATCACATACATATAA
1 TCAATTCACATA-TTTCTCAAATCACATACATATAA
*
18844063 TCAATT--CA-A--T-T-AAAT-ACATACATTTAATTAC
1 TCAATTCACATATTTCTCAAATCACATACA--T-A-TAA
*
18844094 TCAATTCGCATATTTTCTCAAATCACATACATATAA
1 TCAATTCACATA-TTTCTCAAATCACATACATATAA
18844130 TCAATTCA
1 TCAATTCA
18844138 ATTAAATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 26
0.67 0.03 0.30
Matches are distributed among these distances:
27 7 0.12
28 4 0.07
29 2 0.03
30 2 0.03
31 8 0.14
33 3 0.05
34 3 0.05
36 15 0.25
37 2 0.03
38 2 0.03
39 4 0.07
40 7 0.12
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTCACATATTTCTCAAATCACATACATATAA
Found at i:18846171 original size:29 final size:30
Alignment explanation
Indices: 18846139--18846197 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18846129 ACCAATAAAA
18846139 GCCG-TTTTTTTCAAAATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGGAATGG
* **
18846168 GCCGATTTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGGAATGG
18846198 TCCACTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGGAATGG
Found at i:18846554 original size:51 final size:51
Alignment explanation
Indices: 18846494--18846608 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
18846484 TCCTCTTTAA
*
18846494 TCCTCTCAATTTCCTTCCAAAATTCTCTTAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
**
18846545 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATTCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
18846596 TCCCCTCAATTTC
1 TCCTCTCAATTTC
18846609 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:18846643 original size:30 final size:31
Alignment explanation
Indices: 18846609--18846675 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
18846599 CCTCAATTTC
18846609 ATTTTTTAAAATAATTTTA-AATTTTTTTAT
1 ATTTTTTAAAATAATTTTATAATTTTTTTAT
*
18846639 ATTTTTTAAAATAATTTTATATTTTTTTTAT
1 ATTTTTTAAAATAATTTTATAATTTTTTTAT
18846670 ATTTTT
1 ATTTTT
18846676 ATCAATGGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTTTTAAAATAATTTTATAATTTTTTTAT
Found at i:18846650 original size:20 final size:19
Alignment explanation
Indices: 18846623--18846665 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18846613 TTTAAAATAA
**
18846623 TTTTAAATTTTTTTATATT
1 TTTTAAATAATTTTATATT
18846642 TTTTAAAATAATTTTATATT
1 TTTT-AAATAATTTTATATT
18846662 TTTT
1 TTTT
18846666 TTATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAAATAATTTTATATT
Found at i:18846774 original size:18 final size:18
Alignment explanation
Indices: 18846751--18846813 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
18846741 TAAGTATTAA
18846751 ATTTAATTTTTAAATATT
1 ATTTAATTTTTAAATATT
**
18846769 ATTTAAGATTTTTTTAT-TT
1 ATTT-A-ATTTTTAAATATT
*
18846788 ATGT-ATTTTTAAATAATT
1 ATTTAATTTTTAAAT-ATT
18846806 A-TTAATTT
1 ATTTAATTT
18846814 ATTATTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 11 0.32
19 6 0.18
20 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTAATTTTTAAATATT
Found at i:18848442 original size:18 final size:18
Alignment explanation
Indices: 18848416--18848450 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18848406 AAGTGTGTTT
* *
18848416 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
18848434 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
18848451 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:18848883 original size:25 final size:25
Alignment explanation
Indices: 18848854--18848968 Score: 91
Period size: 26 Copynumber: 4.7 Consensus size: 25
18848844 TTTAAATTTA
18848854 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
18848879 TTATTTGATGTAATACACATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
18848905 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
18848924 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
18848950 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
18848969 ACCCTAATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
19 1 0.01
20 5 0.07
21 7 0.10
23 2 0.03
24 3 0.04
25 22 0.32
26 29 0.42
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:18849013 original size:29 final size:29
Alignment explanation
Indices: 18848971--18849123 Score: 261
Period size: 29 Copynumber: 5.3 Consensus size: 29
18848961 TAATAAAAAC
*
18848971 CCTAATTTAATTAAAAACCCTAACCATAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
18849000 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
18849029 CCTAATTTAATTAAAAACCCTAACCATAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
18849058 CCTAACTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
18849087 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
18849116 CCTAATTT
1 CCTAATTT
18849124 TACATAATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:18849051 original size:23 final size:23
Alignment explanation
Indices: 18849021--18849111 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
18849011 TAAAAACCCT
18849021 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
18849044 AACCCTAACCATAACCTAACTTAATTAAAAA
1 AACCCTAACC-TAA--T---TTAATT--AAA
18849075 TCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
18849102 AACCCTAACC
1 AACCCTAACC
18849112 CTAACCTAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
23 20 0.36
24 3 0.05
26 1 0.02
27 3 0.05
29 12 0.21
31 3 0.05
32 1 0.02
34 3 0.05
35 10 0.18
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:18849184 original size:55 final size:55
Alignment explanation
Indices: 18849118--18849299 Score: 305
Period size: 55 Copynumber: 3.3 Consensus size: 55
18849108 AACCCTAACC
18849118 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
* *
18849173 TAATTTTACATAATTTGATAATTTTACTAACCATTGACACAATTTTTGGAATTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
18849228 TAATTTTACATAATTTGATAATTTTACTAACCATTAACA-AATTTTTTTTGG-CTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAA---TTTTTGGACTTAA
18849284 TAATTTTACATAATTT
1 TAATTTTACATAATTT
18849300 TACATAATGT
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
54 2 0.02
55 91 0.76
56 20 0.17
57 7 0.06
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:18849298 original size:10 final size:10
Alignment explanation
Indices: 18849283--18849307 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18849273 TTTTGGCTTA
18849283 ATAATTTTAC
1 ATAATTTTAC
18849293 ATAATTTTAC
1 ATAATTTTAC
18849303 ATAAT
1 ATAAT
18849308 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:18850136 original size:124 final size:123
Alignment explanation
Indices: 18849853--18850196 Score: 557
Period size: 124 Copynumber: 2.8 Consensus size: 123
18849843 AACTTGCTAT
* **
18849853 TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTCCTTCTCAAATAGCATTATGGTAGA
1 TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
18849918 AGCGATTTTATACTATTTGCTCAGAAATGT-AAAAAAAATATTTTTTACATGACCAAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTCTTACATGACCAAC
* *
18849975 TGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
18850040 AGCGATTTTATACTATTTGCTAAGAAACGTCAAAAAAAATTATTTCTTACATGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA-TATTTCTTACATGACCAAC
18850099 TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
18850164 AGTGATTTTATATTATTTGAC-CAGAAACGTCAA
66 AGCGATTTTATACTATTTG-CTCAGAAACGTCAA
18850197 CTCGAAATAA
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 88 0.43
123 8 0.04
124 108 0.53
125 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (123 bp):
TGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTCTTACATGACCAAC
Found at i:18855343 original size:27 final size:27
Alignment explanation
Indices: 18855313--18855367 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18855303 AATTGGAGTT
18855313 TGTCAATTCCGCAATTTAACTCAAAAC
1 TGTCAATTCCGCAATTTAACTCAAAAC
18855340 TGTCAATTCCGCAATTTAACTCAAAAC
1 TGTCAATTCCGCAATTTAACTCAAAAC
18855367 T
1 T
18855368 TCACCTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (27 bp):
TGTCAATTCCGCAATTTAACTCAAAAC
Found at i:18856158 original size:15 final size:15
Alignment explanation
Indices: 18856134--18856172 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
18856124 GTTACTTGTA
18856134 CAAT-GAACCACAAC
1 CAATGGAACCACAAC
18856148 CAATGGAACCACAAC
1 CAATGGAACCACAAC
*
18856163 TAATGGAACC
1 CAATGGAACC
18856173 TGATGTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.46, C:0.31, G:0.13, T:0.10
Consensus pattern (15 bp):
CAATGGAACCACAAC
Found at i:18860145 original size:21 final size:21
Alignment explanation
Indices: 18860120--18860161 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18860110 TCGACGATTC
18860120 CCTCTTTGACGAGATGACATT
1 CCTCTTTGACGAGATGACATT
* *
18860141 CCTCTTTGATGATATGACATT
1 CCTCTTTGACGAGATGACATT
18860162 TTTCTGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
CCTCTTTGACGAGATGACATT
Found at i:18860920 original size:94 final size:94
Alignment explanation
Indices: 18860752--18860943 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 94
18860742 TCGTCCTTTT
* * * *
18860752 ATTGTTCAATTTTGTTTTGAGAAAGGAAGTGAGATTTTGCATCATGAATCCCAAATAGTTCTAAT
1 ATTGTTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTTGCATCATGAATCCCAAATAGTTCGAAT
* *
18860817 TTTTGTATGAAAATAAGGAAGACGAA-AGG
66 CTTTATATGAAAATAAGGAAGAC-AAGAGG
* ** *
18860846 ATTGTTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTTGCATCATGGATTTCAAATAGTTCGAGT
1 ATTGTTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTTGCATCATGAATCCCAAATAGTTCGAAT
*
18860911 CTTTATATGAAAGTAAGGAAGACAAGAGG
66 CTTTATATGAAAATAAGGAAGACAAGAGG
18860940 ATTG
1 ATTG
18860944 AACTCAAGCC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 2 0.02
94 84 0.98
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.33
Consensus pattern (94 bp):
ATTGTTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTTGCATCATGAATCCCAAATAGTTCGAAT
CTTTATATGAAAATAAGGAAGACAAGAGG
Found at i:18861955 original size:28 final size:30
Alignment explanation
Indices: 18861915--18861977 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
18861905 AATCATAATT
18861915 AAAGTTTGAAGTA-TATAATTACATA-AAATA
1 AAAGTTT-AAGTATTA-AATTACATATAAATA
18861945 AAAGTTT-AGTATTAAATTACATATTAAATA
1 AAAGTTTAAGTATTAAATTACATA-TAAATA
18861975 AAA
1 AAA
18861978 ATATGTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 13 0.43
29 2 0.07
30 15 0.50
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (30 bp):
AAAGTTTAAGTATTAAATTACATATAAATA
Found at i:18872643 original size:19 final size:20
Alignment explanation
Indices: 18872605--18872643 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18872595 AAAAAATGAC
* *
18872605 CTGTAGTAGAGAGGGGGAAA
1 CTGTAGAAGAGAGAGGGAAA
18872625 CTGTAGAAGAGA-AGGGAAA
1 CTGTAGAAGAGAGAGGGAAA
18872644 AGAGAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.05, G:0.41, T:0.13
Consensus pattern (20 bp):
CTGTAGAAGAGAGAGGGAAA
Found at i:18882608 original size:16 final size:16
Alignment explanation
Indices: 18882583--18882624 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
18882573 GCTAATTTTT
18882583 TTTTTGAATTTT-TACA
1 TTTTTGAATTTTATA-A
*
18882599 TTTTTAAATTTTATAA
1 TTTTTGAATTTTATAA
18882615 TTTTTGAATT
1 TTTTTGAATT
18882625 ATTTGTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTGAATTTTATAA
Found at i:18893055 original size:43 final size:42
Alignment explanation
Indices: 18892989--18893117 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 42
18892979 ATAGGATTTC
18892989 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
18893032 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
18893075 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
18893118 TGTACGAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
42 3 0.04
43 68 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:18894072 original size:92 final size:93
Alignment explanation
Indices: 18893962--18894289 Score: 588
Period size: 93 Copynumber: 3.5 Consensus size: 93
18893952 ATGAGTTGAA
*
18893962 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAATGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
*
18894026 TTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
18894054 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
18894118 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
*
18894146 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
18894211 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
* * *
18894239 CCAATTTGTTACATATATGCTGTCCAATTTTAATGCTTAAATGCTGCCCAA
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAA
18894290 ACTGTTTTAT
Statistics
Matches: 228, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 104 0.46
93 124 0.54
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (93 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
CTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:18894307 original size:47 final size:46
Alignment explanation
Indices: 18893962--18894289 Score: 566
Period size: 46 Copynumber: 7.1 Consensus size: 46
18893952 ATGAGTTGAA
*
18893962 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
18894008 CCAATTTGTTACATAATGTTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
* *
18894054 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
18894100 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * *
18894146 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
18894193 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
18894239 CCAATTTGTTACATATATGCTGTCCAATTTTAATGCTTAAATGCTGC
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
18894286 CCAA
1 CCAA
18894290 ACTGTTTTAT
Statistics
Matches: 266, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 189 0.71
47 77 0.29
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (46 bp):
CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:18906620 original size:54 final size:54
Alignment explanation
Indices: 18906556--18906663 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
18906546 AGTAGGCTTG
18906556 ATCGTAGATGAAGCCGCAGGCTCCACCGGAAGAATTGCATTTCCAGCATTCATC
1 ATCGTAGATGAAGCCGCAGGCTCCACCGGAAGAATTGCATTTCCAGCATTCATC
18906610 ATCGTAGATGAAGCCGCAGGCTCCACCGGAAGAATTGCATTTCCAGCATTCATC
1 ATCGTAGATGAAGCCGCAGGCTCCACCGGAAGAATTGCATTTCCAGCATTCATC
18906664 TGCATAGTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (54 bp):
ATCGTAGATGAAGCCGCAGGCTCCACCGGAAGAATTGCATTTCCAGCATTCATC
Found at i:18907297 original size:6 final size:6
Alignment explanation
Indices: 18907286--18907325 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
18907276 TAAACAAAAC
* * *
18907286 AGAGGA AGAGGA AGAGGA AGAGGC AGAGGC AGAGGC AGAG
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAG
18907326 ATGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:18907303 original size:12 final size:12
Alignment explanation
Indices: 18907285--18907325 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
18907275 ATAAACAAAA
18907285 CAGAGGAAGAGG
1 CAGAGGAAGAGG
*
18907297 AAGAGGAAGAGG
1 CAGAGGAAGAGG
*
18907309 CAGAGGCAGAGG
1 CAGAGGAAGAGG
18907321 CAGAG
1 CAGAG
18907326 ATGATGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.49, T:0.00
Consensus pattern (12 bp):
CAGAGGAAGAGG
Found at i:18908544 original size:3 final size:3
Alignment explanation
Indices: 18908536--18908568 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18908526 ATGCTACTCT
18908536 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18908569 AAGGATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18915785 original size:18 final size:19
Alignment explanation
Indices: 18915754--18915791 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18915744 AAAATAAGAG
18915754 AAATAATAAGTTTTA-AAA
1 AAATAATAAGTTTTATAAA
18915772 AAATACATAA-TTTTATAAA
1 AAATA-ATAAGTTTTATAAA
18915791 A
1 A
18915792 TAGACACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATAATAAGTTTTATAAA
Found at i:18926317 original size:24 final size:25
Alignment explanation
Indices: 18926284--18926335 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
18926274 AACTCTAAAT
18926284 ACTGAAGAGTAGACCTGAACAATAA
1 ACTGAAGAGTAGACCTGAACAATAA
18926309 ACTG-AGAGTAGACCTGAACAATAA
1 ACTGAAGAGTAGACCTGAACAATAA
18926333 ACT
1 ACT
18926336 TAGTTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (25 bp):
ACTGAAGAGTAGACCTGAACAATAA
Found at i:18929737 original size:13 final size:13
Alignment explanation
Indices: 18929719--18929746 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18929709 GTATATTGGT
18929719 TATTATGCATGTC
1 TATTATGCATGTC
18929732 TATTATGCATGTC
1 TATTATGCATGTC
18929745 TA
1 TA
18929747 AGTTCAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTATGCATGTC
Found at i:18942373 original size:21 final size:21
Alignment explanation
Indices: 18942339--18942379 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18942329 AGACGAGCAA
* * *
18942339 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
18942360 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
18942380 TTGAGCAGAT
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:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:18949517 original size:3 final size:3
Alignment explanation
Indices: 18949511--18949541 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18949501 AAGAAGCTTT
18949511 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18949542 GTCATATCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18959580 original size:16 final size:16
Alignment explanation
Indices: 18959559--18959591 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18959549 TCACAATACT
18959559 AGAGTAAATAAATTTG
1 AGAGTAAATAAATTTG
*
18959575 AGAGTATATAAATTTG
1 AGAGTAAATAAATTTG
18959591 A
1 A
18959592 AAACTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (16 bp):
AGAGTAAATAAATTTG
Found at i:18959746 original size:20 final size:22
Alignment explanation
Indices: 18959703--18959747 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
18959693 TAACAAGTTT
* *
18959703 TTAAGATTTTTTATTTTTATAA
1 TTAAGATTTTTTATTTTCAAAA
18959725 TTAAGA-TTTTT-TTTTCAAAA
1 TTAAGATTTTTTATTTTCAAAA
18959745 TTA
1 TTA
18959748 TGAATTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 5 0.24
22 6 0.29
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTAAGATTTTTTATTTTCAAAA
Found at i:18959991 original size:31 final size:31
Alignment explanation
Indices: 18959956--18960014 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
18959946 ATTCAACTCG
18959956 AATAACTCAAA-GTACTTATTTAAATTGACCC
1 AATAACTCAAATG-ACTTATTTAAATTGACCC
*
18959987 AATAACTCAAATGACTTATTTAACTTGA
1 AATAACTCAAATGACTTATTTAAATTGA
18960015 ATCAACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (31 bp):
AATAACTCAAATGACTTATTTAAATTGACCC
Found at i:18961829 original size:6 final size:6
Alignment explanation
Indices: 18961795--18961828 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
18961785 ATTCAGCCTC
*
18961795 GATTTG GATTTG GATTTG GATTTG GATTCG GATT
1 GATTTG GATTTG GATTTG GATTTG GATTTG GATT
18961829 CAGATTCTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (6 bp):
GATTTG
Found at i:18961834 original size:18 final size:18
Alignment explanation
Indices: 18961795--18961834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18961785 ATTCAGCCTC
* **
18961795 GATTTGGATTTGGATTTG
1 GATTTGGATTCGGATTCA
18961813 GATTTGGATTCGGATTCA
1 GATTTGGATTCGGATTCA
18961831 GATT
1 GATT
18961835 CTGCAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (18 bp):
GATTTGGATTCGGATTCA
Found at i:18968272 original size:24 final size:24
Alignment explanation
Indices: 18968238--18968286 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18968228 ATTTAGAGAA
*
18968238 TTTTGTGTTTATGTTTT-GAGGGTT
1 TTTTGTGTTTAGGTTTTCG-GGGTT
*
18968262 TTTTGTTTTTAGGTTTTCGGGGTT
1 TTTTGTGTTTAGGTTTTCGGGGTT
18968286 T
1 T
18968287 AGTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.06, C:0.02, G:0.29, T:0.63
Consensus pattern (24 bp):
TTTTGTGTTTAGGTTTTCGGGGTT
Found at i:18968552 original size:19 final size:19
Alignment explanation
Indices: 18968530--18968571 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18968520 AATTCATCTA
18968530 CATTTAACTAA-TATCATAT
1 CATTTAACTAATTATCA-AT
* *
18968549 CATTTCAGTAATTATCAAT
1 CATTTAACTAATTATCAAT
18968568 CATT
1 CATT
18968572 CATATTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (19 bp):
CATTTAACTAATTATCAAT
Found at i:18969832 original size:14 final size:14
Alignment explanation
Indices: 18969813--18969853 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18969803 ATAAATAATG
18969813 TATAAAGTCATA-AA
1 TATAAAGT-ATACAA
18969827 TATAAAGTATACAA
1 TATAAAGTATACAA
*
18969841 TATTAA-TATACAA
1 TATAAAGTATACAA
18969854 GTTTTGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (14 bp):
TATAAAGTATACAA
Found at i:18970939 original size:17 final size:17
Alignment explanation
Indices: 18970917--18970952 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18970907 TTATTTTGTT
18970917 ATTATTTACCAAAGTAC
1 ATTATTTACCAAAGTAC
18970934 ATTATTTACCAAAGTAC
1 ATTATTTACCAAAGTAC
18970951 AT
1 AT
18970953 AATTGAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTATTTACCAAAGTAC
Found at i:18974493 original size:19 final size:19
Alignment explanation
Indices: 18974469--18974506 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18974459 TTTTCCCTTT
18974469 CGATTGATATATGTAGGGG
1 CGATTGATATATGTAGGGG
18974488 CGATTGATATATGTAGGGG
1 CGATTGATATATGTAGGGG
18974507 AGAAGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.32
Consensus pattern (19 bp):
CGATTGATATATGTAGGGG
Found at i:18975143 original size:22 final size:21
Alignment explanation
Indices: 18975096--18975154 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
18975086 AGATTCTATT
* *
18975096 TTTTAAGATTTAAGAGTAGAAT
1 TTTTAAAATTTAA-AGTAGAAA
*
18975118 TTTTAAAATTTAAAGTTGGAAA
1 TTTTAAAATTTAAAG-TAGAAA
* *
18975140 TTTTGAAGTTTAAAG
1 TTTTAAAATTTAAAG
18975155 AAACATATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (21 bp):
TTTTAAAATTTAAAGTAGAAA
Found at i:18975258 original size:6 final size:6
Alignment explanation
Indices: 18975247--18975282 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18975237 ATAATTTTTG
18975247 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
18975283 ATGTGTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GAAAAT
Found at i:18977253 original size:48 final size:48
Alignment explanation
Indices: 18977175--18977271 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
18977165 GTAATTATAA
* *
18977175 CACTTTAACATATTTATGTTATGGGTCCGTTAAAAGTACATTACAAAT
1 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
18977223 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
1 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
18977271 C
1 C
18977272 TTTCCCTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (48 bp):
CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
Found at i:18978594 original size:5 final size:5
Alignment explanation
Indices: 18978584--18978609 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18978574 TAGGGTCAAG
18978584 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
18978610 TTTATTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:18981088 original size:19 final size:19
Alignment explanation
Indices: 18981061--18981101 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18981051 TCTAGTTAAA
18981061 TAAAAAATTATAATAATAT
1 TAAAAAATTATAATAATAT
* *
18981080 TAAACAATTATAATTATAT
1 TAAAAAATTATAATAATAT
18981099 TAA
1 TAA
18981102 TATTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAAATTATAATAATAT
Found at i:18981358 original size:16 final size:16
Alignment explanation
Indices: 18981323--18981360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18981313 AGTTTATAAT
*
18981323 ATTT-TATATTATGTT
1 ATTTATATATTATGTA
*
18981338 TTTTATATATTATGTA
1 ATTTATATATTATGTA
18981354 ATTTATA
1 ATTTATA
18981361 ACACATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTATATATTATGTA
Found at i:18983008 original size:21 final size:22
Alignment explanation
Indices: 18982974--18983026 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18982964 TTTAAATTTA
* * *
18982974 ATTTTACTTATAATTTAATCTAT
1 ATTTTA-TTTTAATATAATATAT
*
18982997 -TTTTATTTTAATATCATATAT
1 ATTTTATTTTAATATAATATAT
18983018 ATTTTATTT
1 ATTTTATTT
18983027 GTTACTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTATTTTAATATAATATAT
Found at i:18987119 original size:42 final size:42
Alignment explanation
Indices: 18987073--18987175 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
18987063 GTTTAACTCA
* * *
18987073 TTTGAGTTTCCGTTCAACCCTAATGGGTTTCCGTTCATCTCT
1 TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
* * * *
18987115 TTTGAGCTACTGTTTAACCCTTATGGGATTCCGTTCAGCTCT
1 TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
* *
18987157 TATGAACTTCCGTTCAACC
1 TTTGAGCTTCCGTTCAACC
18987176 TTTACGGGTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (42 bp):
TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
Found at i:18988559 original size:51 final size:51
Alignment explanation
Indices: 18988483--18988690 Score: 304
Period size: 51 Copynumber: 4.2 Consensus size: 51
18988473 CTAATCACAT
* *
18988483 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
18988534 TTATCACTTGTCACTTGTAATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
18988585 TTATCACTTGTCA-----C--TGATCAGATAAATGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
18988629 TTATCAATCGTCACTTGTCATTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
18988680 TTATCACTTGT
1 TTATCACTTGT
18988691 TACTGATCAG
Statistics
Matches: 139, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
44 40 0.29
49 1 0.01
51 98 0.71
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:18988652 original size:95 final size:95
Alignment explanation
Indices: 18988487--18988701 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 95
18988477 TCACATTTAT
* * * * *
18988487 CACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
18988552 AATTGATCAGATAAGTGTAGCTAAAGCTAC
66 AATTGATCAGATAAGTGTAGCTAAAGCTAC
18988582 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
* *
18988647 CATTGATTAGATAAGTGTAGCTAAAGCTAC
66 AATTGATCAGATAAGTGTAGCTAAAGCTAC
*
18988677 CACTTATCACTTGTTACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
18988702 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 112 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (95 bp):
CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
AATTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:19006775 original size:33 final size:33
Alignment explanation
Indices: 19006733--19006797 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
19006723 AAAAACACTT
19006733 CTGGAGCAATGTATCCAGCAGTTCCTCTAGCAC
1 CTGGAGCAATGTATCCAGCAGTTCCTCTAGCAC
19006766 CTGGAGCAATGTATCCAGCAGTTCCTCTAGCA
1 CTGGAGCAATGTATCCAGCAGTTCCTCTAGCA
19006798 GTTCCTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
CTGGAGCAATGTATCCAGCAGTTCCTCTAGCAC
Found at i:19013794 original size:17 final size:17
Alignment explanation
Indices: 19013767--19013799 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
19013757 AAAGTTTAGG
19013767 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
19013785 GGGG-AATAAAAGTTT
1 GGGGAAATAAAAGTTT
19013800 GAGGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:19020821 original size:16 final size:16
Alignment explanation
Indices: 19020802--19020832 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19020792 CTATCTTCGT
19020802 TTTCATTTTCCTTCTC
1 TTTCATTTTCCTTCTC
19020818 TTTCATTTTCCTTCT
1 TTTCATTTTCCTTCT
19020833 ATCTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCATTTTCCTTCTC
Found at i:19028844 original size:11 final size:11
Alignment explanation
Indices: 19028804--19028931 Score: 100
Period size: 11 Copynumber: 12.4 Consensus size: 11
19028794 ATAAATAACA
19028804 AAAAATTATTTT
1 AAAAA-TATTTT
*
19028816 -AAAA-A-TTA
1 AAAAATATTTT
19028824 AAAAAGTATTTT
1 AAAAA-TATTTT
19028836 AAAAATATTTT
1 AAAAATATTTT
19028847 --AAA-A--TT
1 AAAAATATTTT
* **
19028853 AAAAAAATTAA
1 AAAAATATTTT
19028864 AAAAAGTATTTT
1 AAAAA-TATTTT
19028876 AAAAATATTTT
1 AAAAATATTTT
19028887 AAAAATATTTT
1 AAAAATATTTT
19028898 --AAA-A-TTT
1 AAAAATATTTT
19028905 AAAAAGTATTTT
1 AAAAA-TATTTT
19028917 AAAAATATTTT
1 AAAAATATTTT
19028928 AAAA
1 AAAA
19028932 TTAAAAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 31
0.71 0.05 0.23
Matches are distributed among these distances:
6 2 0.02
7 3 0.03
8 7 0.07
9 15 0.16
11 44 0.47
12 23 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:19028907 original size:18 final size:19
Alignment explanation
Indices: 19028864--19028920 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 19
19028854 AAAAAATTAA
19028864 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTT--AAA-A-TTT
19028887 AAAAA-TATTTTAAAATTT
1 AAAAAGTATTTTAAAATTT
19028905 AAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAA
19028921 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.24
19 11 0.33
20 3 0.09
22 6 0.18
23 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAAAGTATTTTAAAATTT
Found at i:19028917 original size:30 final size:29
Alignment explanation
Indices: 19028873--19028940 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 29
19028863 AAAAAAGTAT
19028873 TTTAAAAATATTTTAAAAATATTTTAAAA
1 TTTAAAAATATTTTAAAAATATTTTAAAA
19028902 TTTAAAAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAA-TATTTTAAAAATATTTTAAAA
19028932 -TTAAAAATA
1 TTTAAAAATA
19028941 AATATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.05
29 15 0.39
30 21 0.55
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TTTAAAAATATTTTAAAAATATTTTAAAA
Found at i:19028932 original size:51 final size:49
Alignment explanation
Indices: 19028804--19028932 Score: 145
Period size: 51 Copynumber: 2.6 Consensus size: 49
19028794 ATAAATAACA
**
19028804 AAAAATTATTTT-AAAA-ATTAAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAA-TATTTTAAAAATATTTTAAAA-TATTTTAAAAATATTTTAAAATT
* **
19028853 AAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAATTT
1 AAAAATATTTTAAAAA-TATTTT-AAAATATTTTAAAAATATTTTAAAA-TT
19028905 AAAAAGTATTTTAAAAATATTTTAAAAT
1 AAAAA-TATTTTAAAAATATTTTAAAAT
19028933 TAAAAATAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
48 3 0.05
49 9 0.14
51 29 0.44
52 17 0.26
53 8 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (49 bp):
AAAAATATTTTAAAAATATTTTAAAATATTTTAAAAATATTTTAAAATT
Found at i:19038485 original size:16 final size:17
Alignment explanation
Indices: 19038461--19038493 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19038451 CATTTTTCAT
19038461 TTTTGTTATTTATTTTA
1 TTTTGTTATTTATTTTA
*
19038478 TTTT-TTATTTTTTTTA
1 TTTTGTTATTTATTTTA
19038494 AATCTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTGTTATTTATTTTA
Found at i:19039765 original size:15 final size:15
Alignment explanation
Indices: 19039747--19039796 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
19039737 TATTATTTTC
19039747 CTATTATTTATTATA
1 CTATTATTTATTATA
*
19039762 CTA-T-TTT-TTACA
1 CTATTATTTATTATA
19039774 CTATTATTTATTATA
1 CTATTATTTATTATA
19039789 CTTATTAT
1 C-TATTAT
19039797 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
14 4 0.14
15 8 0.28
16 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:19041835 original size:19 final size:20
Alignment explanation
Indices: 19041795--19041838 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
19041785 GTTTCTTTTG
* *
19041795 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
19041814 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
19041833 GCATTA
1 GCATTA
19041839 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:19045356 original size:25 final size:25
Alignment explanation
Indices: 19045322--19045373 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
19045312 ACTCCAAATT
19045322 TAAAGGTTGGAAATTTGGGAAGGAA
1 TAAAGGTTGGAAATTTGGGAAGGAA
19045347 TAAAGGTTGGAAATTTGGGAAGGAA
1 TAAAGGTTGGAAATTTGGGAAGGAA
19045372 TA
1 TA
19045374 GTCTAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.25
Consensus pattern (25 bp):
TAAAGGTTGGAAATTTGGGAAGGAA
Found at i:19046123 original size:86 final size:86
Alignment explanation
Indices: 19045978--19046327 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
19045968 AGTAAAAATT
* * * * *
19045978 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
19046043 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
19046064 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
19046129 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
19046150 GAATACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
19046215 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
19046236 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
19046301 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
19046323 GAAGA
1 GAAGA
19046328 TGGCAGATTT
Statistics
Matches: 245, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 224 0.91
87 21 0.09
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:19046165 original size:42 final size:42
Alignment explanation
Indices: 19046032--19046165 Score: 96
Period size: 42 Copynumber: 3.1 Consensus size: 42
19046022 GTTATCAGAT
*
19046032 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAATACAAAC
* * * * * * * * *
19046074 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGTTATCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAA--TA-CAAAC
19046118 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAATACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAATACAAAC
19046160 CTTGCC
1 CTTGCC
19046166 ACTCTCGTTT
Statistics
Matches: 63, Mismatches: 19, Indels: 20
0.62 0.19 0.20
Matches are distributed among these distances:
40 1 0.02
41 12 0.19
42 20 0.32
43 3 0.05
44 14 0.22
45 12 0.19
46 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAATACAAAC
Found at i:19046445 original size:46 final size:46
Alignment explanation
Indices: 19046383--19046810 Score: 140
Period size: 46 Copynumber: 9.4 Consensus size: 46
19046373 ATAATTCTAT
19046383 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
* * * ** * * *
19046429 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
*** * * ** *
19046475 CTCCCTG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAATTCTAT--
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGC
*
19046517 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
* * * ** * * *
19046563 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
* * * * * ** * * **
19046609 CTCCTTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TGC
* *
19046651 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAGGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTGC
* * * * * ** *
19046704 CTCCATGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAATTCTAT--
1 CTCCCTGT-ATTTGGCAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGC
19046748 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
*
19046794 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
19046811 CGAAGCAGAT
Statistics
Matches: 260, Mismatches: 85, Indels: 74
0.62 0.20 0.18
Matches are distributed among these distances:
41 4 0.02
42 17 0.07
43 24 0.09
44 19 0.07
45 64 0.25
46 99 0.38
47 2 0.01
52 16 0.06
53 11 0.04
54 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
Found at i:19046515 original size:134 final size:134
Alignment explanation
Indices: 19046275--19046684 Score: 732
Period size: 134 Copynumber: 3.1 Consensus size: 134
19046265 GCAGAGCTGG
* * *
19046275 TTGAAGATAT-CAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
19046339 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
19046404 ATAGA
130 ATAGA
19046409 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
19046474 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTATATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
19046539 TAGA
131 TAGA
19046543 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* * *
19046608 CCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
19046673 TAGA
131 TAGA
19046677 TTGAAGAT
1 TTGAAGAT
19046685 CAAGGATGGC
Statistics
Matches: 266, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 265 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:19046700 original size:95 final size:97
Alignment explanation
Indices: 19046586--19046781 Score: 360
Period size: 97 Copynumber: 2.0 Consensus size: 97
19046576 GCAGCGAAGC
19046586 AGATCAAAGATGGCAGATTTTACCTCC-T-TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
19046649 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
19046681 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
19046746 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
19046778 AGAT
1 AGAT
19046782 TGCAGATCTT
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 26 0.27
96 1 0.01
97 70 0.72
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (97 bp):
AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:19046741 original size:231 final size:229
Alignment explanation
Indices: 19046452--19046914 Score: 845
Period size: 231 Copynumber: 2.0 Consensus size: 229
19046442 GCAGCGAAGC
19046452 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
19046517 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* * *
19046582 AAGCAGATCAAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
19046647 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
19046681 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAATTCT
*
19046746 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
19046811 CGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
129 CGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
19046876 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
194 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
19046912 AGA
1 AGA
19046915 AGCAGATCTT
Statistics
Matches: 225, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
229 26 0.12
231 199 0.88
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:19046874 original size:134 final size:132
Alignment explanation
Indices: 19046681--19046958 Score: 414
Period size: 134 Copynumber: 2.1 Consensus size: 132
19046671 AATAGATTGA
* * * * *
19046681 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAAATTTTACCTCCA-CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
* *
19046746 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA-AGCAGATCTTGCCTTCATGTA-TTGGC-G
19046811 CGAAGC
127 CGAAGC
19046817 AGATCAAAGATGGCAAATTTTACCTCC-CTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAAATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
19046881 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAAGCAGATCTTGCCTTCATGTATTGGCGCGAA
*
19046946 GT
131 GC
*
19046948 AGATCGAAGAT
1 AGATCAAAGAT
19046959 AGTAGGTCCT
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
131 15 0.11
132 5 0.04
133 18 0.14
134 68 0.52
136 25 0.19
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGATCAAAGATGGCAAATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAAGCAGATCTTGCCTTCATGTATTGGCGCGAA
GC
Found at i:19047228 original size:46 final size:46
Alignment explanation
Indices: 19047166--19047593 Score: 149
Period size: 46 Copynumber: 9.4 Consensus size: 46
19047156 ATAATTCTAT
19047166 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
* * * ** * * *
19047212 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
*** * * ** *
19047258 CTCCCTG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAATTCTAT--
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGC
*
19047300 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
* * * ** * * *
19047346 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
* * * * ** * * **
19047392 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TGC
* *
19047434 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAGGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTGC
* * * * * ** *
19047487 CTCCATGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAATTCTAT--
1 CTCCCTGT-ATTTGGCAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGC
19047531 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
*
19047577 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
19047594 CGAAGCAGAT
Statistics
Matches: 262, Mismatches: 83, Indels: 74
0.63 0.20 0.18
Matches are distributed among these distances:
41 4 0.02
42 18 0.07
43 24 0.09
44 19 0.07
45 64 0.24
46 100 0.38
47 2 0.01
52 16 0.06
53 11 0.04
54 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
Found at i:19047298 original size:134 final size:134
Alignment explanation
Indices: 19047058--19047467 Score: 741
Period size: 134 Copynumber: 3.1 Consensus size: 134
19047048 GCAGAGCTGG
* * *
19047058 TTGAAGATAT-CAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
19047122 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
19047187 ATAGA
130 ATAGA
19047192 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
19047257 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTATATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
19047322 TAGA
131 TAGA
19047326 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
19047391 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
19047456 TAGA
131 TAGA
19047460 TTGAAGAT
1 TTGAAGAT
19047468 CAAGGATGGC
Statistics
Matches: 267, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 266 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:19047454 original size:45 final size:45
Alignment explanation
Indices: 19047403--19047562 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 45
19047393 TCCCTGACTA
* *
19047403 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* * * * * * *
19047448 CAGTGGAATAGATTGAAGATCAAGGATGGCAGATTTTACCTCCATGTGA-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGT-ATTTGG
*
19047500 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
*
19047545 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
19047563 ATTGCAGATC
Statistics
Matches: 85, Mismatches: 19, Indels: 22
0.67 0.15 0.17
Matches are distributed among these distances:
43 1 0.01
44 13 0.15
45 33 0.39
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.20
53 12 0.14
54 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:19047483 original size:95 final size:96
Alignment explanation
Indices: 19047369--19047564 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 96
19047359 GCAGCGAAGC
19047369 AGATCAAAGATGGCAGATTTTACCTCC-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
19047433 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
19047464 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
19047529 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
19047561 AGAT
1 AGAT
19047565 TGCAGATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 26 0.27
97 70 0.73
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:19047524 original size:231 final size:229
Alignment explanation
Indices: 19047235--19047697 Score: 845
Period size: 231 Copynumber: 2.0 Consensus size: 229
19047225 GCAGCGAAGC
19047235 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
19047300 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
19047365 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
19047430 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
19047464 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAATTCT
*
19047529 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
19047594 CGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
129 CGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
*
19047659 TTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
194 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
19047695 AGA
1 AGA
19047698 AGCAGATCTT
Statistics
Matches: 225, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
229 26 0.12
231 199 0.88
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTATATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Done.