Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 270 of 349
Found at i:90220425 original size:46 final size:46
Alignment explanation
Indices: 90220152--90220424 Score: 395
Period size: 46 Copynumber: 5.9 Consensus size: 46
90220142 TTTGACATGA
* * * * *
90220152 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
90220198 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
90220244 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
90220290 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
90220336 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
90220382 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
90220425 GAGAGTACAC
Statistics
Matches: 215, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 211 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:90222571 original size:11 final size:11
Alignment explanation
Indices: 90222555--90222602 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
90222545 CTTTATATAC
90222555 TAATAAAATAA
1 TAATAAAATAA
90222566 TAATAAAATATA
1 TAATAAAATA-A
* *
90222578 TTATTAAAATAT
1 -TAATAAAATAA
90222590 TAATAAAATAA
1 TAATAAAATAA
90222601 TA
1 TA
90222603 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:90222585 original size:24 final size:24
Alignment explanation
Indices: 90222549--90222604 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
90222539 TTCTTTCTTT
*
90222549 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
90222573 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
90222597 ATAATATT
1 AT-ATATT
90222605 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:90227532 original size:13 final size:14
Alignment explanation
Indices: 90227516--90227551 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
90227506 CAATCTCATA
90227516 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
90227529 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
90227542 TCTC-ATTTCA
1 TCTCAATTTCA
90227552 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:90227534 original size:26 final size:25
Alignment explanation
Indices: 90227496--90227558 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
90227486 AACCTTTTGG
*
90227496 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
90227523 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
90227548 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
90227559 AGTTCGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:90227541 original size:18 final size:19
Alignment explanation
Indices: 90227503--90227543 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
90227493 TGGTTCATAT
90227503 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
90227522 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
90227540 TTTC
1 TTTC
90227544 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:90227787 original size:23 final size:23
Alignment explanation
Indices: 90227706--90227791 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
90227696 CTGATCAGAG
*
90227706 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
90227728 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
90227748 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
90227771 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
90227792 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:90228188 original size:15 final size:15
Alignment explanation
Indices: 90228163--90228220 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
90228153 TCATATATAT
90228163 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
90228179 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
90228194 AATAATTTCAATCAA
1 TATAAATTCAATCAA
90228209 TATAAATTCAAT
1 TATAAATTCAAT
90228221 AAAACAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:90228205 original size:30 final size:28
Alignment explanation
Indices: 90228166--90228224 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
90228156 TATATATTAT
90228166 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
90228195 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
90228224 A
1 A
90228225 CAAATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:90229177 original size:13 final size:13
Alignment explanation
Indices: 90229159--90229186 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
90229149 CCTCTTTTTA
90229159 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
90229172 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
90229185 TT
1 TT
90229187 TATATATATA
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:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:90232260 original size:44 final size:42
Alignment explanation
Indices: 90232186--90232307 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
90232176 AATGACGAAT
* * * *
90232186 CTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAA-C
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAG-CA-CAAGC
* * *
90232230 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCACAAGT
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGCACAAGC
*
90232273 CTTATCTCCCTGAAGTTGCGGTGAAGCAGATTGAA
1 CTTATCTCCCTGAAGTTGCAGTG-AGCAGATTGAA
90232308 TATGCGAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.05
43 32 0.49
44 30 0.46
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTGCAGTGAGCAGATTGAAGCACAAGC
Found at i:90232350 original size:87 final size:88
Alignment explanation
Indices: 90232185--90232358 Score: 194
Period size: 87 Copynumber: 2.0 Consensus size: 88
90232175 TAATGACGAA
*
90232185 TCTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
* *
90232250 GTAGAGCAGATTAAAGC-ACAAG
66 GTAGAACAAATTAAAGCTACAAG
* * * * *
90232272 TCTTATCTCCCTGAAGTTGCGGT-GAAGCAGATTGAA-T-ATGCGAATCTTATTTCCTTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTGGAA-CAGATTGAAGTCA-G-GAACCTTATCTCCCTGAAGTT
** *
90232334 GTAGTGGAACAAATTAAAGCTACAA
63 ACAGTAGAACAAATTAAAGCTACAA
90232359 ATTACAAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.01
86 5 0.07
87 62 0.86
88 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
GTAGAACAAATTAAAGCTACAAG
Found at i:90232641 original size:51 final size:51
Alignment explanation
Indices: 90232554--90232663 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
90232544 TGAAGATGCT
* * * * *
90232554 AATCTTTTTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
*
90232605 AGTCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
90232656 AATCTTAT
1 AATCTTAT
90232664 CTTTCTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (51 bp):
AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
Found at i:90232770 original size:44 final size:44
Alignment explanation
Indices: 90232707--90233736 Score: 306
Period size: 44 Copynumber: 22.6 Consensus size: 44
90232697 ATCATGGCAA
* *
90232707 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * *
90232751 ATCTTATC-CTCTTGAAGTTGCAGTGAAGTAGATTGAAGTTACAG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* *
90232795 ATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGATATAAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAT-AG
* * * * * * * * ** *
90232840 ATATCATCTCTCTGAAGTTACAATAGAGTAGGTTAAATTTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * * *
90232884 ACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAG-T-TACG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATA-G
* * * * * ***
90232927 AGTCTTATCTCCCTAAAGTTGCAATTGAGCAGATTAAAGATGGCG
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * ** *
90232972 ATTCTTATTTTCCTGAAGTTGCAGTGGAACAAGATT-AATGATACAAATGGAAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGG-AGTAGATTGAA-GAT----AT---AG
* ** * * *
90233025 ATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * * **
90233069 ATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATCAAAGATAGT-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-TAG
* * * * *
90233113 AATCTTATTTCCCTGAAGTTGCAGTGGAATATA-TCAAGCTACAAGTAATAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-----A-T-ATAG
* * * * * ** * * *
90233164 ATCCTATAC-CTCTGAAGTTGTAGT-AAGTCGGATCAAATCTACCATTGCG
1 ATCTTAT-CTCCCTGAAGTTGCAGTGGAGT-AGATTGAA--GA-TA-T-AG
* **
90233213 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACTA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGG-AGTAGATTGAAGATA-TAG
* * * * * *
90233258 ATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT-TGAAGAT--ATAG
* ** * * * * * *
90233304 ACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGTTAAAAATAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT---ATAG
* * * * *
90233351 ATCTTATCTCTCTGAAGTTGCAGTGTAGAAGATTGAAGACAGGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG--A---TATAG
* * * * ** * *
90233400 ATCTTATCTCCCTGAAGTTGTAGTAGAGAAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * *
90233444 ATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-TAG
** * * * * *
90233489 ATCTTATCTATCTGAAGTTACAGTAGAGCAGATT-AAGGCTACA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-GATATAG
* * * * * * *
90233532 AACATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGCAA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-TAG
* * * * * * *
90233578 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * ** * * * *
90233622 ACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
* * * *
90233666 ATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTGAAGATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-ATAG
*
90233711 ATCTTATAC-CCCTGAAGTTGTAGTGG
1 ATCTTAT-CTCCCTGAAGTTGCAGTGG
90233737 GTTAGTTTGA
Statistics
Matches: 741, Mismatches: 187, Indels: 115
0.71 0.18 0.11
Matches are distributed among these distances:
42 2 0.00
43 9 0.01
44 336 0.45
45 180 0.24
46 46 0.06
47 42 0.06
48 2 0.00
49 42 0.06
50 45 0.06
51 11 0.01
52 25 0.03
53 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATAG
Found at i:90232920 original size:89 final size:88
Alignment explanation
Indices: 90232704--90232921 Score: 233
Period size: 89 Copynumber: 2.5 Consensus size: 88
90232694 GTTATCATGG
* * * * *
90232704 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAGATCTTATCCTCTTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATATCATCCTCTTGAAGT
* * *
90232769 TGCAGTGAAGTAGATTGAAGTTA
66 TACAATGAAGTAGATTAAAGTTA
* * * *
90232792 CAGATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGATATAAAATATCAT-CTCTCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAT-AAATATCATCCTCT-TGAA
* *
90232856 GTTACAAT-AGAGTAGGTTAAATTTA
64 GTTACAATGA-AGTAGATTAAAGTTA
* * * *
90232881 TAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
90232922 TTACGAGTCT
Statistics
Matches: 107, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 46 0.43
89 61 0.57
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (88 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATATCATCCTCTTGAAGT
TACAATGAAGTAGATTAAAGTTA
Found at i:90233074 original size:141 final size:141
Alignment explanation
Indices: 90232886--90233141 Score: 359
Period size: 141 Copynumber: 1.8 Consensus size: 141
90232876 ATTTATAAAC
* * * *
90232886 CTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTAAAGTTGCAA
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* * * * *
90232951 TTGAGCAGATTAAAGATGGCGATTCTTATTTTCCTGAAGTTGCAGTGGAACAAGATTAATGATAC
66 TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATAC
90233016 AAATGGAAAAT
131 AAATGGAAAAT
* * * * * *
90233027 CTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTATAAATCTTATCTCTCTAAAGTTGTAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* *
90233092 TAGAGTAGATCAAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAA
66 TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAA
90233142 TATATCAAGC
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
141 98 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (141 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATAC
AAATGGAAAAT
Found at i:90233367 original size:47 final size:46
Alignment explanation
Indices: 90233257--90233372 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 46
90233247 TGAAGCCACT
* **
90233257 AATCTTATCTCCCTGAAGTTACAGTGGAGCAATATAAAAATAAACA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAACA
* *
90233303 AACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGT-TAAAAATAAAACA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCA-ATATAAAAAT-AAACA
*
90233350 AATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
90233373 GTGTAGAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 34 0.56
47 27 0.44
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (46 bp):
AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAACA
Found at i:90233533 original size:89 final size:89
Alignment explanation
Indices: 90233213--90233736 Score: 434
Period size: 89 Copynumber: 5.8 Consensus size: 89
90233203 TACCATTGCG
* * * * * *
90233213 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACTAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCTACAAATCTTATCTCCTTGAAGTT
* * * * *
90233277 ACAGTGGAGCA-ATATAAAAATAAACA
65 GCAGTGGAGTAGAT-TGAAGAT-AGCA
* * * **
90233303 AACCTTATCTCCCTGAAGTTGCA-AAGGAGCAGGTTAAAAATAAAACAAATCTTATCT-CTCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATTAAAGCT---ACAAATCTTATCTCCT-TGA
* * *
90233366 AGTTGCAGTGTAGAAGATTGAAGACAGGCTACA
61 AGTTGCAGTGGAGTAGATTGAAGATA-G---CA
* * *
90233399 AATCTTATCTCCCTGAAGTTGTAGTAGAGAAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCTTGAAGTTG
*
90233464 CAATGGAGTAGATTGAAGATAGCA
66 CAGTGGAGTAGATTGAAGATAGCA
** * * *
90233488 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTACAAA-CATTATCTCCTTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATC-TTATCTCCTTGAAGTT
* *
90233552 GCAGTAGAGTAGATTAAAGATAGCA
65 GCAGTGGAGTAGATTGAAGATAGCA
* * * *
90233577 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTT-AAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTC-CTTGAAGTT
** * *
90233641 GCAGTGGAGCGGGTTGAAGCTA-CA
65 GCAGTGGAGTAGATTGAAGATAGCA
* * * * * * *
90233665 AATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTGAAGATAACAAATCTTATAC-CCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCT-ACAAATCTTAT-CTCCTTGAAGT
*
90233729 TGTAGTGG
64 TGCAGTGG
90233737 GTTAGTTTGA
Statistics
Matches: 352, Mismatches: 63, Indels: 39
0.78 0.14 0.09
Matches are distributed among these distances:
88 38 0.11
89 170 0.48
90 34 0.10
92 3 0.01
93 69 0.20
94 4 0.01
96 33 0.09
97 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCTTGAAGTTG
CAGTGGAGTAGATTGAAGATAGCA
Found at i:90233628 original size:133 final size:133
Alignment explanation
Indices: 90233243--90233730 Score: 407
Period size: 133 Copynumber: 3.6 Consensus size: 133
90233233 GCAATGGAAG
* * * * * * *
90233243 AGATTGAA-GCCACTAATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAACAAAC
1 AGATTGAAGGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT-TAAAGAT--ACAAAT
* * * * *
90233306 CTTATCTCCCTGAAGTTGCAA-AGGAGCAGGTTAAAAATAAAACAAATCTTATCTCTCTGAAGTT
63 CTTATCT-CCTGAAGTTGCAATA-GAGCAGATTAAAGAT--AGCAAACCTTATCTATCTGAAGTT
* *
90233370 GCAGT-GTAGA
124 ACAGTAG-AGC
* * **
90233380 AGATTGAAGACAGGCTACAAATCTTATCTCCCTGAAGTTGTAGTAGAGAAGATTAAAGCCACAAA
1 AGATT---GA-AGGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATACAAA
* * * *
90233445 TCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGCAAATCTTATCTATCTGAAGTTAC
62 TCTTATCTCC-TGAAGTTGCAATAGAGCAGATTAAAGATAGCAAACCTTATCTATCTGAAGTTAC
90233510 AGTAGAGC
126 AGTAGAGC
* * *
90233518 AGATT-AAGGCTACAAA-CATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGCAAACC
1 AGATTGAAGGCTACAAATC-TTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATA-CAAATC
* * * * * *
90233581 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TAAACCTTATCTCTCTTAAGTTGCAG
64 TTATCTC-CTGAAGTTGCAATAGAGCAGATTAAAGATAGCAAACCTTATCTATCTGAAGTTACAG
*
90233645 TGGAGC
128 TAGAGC
* * * * * *
90233651 GGGTTGAA-GCTACAAATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTGAAGATAACAAATCT
1 AGATTGAAGGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGAT-ACAAATCT
*
90233715 TATACCCCTGAAGTTG
65 TAT-CTCCTGAAGTTG
90233731 TAGTGGGTTA
Statistics
Matches: 288, Mismatches: 47, Indels: 36
0.78 0.13 0.10
Matches are distributed among these distances:
132 1 0.00
133 128 0.44
134 43 0.15
135 1 0.00
137 5 0.02
138 33 0.11
139 3 0.01
140 36 0.12
141 1 0.00
142 35 0.12
143 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (133 bp):
AGATTGAAGGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATACAAATCTT
ATCTCCTGAAGTTGCAATAGAGCAGATTAAAGATAGCAAACCTTATCTATCTGAAGTTACAGTAG
AGC
Found at i:90238175 original size:5 final size:6
Alignment explanation
Indices: 90238159--90238184 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90238149 CCATTCTATT
90238159 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
90238185 CATTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:90238223 original size:18 final size:18
Alignment explanation
Indices: 90238200--90238245 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
90238190 TCTTTCTTTT
*
90238200 TTTCTTCTTCGTTATTTC
1 TTTCTTCTCCGTTATTTC
* *
90238218 TTTCTTCTCCTTTCTTTC
1 TTTCTTCTCCGTTATTTC
90238236 TTTCTTCTCC
1 TTTCTTCTCC
90238246 CTCTTTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTCTTCTCCGTTATTTC
Found at i:90238239 original size:22 final size:22
Alignment explanation
Indices: 90238188--90238241 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
90238178 AAAAATACAT
* *
90238188 TTTCTTTCTTTTTTTCTTCTTC
1 TTTCTTTCTTTTTCTCCTCTTC
* *
90238210 GTTATTTCTTTCTTCTCCT-TTC
1 TTTCTTTCTTT-TTCTCCTCTTC
90238232 TTTCTTTCTT
1 TTTCTTTCTT
90238242 CTCCCTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTCTTTTTCTCCTCTTC
Found at i:90238366 original size:27 final size:27
Alignment explanation
Indices: 90238336--90238408 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
90238326 TAATACCCTG
*
90238336 GTGCCACCTATCAAATAGGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
* *
90238363 GTGCCGCCTACCAAATAAGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
*
90238390 GTGCCGCCTATCAGATAGG
1 GTGCCGCCTATCAAATAGG
90238409 CAACACACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATCAAATAGGGGTCACCA
Found at i:90248185 original size:50 final size:51
Alignment explanation
Indices: 90248121--90248235 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
90248111 ATATCACCTT
* *
90248121 AATTTTATATAAAAATTATAAAA-AAAATCGAAACTATTTAAAAGCTAGAA
1 AATTCTATATAAAAATTATAAAATAAAATCGAAACTATTTAAAAACTAGAA
*
90248171 AATTCTATATAAAAATTATAAAATAAAATCGAAACTGTTTAAAAACTAGAA
1 AATTCTATATAAAAATTATAAAATAAAATCGAAACTATTTAAAAACTAGAA
90248222 AATTCTA-A-AAAAAT
1 AATTCTATATAAAAAT
90248236 ATATCGAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
49 6 0.10
50 23 0.38
51 32 0.52
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (51 bp):
AATTCTATATAAAAATTATAAAATAAAATCGAAACTATTTAAAAACTAGAA
Found at i:90255460 original size:83 final size:81
Alignment explanation
Indices: 90255367--90255585 Score: 196
Period size: 83 Copynumber: 2.6 Consensus size: 81
90255357 AAAAATAGTG
*
90255367 TGAAATAAATAAATA-AA-TTATCCAAT-TA-TCCAATTATTAAAGAAATAAAATT-TTCAATTA
1 TGAAATAAATAAATATAAGTTAT--AATATAGTCCAA--AGTAAAGAAAT-AAATTATTCAATTA
90255427 TTATATAGTGTAAAATAAATGTT
61 -T-TATAGTGTAAAATAAATGTT
* ** *
90255450 TGAAATAAATAAAGTATTAAGTTATTATATAGTGTAAAGTAAATAAATAAATTATTCAATTATTA
1 TGAAATAAATAAA-TA-TAAGTTATAATATAGTCCAAAGTAAAGAAATAAATTATTCAATTATTA
90255515 TAGTGTAAAATAAATGTT
64 TAGTGTAAAATAAATGTT
* * * ** *
90255533 TTAAATAAATAAATTATTAAATTATTATATAGTATAAAGTAAATAAATTAAAT
1 TGAAATAAATAAA-TA-TAAGTTATAATATAGTCCAAAGTAAAGAAA-TAAAT
90255586 AAACAAATTA
Statistics
Matches: 119, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
83 76 0.64
84 13 0.11
85 19 0.16
86 4 0.03
87 7 0.06
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (81 bp):
TGAAATAAATAAATATAAGTTATAATATAGTCCAAAGTAAAGAAATAAATTATTCAATTATTATA
GTGTAAAATAAATGTT
Found at i:90255475 original size:47 final size:46
Alignment explanation
Indices: 90255403--90255623 Score: 241
Period size: 47 Copynumber: 5.0 Consensus size: 46
90255393 TATCCAATTA
*
90255403 TTAAAGAAATAAAATT-TTCAATTATTATATAGTGTAAAATAAATGT
1 TTAAATAAAT-AAATTATTCAATTATTATATAGTGTAAAATAAATGT
*
90255449 TTGAAATAAATAAAGTATT-AAGTTATTATATAGTG-----TAAA-G-
1 TT-AAATAAATAAATTATTCAA-TTATTATATAGTGTAAAATAAATGT
90255489 -TAAATAAATAAATTATTCAATTA-T-TATAGTGTAAAATAAATGTT
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATG-T
* * * **
90255533 TTAAATAAATAAATTATTAAATTATTATATAGTATAAAGTAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAAT-GT
*
90255580 TTAAATAAACAAATTATTCAATTATTATATAGTGTAAAATAAAT
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAAT
90255624 AAATAAATTA
Statistics
Matches: 147, Mismatches: 12, Indels: 31
0.77 0.06 0.16
Matches are distributed among these distances:
36 7 0.05
37 1 0.01
38 18 0.12
39 3 0.02
41 5 0.03
42 5 0.03
45 22 0.15
46 9 0.06
47 77 0.52
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (46 bp):
TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATGT
Found at i:90255497 original size:38 final size:37
Alignment explanation
Indices: 90255452--90255635 Score: 136
Period size: 38 Copynumber: 4.4 Consensus size: 37
90255442 TAAATGTTTG
* *
90255452 AAATAAATAAAGTATTAAGTTATTATATAGTGTAAAGT
1 AAATAAATAAATTATTAA-TTATTATATAGTATAAAGT
90255490 AAATAAATAAATTATTCAATTATTATAGT-GTAAAATAAATGTTTT
1 AAATAAATAAATTATT-AATTATTATA-TAGT---ATAAA-G---T
90255535 AAATAAATAAATTATTAAATTATTATATAGTATAAAGTAAAT
1 AAATAAATAAATTATT-AATTATTATATAGTATAAAG----T
* *
90255577 AAATTAAATAAACAAATTATTCAATTATTATATAGTGTAAAAT
1 AAA-TAAAT----AAATTATT-AATTATTATATAGTATAAAGT
90255620 AAATAAATAAATTATT
1 AAATAAATAAATTATT
90255636 CAACAAATTG
Statistics
Matches: 121, Mismatches: 9, Indels: 32
0.75 0.06 0.20
Matches are distributed among these distances:
38 33 0.27
39 3 0.02
41 5 0.04
42 15 0.12
43 9 0.07
44 1 0.01
45 29 0.24
47 26 0.21
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (37 bp):
AAATAAATAAATTATTAATTATTATATAGTATAAAGT
Found at i:90255605 original size:130 final size:130
Alignment explanation
Indices: 90255403--90255638 Score: 343
Period size: 130 Copynumber: 1.8 Consensus size: 130
90255393 TATCCAATTA
* * ** *
90255403 TTAAAGAAATAAAATTTTCAATTATTATATAGTGTAAAATAAATGTTTGAAATAAATAAAGTATT
1 TTAAAGAAATAAAATTTTAAATTATTATATAGTATAAAATAAATAATTGAAATAAACAAAGTATT
*
90255468 AAGTTATTATATAGTGTAAAGTAAATAAATAAATTATTCAATTATTATAGTGTAAAATAAATGTT
66 AAGTTATTATATAGTGTAAAATAAATAAATAAATTATTCAATTATTATAGTGTAAAATAAATGTT
* * *
90255533 TTAAATAAAT-AAATTATTAAATTATTATATAGTATAAAGTAAATAAATT-AAATAAACAAATTA
1 TTAAAGAAATAAAATT-TTAAATTATTATATAGTATAAAATAAAT-AATTGAAATAAACAAAGTA
90255596 TTCAA-TTATTATATAGTGTAAAATAAATAAATAAATTATTCAA
64 TT-AAGTTATTATATAGTGTAAAATAAATAAATAAATTATTCAA
90255639 CAAATTGAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
129 5 0.05
130 85 0.90
131 4 0.04
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (130 bp):
TTAAAGAAATAAAATTTTAAATTATTATATAGTATAAAATAAATAATTGAAATAAACAAAGTATT
AAGTTATTATATAGTGTAAAATAAATAAATAAATTATTCAATTATTATAGTGTAAAATAAATGTT
Found at i:90258270 original size:15 final size:15
Alignment explanation
Indices: 90258250--90258284 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
90258240 AGGATCTACA
90258250 TAATTTTGATTTTTT
1 TAATTTTGATTTTTT
90258265 TAATTTTGATTTTTT
1 TAATTTTGATTTTTT
90258280 TAATT
1 TAATT
90258285 ATTTATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TAATTTTGATTTTTT
Found at i:90258460 original size:12 final size:12
Alignment explanation
Indices: 90258427--90258464 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
90258417 TACAAAACTA
90258427 ATATACGAAAAT
1 ATATACGAAAAT
*
90258439 ATATA-AAAAAT
1 ATATACGAAAAT
*
90258450 TTATACGAAAAT
1 ATATACGAAAAT
90258462 ATA
1 ATA
90258465 AAATTCGATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (12 bp):
ATATACGAAAAT
Found at i:90262381 original size:18 final size:18
Alignment explanation
Indices: 90262358--90262392 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90262348 TTAAATTTTT
*
90262358 CAAAAATTACATAAAATG
1 CAAAAAATACATAAAATG
*
90262376 CAAAAAATATATAAAAT
1 CAAAAAATACATAAAAT
90262393 AAAAAAATTC
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:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (18 bp):
CAAAAAATACATAAAATG
Found at i:90262731 original size:7 final size:8
Alignment explanation
Indices: 90262700--90262733 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
90262690 ATTTTCCCAA
90262700 AATTTTCTT
1 AATTTT-TT
90262709 AAATTTTTT
1 -AATTTTTT
90262718 AATTTTTT
1 AATTTTTT
90262726 AATTTTTT
1 AATTTTTT
90262734 GTATTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 2 0.08
10 6 0.25
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (8 bp):
AATTTTTT
Found at i:90263966 original size:21 final size:21
Alignment explanation
Indices: 90263940--90263981 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
90263930 ATATACTATA
90263940 AATAAAATAGATAAATCAATT
1 AATAAAATAGATAAATCAATT
*
90263961 AATAAAATATATAAATCAATT
1 AATAAAATAGATAAATCAATT
90263982 CTAATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATAGATAAATCAATT
Found at i:90265856 original size:21 final size:21
Alignment explanation
Indices: 90265826--90265879 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
90265816 TATATATATA
*
90265826 TATATAAATTTTTAAATATTT-
1 TATAT-AATTTTTAAAAATTTC
90265847 TATATGAA-TTTTAAAAATTTC
1 TATAT-AATTTTTAAAAATTTC
*
90265868 TAAATAATTTTT
1 TATATAATTTTT
90265880 TTTACTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATAATTTTTAAAAATTTC
Found at i:90265876 original size:20 final size:20
Alignment explanation
Indices: 90265835--90265878 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
90265825 ATATATAAAT
* *
90265835 TTTTAAATATTTTATATGAA
1 TTTTAAAAATTTTAAATGAA
90265855 TTTTAAAAATTTCTAAAT-AA
1 TTTTAAAAATTT-TAAATGAA
90265875 TTTT
1 TTTT
90265879 TTTTACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTAAAAATTTTAAATGAA
Found at i:90266764 original size:25 final size:25
Alignment explanation
Indices: 90266727--90266796 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
90266717 TTAGGTTATT
* **
90266727 ATTTTAAATATATGTAAAATATA-A
1 ATTTTAAAAATATAAAAAATATACA
90266751 ATTTATAAAAATATAAAAAATATACA
1 ATTT-TAAAAATATAAAAAATATACA
*
90266777 A-TTAAAAATATATAAAAAAT
1 ATTTTAAAA-ATATAAAAAAT
90266797 CTTTTAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 8 0.21
25 29 0.74
26 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
ATTTTAAAAATATAAAAAATATACA
Found at i:90266822 original size:8 final size:8
Alignment explanation
Indices: 90266811--90266871 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 8
90266801 TAGTATTTTG
90266811 AAAAATAT
1 AAAAATAT
90266819 AAAATATAT
1 AAAA-ATAT
*
90266828 AAATTAATAA
1 AAA--AATAT
90266838 AAAAATTAT
1 AAAAA-TAT
*
90266847 AAAATTAT
1 AAAAATAT
90266855 AACAAATAT
1 AA-AAATAT
*
90266864 AAATATAT
1 AAAAATAT
90266872 GAAAGAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
8 16 0.37
9 20 0.47
10 6 0.14
11 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:90266841 original size:19 final size:20
Alignment explanation
Indices: 90266814--90266864 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
90266804 TATTTTGAAA
*
90266814 AATATAAAATATAT-AAATT
1 AATAAAAAATATATAAAATT
90266833 AATAAAAAA-ATTATAAAATT
1 AATAAAAAATA-TATAAAATT
*
90266853 -ATAACAAATATA
1 AATAAAAAATATA
90266865 AATATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 20 0.74
20 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAAAAATATATAAAATT
Found at i:90267001 original size:18 final size:17
Alignment explanation
Indices: 90266975--90267009 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90266965 ATGTAAAAAC
*
90266975 TTTTTATATTTTTATTAA
1 TTTTCATATTTTT-TTAA
90266993 TTTTCATATTTTTTTAA
1 TTTTCATATTTTTTTAA
90267010 AATTTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTCATATTTTTTTAA
Found at i:90267015 original size:18 final size:18
Alignment explanation
Indices: 90266980--90267018 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90266970 AAAACTTTTT
*
90266980 ATATTTTTATTAATTTTC
1 ATATTTTTATTAAATTTC
90266998 ATATTTTT-TTAAAATTTC
1 ATATTTTTATT-AAATTTC
90267016 ATA
1 ATA
90267019 ATAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTTATTAAATTTC
Found at i:90277711 original size:20 final size:20
Alignment explanation
Indices: 90277686--90277735 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
90277676 TGGCTTAAAA
90277686 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
90277706 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
90277723 GTGGTAGTGGATT
1 TTGGTAGTGGATT
90277736 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:90282340 original size:20 final size:20
Alignment explanation
Indices: 90282315--90282364 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
90282305 TGGCTTAAAA
90282315 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
90282335 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
90282352 GTGGTAGTGGATT
1 TTGGTAGTGGATT
90282365 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:90286457 original size:35 final size:35
Alignment explanation
Indices: 90286324--90286453 Score: 172
Period size: 35 Copynumber: 3.7 Consensus size: 35
90286314 TTATGACACA
*
90286324 TAGGTATGGTATTATCCATGCTGAGCTATAATATG
1 TAGGTATGGTATTATCCATACTGAGCTATAATATG
* * *
90286359 TAGGTATGGTATTTTCCATACTGAGCAATAATACG
1 TAGGTATGGTATTATCCATACTGAGCTATAATATG
* * *
90286394 TAGGTATGGTATT-TCCCATACTGAGTTGTAAAATG
1 TAGGTATGGTATTAT-CCATACTGAGCTATAATATG
*
90286429 TAGGTATGGTATTAACCATACTGAG
1 TAGGTATGGTATTATCCATACTGAG
90286454 TTGTGAATTG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.01
35 82 0.99
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (35 bp):
TAGGTATGGTATTATCCATACTGAGCTATAATATG
Found at i:90287692 original size:48 final size:46
Alignment explanation
Indices: 90287617--90288032 Score: 293
Period size: 48 Copynumber: 8.9 Consensus size: 46
90287607 AGGGTGAATT
* *
90287617 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * * * * *
90287665 GCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCC-A-ACATGGTCTTACACTGGCTCACATATCAAG
* * * ***
90287713 GCTGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTG
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
* * * * * * *
90287759 GTCGAAGCTATGTACTAGACATGGTCTTACACTGGCTTA-AAATCAAC
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * * * ***
90287806 ACCGATGCTATGTCCAACATGGTTTTACACTGGCTCTCATATGGTG
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
90287852 GCCGACGCCATGTCCAACATAGTCTTACACTGGCTCACA-GTCAAT
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
* * * * *
90287897 GCTGATGCCATGTCCAACGTGGTCTTACACTAGCTCTCATAACATA-
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCA-AG
* * ***
90287943 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCAT-ACGAAAT-GTT
1 GCCGATGCCATG-TCC-AACATGGTCTTACACTGGC-TCAC-ATATCAAG
*
90287991 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACAT
90288033 GTCACCCCAA
Statistics
Matches: 286, Mismatches: 68, Indels: 29
0.75 0.18 0.08
Matches are distributed among these distances:
45 52 0.18
46 83 0.29
47 26 0.09
48 122 0.43
49 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:90287842 original size:93 final size:91
Alignment explanation
Indices: 90287618--90288028 Score: 304
Period size: 93 Copynumber: 4.4 Consensus size: 91
90287608 GGGTGAATTG
* * * *
90287618 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC-AATGCCATGTCCTA
1 CCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATGGTGGCCGAA-GCCATGTCC-A
* * **** **
90287682 GACATGGTCTTACACTAGCTCTCGTCTCAATG
62 -ACATAGTCTTACACTGGCTC-AAAATCAACA
* * * * *
90287714 CTGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGTCGAAGCTATGTACTAGAC
1 CCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGAAGCCATGT-CCA-AC
* *
90287779 ATGGTCTTACACTGGCTTAAAATCAACA
64 ATAGTCTTACACTGGCTCAAAATCAACA
* * *
90287807 CCGATGCTATGTCCAACATGGTTTTACACTGGCTCTCATATGGTGGCCGACGCCATGTCCAACAT
1 CCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGAAGCCATGTCCAACAT
* * **
90287872 AGTCTTACACTGGCTCACAGTCAATG
66 AGTCTTACACTGGCTCAAAATCAACA
* * * *** * *
90287898 CTGATGCCATGTCCAACGTGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTTCCAAAC
1 CCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGAAGCCATG-TCC-AAC
* * * ****
90287963 ATGGTCTTACACTAGCATACGAAAT-GTTG
64 ATAGTCTTACACTGGC-T-CAAAATCAACA
*
90287992 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 CCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTC
90288029 ACATGTCACC
Statistics
Matches: 257, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
91 71 0.28
92 5 0.02
93 72 0.28
94 68 0.26
95 12 0.05
96 29 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (91 bp):
CCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGAAGCCATGTCCAACAT
AGTCTTACACTGGCTCAAAATCAACA
Found at i:90287925 original size:91 final size:93
Alignment explanation
Indices: 90287620--90287975 Score: 369
Period size: 91 Copynumber: 3.8 Consensus size: 93
90287610 GTGAATTGCC
* * * * *
90287620 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCTAGAC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCAAGAC
* *
90287685 ATGGTCTTACACTAGCTCTC-GTCTCAATGCT
64 ATGGTCTTACACTGGCTCACAG--TCAATGCT
* * * * * * *
90287716 GAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGTCGAAGCTATGTACTAGACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCAAGACAT
* * * ** *
90287781 GGTCTTACACTGGCTTAAAATCAACACC
66 GGTCTTACACTGGCTCACAGTCAATGCT
* * * *
90287809 GATGCTATGTCCAACATGGTTTTACACTGGCTCTCATATGGTGGCCGACGCCATGTCC-A-ACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCAAGACAT
*
90287872 AGTCTTACACTGGCTCACAGTCAATGCT
66 GGTCTTACACTGGCTCACAGTCAATGCT
* * * * *
90287900 GATGCCATGTCCAACGTGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTTCCAA-ACA
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATG-TCCAAGACA
90287964 TGGTCTTACACT
65 TGGTCTTACACT
90287976 AGCATACGAA
Statistics
Matches: 215, Mismatches: 42, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
91 71 0.33
92 4 0.02
93 71 0.33
94 57 0.27
95 3 0.01
96 9 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCAAGACAT
GGTCTTACACTGGCTCACAGTCAATGCT
Found at i:90287967 original size:184 final size:188
Alignment explanation
Indices: 90287618--90288032 Score: 473
Period size: 184 Copynumber: 2.2 Consensus size: 188
90287608 GGGTGAATTG
* *
90287618 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAACGCCATGTCCTAG
* * *
90287683 ACATGGTCTTACACTAGCTCTCGTCTCAATGCTGAGGCCATGTCCAACATGGTCTTACACTGGCT
66 ACATAGTCTTACACTAGCTCACG-CTCAATGCTGAGGCCATGTCCAACATGGTCTTACACTAGCT
*** * * * * *
90287748 CTCATATGGTGGTCGAAGCTATGTACTAGACATGGTCTTACACTGGCTTAAAATCAACA
130 CTCATAACATAGCCGAAGCCATGTACCAAACATGGTCTTACACTGGCTTAAAATCAACA
* * * * * *
90287807 CCGATGCTATGT-CCA-ACATGGTTTTACACTGGCTCTCATATGGTGGCCGACGCCATGTCC-A-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAACGCCATGTCCTAG
* * *
90287868 ACATAGTCTTACACTGGCTCACAG-TCAATGCTGATGCCATGTCCAACGTGGTCTTACACTAGCT
66 ACATAGTCTTACACTAGCTCAC-GCTCAATGCTGAGGCCATGTCCAACATGGTCTTACACTAGCT
* * * * ****
90287932 CTCATAACATAGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCATACGAAAT-GTTG
130 CTCATAACATAGCCGAAGCCATGTACCAAACATGGTCTTACACTGGCTTA--AAATCAACA
*
90287992 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
90288033 GTCACCCCAA
Statistics
Matches: 187, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
184 75 0.40
185 30 0.16
186 9 0.05
187 59 0.32
188 3 0.02
189 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (188 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCAACGCCATGTCCTAG
ACATAGTCTTACACTAGCTCACGCTCAATGCTGAGGCCATGTCCAACATGGTCTTACACTAGCTC
TCATAACATAGCCGAAGCCATGTACCAAACATGGTCTTACACTGGCTTAAAATCAACA
Found at i:90292509 original size:40 final size:40
Alignment explanation
Indices: 90292464--90292544 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
90292454 ATGATGTGAT
90292464 TCTTGTTCTTTGAAAGTATGATCTATGATTTGCAAAATCA
1 TCTTGTTCTTTGAAAGTATGATCTATGATTTGCAAAATCA
90292504 TCTTGTTCTTTGAAAGTATGATCTATGATTTGCAAAATCA
1 TCTTGTTCTTTGAAAGTATGATCTATGATTTGCAAAATCA
90292544 T
1 T
90292545 ACATTATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (40 bp):
TCTTGTTCTTTGAAAGTATGATCTATGATTTGCAAAATCA
Found at i:90292527 original size:21 final size:21
Alignment explanation
Indices: 90292464--90292527 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
90292454 ATGATGTGAT
90292464 TCTTGTTCTTTGAAAGTATGA
1 TCTTGTTCTTTGAAAGTATGA
* *
90292485 TCTATG--ATTTGCAAA--ATCA
1 TCT-TGTTCTTTG-AAAGTATGA
90292504 TCTTGTTCTTTGAAAGTATGA
1 TCTTGTTCTTTGAAAGTATGA
90292525 TCT
1 TCT
90292528 ATGATTTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
18 2 0.06
19 9 0.27
20 8 0.24
21 12 0.36
22 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (21 bp):
TCTTGTTCTTTGAAAGTATGA
Found at i:90295483 original size:8 final size:8
Alignment explanation
Indices: 90295470--90295510 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
90295460 AATTCTTACT
90295470 ACAAAATA
1 ACAAAATA
90295478 ACAAAATA
1 ACAAAATA
*
90295486 ACAAAATC
1 ACAAAATA
90295494 ACAAAATA
1 ACAAAATA
90295502 ACAAAATA
1 ACAAAATA
90295510 A
1 A
90295511 TATATTAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (8 bp):
ACAAAATA
Found at i:90299225 original size:23 final size:23
Alignment explanation
Indices: 90299194--90299309 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 23
90299184 GAGATGATGG
**
90299194 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATCAAGCTGAA
*
90299217 ACAGAAAGCTCTGA-CAAGCTGAA
1 ACAGTAAGCTCT-ATCAAGCTGAA
90299240 ACAGTAAGCTC-ATACAAGCTGAGA
1 ACAGTAAGCTCTAT-CAAGCTGA-A
* *
90299264 ACAGTAAGCTCCAAT-GAGCTGAAA
1 ACAGTAAGCT-CTATCAAGCTG-AA
*
90299288 ATAGTAAGCTCT-TACAAGCTGA
1 ACAGTAAGCTCTAT-CAAGCTGA
90299310 TATATCGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 38 0.50
24 32 0.42
25 2 0.03
26 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (23 bp):
ACAGTAAGCTCTATCAAGCTGAA
Found at i:90299271 original size:24 final size:23
Alignment explanation
Indices: 90299210--90299309 Score: 105
Period size: 24 Copynumber: 4.3 Consensus size: 23
90299200 AGCTCTATTG
*
90299210 AGCTGAAACAGAAAGCTC-TGACA
1 AGCTGAAACAGTAAGCTCAT-ACA
90299233 AGCTGAAACAGTAAGCTCATACA
1 AGCTGAAACAGTAAGCTCATACA
**
90299256 AGCTGAGAACAGTAAGCTCCA-ATG
1 AGCTGA-AACAGTAAGCT-CATACA
* *
90299280 AGCTGAAAATAGTAAGCTCTTACA
1 AGCTG-AAACAGTAAGCTCATACA
90299304 AGCTGA
1 AGCTGA
90299310 TATATCGGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
23 28 0.43
24 34 0.52
25 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCATACA
Found at i:90301735 original size:19 final size:20
Alignment explanation
Indices: 90301713--90301755 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
90301703 ATTAATTTTT
*
90301713 AAAATTTTAAAAAAATT-TA
1 AAAATTATAAAAAAATTATA
*
90301732 AAAATTATATAAAAATTATA
1 AAAATTATAAAAAAATTATA
90301752 AAAA
1 AAAA
90301756 CACTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAAAATTATA
Found at i:90302199 original size:21 final size:20
Alignment explanation
Indices: 90302175--90302222 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
90302165 TTATTTTTAG
*
90302175 TTTTTTTTAAATTTAATCAAA
1 TTTTTTTT-AATGTAATCAAA
* *
90302196 TTTTATTTTTATGTATTCAAA
1 TTTT-TTTTAATGTAATCAAA
90302217 TTTTTT
1 TTTTTT
90302223 AATTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTTAATGTAATCAAA
Found at i:90302230 original size:18 final size:18
Alignment explanation
Indices: 90302177--90302245 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
90302167 ATTTTTAGTT
*
90302177 TTTTTTAAATTTAATCAAA
1 TTTTTT-AATTTATTCAAA
* *
90302196 TTTTATTTTTATGTATTCAAA
1 --TT-TTTTAATTTATTCAAA
**
90302217 TTTTTTAATTTATTTTAA
1 TTTTTTAATTTATTCAAA
90302235 TTTTTTAATTT
1 TTTTTTAATTT
90302246 CTAGACACCT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
18 23 0.57
19 2 0.05
21 11 0.28
22 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTTTAATTTATTCAAA
Found at i:90307992 original size:21 final size:20
Alignment explanation
Indices: 90307963--90308001 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
90307953 GTGCTTATTC
*
90307963 TATTTATATTAAAATTATTAA
1 TATTCATATT-AAATTATTAA
*
90307984 TATTCATATTTAATTATT
1 TATTCATATTAAATTATT
90308002 TTATATCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTCATATTAAATTATTAA
Found at i:90315091 original size:5 final size:5
Alignment explanation
Indices: 90315081--90315105 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90315071 TAGGTAATTT
90315081 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
90315106 GGATTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:90318816 original size:7 final size:7
Alignment explanation
Indices: 90318804--90318837 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
90318794 GAAATGATTG
90318804 CAATTTT
1 CAATTTT
90318811 CAATTTT
1 CAATTTT
90318818 CAATTTT
1 CAATTTT
90318825 CAATTTT
1 CAATTTT
90318832 CAATTT
1 CAATTT
90318838 AACATTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
CAATTTT
Found at i:90328576 original size:33 final size:33
Alignment explanation
Indices: 90328539--90328605 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
90328529 TAATGAAAGC
* *
90328539 AGCACTCGTGCTTAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
90328572 AGCACTCATGCATAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
90328605 A
1 A
90328606 CATTTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (33 bp):
AGCACTCATGCATAGTTTAAACAAATACACAGT
Found at i:90331855 original size:36 final size:37
Alignment explanation
Indices: 90331779--90331856 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
90331769 TAGAATAGTG
*
90331779 AAAATTTGGATTTTAGAGACTAAATTGTAAAAATTAT
1 AAAATTTGGATTTTAGAGACTAAATTGTAAAAACTAT
** *
90331816 AAAATTT-GATTTTCAGAGACTGTATTGT-AAAACTGT
1 AAAATTTGGATTTT-AGAGACTAAATTGTAAAAACTAT
90331852 AAAAT
1 AAAAT
90331857 CTAAAGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (37 bp):
AAAATTTGGATTTTAGAGACTAAATTGTAAAAACTAT
Found at i:90332380 original size:2 final size:2
Alignment explanation
Indices: 90332373--90332407 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90332363 TAGCTTTTGA
90332373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90332408 AAGCCCGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90347166 original size:21 final size:22
Alignment explanation
Indices: 90347142--90347186 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
90347132 CAACCAAATC
90347142 AATTCA-ACATATTT-TCAAGAT
1 AATTCATACATATTTAT-AAGAT
*
90347163 AATTCATGCATATTTATAAGAT
1 AATTCATACATATTTATAAGAT
90347185 AA
1 AA
90347187 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (22 bp):
AATTCATACATATTTATAAGAT
Found at i:90351749 original size:23 final size:24
Alignment explanation
Indices: 90351718--90351773 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
90351708 AAAGGCAATT
*
90351718 AAAAGAAAAGGAA-A-TGAACGAAG
1 AAAAAAAAAGGAATAGTGAA-GAAG
90351741 AAAAAAAAA-GAATAGTGAAGAAG
1 AAAAAAAAAGGAATAGTGAAGAAG
*
90351764 GAAAAAAAAG
1 AAAAAAAAAG
90351774 TCGATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 21 0.75
24 4 0.14
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAGGAATAGTGAAGAAG
Found at i:90355287 original size:34 final size:34
Alignment explanation
Indices: 90355249--90355351 Score: 179
Period size: 34 Copynumber: 3.0 Consensus size: 34
90355239 TCATTTTATT
90355249 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
90355283 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
* * *
90355317 AATAAATCTTTTATTGTTTTTACCAAATATTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
90355351 A
1 A
90355352 CTATCTTGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (34 bp):
AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
Found at i:90356415 original size:28 final size:29
Alignment explanation
Indices: 90356384--90356443 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
90356374 GATTTTGAGT
*
90356384 AAAAATGCACATT-AGGGATTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGTG
* * * *
90356412 AAAAGTGTAAATTGAGGGGTTGAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGTG
90356441 AAA
1 AAA
90356444 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGTG
Found at i:90357054 original size:47 final size:47
Alignment explanation
Indices: 90356990--90357115 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
90356980 GAATAATACC
* * ** *
90356990 TTGATGTGGCTACGGGCCATGGTATAGGTATTTTGAAAGGAGCTACA
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
* * * * *
90357037 TTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGATAAGTTACC
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
90357084 TTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TTGATTTGGCTACGGGCCATGGTATAGGTACT
90357116 TATCGATTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (47 bp):
TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
Found at i:90364381 original size:20 final size:20
Alignment explanation
Indices: 90364352--90364390 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
90364342 GCAAAACAAT
*
90364352 GGGCTGAAAATGATTTTAAA
1 GGGCTAAAAATGATTTTAAA
90364372 GGGCTAAAAATGATTTTAA
1 GGGCTAAAAATGATTTTAA
90364391 TTTTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (20 bp):
GGGCTAAAAATGATTTTAAA
Found at i:90365575 original size:21 final size:21
Alignment explanation
Indices: 90365551--90365592 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
90365541 CTAGGGTCAT
*
90365551 AAATAAT-TAATTAAAGTATTA
1 AAATAATATAA-TAAAATATTA
90365572 AAATAATATAATAAAATATTA
1 AAATAATATAATAAAATATTA
90365593 TTATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAATATAATAAAATATTA
Found at i:90367191 original size:27 final size:27
Alignment explanation
Indices: 90367146--90367226 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
90367136 GTCGTATGTC
* * * *
90367146 CCCTATTTTTCAGATTTTATAATTGTT-
1 CCCTTTTTTTTAGAATTTACAATT-TTG
90367173 CCCTTTTTTTTAGAATTTACAATTTTG
1 CCCTTTTTTTTAGAATTTACAATTTTG
* * *
90367200 CCCTTATTTTTCATATTTTACAATTTT
1 CCCTT-TTTTTTAGAATTTACAATTTT
90367227 ACTTCTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.04
27 25 0.56
28 18 0.40
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (27 bp):
CCCTTTTTTTTAGAATTTACAATTTTG
Found at i:90367315 original size:81 final size:82
Alignment explanation
Indices: 90367197--90367356 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 82
90367187 ATTTACAATT
* * * *
90367197 TTGCCCTTATTTTTCATATTTTACAATTTTACTTCTATTTTCTAAATTTTATAGTTTTTCTCATG
1 TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTATAGTTTTTCCCATA
90367262 TTTTCCAGATTTTAAAG
66 TTTTCCAGATTTTAAAG
* * * * *
90367279 TTGCCC-TATTTTTCAGATTTTGCAGTTTTGCCTCTATTTTCTAGATTTTATAGTTTTTCCCTTA
1 TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTATAGTTTTTCCCATA
*
90367343 TTTTTCAGATTTTA
66 TTTTCCAGATTTTA
90367357 CAATTTCCCC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 62 0.91
82 6 0.09
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (82 bp):
TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTATAGTTTTTCCCATA
TTTTCCAGATTTTAAAG
Found at i:90367368 original size:28 final size:27
Alignment explanation
Indices: 90367144--90367362 Score: 144
Period size: 28 Copynumber: 8.0 Consensus size: 27
90367134 TGGTCGTATG
* *
90367144 TCCCCTATTTTTCAGATTTTATAATTGT
1 TCCCTTATTTTTCAGATTTTACAATT-T
* *
90367172 TCCCTT-TTTTTTAGAATTTACAATTT
1 TCCCTTATTTTTCAGATTTTACAATTT
*
90367198 TGCCCTTATTTTTCATATTTTACAATTT
1 T-CCCTTATTTTTCAGATTTTACAATTT
* * * * *
90367226 T-ACTTCTATTTTCTAAATTTTATAGTTT
1 TCCCTTAT-TTTTC-AGATTTTACAATTT
* * *
90367254 T-TCTCATGTTTTCCAGATTTTA-AAGTT
1 TCCCTTAT-TTTT-CAGATTTTACAATTT
* * *
90367281 GCCC-TATTTTTCAGATTTTGCAGTTT
1 TCCCTTATTTTTCAGATTTTACAATTT
* * *
90367307 TGCCTCTA-TTTTCTAGATTTTATAGTTTT
1 TCCCT-TATTTTTC-AGATTTTACA-ATTT
90367336 TCCCTTATTTTTCAGATTTTACAATTT
1 TCCCTTATTTTTCAGATTTTACAATTT
90367363 CCCCCTGCTT
Statistics
Matches: 146, Mismatches: 33, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
25 8 0.05
26 15 0.10
27 39 0.27
28 71 0.49
29 13 0.09
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (27 bp):
TCCCTTATTTTTCAGATTTTACAATTT
Found at i:90367696 original size:34 final size:34
Alignment explanation
Indices: 90367652--90367722 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
90367642 TACTACTGAG
* * *
90367652 TTGATCTATTATATGCAT-TTTATTTGCTATCGTA
1 TTGAACTATTATAGGCATATTGA-TTGCTATCGTA
*
90367686 TTGAACTATTATAGGCATATTGATTGCTATTGTA
1 TTGAACTATTATAGGCATATTGATTGCTATCGTA
90367720 TTG
1 TTG
90367723 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (34 bp):
TTGAACTATTATAGGCATATTGATTGCTATCGTA
Found at i:90368096 original size:138 final size:138
Alignment explanation
Indices: 90367869--90368140 Score: 384
Period size: 138 Copynumber: 2.0 Consensus size: 138
90367859 AGTGGCAATT
* *
90367869 TTTATCCTTTAACTGCAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATGCAAATAT
1 TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
*
90367934 GTTATGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACA-CGCTA
66 ATTATGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGC-CTA
90367998 GTGGCGGTG
130 GTGGCGGTG
* * * * * *
90368007 TTTATCTTTTAACTATAAATATGTTTTACATCTACAACCCATCGATAGCTTTTACCTACAAATAT
1 TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
* ** * * * *
90368072 ATTGTGCATCTACTTCCCAGTGGCATATTTTATTTGTGATATTTTGCTGTGTACCCACAGCCTAG
66 ATTATGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGCCTAG
90368137 TGGC
131 TGGC
90368141 AGGTTTCATC
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 116 0.99
139 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (138 bp):
TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
ATTATGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGCCTAG
TGGCGGTG
Found at i:90369223 original size:87 final size:86
Alignment explanation
Indices: 90369116--90369280 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 86
90369106 TACATGCATA
* * * *
90369116 AGGTTGAGTTCTTTCTCTTAATGAATTCATATCCTA-AAGTTTGGGTGGTACTATTGAGACGGAC
1 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAA-TTTGGGTGGTACTACTAAGACGAAC
*
90369180 TTGATGAATTCACCAATATGTG
65 TTGATGAATACACCAATATGTG
* * *
90369202 AGGTTGAGTTTCTTACTCTTAATGAGTTCATATTCTAGAATTTGGGTGGTTCTACTAAGACGAAC
1 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCCTAGAATTTGGGTGGTACTACTAAGACGAAC
90369267 TTGATGAATACACC
65 TTGATGAATACACC
90369281 GAACTTAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 8 0.12
87 59 0.86
88 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAATTTGGGTGGTACTACTAAGACGAACT
TGATGAATACACCAATATGTG
Found at i:90369821 original size:37 final size:37
Alignment explanation
Indices: 90369758--90369833 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
90369748 TTTAGAATTT
90369758 TTTAAGTTGAGGAAAATCCTTTGACTATTGCAGAATA
1 TTTAAGTTGAGGAAAATCCTTTGACTATTGCAGAATA
90369795 TTTATAGTTGAGG-AAATCCTTTGACTATTGCAGAATA
1 TTTA-AGTTGAGGAAAATCCTTTGACTATTGCAGAATA
90369832 TT
1 TT
90369834 AATCCACTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 30 0.79
38 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (37 bp):
TTTAAGTTGAGGAAAATCCTTTGACTATTGCAGAATA
Found at i:90371721 original size:18 final size:18
Alignment explanation
Indices: 90371700--90371740 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
90371690 CTTTTATGAT
90371700 TTTTAAAATT-TTTTAATA
1 TTTTAAAATTATTTTAA-A
90371718 TTTTAAAATTATTTTAAA
1 TTTTAAAATTATTTTAAA
90371736 TTTTA
1 TTTTA
90371741 TTTAAGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAAAATTATTTTAAA
Found at i:90374935 original size:31 final size:31
Alignment explanation
Indices: 90374897--90374958 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
90374887 CCACATGGGC
90374897 AGAGGACATGGGCGTGTGTCCAGGCTATGTG
1 AGAGGACATGGGCGTGTGTCCAGGCTATGTG
90374928 AGAGGACATGGGCGTGTGTCCAGGCTATGTG
1 AGAGGACATGGGCGTGTGTCCAGGCTATGTG
90374959 GCATATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (31 bp):
AGAGGACATGGGCGTGTGTCCAGGCTATGTG
Found at i:90377215 original size:16 final size:17
Alignment explanation
Indices: 90377194--90377232 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
90377184 TAAAAGTCAA
90377194 ATTGAGAAAGATGCA-G
1 ATTGAGAAAGATGCAGG
90377210 ATTGAGAAAGATGCAGG
1 ATTGAGAAAGATGCAGG
90377227 ATTGAG
1 ATTGAG
90377233 TACGTTCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.33, T:0.21
Consensus pattern (17 bp):
ATTGAGAAAGATGCAGG
Found at i:90377408 original size:34 final size:35
Alignment explanation
Indices: 90377330--90377411 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 35
90377320 ATAAAGAAAA
* * *
90377330 CCATACTGAATGGTGAAACGTAGGTATGACATTTC
1 CCATACTGAGTTGCGAAACGTAGGTATGACATTTC
**
90377365 CCATACTGAGTTGCGAAACGTAGGTATGGTATTT-
1 CCATACTGAGTTGCGAAACGTAGGTATGACATTTC
90377399 CCATACTGAGTTG
1 CCATACTGAGTTG
90377412 TGAATTGTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 13 0.31
35 29 0.69
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (35 bp):
CCATACTGAGTTGCGAAACGTAGGTATGACATTTC
Found at i:90378275 original size:102 final size:102
Alignment explanation
Indices: 90378092--90378304 Score: 302
Period size: 102 Copynumber: 2.1 Consensus size: 102
90378082 CGTGTGTCTA
* * *
90378092 GGCCGTGTGTGACACACGGTCTGGCCCACGGGTATGTGATCTAGCTGTGTGTCCCCTGCATTTTA
1 GGCCGTGTGTGACACAAGGTCTGGCCCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATTA
90378157 AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
66 AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
* *
90378194 GGCCGTGTGTGACACAAGGTCT-GCGCCATGGGTATGTGATATGGCTGTGTGTCCCCTGCATATT
1 GGCCGTGTGTGACACAAGGTCTGGC-CCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATT
* * * * * *
90378258 AAATTTTTGTTTTGAATTGTCCACATGGGTAGAGACAC
65 AAATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
*
90378296 AGCCGTGTG
1 GGCCGTGTG
90378305 GAGGATACGG
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 2 0.02
102 96 0.98
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (102 bp):
GGCCGTGTGTGACACAAGGTCTGGCCCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATTA
AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
Found at i:90390773 original size:13 final size:13
Alignment explanation
Indices: 90390757--90390782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90390747 TTAAAATTTA
90390757 ATATTCTAATATT
1 ATATTCTAATATT
90390770 ATATTCTAATATT
1 ATATTCTAATATT
90390783 TTTTCGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTCTAATATT
Found at i:90394655 original size:21 final size:23
Alignment explanation
Indices: 90394629--90394682 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
90394619 TTTAATCCCC
90394629 TTTTTATA-TATA-T-TTAATTTA
1 TTTTTATACTATACTATT-ATTTA
90394650 TTTTTAATACTATACGTATTATTTA
1 TTTTT-ATACTATAC-TATTATTTA
90394675 TTTTTATA
1 TTTTTATA
90394683 AACATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.18
22 3 0.11
23 4 0.14
24 3 0.11
25 11 0.39
26 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTATACTATACTATTATTTA
Found at i:90394804 original size:19 final size:19
Alignment explanation
Indices: 90394761--90394802 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
90394751 TACATTTTAT
90394761 TTATATATTTTATAATATA
1 TTATATATTTTATAATATA
90394780 TTATATCATTTTACTATATATA
1 TTATAT-ATTTTA-TA-ATATA
90394802 T
1 T
90394803 ATTATTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATTTTATAATATA
Found at i:90394815 original size:18 final size:18
Alignment explanation
Indices: 90394794--90394858 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
90394784 ATCATTTTAC
90394794 TATATATATATTATTCAT
1 TATATATATATTATTCAT
90394812 TATAT-TAT-TT-TT-AT
1 TATATATATATTATTCAT
*
90394826 TATATTTTATATTACTTCAT
1 TATA-TATATATTA-TTCAT
*
90394846 TATTTAT-TATTAT
1 TATATATATATTAT
90394859 GTATAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
14 6 0.15
15 3 0.08
16 5 0.13
17 6 0.15
18 10 0.26
19 4 0.10
20 5 0.13
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATATATATTATTCAT
Found at i:90394817 original size:12 final size:11
Alignment explanation
Indices: 90394711--90394858 Score: 58
Period size: 10 Copynumber: 14.3 Consensus size: 11
90394701 AAATAGTATA
90394711 TATATTATT-T
1 TATATTATTAT
90394721 T-TATTATTTAT
1 TATATTA-TTAT
* *
90394732 CATATCA-T-T
1 TATATTATTAT
*
90394741 TACATTATTA-
1 TATATTATTAT
*
90394751 TACATT-TTAT
1 TATATTATTAT
90394761 T-TATATATT-T
1 TATAT-TATTAT
*
90394771 TATAATA-TAT
1 TATATTATTAT
*
90394781 TATATCATT-T
1 TATATTATTAT
90394791 TACTA-TA-TA-
1 TA-TATTATTAT
90394800 TATATTATTCAT
1 TATATTATT-AT
90394812 TATATTATT-T
1 TATATTATTAT
*
90394822 T-TATTATATTT
1 TATATTAT-TAT
90394833 TATATTACTTCAT
1 TATATTA-TT-AT
90394846 TAT-TTATTAT
1 TATATTATTAT
90394856 TAT
1 TAT
90394859 GTATAATTTT
Statistics
Matches: 105, Mismatches: 11, Indels: 44
0.66 0.07 0.28
Matches are distributed among these distances:
8 2 0.02
9 27 0.26
10 36 0.34
11 13 0.12
12 22 0.21
13 5 0.05
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTATTAT
Found at i:90394853 original size:33 final size:35
Alignment explanation
Indices: 90394800--90394869 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 35
90394790 TTACTATATA
*
90394800 TATATTATTCATTATATTATTTTTAT-TAT-ATTT
1 TATATTATTCATTATATTATTATTATGTATAATTT
90394833 TATATTACTTCATTAT-TTATTATTATGTATAATTT
1 TATATTA-TTCATTATATTATTATTATGTATAATTT
90394868 TA
1 TA
90394870 AAAATTTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 16 0.48
34 11 0.33
35 6 0.18
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (35 bp):
TATATTATTCATTATATTATTATTATGTATAATTT
Found at i:90406972 original size:44 final size:44
Alignment explanation
Indices: 90406922--90407399 Score: 661
Period size: 44 Copynumber: 10.9 Consensus size: 44
90406912 TCACCAATAG
* * *
90406922 CAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
90406966 CAGATTTGGCGTCTCTGTATTGATAGAGAACAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
90407010 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
90407054 CAGATTTGGCGTCTCTGTAATGACAGAGAGCAGATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
90407098 CAGATTTGGAGTCTCTGTATTGACAGAGAGCAGATCGAAGACGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
90407142 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * ** * *
90407186 AAGGTTTGGCGTCTCTGTATTGTTAGAGAGTAGATCGAGGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* **
90407230 CAGATTTGGCGTCTCTGTATTGAAAGAGAGCAGATCGAAGGGGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
90407274 CAGATTTGGTGTTTCTGTATTGACAGAGAGCAGATCAAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * * *
90407318 TAGGTTTGGCATCTCTGTATTGTCAGAGAGCAGATCGGAGAT-A
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
90407361 GCAGATTTGGCGTCTTTGTATTGACAGAGAGCAGATCGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
90407400 GGATAATGGA
Statistics
Matches: 377, Mismatches: 56, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
43 1 0.00
44 376 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:90408996 original size:32 final size:33
Alignment explanation
Indices: 90408951--90409024 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
90408941 TTTATAATAT
*
90408951 ATTATATCA-TTTTACTATATATATATTA-TTC
1 ATTATATTATTTTTACTATATATATATTACTTC
* *
90408982 ATTATATTATTTTTATTATATTTATATTACTTC
1 ATTATATTATTTTTACTATATATATATTACTTC
*
90409015 AATAT-TTATT
1 ATTATATTATT
90409025 ATTATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 8 0.22
32 22 0.59
33 7 0.19
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTATATTATTTTTACTATATATATATTACTTC
Found at i:90420997 original size:46 final size:45
Alignment explanation
Indices: 90420844--90421156 Score: 179
Period size: 46 Copynumber: 6.6 Consensus size: 45
90420834 TCATTTGTGT
* * * *
90420844 AAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC-ACATTATG
1 AAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGA-GACG
* * *
90420889 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-
1 A-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTAGAGACG
*
90420936 AAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGACG
1 AA--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGACG
* * * * *
90420983 TAAGCCAGTATAAGACATGTCTAGCACATGCATC-GGCTACGAGATG
1 -AAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTA-GAGACG
* ** * * * *
90421029 -TGTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGTTATA-TC-
1 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C---TAGAGACG
* * * *
90421077 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATG
1 A-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTAG-AGACG
*
90421126 ATAGCCAGTGTAAGACCATATCTGGGACATG
1 A-AGCCAGTGTAAGA-CATGTCTGGGACATG
90421157 GCGGCACTTT
Statistics
Matches: 209, Mismatches: 38, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
44 9 0.04
45 16 0.08
46 64 0.31
47 31 0.15
48 23 0.11
49 29 0.14
50 35 0.17
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGACG
Found at i:90424910 original size:25 final size:25
Alignment explanation
Indices: 90424876--90424923 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
90424866 TCTATGTTAG
90424876 AACTATTATGCTCCGCGAGGTATAT
1 AACTATTATGCTCCGCGAGGTATAT
90424901 AACTATTATGCTCCGCGAGGTAT
1 AACTATTATGCTCCGCGAGGTAT
90424924 TTTGATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AACTATTATGCTCCGCGAGGTATAT
Found at i:90429423 original size:7 final size:7
Alignment explanation
Indices: 90429413--90429440 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
90429403 AATAAATTAT
90429413 AAAAATA
1 AAAAATA
90429420 AAAAATA
1 AAAAATA
90429427 AAAAATA
1 AAAAATA
90429434 AAAAATA
1 AAAAATA
90429441 TTTGTAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:90431170 original size:18 final size:20
Alignment explanation
Indices: 90431130--90431173 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
90431120 TATAATTTTT
*
90431130 TTAAAAATATATATAATACA
1 TTAAAAATATATATAAAACA
90431150 TTAAAAAT-TATA-AAAACA
1 TTAAAAATATATATAAAACA
90431168 TTAAAA
1 TTAAAA
90431174 TAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAAATATATATAAAACA
Found at i:90435497 original size:20 final size:21
Alignment explanation
Indices: 90435472--90435510 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
90435462 ACCTTGAAAC
90435472 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCGTGTGAA
90435492 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
90435511 GCCCTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGAA
Found at i:90436768 original size:46 final size:47
Alignment explanation
Indices: 90436632--90436901 Score: 209
Period size: 46 Copynumber: 5.7 Consensus size: 47
90436622 AGGGTATAAT
* * * *
90436632 GCCGATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCCCATCTC-CAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCTCGTAG
* * * *
90436682 GCC-ATTGCCATGTCCTAGACATGGTCTTACA-TTG-ACACATCTCGTA-
1 GCCGA-TG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAG
* * * *
90436728 GTCGATGGATGTCCCAAACATGTCTTACACTAGCT-TACATCGCG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTAG
* * * *
90436774 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCACCTC-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAG
* *
90436820 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAG
90436868 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
90436902 ACACAAATAA
Statistics
Matches: 178, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 8 0.04
45 14 0.08
46 71 0.40
47 30 0.17
48 25 0.14
49 4 0.02
50 26 0.15
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAG
Found at i:90436847 original size:94 final size:94
Alignment explanation
Indices: 90436629--90436906 Score: 282
Period size: 94 Copynumber: 3.0 Consensus size: 94
90436619 CATAGGGTAT
* * * *
90436629 AATGCCGATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCCCATCTCCATGCC-ATTGCCAT
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCACGAGGCCGA-TG-CAT
* *
90436693 GTCCTAGACATGGTCTTACA-TTG-ACACATCTC
62 GTCCTAGACAT-GTCTTACACTAGCACACACCTC
* * * * * *
90436725 -GTAGTCGATG-GATGTCCCAAACAT-GTCTTACACTAGCT-TACATCGCGAGGCCGATGCATGT
1 AAT-GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCACGAGGCCGATGCATGT
* *
90436786 CCTAGACATGTCTTACACTAGCTCTCACCTC
64 CCTAGACATGTCTTACACTAGCACACACCTC
* * *
90436817 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGAGGCCGATGCATGTCC
*
90436882 CAGACATGTCTTACACTAGCACACA
66 TAGACATGTCTTACACTAGCACACA
90436907 AATAACTCGA
Statistics
Matches: 148, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
90 8 0.05
91 16 0.11
92 23 0.16
93 15 0.10
94 67 0.45
95 13 0.09
96 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGAGGCCGATGCATGTCC
TAGACATGTCTTACACTAGCACACACCTC
Found at i:90439398 original size:6 final size:6
Alignment explanation
Indices: 90439387--90439411 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90439377 ATCTATTCGC
90439387 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
90439412 CTTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:90440277 original size:14 final size:14
Alignment explanation
Indices: 90440258--90440287 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90440248 GTTTACACTT
90440258 TTGTGTCATGCTTC
1 TTGTGTCATGCTTC
90440272 TTGTGTCATGCTTC
1 TTGTGTCATGCTTC
90440286 TT
1 TT
90440288 TACATGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (14 bp):
TTGTGTCATGCTTC
Found at i:90450719 original size:33 final size:33
Alignment explanation
Indices: 90450682--90450749 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
90450672 ATTTTAAAAA
90450682 TAATAAAGTAGATTATATATTTTTTTATAATAT
1 TAATAAAGTAGATTATATATTTTTTTATAATAT
90450715 TAATAAAGTAGATTATATATTTTTTTATAATAT
1 TAATAAAGTAGATTATATATTTTTTTATAATAT
90450748 TA
1 TA
90450750 TATATTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (33 bp):
TAATAAAGTAGATTATATATTTTTTTATAATAT
Found at i:90453548 original size:27 final size:28
Alignment explanation
Indices: 90453511--90453650 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
90453501 AGCATGGCTG
* *
90453511 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
90453537 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
90453565 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
90453592 CTAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
90453619 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
90453646 CCAGA
1 CCAGA
90453651 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 80 0.78
28 17 0.17
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:90455397 original size:26 final size:26
Alignment explanation
Indices: 90455269--90455404 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90455259 CATGAAATTC
*
90455269 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
90455295 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
90455321 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
90455347 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
90455373 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
90455399 TTATCA
1 TTATCA
90455405 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90458562 original size:32 final size:32
Alignment explanation
Indices: 90458502--90458563 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
90458492 CTGATGCATT
*
90458502 AAGAAGTATGTTAAAACTATAATACTCCTATC
1 AAGAAGTATATTAAAACTATAATACTCCTATC
* * * *
90458534 AAGAGGTATATTAAAATTATACTTCTCCTA
1 AAGAAGTATATTAAAACTATAATACTCCTA
90458564 CCAAACAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (32 bp):
AAGAAGTATATTAAAACTATAATACTCCTATC
Found at i:90466805 original size:48 final size:48
Alignment explanation
Indices: 90466742--90466854 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 48
90466732 CATATCAACA
* * * *
90466742 CCATATCCTAAATATGGCCTTACA-TGAACTCACATACCGATGCTGATG
1 CCATATCCCAGATATGGCCTTACATTGAAC-CACATACCAATGCCGATG
* ** *
90466790 CCATATCCCAGATATGGTCTTACATTGGTCCACATATCAATGCCGATG
1 CCATATCCCAGATATGGCCTTACATTGAACCACATACCAATGCCGATG
*
90466838 CCATATCCCAGAAATGG
1 CCATATCCCAGATATGG
90466855 TTTTACACGG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 52 0.95
49 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (48 bp):
CCATATCCCAGATATGGCCTTACATTGAACCACATACCAATGCCGATG
Found at i:90476833 original size:45 final size:45
Alignment explanation
Indices: 90476731--90477038 Score: 408
Period size: 45 Copynumber: 6.9 Consensus size: 45
90476721 TTTTCTCAAA
* * * * * *
90476731 TCACCGGCAT-TTTGCCTGCTAGGCTC-GAGGCCTGATTA-TCATT
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
*
90476774 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
90476819 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
90476864 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
90476909 TCACCGGCATAATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
90476954 TCACCGGCATAATAGCCTGCTAGGCTCAAAGCCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
90476999 TCACCGGCATAATAGCCTACTAGGCTCAAAGGCCTGAATA
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
90477039 TAATACCAGC
Statistics
Matches: 241, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
43 10 0.04
44 17 0.07
45 212 0.88
46 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:90477087 original size:38 final size:38
Alignment explanation
Indices: 90477036--90477150 Score: 194
Period size: 38 Copynumber: 3.0 Consensus size: 38
90477026 AAAGGCCTGA
* * *
90477036 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
90477074 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
90477112 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
90477150 A
1 A
90477151 GATACATCAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:90480483 original size:16 final size:16
Alignment explanation
Indices: 90480459--90480489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90480449 ATTCTTCACT
90480459 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
90480475 TACTTACTTACTTAA
1 TACTCACTTACTTAA
90480490 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:90480495 original size:20 final size:20
Alignment explanation
Indices: 90480456--90480495 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
90480446 AAAATTCTTC
* *
90480456 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
90480476 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
90480496 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:90480871 original size:55 final size:53
Alignment explanation
Indices: 90480681--90480935 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
90480671 ACGCGGGTAC
* * * *
90480681 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
90480730 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
90480783 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
90480838 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * ** * *
90480891 CCTTATCAATCTCCATCCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAAT-GCCATGTCTTGACATGGTCTTACATGGGATCCTT
90480936 AAACCCTAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 39 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 12 0.07
55 69 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:90480872 original size:108 final size:110
Alignment explanation
Indices: 90480728--90480928 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
90480718 ATCCTTTTGA
* *
90480728 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
90480791 T-GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TCGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
90480836 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTATCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
90480901 CTCCATCCCTTGGCATGGTCTTACATGG
66 CGCCATCCCTTGGCATGGTCTTACATGG
90480929 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
CGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:90485445 original size:49 final size:47
Alignment explanation
Indices: 90485224--90485582 Score: 547
Period size: 47 Copynumber: 7.6 Consensus size: 47
90485214 CCCTTCGGGA
* * * * * *
90485224 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90485271 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
90485318 CTCATCACATATATACACTTTCATATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90485365 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90485412 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90485461 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90485510 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90485557 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
90485583 CACAATTATC
Statistics
Matches: 288, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 194 0.67
49 94 0.33
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90485618 original size:96 final size:95
Alignment explanation
Indices: 90485224--90485582 Score: 508
Period size: 96 Copynumber: 3.8 Consensus size: 95
90485214 CCCTTCGGGA
* * * * * * * * *
90485224 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
90485289 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
* * * *
90485318 CTCATCACATATATACACTTTCATATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
90485383 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
90485412 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
90485477 ACACTTTCACATTCATCACATTGGCCATT-CGGC
64 ACA--TTCACATTCATCACATTGGCCATTACGGC
90485510 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
90485575 ATTCACAT
66 ATTCACAT
90485583 CACAATTATC
Statistics
Matches: 243, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
94 97 0.40
96 112 0.46
98 34 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATTGGCCATTACGGC
Found at i:90492333 original size:16 final size:16
Alignment explanation
Indices: 90492309--90492339 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90492299 ACTTCTTCAC
90492309 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
90492325 TACTTACTTACTTAA
1 TACTCACTTACTTAA
90492340 TCAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:90492660 original size:53 final size:54
Alignment explanation
Indices: 90492531--90492785 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
90492521 ACGCGGGTAC
* * ** *
90492531 CTTACCATTGCCATGACTTGTTATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
90492580 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
90492633 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
90492688 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
90492741 CTTTACCAATTGCCATCCCTTGTCATGGTCTTACATGGTATCCTT
1 C-TTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
90492786 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 50 0.29
54 9 0.05
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:90492722 original size:108 final size:110
Alignment explanation
Indices: 90492578--90492778 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
90492568 ATCCTTTTGA
* *
90492578 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACTTCACCAA
*
90492641 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
90492686 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACTTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACTTCACCAAT
*
90492751 TGCCATCCCTTGTCATGGTCTTACATGG
66 TGCCATCCCTTGGCATGGTCTTACATGG
90492779 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 6 0.07
110 26 0.31
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACTTCACCAAT
TGCCATCCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:90494495 original size:42 final size:42
Alignment explanation
Indices: 90494436--90494550 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
90494426 TCGATGTCGT
* * ** *
90494436 TGCCATGTCCTATACATGGTCTTACACGGGACCTTATATCAA
1 TGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCAA
*
90494478 TGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAA
1 TGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCAA
* * * *
90494520 CGCCATATCCCAGATATGGTCTTACATGAAA
1 TGCCATGTCCCAGACATGGTCTTACACGAAA
90494551 TTGCATACCA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
TGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCAA
Found at i:90494587 original size:132 final size:132
Alignment explanation
Indices: 90494347--90494592 Score: 291
Period size: 132 Copynumber: 1.9 Consensus size: 132
90494337 AAACACCAAA
* * ** *
90494347 GCCATGTCCCCGACATGGTCTTACATGGGTCTACATACCAATGCCATATCCCAGATATGGTATTA
1 GCCATGTCCCAGACATGGTCTTACACGAATCTACATACCAACGCCATATCCCAGATATGGTATTA
* * ** * * * * *
90494412 TATGAAGTCTCATGTCGATGTCGTTGCCATGTCCTATACATGGTCTTACACGGGACCTTATATCA
66 CATGAAATCTCATACCAATGCCGATGCCATATCCTAGACATGGTCTTACACGGGACCTTATATCA
90494477 AT
131 AT
* *
90494479 GCCATGTCCCAGACATGGTCTTACACGAAATCT-CATATCAACGCCATATCCCAGATATGGTCTT
1 GCCATGTCCCAGACATGGTCTTACACG-AATCTACATACCAACGCCATATCCCAGATATGGTATT
*
90494543 ACATGAAAT-TGCATACCAATGCCGATGCCATAT-CTCAGATATGGTCTTAC
65 ACATGAAATCT-CATACCAATGCCGATGCCATATCCT-AGACATGGTCTTAC
90494593 TCTAACCCAC
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
131 3 0.03
132 88 0.94
133 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GCCATGTCCCAGACATGGTCTTACACGAATCTACATACCAACGCCATATCCCAGATATGGTATTA
CATGAAATCTCATACCAATGCCGATGCCATATCCTAGACATGGTCTTACACGGGACCTTATATCA
AT
Found at i:90499700 original size:14 final size:14
Alignment explanation
Indices: 90499681--90499712 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
90499671 ATTGAAAATT
90499681 TTAATTTAAATAAA
1 TTAATTTAAATAAA
*
90499695 TTAATTTATATAAA
1 TTAATTTAAATAAA
90499709 TTAA
1 TTAA
90499713 CCTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAATTTAAATAAA
Found at i:90501031 original size:19 final size:19
Alignment explanation
Indices: 90501007--90501053 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
90500997 GAGAGATCTG
90501007 ATTTGTGGAAGACAATCAA
1 ATTTGTGGAAGACAATCAA
90501026 ATTTGTGGAAGACAATCAA
1 ATTTGTGGAAGACAATCAA
*
90501045 ACTTGTGGA
1 ATTTGTGGA
90501054 TTAGCAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (19 bp):
ATTTGTGGAAGACAATCAA
Found at i:90507301 original size:25 final size:25
Alignment explanation
Indices: 90507267--90507343 Score: 118
Period size: 25 Copynumber: 3.1 Consensus size: 25
90507257 CAAGAATAAG
* * *
90507267 AAAGACTCGTTCATGAGCGCACAAA
1 AAAGACTCGTTTACGAGTGCACAAA
*
90507292 AAAGACTCGTTTACGAGTACACAAA
1 AAAGACTCGTTTACGAGTGCACAAA
90507317 AAAGACTCGTTTACGAGTGCACAAA
1 AAAGACTCGTTTACGAGTGCACAAA
90507342 AA
1 AA
90507344 CTCATAGGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (25 bp):
AAAGACTCGTTTACGAGTGCACAAA
Found at i:90510654 original size:44 final size:44
Alignment explanation
Indices: 90510591--90510678 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
90510581 CGCAGAACAC
90510591 CCAAAAATCTTCAAATCAAAATAATCAGCAAGATTACCGAACCA
1 CCAAAAATCTTCAAATCAAAATAATCAGCAAGATTACCGAACCA
90510635 CCAAAAATCTTCAAATCAAAATAATCAGCAAGATTACCGAACCA
1 CCAAAAATCTTCAAATCAAAATAATCAGCAAGATTACCGAACCA
90510679 TACCTCTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (44 bp):
CCAAAAATCTTCAAATCAAAATAATCAGCAAGATTACCGAACCA
Found at i:90512850 original size:15 final size:15
Alignment explanation
Indices: 90512822--90512866 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
90512812 CGTTTGTTTG
90512822 CCAGTAAAAT-ATTTT
1 CCAG-AAAATGATTTT
90512837 CCAGAAAATGA-TTT
1 CCAGAAAATGATTTT
*
90512851 CTAGAAAATGATTTT
1 CCAGAAAATGATTTT
90512866 C
1 C
90512867 TTTTCTGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (15 bp):
CCAGAAAATGATTTT
Done.