Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
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: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 5 of 13
Found at i:870487 original size:46 final size:45
Alignment explanation
Indices: 870427--870538 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 45
870417 TATTGTTTTG
870427 CTATTTTATATTTAATTTTAGTTTATTTAATTAAATTCGATAAACAC
1 CTATTTT-TATTTAATTTTAGTTTATTTAATTAAATTCGATAAAC-C
870474 CTATTTTTATTTAATTTTAGTTTATTTAATTAAATTCGATAAACC
1 CTATTTTTATTTAATTTTAGTTTATTTAATTAAATTCGATAAACC
*
870519 CTCATTTTTTATTTTATTTT
1 CT-A-TTTTTATTTAATTTT
870539 GCATATTTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
45 3 0.05
46 38 0.61
47 21 0.34
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (45 bp):
CTATTTTTATTTAATTTTAGTTTATTTAATTAAATTCGATAAACC
Found at i:882145 original size:13 final size:13
Alignment explanation
Indices: 882127--882151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
882117 TACAGACGTG
882127 CATATGAAGACTA
1 CATATGAAGACTA
882140 CATATGAAGACT
1 CATATGAAGACT
882152 GTTCAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
CATATGAAGACTA
Found at i:882168 original size:4 final size:4
Alignment explanation
Indices: 882159--882193 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
882149 ACTGTTCAAC
*
882159 TATT TATT TATT TATT TATC TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
882194 ACATGCATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:882784 original size:3 final size:3
Alignment explanation
Indices: 882776--882802 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
882766 GGAATAGAGT
882776 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
882803 GTGAGTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:899569 original size:16 final size:17
Alignment explanation
Indices: 899544--899576 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
899534 GGGTCTGCTG
*
899544 GTGGACTGATG-TGTTT
1 GTGGAATGATGATGTTT
899560 GTGGAATGATGATGTTT
1 GTGGAATGATGATGTTT
899577 TTGAGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.42
Consensus pattern (17 bp):
GTGGAATGATGATGTTT
Found at i:901207 original size:178 final size:178
Alignment explanation
Indices: 900908--901263 Score: 712
Period size: 178 Copynumber: 2.0 Consensus size: 178
900898 AAATCGTCTC
900908 CAAGGTTTTAGCAAGGAGATTAGTTTTGGTGATCCAAGATATTGTGAGCCCTTCACAGTTTGCAT
1 CAAGGTTTTAGCAAGGAGATTAGTTTTGGTGATCCAAGATATTGTGAGCCCTTCACAGTTTGCAT
900973 TCATTCCGAGGAGACAATTACAAGATTGTGCTTTTATTGCAAATGAAAGCATAGATAGTTGGCGG
66 TCATTCCGAGGAGACAATTACAAGATTGTGCTTTTATTGCAAATGAAAGCATAGATAGTTGGCGG
901038 AAGCGAGGGCTGAAAGGGGTGGTTTTCAAAGCTGATTTTCAGAGGGCT
131 AAGCGAGGGCTGAAAGGGGTGGTTTTCAAAGCTGATTTTCAGAGGGCT
901086 CAAGGTTTTAGCAAGGAGATTAGTTTTGGTGATCCAAGATATTGTGAGCCCTTCACAGTTTGCAT
1 CAAGGTTTTAGCAAGGAGATTAGTTTTGGTGATCCAAGATATTGTGAGCCCTTCACAGTTTGCAT
901151 TCATTCCGAGGAGACAATTACAAGATTGTGCTTTTATTGCAAATGAAAGCATAGATAGTTGGCGG
66 TCATTCCGAGGAGACAATTACAAGATTGTGCTTTTATTGCAAATGAAAGCATAGATAGTTGGCGG
901216 AAGCGAGGGCTGAAAGGGGTGGTTTTCAAAGCTGATTTTCAGAGGGCT
131 AAGCGAGGGCTGAAAGGGGTGGTTTTCAAAGCTGATTTTCAGAGGGCT
901264 TATGACACGG
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (178 bp):
CAAGGTTTTAGCAAGGAGATTAGTTTTGGTGATCCAAGATATTGTGAGCCCTTCACAGTTTGCAT
TCATTCCGAGGAGACAATTACAAGATTGTGCTTTTATTGCAAATGAAAGCATAGATAGTTGGCGG
AAGCGAGGGCTGAAAGGGGTGGTTTTCAAAGCTGATTTTCAGAGGGCT
Found at i:911986 original size:23 final size:23
Alignment explanation
Indices: 911943--911997 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
911933 AATTTAAACT
911943 AAATGTAATATATAAAAATAATA
1 AAATGTAATATATAAAAATAATA
* *
911966 AAATTTAA-ATATCAAACATAATA
1 AAATGTAATATAT-AAAAATAATA
*
911989 AGAT-TAATA
1 AAATGTAATA
911998 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATGTAATATATAAAAATAATA
Found at i:915483 original size:766 final size:766
Alignment explanation
Indices: 913683--915933 Score: 4454
Period size: 766 Copynumber: 2.9 Consensus size: 766
913673 CTCTGGAGGA
913683 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
1 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
*
913748 ATACCTTTGTTGGAATATAATTTGCATCCGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
66 ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
* *
913813 CAATCTGGTACTTGAAGTTCATTACCACGAGTATAGGTTTCCTACAAGTACACAGAGTGATTAAG
131 CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
913878 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
196 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
913943 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
261 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
914008 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
326 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
914073 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
391 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
914138 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
456 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
914203 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
521 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
914268 ATTTTGGGCAACTTCC-TTGATCC--CATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
586 ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
914330 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
651 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
914395 GGAAATATGCGTGGACATATTTATGGACATAGATAAAGATCCTCTCATTTT
716 GGAAATATGCGTGGACATATTTATGGACATAGATAAAGATCCTCTCATTTT
914446 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
1 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
914511 ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
66 ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
914576 CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
131 CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
914641 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
196 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
914706 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
261 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
914771 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
326 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
914836 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
391 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
914901 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
456 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
914966 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
521 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
915031 ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
586 ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
915096 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
651 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
915161 GGAAATATGCGTGGACATATTTATGGACATAGATAAAGATCCTCTCATTTT
716 GGAAATATGCGTGGACATATTTATGGACATAGATAAAGATCCTCTCATTTT
915212 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
1 GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
915277 ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
66 ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
915342 CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
131 CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
915407 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
196 TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
915472 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
261 ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
915537 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
326 CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
915602 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
391 CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
915667 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
456 TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
915732 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
521 AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
915797 ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
586 ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
915862 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
651 ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
915927 GGAAATA
716 GGAAATA
915934 AACCAACACA
Statistics
Matches: 1482, Mismatches: 3, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
763 598 0.40
764 7 0.00
766 877 0.59
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (766 bp):
GGGTATTAATCATATGTATGATGATTGTTTTGATGGGCAGGACATATGCGTGGCACTAATTCTAG
ATACCTTTGTTGGAATATAATTTGCATCTGACAATCTTTGCAAATTTTCCATGAAATAATGAGTA
CAATCTGGTACTTGAAGTTCATTTCCACGAGTATAGGTTTCCTACTAGTACACAGAGTGATTAAG
TACTAAAACACACCATCGAAAATACCTAAACACAAAACTAAGCGATGGAGCTACAAAATCAGCTT
ATATCATTTATATATAAAAGCATAGTTTGCCTGAATTGCAGAATCTTTCCAGAGAGTTTCTATCT
CCTGTGCAAGTTCTCCATTTAGACGTGGACAGTCCAACCTGCTTCCAATTTCTGACAGTTTCTCT
CCAATAACCTGATAGAAAACAGAAAGTTTATGTAATATCTTGACCACAGATGCAATAACTGATAA
TTTCAAAAAGAAAGAAGAGGAGAAACTAATTGGAAAGCAATTACTAAACTTTACAAATACAGGAT
AGCAGAAATAGATGACTTCAAACCTTATTCTCGCTGGATAGAACATATTTGGAAGAATCTGCTTC
ATTTTGGGCAACTTCCTTTGATCCATCATACAGTATCTATACACCATGCAAAGCACGATTTAAAA
ACATAGATAAAGATCCTCTCATAATAGAAATAAAATTTCGCATCATAGATAACTGACACCTGAAG
GGAAATATGCGTGGACATATTTATGGACATAGATAAAGATCCTCTCATTTT
Found at i:917752 original size:16 final size:18
Alignment explanation
Indices: 917721--917755 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
917711 AATAAAATTT
917721 TAAAATTAACATAATTAA
1 TAAAATTAACATAATTAA
917739 TAAAA-TAA-ATAATTAA
1 TAAAATTAACATAATTAA
917755 T
1 T
917756 TAGAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAATTAACATAATTAA
Found at i:925249 original size:181 final size:176
Alignment explanation
Indices: 924918--925258 Score: 429
Period size: 181 Copynumber: 1.9 Consensus size: 176
924908 AACCATAATC
* * *
924918 TTGTGTGTTGACTCTAGCTGATAATATTCTGGTGGCCTGGTACAGAGACAGTTTTCTTTAGGATT
1 TTGTGCGTTGACTCTAGCTGATAATATCCCGGTGGCCTGGTACAGAGACAGTTTTCTTTAGGATT
* *
924983 TTCTTCTTTTTTGCAGTTATATATTCTAAGGTTTTTGGTTTGGGCTCACAATTTTCTAGTATCCT
66 TTCTTCTTTTTTGCAATTATATATTC--A-GTTTTTGGTTTGGGCTCACAATTTTCTAGTACCCT
* *
925048 CGCAAGTTTTTTTACTGGAGTTTTTGTTGTCTGGTTTGTTCCTTCCAAT
128 AGCAAATTTTTTTACTGGAGTTTTTGTTGTCTGGTTTGTTCCTTCCAAT
*
925097 TTGTGCGTTGACTCTAGCTTATAGA-ATCCCGGTGGCCTGGTACACAGAGACAGTTTTCTTTAGG
1 TTGTGCGTTGACTCTAGCTGATA-ATATCCCGGTGGCCTGGT--ACAGAGACAGTTTTCTTTAGG
* * * * *
925161 ATTTTCTTATTTTAATTTTGCAATTATATCTTC-GTTTTTGTTTTTGGTTCACAATTTTCTAGTA
63 ATTTTC-T-TCTT--TTTTGCAATTATATATTCAGTTTTTGGTTTGGGCTCACAATTTTCTAGTA
925225 CCCTAG-AGAATTCTTTTT-CTGGAGTTTTTGTTGT
124 CCCTAGCA-AATT-TTTTTACTGGAGTTTTTGTTGT
925259 ATGTTTTATG
Statistics
Matches: 140, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
179 35 0.25
180 2 0.01
181 78 0.56
182 6 0.04
183 3 0.02
185 16 0.11
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (176 bp):
TTGTGCGTTGACTCTAGCTGATAATATCCCGGTGGCCTGGTACAGAGACAGTTTTCTTTAGGATT
TTCTTCTTTTTTGCAATTATATATTCAGTTTTTGGTTTGGGCTCACAATTTTCTAGTACCCTAGC
AAATTTTTTTACTGGAGTTTTTGTTGTCTGGTTTGTTCCTTCCAAT
Found at i:931714 original size:227 final size:226
Alignment explanation
Indices: 931319--931768 Score: 891
Period size: 227 Copynumber: 2.0 Consensus size: 226
931309 AGAGGAATTA
931319 AATAAGGGGAAAATAAAGAGAGAGGGGGCGAATGGGATCAGAGATTGGAGACGAAACGAGGATTT
1 AATAAGGGGAAAATAAAGAGAGAGGGGGCGAATGGGATCAGAGATTGGAGACGAAACGAGGATTT
931384 TTGGCTTTTATTTTTTTTCGAGTTGATTAACTTACATATATAAAGGCTATGGTAAAAAGAAAAGG
66 TTGGCTTTTATTTTTTTTCGAGTTGATTAACTTACATATATAAAGGCTATGGTAAAAAGAAAAGG
931449 TGAATTATTTTTGAAGCAAGCGCTTTCTTTTTGGGGTCTGCCATTGTCATAGATACAATGCAGAG
131 TGAATTATTTTTGAAGCAAGCGCTTTCTTTTTGGGGTCTGCCATTGTCATAGATACAATGCAGAG
931514 AGGAAACAAACCCTGGCAAGCATCTTTTTTAT
196 A-GAAACAAACCCTGGCAAGCATCTTTTTTAT
931546 AATAAGGGGAAAATAAAGAGAGAGGGGGCGAATGGGATCAGAGATTGGAGACGAAACGAGGATTT
1 AATAAGGGGAAAATAAAGAGAGAGGGGGCGAATGGGATCAGAGATTGGAGACGAAACGAGGATTT
931611 TTGGCTTTTATTTTTTTTCGAGTTGATTAACTTACATATATAAAGGCTATGGTAAAAAGAAAAGG
66 TTGGCTTTTATTTTTTTTCGAGTTGATTAACTTACATATATAAAGGCTATGGTAAAAAGAAAAGG
931676 TGAATTATTTTTGAAGCAAGCGCTTTCTTTTTGGGGTCTGCCATTGTCATAGATACAATGCAGAG
131 TGAATTATTTTTGAAGCAAGCGCTTTCTTTTTGGGGTCTGCCATTGTCATAGATACAATGCAGAG
931741 AGAAACAAACCCTGGCAAGCATCTTTTT
196 AGAAACAAACCCTGGCAAGCATCTTTTT
931769 GCTCTATTCG
Statistics
Matches: 223, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
226 27 0.12
227 196 0.88
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (226 bp):
AATAAGGGGAAAATAAAGAGAGAGGGGGCGAATGGGATCAGAGATTGGAGACGAAACGAGGATTT
TTGGCTTTTATTTTTTTTCGAGTTGATTAACTTACATATATAAAGGCTATGGTAAAAAGAAAAGG
TGAATTATTTTTGAAGCAAGCGCTTTCTTTTTGGGGTCTGCCATTGTCATAGATACAATGCAGAG
AGAAACAAACCCTGGCAAGCATCTTTTTTAT
Found at i:931795 original size:63 final size:62
Alignment explanation
Indices: 931725--931849 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
931715 GCCATTGTCA
931725 TAGATACAATGCAGAGA-GAAACAAACCCTGGCAAGCATCTTTTTGCTCTATTCGGTGATCTTT
1 TAGATACAATGCAGAGAGGAAACAAACCCTGGCAAGCATC--TTTGCTCTATTCGGTGATCTTT
931788 TAGATACAATGCAGAGAGGAAACAAACCCTGGCAAGCATCTTTGCTCTATTCGGTGATCTTT
1 TAGATACAATGCAGAGAGGAAACAAACCCTGGCAAGCATCTTTGCTCTATTCGGTGATCTTT
931850 GATCTTTTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
62 22 0.36
63 17 0.28
64 22 0.36
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (62 bp):
TAGATACAATGCAGAGAGGAAACAAACCCTGGCAAGCATCTTTGCTCTATTCGGTGATCTTT
Found at i:937748 original size:2 final size:2
Alignment explanation
Indices: 937743--937787 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
937733 TATTTTGCTC
937743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
937785 AT A
1 AT A
937788 AAGAAGAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:938910 original size:2 final size:2
Alignment explanation
Indices: 938903--938976 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
938893 TGGCTCCATA
938903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
938945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
938977 GGATTATGGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:950202 original size:21 final size:21
Alignment explanation
Indices: 950165--950204 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
950155 ATGTAACAAA
950165 AAATTAAATTAAATTAAATTG
1 AAATTAAATTAAATTAAATTG
*
950186 AAATTGAAA-TAATTTAAAT
1 AAATT-AAATTAAATTAAAT
950205 AAATAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAATTAAATTAAATTAAATTG
Found at i:962828 original size:18 final size:18
Alignment explanation
Indices: 962789--962828 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
962779 GATACTTTTG
* **
962789 AGGGGTGACACTTGTATC
1 AGGGGTGACACTTGCAGA
962807 AGGGGTGACACTTGCAGA
1 AGGGGTGACACTTGCAGA
962825 AGGG
1 AGGG
962829 TTGCCTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.20
Consensus pattern (18 bp):
AGGGGTGACACTTGCAGA
Found at i:966318 original size:21 final size:20
Alignment explanation
Indices: 966222--966379 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
966212 AAATGACCAA
**
966222 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
966241 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
966261 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
*
966281 CAAAATCGCAACACGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
966302 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
966323 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
966343 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
966364 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
966380 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:966395 original size:40 final size:40
Alignment explanation
Indices: 966346--966500 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
966336 CGATTTTCCA
* ** *
966346 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
966386 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
966426 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
966466 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
966501 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:966408 original size:20 final size:20
Alignment explanation
Indices: 966346--966499 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
966336 CGATTTTCCA
* ** *
966346 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
966366 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
966386 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
966406 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
966426 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
966446 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
966466 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
966487 AAATCGCAACGCG
1 AAATCGCAACGCG
966500 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:966921 original size:33 final size:33
Alignment explanation
Indices: 966882--966952 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
966872 TTCACTTAGA
*
966882 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
966915 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
966948 TTTCA
1 TTTCA
966953 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:967089 original size:19 final size:19
Alignment explanation
Indices: 967044--967118 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
967034 GCAACGAGAT
* *
967044 AAATGAAAATCGCAACGAG
1 AAATGACAATCGCAACGCG
**
967063 AGAATGACTGTCGCAACGCG
1 A-AATGACAATCGCAACGCG
967083 AAATGACAATCGCAACGCG
1 AAATGACAATCGCAACGCG
*
967102 AAATGAAAATCGCAACG
1 AAATGACAATCGCAACG
967119 AGAGAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
AAATGACAATCGCAACGCG
Found at i:967166 original size:19 final size:19
Alignment explanation
Indices: 967144--967241 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
967134 GAAACCAAAA
*
967144 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
967163 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
967177 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
967196 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
967210 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
967229 TCGCGTTGCGATT
1 TCGCGTTGCGATT
967242 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:967185 original size:14 final size:14
Alignment explanation
Indices: 967166--967255 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
967156 TTTCATTTCG
967166 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
967180 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
967199 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
967213 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
967232 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
967246 CGTTGCGATT
1 CGTTGCGATT
967256 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:967191 original size:33 final size:33
Alignment explanation
Indices: 967149--967263 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
967139 CAAAATCGCA
967149 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
967182 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
967215 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
967248 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
967264 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:969119 original size:93 final size:93
Alignment explanation
Indices: 968960--969428 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
968950 TAGATTGCTT
*
968960 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
969025 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
969053 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
969118 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
969146 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
969211 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
969239 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
969304 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
969332 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTATGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
969397 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
969424 AGTAA
1 AGTAA
969429 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:969535 original size:19 final size:18
Alignment explanation
Indices: 969476--969603 Score: 110
Period size: 19 Copynumber: 7.3 Consensus size: 18
969466 TAGTTTACTT
*
969476 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
*
969496 TCGCAACGCGAAACCAAA
1 TCGCAACGCGAAACAAAA
*
969514 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
969533 TCGCAA--CG--ACAGAA
1 TCGCAACGCGAAACAAAA
969547 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
*
969566 TCGCAA--CG--ACAAGA
1 TCGCAACGCGAAACAAAA
969580 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
969599 TCGCA
1 TCGCA
969604 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 4 0.05
17 4 0.05
18 18 0.20
19 28 0.32
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:969554 original size:33 final size:32
Alignment explanation
Indices: 969510--969603 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
969500 AACGCGAAAC
**
969510 CAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAATCGCAACGCGAAACCAAAATCGCAACGA
969542 CAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 CA-AATCGCAACGCGAAACCAAAATCGCAACGA
969575 CAAGATCGCAACGCGAAACCAAAATCGCA
1 CAA-ATCGCAACGCGAAACCAAAATCGCA
969604 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.05
33 55 0.95
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (32 bp):
CAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:969621 original size:19 final size:19
Alignment explanation
Indices: 969599--969733 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
969589 GAAACCAAAA
*
969599 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
969618 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
969634 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * *
969651 TCGCATAGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
969667 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
969684 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
969703 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
969723 TCGTGTTGCGA
1 TCGCGTTGCGA
969734 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
15 3 0.03
16 8 0.09
17 8 0.09
18 3 0.03
19 45 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:969646 original size:33 final size:33
Alignment explanation
Indices: 969604--969699 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
969594 CAAAATCGCA
969604 TTGCGATTTTCATTTCGCGTTGCGATTCTT-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TTGTCG
* *
969637 TTGCGATTTTCATTTCGCATAGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
969670 TTGCGATTTTCATTTCGCGTTGCGATTTTG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTG
969700 GTTTCGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 2 0.03
33 56 0.97
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:970208 original size:43 final size:42
Alignment explanation
Indices: 970131--970250 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 42
970121 GACTCGCCTG
* * * * * * *
970131 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGG-CCACTA
970174 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
970216 TCA-TCATTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
970251 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
41 4 0.06
42 29 0.45
43 32 0.49
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:971674 original size:14 final size:14
Alignment explanation
Indices: 971655--971690 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
971645 ATTGTTTAAT
971655 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
971669 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
971683 TGATTTGT
1 TGATTTGT
971691 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:971821 original size:19 final size:19
Alignment explanation
Indices: 971797--971946 Score: 203
Period size: 19 Copynumber: 8.4 Consensus size: 19
971787 AAAATTGACT
971797 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
971816 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
971835 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
971849 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
971868 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
971887 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
971901 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
971920 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
971940 ATCGCAA
1 ATCGCAA
971947 CGGGAGAATC
Statistics
Matches: 116, Mismatches: 4, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
14 20 0.17
15 2 0.02
16 4 0.03
17 4 0.03
18 2 0.02
19 68 0.59
20 16 0.14
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:971857 original size:33 final size:33
Alignment explanation
Indices: 971815--971965 Score: 137
Period size: 33 Copynumber: 4.4 Consensus size: 33
971805 GCGAAATGAA
971815 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
971848 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
971880 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
*
971919 AATCGCAATGCGGAAATGAAAATCGCAACGGGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
971953 AATCGCAATGCGA
1 AATCGCAATGCGA
971966 TTTTAATTTC
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 40 0.43
34 13 0.14
35 1 0.01
37 2 0.02
38 2 0.02
39 14 0.15
40 3 0.03
41 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:971875 original size:52 final size:52
Alignment explanation
Indices: 971797--971965 Score: 320
Period size: 52 Copynumber: 3.2 Consensus size: 52
971787 AAAATTGACT
971797 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
971849 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
971901 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
971954 ATCGCAATGCGA
1 ATCGCAATGCGA
971966 TTTTAATTTC
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 81 0.70
53 34 0.30
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:972017 original size:19 final size:19
Alignment explanation
Indices: 971993--972124 Score: 167
Period size: 19 Copynumber: 7.4 Consensus size: 19
971983 TATTCTCCCG
971993 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
972012 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
972026 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
972045 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
972064 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
972084 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
972098 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
972117 TTGCGATT
1 TTGCGATT
972125 CTCTCGTTGC
Statistics
Matches: 98, Mismatches: 4, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
14 17 0.17
16 9 0.09
17 8 0.08
18 1 0.01
19 47 0.48
20 16 0.16
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:972146 original size:33 final size:33
Alignment explanation
Indices: 971961--972138 Score: 232
Period size: 33 Copynumber: 5.2 Consensus size: 33
971951 AGAATCGCAA
* * *
971961 TGCGATTTTAATTTCGCATTGCTATTCTCCCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
971994 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
972027 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
972065 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
972099 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
972132 TGCGATT
1 TGCGATT
972139 GTAATTTCCG
Statistics
Matches: 128, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.01
33 76 0.59
34 14 0.11
35 3 0.02
36 6 0.05
37 3 0.02
38 15 0.12
39 10 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:972146 original size:105 final size:104
Alignment explanation
Indices: 971955--972146 Score: 294
Period size: 105 Copynumber: 1.8 Consensus size: 104
971945 AACGGGAGAA
* *
971955 TCGCAATGCGATTTTAATTTCGCATTGCTATTCTCCCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATT
* *
972020 CTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
66 CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
* * * * *
972059 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGAT
972124 TCTCTCGTTGCGATTGTAATTTC
65 TCTCTCGTTGCGATTGTAATTTC
972147 CGTGTTGCGA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 18 0.23
105 60 0.77
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (104 bp):
TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATT
CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
Found at i:974603 original size:24 final size:24
Alignment explanation
Indices: 974569--974615 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
974559 CTGAAACATC
974569 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
974593 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
974616 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:975326 original size:20 final size:20
Alignment explanation
Indices: 975298--975587 Score: 312
Period size: 20 Copynumber: 14.5 Consensus size: 20
975288 AAATTTCAGT
* *
975298 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
975318 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
975338 GTTACGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
975358 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
975378 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
975398 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
975418 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
975438 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
975458 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
975478 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
975498 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
975518 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
975538 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
975558 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
975578 GTTGCGATTT
1 GTTGCGATTT
975588 TGGAAAATCG
Statistics
Matches: 238, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 237 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:975604 original size:21 final size:21
Alignment explanation
Indices: 975574--975656 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
975564 ATTTTCATAT
*
975574 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
975595 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
975616 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
975637 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
975657 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:975647 original size:42 final size:43
Alignment explanation
Indices: 975554--975652 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
975544 ATTTATGTGT
* *
975554 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
975595 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
975637 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
975653 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:982605 original size:2 final size:2
Alignment explanation
Indices: 982561--982587 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
982551 TTAAAATTAA
982561 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 A
982588 ATCTAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:983625 original size:33 final size:33
Alignment explanation
Indices: 983582--983646 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
983572 AGAATTTATT
*
983582 TAATGAGTAGTGGAAGAAATGATTGTTTAATGA
1 TAATGAGTAGTAGAAGAAATGATTGTTTAATGA
* *
983615 TAATGGGTAGTAGAGGAAATGATTGTTTAATG
1 TAATGAGTAGTAGAAGAAATGATTGTTTAATG
983647 GTAGATTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (33 bp):
TAATGAGTAGTAGAAGAAATGATTGTTTAATGA
Found at i:983765 original size:19 final size:19
Alignment explanation
Indices: 983741--983777 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
983731 ATGACCAACA
*
983741 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
983760 AAATCGTAACGCGATCTC
1 AAATCGCAACGCGATCTC
983778 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:983826 original size:20 final size:20
Alignment explanation
Indices: 983803--983870 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
983793 GTTTCCAGAT
983803 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
** * **
983823 TCGCATTGCGATTTTCCAAAA
1 TCGCAACGCGATTTT-GACTA
* *
983844 TCGCAATGCGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
983864 TCGCAAC
1 TCGCAAC
983871 ACTGAATTTC
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:983889 original size:41 final size:41
Alignment explanation
Indices: 983794--983891 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
983784 CGCAAATCAG
* * *** *
983794 TTTCCAGATTCGCAACGCGATTTTGACTATCGCATTGCGAT
1 TTTCCAAATTCGCAACGCGATTCTGACTATCGCAACACGAA
* *
983835 TTTCCAAAATCGCAATGCGATTCTGACTATCGCAACACTGAA
1 TTTCCAAATTCGCAACGCGATTCTGACTATCGCAACAC-GAA
983877 TTT-CAAATTCGCAAC
1 TTTCCAAATTCGCAAC
983892 AGGTTTTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
41 41 0.89
42 5 0.11
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGATTCTGACTATCGCAACACGAA
Found at i:987346 original size:140 final size:140
Alignment explanation
Indices: 987094--987376 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
987084 GCAAACGTTG
* * *
987094 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATTTATTAGTAATTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
987159 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
987224 CGAATTTGAC
131 CGAATTTGAC
987234 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
*
987299 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
*
987364 TGAATTTGAC
131 CGAATTTGAC
987374 TAT
1 TAT
987377 CGCAACGCAA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:987372 original size:20 final size:20
Alignment explanation
Indices: 987347--987517 Score: 141
Period size: 20 Copynumber: 9.2 Consensus size: 20
987337 TTACACATTC
* *
987347 ATTTGAATATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
987367 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
987386 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
987401 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
** * *
987421 ATTTGACTATTACAATGTGA
1 ATTTGACTATCGCAACGCGA
* *
987441 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
987461 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
987481 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
987495 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
987515 ATT
1 ATT
987518 GATTTTCGCG
Statistics
Matches: 119, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
14 20 0.17
15 3 0.03
16 1 0.01
18 1 0.01
19 3 0.03
20 91 0.76
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:987508 original size:94 final size:94
Alignment explanation
Indices: 987347--987517 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 94
987337 TTACACATTC
* * *
987347 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACTATC
1 ATTTGAATATCGCAACGGGAATTTGACTATCGCAACGCAAAAATCGCAAAGCGAATTAGACTATC
987412 GCAACGCGAATTTGACTATTACAATGTGA
66 GCAACGCGAATTTGACTATTACAATGTGA
* *
987441 ATTTGATTATCGCAACGGGAATTTGACTATCGCAACG-AGAAAATCGCAAAGCGTATTAGACTAT
1 ATTTGAATATCGCAACGGGAATTTGACTATCGCAACGCA-AAAATCGCAAAGCGAATTAGACTAT
987505 CGCAACGCGAATT
65 CGCAACGCGAATT
987518 GATTTTCGCG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 1 0.01
94 70 0.99
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (94 bp):
ATTTGAATATCGCAACGGGAATTTGACTATCGCAACGCAAAAATCGCAAAGCGAATTAGACTATC
GCAACGCGAATTTGACTATTACAATGTGA
Found at i:987546 original size:20 final size:20
Alignment explanation
Indices: 987516--987593 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
987506 GCAACGCGAA
* *
987516 TTGATTTTCGCGTTGCGATT
1 TTGAGTTTCGCATTGCGATT
987536 TTG-GCTTTCGCATTGCGATT
1 TTGAG-TTTCGCATTGCGATT
*
987556 TTGAGTTTCACATTGCGATT
1 TTGAGTTTCGCATTGCGATT
* *
987576 TTGAGTTTAGCGTTGCGA
1 TTGAGTTTCGCATTGCGA
987594 AAGTGTACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.14, C:0.15, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGAGTTTCGCATTGCGATT
Found at i:987732 original size:14 final size:14
Alignment explanation
Indices: 987713--987749 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
987703 CATCAATTAA
987713 ACAAATCAACTTTT
1 ACAAATCAACTTTT
987727 ACAAATCAACTTTT
1 ACAAATCAACTTTT
987741 ACAAATCAA
1 ACAAATCAA
987750 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:988926 original size:20 final size:20
Alignment explanation
Indices: 988901--988944 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
988891 AATAGTTTCT
988901 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
988921 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
988941 GAAA
1 GAAA
988945 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:988954 original size:20 final size:20
Alignment explanation
Indices: 988931--988978 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
988921 GAAACTTAAA
988931 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
988951 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
988971 ATCGCAAC
1 ATCGCAAC
988979 AAGATAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:989060 original size:14 final size:14
Alignment explanation
Indices: 989041--989077 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
989031 ACTAAATTCG
*
989041 CGTTGCGATTTTCA
1 CGTTGCGATTATCA
*
989055 CGTTGCGATTATCC
1 CGTTGCGATTATCA
989069 CGTTGCGAT
1 CGTTGCGAT
989078 AGTCATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (14 bp):
CGTTGCGATTATCA
Found at i:989113 original size:20 final size:21
Alignment explanation
Indices: 989069--989117 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
989059 GCGATTATCC
*
989069 CGTTGCGATAGTCATTTCCGT
1 CGTTGCGATAGTCATTTCCAT
*
989090 -GTTGCGATAGTCATTT-TAT
1 CGTTGCGATAGTCATTTCCAT
989109 CGTTGCGAT
1 CGTTGCGAT
989118 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.41
Consensus pattern (21 bp):
CGTTGCGATAGTCATTTCCAT
Found at i:991060 original size:20 final size:20
Alignment explanation
Indices: 991016--991087 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
991006 ACTTAAAATC
** *
991016 GCAACACGAAAAATGAAAATC
1 GCAACACG-AAAATGACTATT
991037 GCAACACGAAAATGACTATT
1 GCAACACGAAAATGACTATT
* **
991057 GCAACGCGAATTTGACTATT
1 GCAACACGAAAATGACTATT
* *
991077 ACAACGCGAAA
1 GCAACACGAAA
991088 TGAAAATCGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 35 0.81
21 8 0.19
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
GCAACACGAAAATGACTATT
Found at i:991811 original size:22 final size:22
Alignment explanation
Indices: 991781--991838 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
991771 GATGGAGATA
*
991781 GACGAATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
991803 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
991825 GACGGATATCGCCG
1 GACGGATTTCGCCG
991839 TAGAGAGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.41, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:992029 original size:20 final size:20
Alignment explanation
Indices: 992006--992050 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
991996 TTATCGCAAC
**
992006 GCGATAGTCAGAATCGTGTT
1 GCGATAGTCAGAATCACGTT
992026 GCGATAGTCAGAATCACGTT
1 GCGATAGTCAGAATCACGTT
992046 GCGAT
1 GCGAT
992051 TTACATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCACGTT
Found at i:994247 original size:16 final size:16
Alignment explanation
Indices: 994226--994257 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
994216 AAAAAATATA
994226 ATTTTTTATATATTTT
1 ATTTTTTATATATTTT
*
994242 ATTTTTTTTATATTTT
1 ATTTTTTATATATTTT
994258 TATTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTTATATATTTT
Found at i:994250 original size:18 final size:17
Alignment explanation
Indices: 994227--994261 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
994217 AAAAATATAA
994227 TTTTTTATATATTTTATT
1 TTTTTTATAT-TTTTATT
994245 TTTTTTATATTTTTATT
1 TTTTTTATATTTTTATT
994262 GAAAATACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTATATTTTTATT
Found at i:994989 original size:29 final size:29
Alignment explanation
Indices: 994947--995033 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
994937 GTCCCGGGGG
*
994947 TAGGTCGCCATGCACGCCCGGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
**
994976 TAGGTCGCCATGCACGCCCAGCGACCTGG
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
*
995005 TAGGTCGCCATGCACGCCCAACGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
995034 CAGCACCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.20, C:0.40, G:0.26, T:0.14
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTAC
Found at i:995749 original size:21 final size:21
Alignment explanation
Indices: 995724--995767 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
995714 AATTTAGTTA
995724 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
995745 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
995766 AT
1 AT
995768 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:998931 original size:14 final size:14
Alignment explanation
Indices: 998914--999783 Score: 324
Period size: 14 Copynumber: 62.3 Consensus size: 14
998904 GATGATTTAG
*
998914 TAATGATTTGATAA
1 TAATGATTTAATAA
*
998928 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
998940 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
998954 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
998966 T-ATTATTTAGTAA
1 TAATGATTTAATAA
998979 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
998989 TAATGATTTAATAC
1 TAATGATTTAATAA
999003 TAATGATTTAATAATTTA
1 TAATGATTTAAT-A---A
*
999021 GTAATGATTTAATAC
1 -TAATGATTTAATAA
999036 TAATGATTTAATTATTTA
1 TAATGATTTAA-TA---A
* *
999054 GTGATGATTTAATAC
1 -TAATGATTTAATAA
999069 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
999080 TAATGATTTAATAC
1 TAATGATTTAATAA
999094 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
999105 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
999121 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
999140 TAATGATTTGATAA
1 TAATGATTTAATAA
*
999154 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
999166 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
999180 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
999192 T-ATTATTTAGTAA
1 TAATGATTTAATAA
999205 T--T-ATTT-ATAA
1 TAATGATTTAATAA
999215 TAATGATTTAATAATTTA
1 TAATGATTTAAT-A---A
*
999233 GTAATGATTTAATAC
1 -TAATGATTTAATAA
999248 TAATGATTTAATAA
1 TAATGATTTAATAA
*
999262 TTTAGTGATGATTTAATAC
1 --TA---ATGATTTAATAA
999281 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
999292 TAATGATTTAATAC
1 TAATGATTTAATAA
*
999306 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
999322 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
999341 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
999355 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
999367 TAATGATTTGATAA
1 TAATGATTTAATAA
*
999381 TAATCA-TT-ATAA
1 TAATGATTTAATAA
* *
999393 AAATGATTTAGTAA
1 TAATGATTTAATAA
*
999407 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
999419 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
999430 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
999446 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
999465 TAATGATTTGATAA
1 TAATGATTTAATAA
*
999479 TAATTA-TT-ATAA
1 TAATGATTTAATAA
*
999491 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
999505 TAATTATTTAGTAA
1 TAATGATTTAATAA
999519 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
999529 TAATGATTTAATAC
1 TAATGATTTAATAA
*
999543 TAATGATTTAATAC
1 TAATGATTTAATAA
999557 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
999568 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
999584 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
999603 TAATGATTTGATAA
1 TAATGATTTAATAA
*
999617 TAATTA-TT-ATAA
1 TAATGATTTAATAA
*
999629 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
999643 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
999655 T-ATTATTTAGTAA
1 TAATGATTTAATAA
999668 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
999678 TAATGATTTAATAC
1 TAATGATTTAATAA
*
999692 TAATGATTTCATAATTTAG
1 TAATGA-TT--TAA--TAA
*
999711 TAATGATTTAATAC
1 TAATGATTTAATAA
999725 TAATGATTTAATAA
1 TAATGATTTAATAA
999739 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
999750 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
999766 TAATGATTTAATAC
1 TAATGATTTAATAA
999780 TAAT
1 TAAT
999784 AATAATGATT
Statistics
Matches: 672, Mismatches: 81, Indels: 206
0.70 0.08 0.21
Matches are distributed among these distances:
10 16 0.02
11 95 0.14
12 84 0.12
13 55 0.08
14 229 0.34
15 22 0.03
16 58 0.09
17 5 0.01
18 11 0.02
19 89 0.13
20 8 0.01
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:998993 original size:49 final size:46
Alignment explanation
Indices: 998934--999108 Score: 146
Period size: 49 Copynumber: 3.8 Consensus size: 46
998924 ATAATAATCA
* * * *
998934 TTATAATAATGATTTTATAATAATTATTTAGTTATTATTTAGTAATTAT
1 TTATAATAATGATTTAATAATAATGATTTA---ATAATTTAGTAATGAT
*
998983 TTATAATAATGATTTAATACTAATGATTTAATAATTTAGTAATGAT
1 TTATAATAATGATTTAATAATAATGATTTAATAATTTAGTAATGAT
* * * *
999029 TTAATACTAATGATTTAATTATTTAGTGATGATT--TAA--TACTAATGA-
1 TT-ATAATAATGATTTAA-TA-ATAATGAT--TTAATAATTTAGTAATGAT
*
999075 TT-TAATAATGATTTAATACTAATGATTTAATAAT
1 TTATAATAATGATTTAATAATAATGATTTAATAAT
999109 GATTTAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
40 2 0.02
42 9 0.08
43 2 0.02
44 13 0.12
46 18 0.17
47 22 0.21
48 2 0.02
49 36 0.34
51 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (46 bp):
TTATAATAATGATTTAATAATAATGATTTAATAATTTAGTAATGAT
Found at i:999027 original size:19 final size:19
Alignment explanation
Indices: 999003--999067 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
998993 GATTTAATAC
999003 TAATGATTTAATAATTTAG
1 TAATGATTTAATAATTTAG
*
999022 TAATGA-TT--TAA--TAC
1 TAATGATTTAATAATTTAG
*
999036 TAATGATTTAATTATTTAG
1 TAATGATTTAATAATTTAG
*
999055 TGATGATTTAATA
1 TAATGATTTAATA
999068 CTAATGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 8 0.22
15 2 0.06
16 3 0.08
17 2 0.06
18 2 0.06
19 19 0.53
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.48
Consensus pattern (19 bp):
TAATGATTTAATAATTTAG
Found at i:999031 original size:33 final size:33
Alignment explanation
Indices: 998989--999295 Score: 273
Period size: 33 Copynumber: 9.9 Consensus size: 33
998979 TTATTTATAA
998989 TAATGATTTAATACTAATGATTTAATAATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
*
999022 TAATGATTTAATACTAATGATTTAATTATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
*
999055 TGATGATTTAATACTAATGA-TT--T-A---A-
1 TAATGATTTAATACTAATGATTTAATAATTTAG
999080 TAATGATTTAATACTAATGATTTAATAA--T-G
1 TAATGATTTAATACTAATGATTTAATAATTTAG
* * * *
999110 --AT--TTAAATATTTAATGATTTGATGATTTAG
1 TAATGATTTAATA-CTAATGATTTAATAATTTAG
* * *
999140 TAATGATTTGATAATAATCA-TT-AT-A---A-
1 TAATGATTTAATACTAATGATTTAATAATTTAG
* * * *
999166 TAATGATTTTATAATAATTATTTAGTTATTATTTAG
1 TAATGATTTAATACTAATGATTTA---ATAATTTAG
* *
999202 TAATTATTT-ATAATAATGATTTAATAATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
999234 TAATGATTTAATACTAATGATTTAATAATTTAG
1 TAATGATTTAATACTAATGATTTAATAATTTAG
*
999267 TGATGATTTAATACTAATGATTTAATAAT
1 TAATGATTTAATACTAATGATTTAATAAT
999296 GATTTAATAC
Statistics
Matches: 230, Mismatches: 19, Indels: 50
0.77 0.06 0.17
Matches are distributed among these distances:
25 19 0.08
26 27 0.12
27 15 0.07
28 3 0.01
29 3 0.01
30 3 0.01
31 4 0.02
32 23 0.10
33 106 0.46
34 5 0.02
35 14 0.06
36 8 0.03
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.47
Consensus pattern (33 bp):
TAATGATTTAATACTAATGATTTAATAATTTAG
Found at i:999077 original size:25 final size:25
Alignment explanation
Indices: 999057--999778 Score: 145
Period size: 26 Copynumber: 29.0 Consensus size: 25
999047 TTATTTAGTG
999057 ATGATTTAATACTAATGATTTAATA
1 ATGATTTAATACTAATGATTTAATA
999082 ATGATTTAATACTAATGATTTAATA
1 ATGATTTAATACTAATGATTTAATA
* *
999107 ATGATTTAAATATTTAATGA-TT--TG
1 ATGATTT-AATA-CTAATGATTTAATA
* *
999131 ATGA-TT--TAGTAATGATTTGATA
1 ATGATTTAATACTAATGATTTAATA
* * *
999153 ATAATCATT-ATAATAATGATTTTATA
1 ATGAT--TTAATACTAATGATTTAATA
* * * * * *
999179 AT-AATTATTTAGTTATTATTTAGTA
1 ATGATTTA-ATACTAATGATTTAATA
* *
999204 ATTATTT-ATAATAATGATTTAAT-
1 ATGATTTAATACTAATGATTTAATA
*
999227 A--A-TT--TAGTAATGATTTAATACTA
1 ATGATTTAATACTAATGATTT-A-A-TA
*
999250 ATGATTTAATAATTTAGTGATGATTTAATACTA
1 ATGATTTAAT-A-CTA---ATGATTT-A-A-TA
999283 ATGATTT-A-A-TAATGATTTAATACTA
1 ATGATTTAATACTAATGATTT-A-A-TA
* *
999308 ATGATTTAAATATTTAATGA-TT--TG
1 ATGATTT-AATA-CTAATGATTTAATA
* *
999332 ATGA-TT--TAGTAATGATTTGATA
1 ATGATTTAATACTAATGATTTAATA
* * *
999354 ATAATCATT-ATAGTAATGATTTGATA
1 ATGAT--TTAATACTAATGATTTAATA
* ** *
999380 ATAATCATT-ATAAAAATGATTTAGTA
1 ATGAT--TTAATACTAATGATTTAATA
* **
999406 ATAATCATT-ATAAAAATGATTTAATA
1 ATGAT--TTAATACTAATGATTTAATA
* *
999432 ATGATTTAAATATTTAATGA-TT--TG
1 ATGATTT-AATA-CTAATGATTTAATA
* *
999456 ATGA-TT--TAGTAATGATTTGATA
1 ATGATTTAATACTAATGATTTAATA
* * * *
999478 ATAATTATTATAATAATGATTTTATA
1 ATGATT-TAATACTAATGATTTAATA
* * * *
999504 AT-AATTATTTAGTAATTATTTATAATA
1 ATGATTTA-ATACTAATGA-TT-TAATA
999531 ATGATTTAATACTAATGATTTAATACTA
1 ATGATTTAATACTAATGATTT-A-A-TA
999559 ATGATTT-A-A-TAATGATTT-A-A
1 ATGATTTAATACTAATGATTTAATA
* * *
999579 AT-ATTTAATGATTTGATGATTTAGTA
1 ATGATTTAAT-A-CTAATGATTTAATA
* * *
999605 ATGATTTGATAATAATTATTATAATA
1 ATGATTTAATACTAATGATT-TAATA
* * * * *
999631 ATGATTTTATAATAATTATTTAGTT
1 ATGATTTAATACTAATGATTTAATA
* * * *
999656 ATTATTTAGTAATTAT--TTATAATA
1 ATGATTTAATACTAATGATT-TAATA
*
999680 ATGATTTAATACTAATGATTTCAT-
1 ATGATTTAATACTAATGATTTAATA
*
999704 A--A-TT--TAGTAATGATTTAATACTA
1 ATGATTTAATACTAATGATTT-A-A-TA
*
999727 ATGATTTAATAATAATGATTTAATA
1 ATGATTTAATACTAATGATTTAATA
*
999752 ATGATTTAAATATTTAATGATTTAATA
1 ATGATTT-AATA-CTAATGATTTAATA
999779 CTAATAATAA
Statistics
Matches: 544, Mismatches: 75, Indels: 154
0.70 0.10 0.20
Matches are distributed among these distances:
19 44 0.08
20 19 0.03
21 5 0.01
22 17 0.03
23 14 0.03
24 54 0.10
25 125 0.23
26 157 0.29
27 47 0.09
28 28 0.05
29 3 0.01
30 9 0.02
32 1 0.00
33 21 0.04
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
ATGATTTAATACTAATGATTTAATA
Found at i:999169 original size:212 final size:210
Alignment explanation
Indices: 998948--999530 Score: 663
Period size: 212 Copynumber: 2.8 Consensus size: 210
998938 AATAATGATT
* *
998948 TTATAATAATTATTTAGTTATTATTTAGTAATTATTTATAATAATGATTTAATACTAATGATTTA
1 TTATAATAATGATTTAGTTATTATTTAGTAATTATTTATAATAATGATTTAATAATAATGATTTA
*
999013 ATAATTTAGTAATGATTTAATACTAATGATTTAATTATTTAGTGATGATTTAATACTAATGATTT
66 ATAATTTAGTAATGATTTAATACTAATGATTTAATAATTTAGTGATGATTTAATACTAATGATTT
999078 AATAATGATTTAATACTAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
131 AATAATGATTTAATACTAAT-ATTT-ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
999143 TGATTTGATAATAATCA
194 TGATTTGATAATAATCA
*
999160 TTATAATAATGATTTTA-TAATAATTATTTAGTTATTATTTAGTAAT--T-ATTT-ATAATAATG
1 TTATAATAATGA-TTTAGT--T-ATTATTTAGTAATTATTTA-TAATAATGATTTAATAATAATG
999220 ATTTAATAATTTAGTAATGATTTAATACTAATGATTTAATAATTTAGTGATGATTTAATACTAAT
61 ATTTAATAATTTAGTAATGATTTAATACTAATGATTTAATAATTTAGTGATGATTTAATACTAAT
999285 GATTTAATAATGATTTAATAC---------TAATGATTTAAATATTTAATGATTTGATGATTTAG
126 GATTTAATAATGATTTAATACTAATATTTATAATGATTTAAATATTTAATGATTTGATGATTTAG
999341 TAATGATTTGATAATAATCA
191 TAATGATTTGATAATAATCA
* * * * *
999361 TTATAGTAATGATTT-G--A-TA---A-TAATCA-TTATAAAAATGATTTAGTAATAATCATTAT
1 TTATAATAATGATTTAGTTATTATTTAGTAATTATTTATAATAATGATTTAATAATAATGATT-T
* * * * * * * *
999417 AAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAA
65 ---AATAATTTAGTAATGATTT-AATA-CTAATGATTTAATAATTTAGTGATGATTTAATACTAA
* * * *
999482 TTATTATAATAATGATTTTATAATAATTATTTAGTAATTATTTATAATA
125 TGATT-TAATAATGATTTAATACTAA-TATTTA-TAATGATTTA-AATA
999531 ATGATTTAAT
Statistics
Matches: 320, Mismatches: 22, Indels: 59
0.80 0.05 0.15
Matches are distributed among these distances:
188 3 0.01
189 3 0.01
190 5 0.02
191 5 0.02
192 10 0.03
193 1 0.00
194 2 0.01
195 1 0.00
196 17 0.05
197 4 0.01
198 35 0.11
199 15 0.05
200 3 0.01
201 66 0.21
210 9 0.03
211 4 0.01
212 105 0.33
213 8 0.03
214 2 0.01
215 18 0.06
216 4 0.01
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (210 bp):
TTATAATAATGATTTAGTTATTATTTAGTAATTATTTATAATAATGATTTAATAATAATGATTTA
ATAATTTAGTAATGATTTAATACTAATGATTTAATAATTTAGTGATGATTTAATACTAATGATTT
AATAATGATTTAATACTAATATTTATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATG
ATTTGATAATAATCA
Found at i:999239 original size:19 final size:19
Alignment explanation
Indices: 999215--999279 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
999205 TTATTTATAA
999215 TAATGATTTAATAATTTAG
1 TAATGATTTAATAATTTAG
*
999234 TAATGA-TT--TAA--TAC
1 TAATGATTTAATAATTTAG
999248 TAATGATTTAATAATTTAG
1 TAATGATTTAATAATTTAG
*
999267 TGATGATTTAATA
1 TAATGATTTAATA
999280 CTAATGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 8 0.21
15 2 0.05
16 3 0.08
17 3 0.08
18 2 0.05
19 20 0.53
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (19 bp):
TAATGATTTAATAATTTAG
Found at i:999503 original size:138 final size:137
Alignment explanation
Indices: 999273--999706 Score: 521
Period size: 138 Copynumber: 3.3 Consensus size: 137
999263 TTAGTGATGA
* *
999273 TTTAATACTAATGATTTAAT--AATGATTTAATACTAATGATTTAAATATTTAATGATTTGATGA
1 TTTAATAATAATCATTTAATACAATGATTT-A-A-TAATGATTTAAATATTTAATGATTTGATGA
* * * *
999336 TTTAGTAATGATTTGATAATAATCATTATAGTAATGA---T-T--TGA-TA---A-TAATCA-TT
63 TTTAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTAATAATTT
999389 ATAAAAATGA
128 ATAAAAATGA
*
999399 TTTAGTAATAATCATTATAA-A-AATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
1 TTTAATAATAATCATT-TAATACAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
*
999462 TAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTAATTATTTAT
65 TAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTAATAATTTAT
*
999527 AATAATGA
130 AAAAATGA
* *
999535 TTTAATACTAATGATTTAATACTAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
1 TTTAATAATAATCATTTAATAC-AATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
* *
999600 TAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTTATTATTTAG
65 TAGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTAATAATTTA-
*
999665 T---AATTA
129 TAAAAATGA
* *
999671 TTT-ATAATAATGATTTAATACTAATGATTTCATAAT
1 TTTAATAATAATCATTTAATAC-AATGATTTAATAAT
999707 TTAGTAATGA
Statistics
Matches: 275, Mismatches: 15, Indels: 27
0.87 0.05 0.09
Matches are distributed among these distances:
124 65 0.24
125 1 0.00
126 14 0.05
127 12 0.04
128 1 0.00
130 2 0.01
131 2 0.01
134 1 0.00
135 39 0.14
136 32 0.12
138 105 0.38
139 1 0.00
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (137 bp):
TTTAATAATAATCATTTAATACAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTT
AGTAATGATTTGATAATAATTATTATAATAATGATTTTATAATAATTATTTAGTAATAATTTATA
AAAATGA
Found at i:999743 original size:47 final size:46
Alignment explanation
Indices: 999664--999753 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 46
999654 TTATTATTTA
* * *
999664 GTAATTATTTATAATAATGATTTAATACTAATGATTTCATAATTTA
1 GTAATGATTTATAATAATGATTTAATAATAATGATTTAATAATTTA
*
999710 GTAATGATTTAATACTAATGATTTAATAATAATGATTTAATAAT
1 GTAATGATTT-ATAATAATGATTTAATAATAATGATTTAATAAT
999754 GATTTAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 9 0.23
47 30 0.77
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (46 bp):
GTAATGATTTATAATAATGATTTAATAATAATGATTTAATAATTTA
Found at i:999791 original size:20 final size:20
Alignment explanation
Indices: 999747--999802 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
999737 AATAATGATT
999747 TAATAATGATTTAA-A-T-A
1 TAATAATGATTTAATACTAA
*
999764 T-TTAATGATTTAATACTAA
1 TAATAATGATTTAATACTAA
*
999783 TAATAATGATTTGATACTAA
1 TAATAATGATTTAATACTAA
999803 AAATCATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 11 0.34
17 2 0.06
18 1 0.03
19 2 0.06
20 16 0.50
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (20 bp):
TAATAATGATTTAATACTAA
Found at i:1001973 original size:15 final size:14
Alignment explanation
Indices: 1001948--1001978 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1001938 TTCAACACAA
1001948 AACTTTAATATAAT
1 AACTTTAATATAAT
1001962 AACTTATAATATAAT
1 AACTT-TAATATAAT
1001977 AA
1 AA
1001979 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:1001986 original size:16 final size:16
Alignment explanation
Indices: 1001953--1001999 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1001943 CACAAAACTT
*
1001953 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
1001968 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
1001984 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
1002000 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:1002115 original size:32 final size:34
Alignment explanation
Indices: 1002040--1002121 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
1002030 CCAAACCCTT
* *
1002040 AAAC-AACTAATAAAATATTTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTCATATAACTA
1002073 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTTCA-TATAACTA
*
1002106 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
1002122 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 11 0.25
33 8 0.18
34 20 0.45
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTTTTTCATATAACTA
Found at i:1002252 original size:45 final size:48
Alignment explanation
Indices: 1002162--1002252 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 48
1002152 CAACAAACAA
1002162 ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
1 ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
*
1002210 ATATAAC-TAACTA-TTAAC-AA-AACAAACTAATT-AATTATTTTTT
1 ATATAACTTAACTATTTAACTAACAA-AAACTAATTAAATAATTTTTT
1002253 AACTATATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
44 12 0.29
45 11 0.27
46 5 0.12
47 6 0.15
48 7 0.17
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
Found at i:1002321 original size:41 final size:40
Alignment explanation
Indices: 1002233--1002321 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
1002223 TTAACAAAAC
* *
1002233 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
1002274 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
1002315 AAACTAA
1 AAACTAA
1002322 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:1002386 original size:16 final size:18
Alignment explanation
Indices: 1002357--1002395 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1002347 ACTAATTAAC
*
1002357 ATTTATAATAATAAACTA
1 ATTTATAATAATAAACAA
1002375 ATTTA-AAT-ATAAACAA
1 ATTTATAATAATAAACAA
1002391 ATTTA
1 ATTTA
1002396 CCTTATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTATAATAATAAACAA
Found at i:1002753 original size:29 final size:29
Alignment explanation
Indices: 1002711--1002805 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
1002701 GTGACGCCGG
1002711 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
1002740 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
** *
1002769 GGCGACCTACAAGGTCGCCCAGACTGCAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
1002798 GGCGACCT
1 GGCGACCT
1002806 CTCCATTGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.14
Consensus pattern (29 bp):
GGCGACCTACAAGGTCGCCGGGACTACAT
Found at i:1002833 original size:32 final size:32
Alignment explanation
Indices: 1002792--1002873 Score: 164
Period size: 32 Copynumber: 2.6 Consensus size: 32
1002782 GTCGCCCAGA
1002792 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1002824 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1002856 CTGCATGGCGACCTCTCC
1 CTGCATGGCGACCTCTCC
1002874 TCGTATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.27
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
Found at i:1003004 original size:29 final size:29
Alignment explanation
Indices: 1002971--1003030 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
1002961 GTCCCGTATG
* *
1002971 TCGCCTGGATTGTATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCATCCTACAAGA
*
1003000 TCGCCTGGATTGCATGGCATCCTACGAGA
1 TCGCCTGGATTGCATGGCATCCTACAAGA
1003029 TC
1 TC
1003031 ACTGTAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCATCCTACAAGA
Found at i:1010580 original size:22 final size:21
Alignment explanation
Indices: 1010535--1010598 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
1010525 AACCCAAACT
*
1010535 CCAATTTCGCAAC--ACATTTT
1 CCAATTTCGCAACTGA-ATTTC
1010555 CCAATTTCGCAACGTGAATTTC
1 CCAATTTCGCAAC-TGAATTTC
*
1010577 CCAAATTCGCAACTCGAATTTC
1 CCAATTTCGCAACT-GAATTTC
1010599 TTTTCCGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 23 0.61
23 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (21 bp):
CCAATTTCGCAACTGAATTTC
Found at i:1010627 original size:20 final size:20
Alignment explanation
Indices: 1010604--1010648 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1010594 ATTTCTTTTC
* * *
1010604 CGCAACGCAAAATTTTAATT
1 CGCAACACAAAAGTTAAATT
*
1010624 CGCAACACATAAGTTAAATT
1 CGCAACACAAAAGTTAAATT
1010644 CGCAA
1 CGCAA
1010649 AGCTCGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (20 bp):
CGCAACACAAAAGTTAAATT
Found at i:1010939 original size:22 final size:21
Alignment explanation
Indices: 1010900--1010960 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
1010890 CCACCGAGGG
1010900 TTAG-TTTTTTTAATTATTTTTA
1 TTAGATTTTTTT-A-TATTTTTA
* *
1010922 TTTTGATTTTTTTATATTATTA
1 -TTAGATTTTTTTATATTTTTA
1010944 TTAGA-TTTTTTATATTT
1 TTAGATTTTTTTATATTT
1010961 AAATTGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 11 0.33
21 4 0.12
22 7 0.21
23 4 0.12
24 7 0.21
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TTAGATTTTTTTATATTTTTA
Found at i:1012759 original size:42 final size:42
Alignment explanation
Indices: 1012695--1012792 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
1012685 CCCCCACTTT
* * * *
1012695 GAGAGCAATCACCTGATCGAGCCAATTCTACAGCTCGACACC
1 GAGAGCCATCACCTGATCGAGCCAATTATACACCTCCACACC
* *
1012737 GAGAGCCATCACCTGATTGAGCCGATTATACACCTCCACACC
1 GAGAGCCATCACCTGATCGAGCCAATTATACACCTCCACACC
1012779 GAGAGCCATCACCT
1 GAGAGCCATCACCT
1012793 ATTCCATCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (42 bp):
GAGAGCCATCACCTGATCGAGCCAATTATACACCTCCACACC
Found at i:1012950 original size:21 final size:21
Alignment explanation
Indices: 1012907--1012956 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1012897 GTTAGAGGAG
* *
1012907 TTACATGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
*
1012928 TTGCGTGATGAGGTC-GATACT
1 TTACGTGATGAGGTCAG-TACT
1012949 TTACGTGA
1 TTACGTGA
1012957 CGACAATGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:1012997 original size:21 final size:21
Alignment explanation
Indices: 1012973--1013022 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1012963 TGGTGCATGG
1012973 TGTGATGAGATACGGTCTTTA
1 TGTGATGAGATACGGTCTTTA
* * * * *
1012994 TGTGGTGAGGTATGTTTTTTA
1 TGTGATGAGATACGGTCTTTA
1013015 TGTGATGA
1 TGTGATGA
1013023 CAATGGTGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.32, T:0.44
Consensus pattern (21 bp):
TGTGATGAGATACGGTCTTTA
Found at i:1013019 original size:42 final size:43
Alignment explanation
Indices: 1012973--1013068 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
1012963 TGGTGCATGG
* * **
1012973 TGTGATGAGATACGGT-CTTTATGTGGTGAGGTATGTTTTTTA
1 TGTGATGAGATACGGTGCTTTACGTGGTGAGGTATCTACTTTA
* *
1013015 TGTGATGACA-ATGGTGCTTTACGTGGTGAGGTATCTACTTTA
1 TGTGATGAGATACGGTGCTTTACGTGGTGAGGTATCTACTTTA
*
1013057 CGTGATGAGATA
1 TGTGATGAGATA
1013069 GCCGCTCTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.09
42 39 0.89
43 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.30, T:0.40
Consensus pattern (43 bp):
TGTGATGAGATACGGTGCTTTACGTGGTGAGGTATCTACTTTA
Found at i:1013393 original size:21 final size:20
Alignment explanation
Indices: 1013366--1013461 Score: 111
Period size: 21 Copynumber: 4.6 Consensus size: 20
1013356 TTCACCTGTC
1013366 ATCGTTCAAGAGGCCCCTCAT
1 ATCGTTCAAGAGGCCCCTC-T
* * *
1013387 ATTGTTCAAGAGGCCCATCCC
1 ATCGTTCAAGAGGCCCCT-CT
1013408 ATCGTTCAAGAGGCCCCTCT
1 ATCGTTCAAGAGGCCCCTCT
*
1013428 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCT-CT
*
1013450 ACCGTTCAAGAG
1 ATCGTTCAAGAG
1013462 CCCGATTCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 61 0.95
22 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGTTCAAGAGGCCCCTCT
Found at i:1013412 original size:42 final size:42
Alignment explanation
Indices: 1013365--1013461 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
1013355 ATTCACCTGT
*
1013365 CATCGTTCAAGAGGCCCCTCAT-ATTGTTCAAGAGGCCCATCC
1 CATCGTTCAAGAGGCCCCTC-TCATCGTTCAAGAGGCCCATCC
*
1013407 CATCGTTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCATCC
*
1013449 CACCGTTCAAGAG
1 CATCGTTCAAGAG
1013462 CCCGATTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.22
Consensus pattern (42 bp):
CATCGTTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCATCC
Found at i:1020967 original size:23 final size:24
Alignment explanation
Indices: 1020941--1021009 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 24
1020931 CACCACAGCT
*
1020941 CGTATAATTGCACCGAAGTGCCA-
1 CGTAGAATTGCACCGAAGTGCCAG
*
1020964 CGTAGAATTGCACCGGAGTG-CAG
1 CGTAGAATTGCACCGAAGTGCCAG
* *
1020987 CGTAGAATTGCACTGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1021010 TATAATAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.05
23 36 0.90
24 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (24 bp):
CGTAGAATTGCACCGAAGTGCCAG
Found at i:1021497 original size:25 final size:25
Alignment explanation
Indices: 1021463--1021512 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1021453 AACACATCGA
1021463 AACACCTAGAACACTTTCTCATAGC
1 AACACCTAGAACACTTTCTCATAGC
1021488 AACACCTAGAACACTTTCTCATAGC
1 AACACCTAGAACACTTTCTCATAGC
1021513 TTATATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (25 bp):
AACACCTAGAACACTTTCTCATAGC
Found at i:1021998 original size:20 final size:20
Alignment explanation
Indices: 1021975--1022020 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1021965 CTCTTTATAA
1021975 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
1021995 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
1022015 ACATCT
1 ACATCT
1022021 CTCAACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:1025745 original size:23 final size:23
Alignment explanation
Indices: 1025719--1025787 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1025709 AACCACAGCT
* *
1025719 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
* *
1025742 CGTAGAATTACACCGGAGTGCCG
1 CGTAGAATTACACCGAAGTGCCA
*
1025765 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
1025788 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:1029732 original size:24 final size:24
Alignment explanation
Indices: 1029681--1029732 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1029671 ATCTGAGTAT
** *
1029681 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1029705 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1029729 TGAC
1 TGAC
1029733 TATTACTCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1029865 original size:12 final size:12
Alignment explanation
Indices: 1029844--1029877 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1029834 GATTGTGGGT
*
1029844 TTTGAGATTGTG
1 TTTGATATTGTG
1029856 TTTGATATTGTG
1 TTTGATATTGTG
*
1029868 TTTGGTATTG
1 TTTGATATTG
1029878 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1029907 original size:19 final size:19
Alignment explanation
Indices: 1029883--1029927 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1029873 TATTGGAAAT
1029883 GTGGTGAAACAAAATTTTC
1 GTGGTGAAACAAAATTTTC
1029902 GTGGTGAAACAAAATTTTC
1 GTGGTGAAACAAAATTTTC
*
1029921 TTGGTGA
1 GTGGTGA
1029928 TGAAATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (19 bp):
GTGGTGAAACAAAATTTTC
Found at i:1030510 original size:16 final size:15
Alignment explanation
Indices: 1030488--1030524 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
1030478 GAAATCATTG
1030488 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
1030503 ATAAAATTATATATAA
1 A-AAAATTATATAGAA
1030519 AAAAAT
1 AAAAAT
1030525 AGAGATGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:1030707 original size:20 final size:20
Alignment explanation
Indices: 1030681--1030953 Score: 135
Period size: 20 Copynumber: 13.7 Consensus size: 20
1030671 AAATAAAAGT
*
1030681 TGTTGCGAATTCGAAAATCG
1 TGTTGCGAATTTGAAAATCG
* *** * *
1030701 AGTTGCGAA-AACAAATTTG
1 TGTTGCGAATTTGAAAATCG
*
1030720 TGTTGCG-ATTTAGAAAATCT
1 TGTTGCGAATTT-GAAAATCG
*** * *
1030740 TGTTGCGAAAAGGAAACTTG
1 TGTTGCGAATTTGAAAATCG
*** *
1030760 TGTTGCGAAAAAGAAATTCG
1 TGTTGCGAATTTGAAAATCG
** *
1030780 CATTGCGAA-TTCAGAAATCG
1 TGTTGCGAATTTGA-AAATCG
* *
1030800 TGCTGCGAATTTGAAATTCCG
1 TGTTGCGAATTTGAAAAT-CG
*
1030821 TGTTGCGAATTTGGAAATCG
1 TGTTGCGAATTTGAAAATCG
* *
1030841 CGTTGCGAATTTGGAAATCG
1 TGTTGCGAATTTGAAAATCG
* *
1030861 CGTTGCGAATTTGGAAATCG
1 TGTTGCGAATTTGAAAATCG
*
1030881 CGTTGCG-ATTGTAGAAAAT-G
1 TGTTGCGAATT-T-GAAAATCG
* *
1030901 AGTTGCGAATTTAGAAACT-G
1 TGTTGCGAATTT-GAAAATCG
* * **
1030921 TGTTGCGAAATTGGAGTTCG
1 TGTTGCGAATTTGAAAATCG
*
1030941 CGTTGCGAATTTG
1 TGTTGCGAATTTG
1030954 TTGGTCATTT
Statistics
Matches: 196, Mismatches: 47, Indels: 20
0.75 0.18 0.08
Matches are distributed among these distances:
18 1 0.01
19 18 0.09
20 148 0.76
21 29 0.15
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (20 bp):
TGTTGCGAATTTGAAAATCG
Found at i:1030736 original size:39 final size:39
Alignment explanation
Indices: 1030664--1030768 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 39
1030654 AAACATTTGT
* * *
1030664 GTTGCGAAAATAAAAGT-TGTTGCGAATTCGAAAATCGA
1 GTTGCGAAAACAAAATTGTGTTGCGAATTAGAAAATCGA
* * **
1030702 GTTGCGAAAACAAATTTGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAAACAAAATTGTGTTGCGAATTAGAAAATCGA
* *
1030741 GTTGCGAAAAGGAAACTTGTGTTGCGAA
1 GTTGCGAAAA-CAAAATTGTGTTGCGAA
1030769 AAAGAAATTC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 14 0.25
39 27 0.49
40 14 0.25
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (39 bp):
GTTGCGAAAACAAAATTGTGTTGCGAATTAGAAAATCGA
Found at i:1030881 original size:40 final size:40
Alignment explanation
Indices: 1030772--1030953 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
1030762 TTGCGAAAAA
* ** * *
1030772 GAAATTCGCATTGCGAATTCAGAAATCGTGCTGCGAATTT-
1 GAAA-TCGCGTTGCGAATTTGGAAATCGCGTTGCGAATTTG
*
1030812 GAAATTCCGTGTTGCGAATTTGGAAATCGCGTTGCGAATTTG
1 GAAA-T-CGCGTTGCGAATTTGGAAATCGCGTTGCGAATTTG
1030854 GAAATCGCGTTGCGAATTTGGAAATCGCGTTGCG-ATTGTAG
1 GAAATCGCGTTGCGAATTTGGAAATCGCGTTGCGAATT-T-G
* * * * *
1030895 AAAAT-GAGTTGCGAATTTAGAAA-CTGTGTTGCGAAATTG
1 GAAATCGCGTTGCGAATTTGGAAATC-GCGTTGCGAATTTG
**
1030934 GAGTTCGCGTTGCGAATTTG
1 GAAATCGCGTTGCGAATTTG
1030954 TTGGTCATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 7 0.06
40 71 0.60
41 36 0.31
42 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (40 bp):
GAAATCGCGTTGCGAATTTGGAAATCGCGTTGCGAATTTG
Found at i:1030912 original size:60 final size:59
Alignment explanation
Indices: 1030782--1030953 Score: 170
Period size: 60 Copynumber: 2.8 Consensus size: 59
1030772 GAAATTCGCA
* * * * *
1030782 TTGCGAATTCAGAAATCGTGCTGCGAATTT-GAAATTCCGTGTTGCGAATTTGGAAATCGCG
1 TTGCGAATTTAGAAATCGTGTTGCGAATTTGGAAA-T-CGCGTTGCG-ATTTGAAAATCGAG
* *
1030843 TTGCGAATTTGGAAATCGCGTTGCGAATTTGGAAATCGCGTTGCGATTGTAGAAAAT-GAG
1 TTGCGAATTTAGAAATCGTGTTGCGAATTTGGAAATCGCGTTGCGATT-T-GAAAATCGAG
* **
1030903 TTGCGAATTTAGAAA-CTGTGTTGCGAAATTGGAGTTCGCGTTGCGAATTTG
1 TTGCGAATTTAGAAATC-GTGTTGCGAATTTGGAAATCGCGTTGCG-ATTTG
1030954 TTGGTCATTT
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
59 5 0.05
60 50 0.53
61 35 0.37
62 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (59 bp):
TTGCGAATTTAGAAATCGTGTTGCGAATTTGGAAATCGCGTTGCGATTTGAAAATCGAG
Found at i:1057251 original size:39 final size:39
Alignment explanation
Indices: 1057208--1057298 Score: 148
Period size: 39 Copynumber: 2.3 Consensus size: 39
1057198 TCCATCTCCT
1057208 GCTCCTGCTCCATTTCCAAAACCTCCATCATCTACACCA
1 GCTCCTGCTCCATTTCCAAAACCTCCATCATCTACACCA
* *
1057247 GCTCCGGCTCCATTTCCAGAACCTCCATCATCTACACCA
1 GCTCCTGCTCCATTTCCAAAACCTCCATCATCTACACCA
1057286 GCTCCAT-CTCCAT
1 GCTCC-TGCTCCAT
1057299 CACCTTTACC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.23, C:0.44, G:0.08, T:0.25
Consensus pattern (39 bp):
GCTCCTGCTCCATTTCCAAAACCTCCATCATCTACACCA
Found at i:1057398 original size:66 final size:66
Alignment explanation
Indices: 1057287--1057566 Score: 317
Period size: 66 Copynumber: 4.1 Consensus size: 66
1057277 TCTACACCAG
* *
1057287 CTCCATCTCCATCACCTTTACCAACATCATCATCGCTACCTCCATTACCTGCACGAATACCATCA
1 CTCCATCTCCATCACCTTTACCAACACCATCATCGCTACCTCCATTACCTGCACCAATACCATCA
1057352 T
66 T
* * *
1057353 CTCCATCTCCATCACCTTTACCAACATCATCATCGCTACCCCCATTACCTGCACGAATACCATCA
1 CTCCATCTCCATCACCTTTACCAACACCATCATCGCTACCTCCATTACCTGCACCAATACCATCA
1057418 T
66 T
** * * * * * **
1057419 CTCCATCACCTGCAATACCATCATTTTTACCAAGACCATCATCTCCATCTCCATCACCTTTACCA
1 CT-C--CA--T-C--T-CCATCACCTTTACCAACACCATCATCGCTACCTCCATTACCTGCACCA
*
1057484 AGACCATCAT
57 ATACCATCAT
* * *
1057494 CTCCATCTCCATCACCTTCACCAACACCATCATCCCTACCTCCATTACCTGCACCAGTACCATCA
1 CTCCATCTCCATCACCTTTACCAACACCATCATCGCTACCTCCATTACCTGCACCAATACCATCA
1057559 T
66 T
1057560 CTCCATC
1 CTCCATC
1057567 ACCTTTACCA
Statistics
Matches: 179, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
66 120 0.67
67 2 0.01
69 3 0.02
70 1 0.01
71 1 0.01
72 3 0.02
74 2 0.01
75 47 0.26
ACGTcount: A:0.27, C:0.42, G:0.04, T:0.26
Consensus pattern (66 bp):
CTCCATCTCCATCACCTTTACCAACACCATCATCGCTACCTCCATTACCTGCACCAATACCATCA
T
Found at i:1057460 original size:141 final size:141
Alignment explanation
Indices: 1057303--1057570 Score: 392
Period size: 141 Copynumber: 1.9 Consensus size: 141
1057293 CTCCATCACC
* * * * *
1057303 TTTACCAACATCATCATCGCTACCTCCATTACCTGCACGAATACCATCATCTCCATCTCCATCAC
1 TTTACCAACACCATCATCGCCACCTCCATCACCTGCACCAAGACCATCATCTCCATCTCCATCAC
* * * *
1057368 CTTTACCAACATCATCATCGCTACCCCCATTACCTGCACGAATACCATCATCTCCATCACCTGCA
66 CTTCACCAACACCATCATCCCTACCCCCATTACCTGCACCAATACCATCATCTCCATCACCTGCA
1057433 ATACCATCATT
131 ATACCATCATT
* * * **
1057444 TTTACCAAGACCATCATCTCCATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCAC
1 TTTACCAACACCATCATCGCCACCTCCATCACCTGCACCAAGACCATCATCTCCATCTCCATCAC
* *
1057509 CTTCACCAACACCATCATCCCTACCTCCATTACCTGCACCAGTACCATCATCTCCATCACCT
66 CTTCACCAACACCATCATCCCTACCCCCATTACCTGCACCAATACCATCATCTCCATCACCT
1057571 TTACCAATAC
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
141 111 1.00
ACGTcount: A:0.28, C:0.42, G:0.04, T:0.26
Consensus pattern (141 bp):
TTTACCAACACCATCATCGCCACCTCCATCACCTGCACCAAGACCATCATCTCCATCTCCATCAC
CTTCACCAACACCATCATCCCTACCCCCATTACCTGCACCAATACCATCATCTCCATCACCTGCA
ATACCATCATT
Found at i:1057562 original size:93 final size:93
Alignment explanation
Indices: 1057464--1057660 Score: 322
Period size: 93 Copynumber: 2.1 Consensus size: 93
1057454 CCATCATCTC
*
1057464 CATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTTCACCAACACCATCATCC
1 CATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTTCACCAAAACCATCATCC
*
1057529 CTACCTCCATTACCTGCACCAGTACCAT
66 CTACCTCCATTACCTGCACCAATACCAT
* * * *
1057557 CATCTCCATCACCTTTACCAATACCATCATCTCCATCTCCATCACTTTTACCAAAACCATCATCT
1 CATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTTCACCAAAACCATCATCC
* *
1057622 TTACCTCTATTACCTGCACCAATACCAT
66 CTACCTCCATTACCTGCACCAATACCAT
1057650 CATCTCCATCA
1 CATCTCCATCA
1057661 TCTCCATCAC
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.28, C:0.42, G:0.02, T:0.28
Consensus pattern (93 bp):
CATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTTCACCAAAACCATCATCC
CTACCTCCATTACCTGCACCAATACCAT
Found at i:1057619 original size:33 final size:33
Alignment explanation
Indices: 1057287--1057691 Score: 275
Period size: 33 Copynumber: 12.1 Consensus size: 33
1057277 TCTACACCAG
* *
1057287 CTCCATCTCCATCACCTTTACCAACATCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* * * * ** *
1057320 CGCTACCTCCATTACCTGCACGAATACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* *
1057353 CTCCATCTCCATCACCTTTACCAACATCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* * * * * ** *
1057386 CGCTACCCCCATTACCTGCACGAATACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
** *
1057419 CTCCATCACCTGCAATACCATCATTTTTACCAAGACCATCAT
1 CT-C--CA--T-C--T-CCATCACCTTTACCAATACCATCAT
*
1057461 CTCCATCTCCATCACCTTTACCAAGACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* *
1057494 CTCCATCTCCATCACCTTCACCAACACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* * ** *
1057527 C-CCTACCTCCATTACCTGCACCAGTA-C--CA-
1 CTCC-ATCTCCATCACCTTTACCAATACCATCAT
1057556 -T-CATCTCCATCACCTTTACCAATACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* *
1057587 CTCCATCTCCATCACTTTTACCAAAACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
** * * * **
1057620 CTTTACCTCTATTACCTGCACCAATACCATCAT
1 CTCCATCTCCATCACCTTTACCAATACCATCAT
* *
1057653 CTCCATCATCTCCATCACCTTTACCAACAACATCAT
1 CT-C--CATCTCCATCACCTTTACCAATACCATCAT
1057689 CTC
1 CTC
1057692 TAACTCAATT
Statistics
Matches: 279, Mismatches: 73, Indels: 38
0.72 0.19 0.10
Matches are distributed among these distances:
27 17 0.06
28 2 0.01
30 4 0.01
32 4 0.01
33 198 0.71
34 2 0.01
35 1 0.00
36 26 0.09
37 1 0.00
39 3 0.01
41 1 0.00
42 20 0.07
ACGTcount: A:0.28, C:0.41, G:0.03, T:0.28
Consensus pattern (33 bp):
CTCCATCTCCATCACCTTTACCAATACCATCAT
Found at i:1057687 original size:69 final size:66
Alignment explanation
Indices: 1057447--1057720 Score: 249
Period size: 66 Copynumber: 4.2 Consensus size: 66
1057437 CATCATTTTT
* * * * * * *
1057447 ACCAAGACCATCATCTCCATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTT
1 ACCAATACCATCATCTCCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTG
1057512 C
66 C
* * * ** ** *
1057513 ACCAACACCATCATC-CCTACCTCCATTACCTGCACCAGTACCATCA--TCT--C-C-ATCACCT
1 ACCAATACCATCATCTCC-ATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCT
**
1057571 TT
65 GC
* * * *
1057573 ACCAATACCATCATCTCCATCTCCATCACTTTTACCAAAACCATCATCTTTACCTCTATTACCTG
1 ACCAATACCATCATCTCCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTG
1057638 C
66 C
1057639 ACCAATACCATCATCTCCATCATCTCCATCACCTTTACCAACAA-CATCATCTCTAACTCAATTA
1 ACCAATACCATCATCT-C--CATCTCCATCACCTTTACCAA-AACCATCATCTCTAACTCAATTA
*
1057703 CTTGC
62 CCTGC
1057708 ACCAATACCATCA
1 ACCAATACCATCA
1057721 CATCCACCAA
Statistics
Matches: 170, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
60 43 0.25
61 3 0.02
62 3 0.02
64 3 0.02
65 3 0.02
66 58 0.34
67 1 0.01
69 54 0.32
70 2 0.01
ACGTcount: A:0.30, C:0.41, G:0.02, T:0.27
Consensus pattern (66 bp):
ACCAATACCATCATCTCCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTG
C
Found at i:1057720 original size:33 final size:32
Alignment explanation
Indices: 1057447--1057720 Score: 180
Period size: 33 Copynumber: 8.4 Consensus size: 32
1057437 CATCATTTTT
* * *
1057447 ACCAAGACCATCATCTCCATCTCCATCACCTTT
1 ACCAATACCATCATCTCTATCTCCATCA-CTTC
* *
1057480 ACCAAGACCATCATCTCCATCTCCATCACCTTC
1 ACCAATACCATCATCTCTATCTCCATCA-CTTC
* * * * *
1057513 ACCAACACCATCATCCCTACCTCCATTACCTGC
1 ACCAATACCATCATCTCTATCTCCATCA-CTTC
* * *
1057546 ACCAGTACCATCATCTCCA--T-CA-C-CTTT
1 ACCAATACCATCATCTCTATCTCCATCACTTC
* *
1057573 ACCAATACCATCATCTCCATCTCCATCACTTTT
1 ACCAATACCATCATCTCTATCTCCATCAC-TTC
* * * * * *
1057606 ACCAAAACCATCATCTTTACCTCTATTACCTGC
1 ACCAATACCATCATCTCTATCTCCATCA-CTTC
*
1057639 ACCAATACCATCATCTCCATCATCTCCATCACCTTT
1 ACCAATACCATCATCT-C-T-ATCTCCATCA-CTTC
* * * * *
1057675 ACCAACAACATCATCTCTAACTCAATTACTTGC
1 ACCAATACCATCATCTCTATCTCCATCACTT-C
1057708 ACCAATACCATCA
1 ACCAATACCATCA
1057721 CATCCACCAA
Statistics
Matches: 192, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
27 20 0.10
29 1 0.01
30 4 0.02
31 2 0.01
32 4 0.02
33 133 0.69
34 2 0.01
35 2 0.01
36 24 0.12
ACGTcount: A:0.30, C:0.41, G:0.02, T:0.27
Consensus pattern (32 bp):
ACCAATACCATCATCTCTATCTCCATCACTTC
Found at i:1057735 original size:69 final size:69
Alignment explanation
Indices: 1057463--1057741 Score: 208
Period size: 69 Copynumber: 4.2 Consensus size: 69
1057453 ACCATCATCT
* * * * * * *
1057463 CCATCTCCATCACCTTTACCAAGACCATCATCTCCATCTCCATCACCTTCACCAACACCAT--CA
1 CCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTGCACCAATACCATCACA
1057526 TCC-
66 TCCA
* * * ** ** * **
1057529 CTACCTCCATTACCTGCACCAGTACCATCA--TCT--C-C-ATCACCTTTACCAATACCAT--CA
1 CCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTGCACCAATACCATCACA
*
1057586 T-CT
66 TCCA
* * * *
1057589 CCATCTCCATCACTTTTACCAAAACCATCATCTTTACCTCTATTACCTGCACCAATACCATCATC
1 CCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTGCACCAATACCATCA-C
1057654 -TCCA
65 ATCCA
* *
1057658 TCATCTCCATCACCTTTACCAACAA-CATCATCTCTAACTCAATTACTTGCACCAATACCATCAC
1 CCATCTCCATCACCTTTACCAA-AACCATCATCTCTAACTCAATTACCTGCACCAATACCATCAC
1057722 ATCCA
65 ATCCA
* *
1057727 CCAACTCCAGCACCT
1 CCATCTCCATCACCT
1057742 GCTCCAGCTC
Statistics
Matches: 168, Mismatches: 32, Indels: 23
0.75 0.14 0.10
Matches are distributed among these distances:
59 1 0.01
60 43 0.26
61 1 0.01
62 3 0.02
64 3 0.02
65 1 0.01
66 40 0.24
68 2 0.01
69 72 0.43
70 2 0.01
ACGTcount: A:0.29, C:0.42, G:0.02, T:0.27
Consensus pattern (69 bp):
CCATCTCCATCACCTTTACCAAAACCATCATCTCTAACTCAATTACCTGCACCAATACCATCACA
TCCA
Found at i:1071286 original size:22 final size:22
Alignment explanation
Indices: 1071250--1071299 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1071240 AAATTTTATG
*
1071250 AATT-TAAATTTATTA-AAGAA
1 AATTATAAATTAATTATAAGAA
*
1071270 AATATATAAATTAATTATAATAA
1 AAT-TATAAATTAATTATAAGAA
1071293 AATTATA
1 AATTATA
1071300 GTAGAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.12
21 1 0.04
22 14 0.56
23 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTATAAATTAATTATAAGAA
Found at i:1080925 original size:22 final size:22
Alignment explanation
Indices: 1080900--1080941 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1080890 CAATTCATTT
1080900 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
1080922 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
1080942 CCAACACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:1081043 original size:34 final size:34
Alignment explanation
Indices: 1081000--1081075 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
1080990 ATCCCTTATT
1081000 GTTCTTCATCGAGTCTAGATCTTTTATAGGTTTG
1 GTTCTTCATCGAGTCTAGATCTTTTATAGGTTTG
*
1081034 GTTCTTCATCGAGTCTAGATCTTTTCTAGGTTTG
1 GTTCTTCATCGAGTCTAGATCTTTTATAGGTTTG
*
1081068 ATTCTTCA
1 GTTCTTCA
1081076 ACAAGAGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.47
Consensus pattern (34 bp):
GTTCTTCATCGAGTCTAGATCTTTTATAGGTTTG
Found at i:1104727 original size:29 final size:29
Alignment explanation
Indices: 1104672--1104727 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1104662 GCGACCTACC
**
1104672 TAGGTCGCTGGGCGTGCATGGTGACCTGG
1 TAGGTCGCTGGGCGTGCATGGCAACCTGG
*
1104701 TAGGTTGCTGGGCGTGCATGGCAACCT
1 TAGGTCGCTGGGCGTGCATGGCAACCT
1104728 ACCCCATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.41, T:0.25
Consensus pattern (29 bp):
TAGGTCGCTGGGCGTGCATGGCAACCTGG
Found at i:1106579 original size:24 final size:24
Alignment explanation
Indices: 1106552--1106601 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1106542 ATAAAGAACC
1106552 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
1106576 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
1106600 AA
1 AA
1106602 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:1112178 original size:24 final size:24
Alignment explanation
Indices: 1112151--1112200 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1112141 ATAAAGAACC
1112151 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
1112175 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
1112199 AA
1 AA
1112201 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:1113242 original size:71 final size:72
Alignment explanation
Indices: 1113116--1113249 Score: 234
Period size: 71 Copynumber: 1.9 Consensus size: 72
1113106 TATAATAGGT
1113116 TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTGAGAGGGACAACTCAAGCAT
1 TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTGAGAGGGACAACTCAAGCAT
1113181 AATAAAC
66 AATAAAC
* * *
1113188 TAGCTGAATATTATCCATAAAG-CGGGGCTATTAACCAATTGCTTTAGGGGGACAACTTAAGC
1 TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTGAGAGGGACAACTCAAGC
1113250 TTTATTGTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
71 37 0.63
72 22 0.37
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTGAGAGGGACAACTCAAGCAT
AATAAAC
Found at i:1117683 original size:24 final size:22
Alignment explanation
Indices: 1117626--1117683 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
1117616 TCTCTAAAAG
*
1117626 TAATTAAAAAAATTAATATATA
1 TAATTTAAAAAATTAATATATA
*
1117648 TAATTTATAAAAATATAATATTTA
1 TAATTTA-AAAAAT-TAATATATA
*
1117672 TTTATTTAAAAA
1 -TAATTTAAAAA
1117684 TATCAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.20
23 6 0.20
24 12 0.40
25 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTAAAAAATTAATATATA
Found at i:1119332 original size:3 final size:3
Alignment explanation
Indices: 1119326--1119397 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
1119316 AAAATTTATT
* * *
1119326 TAA TAA TAA TAA TAA TAA TAA -AA TTA TTA TAG TAA TAA TAA -AA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1119371 TAA TAAA TAA -AA TAAA TAA TAAA TAA T
1 TAA T-AA TAA TAA T-AA TAA T-AA TAA T
1119398 GGGTAATGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
2 8 0.14
3 41 0.71
4 9 0.16
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1119346 original size:29 final size:29
Alignment explanation
Indices: 1119309--1119377 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
1119299 TTTGGATCTG
1119309 AAATAATAAAATTTATT-TAATAATAATAA
1 AAATAATAAAA-TTATTATAATAATAATAA
* *
1119338 TAATAATAAAATTATTATAGTAATAATAA
1 AAATAATAAAATTATTATAATAATAATAA
1119367 AATATAATAAA
1 AA-ATAATAAA
1119378 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 5 0.14
29 22 0.63
30 8 0.23
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATAATAAAATTATTATAATAATAATAA
Done.