Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_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: 1886890
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:721997 original size:18 final size:18
Alignment explanation
Indices: 721976--722034 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
721966 GTGGCATAGT
721976 GCAGCAAGAATGGCTGTA
1 GCAGCAAGAATGGCTGTA
** *
721994 GCAGC-AGGGTAGC-GTA
1 GCAGCAAGAATGGCTGTA
*
722010 GTGCAGCAAGAATGGTTGTA
1 --GCAGCAAGAATGGCTGTA
722030 GCAGC
1 GCAGC
722035 GTCGATCCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
16 3 0.10
17 5 0.17
18 15 0.50
19 4 0.13
20 3 0.10
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (18 bp):
GCAGCAAGAATGGCTGTA
Found at i:722002 original size:36 final size:36
Alignment explanation
Indices: 721960--722034 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
721950 TAGGATCAGT
*
721960 AGCAGGGTGGCATAGTGCAGCAAGAATGGCTGTAGC
1 AGCAGGGTAGCATAGTGCAGCAAGAATGGCTGTAGC
* *
721996 AGCAGGGTAGCGTAGTGCAGCAAGAATGGTTGTAGC
1 AGCAGGGTAGCATAGTGCAGCAAGAATGGCTGTAGC
722032 AGC
1 AGC
722035 GTCGATCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.16, G:0.39, T:0.17
Consensus pattern (36 bp):
AGCAGGGTAGCATAGTGCAGCAAGAATGGCTGTAGC
Found at i:723750 original size:12 final size:12
Alignment explanation
Indices: 723733--723774 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
723723 GCATCGATAC
723733 GCTACAGTAACT
1 GCTACAGTAACT
*
723745 GCTACAGTAACC
1 GCTACAGTAACT
* *
723757 ACTACATTAACT
1 GCTACAGTAACT
723769 GCTACA
1 GCTACA
723775 ATAATTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (12 bp):
GCTACAGTAACT
Found at i:724214 original size:47 final size:43
Alignment explanation
Indices: 724139--724263 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 43
724129 AATATAATCT
*
724139 CTTACCATTTATCACATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCA-TTAT-TCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
724184 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCA-TT--ATT-CATAAGCTCGTAAGCTTATTTTACCAAAATA
*
724231 CTTTCCATTATTCATAAGCTCGTAAGCTTATTT
1 CTTACCATTATTCATAAGCTCGTAAGCTTATTT
724264 ACATACTTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 20 0.28
44 3 0.04
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (43 bp):
CTTACCATTATTCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:725786 original size:423 final size:424
Alignment explanation
Indices: 724999--725846 Score: 1599
Period size: 423 Copynumber: 2.0 Consensus size: 424
724989 GGTGTTGTGT
* *
724999 TTTTGGTTTTTTTTATTGATTGATTTGGTAAGCTACTGTTTTTTTATGTGAAGTTTTGATTTGTT
1 TTTTGGTTTTTTTTATTGATTGATTTGGTAAGCTACTGTTTTTTTATATGAAGTTTTGATTTGCT
725064 GGTTTGATTTCTAATGAAGGGTTTTTTGTTAATTTCATGTAATTTTGGATCTAGAAATTGAGTTT
66 GGTTTGATTTCTAATGAAGGGTTTTTTGTTAATTTCATGTAATTTTGGATCTAGAAATTGAGTTT
* *
725129 ACTATGGTTGATCTGTTTTGGTCTTTTGCTATTGCTTCATAGTTTGCACTTTGGTTTTGTTCTAG
131 ACTATGGTTGATCTGTTTTGCTATTTTGCTATTGCTTCATAGTTTGCACTTTGGTTTTGTTCTAG
*
725194 AGGTTTTGCTTGTGTTGTTTATTTAGATCAACCATTAAAATTTCCTAGAAATGAATCTGTCTACA
196 AGGTTTTGCTTGTGTTGTTTATTTAGATCAACCATTAAAATTTCCTAGAAATAAATCTGTCTACA
*
725259 GCCATTGTCTTCTTCATCTTCTCTATCTCTAATTCCAACATAGTTTTTGCCCTTTTGGCTCTTAG
261 GCCATTGTCTTCTTCATCTTCTCTATCTCTAATTCCAACACAGTTTTTGCCCTTTTGGCTCTTAG
725324 CATATGAATTTATTTCATTTTCCATTTTGGTTGGCTATCCAGTGATTGAGTTGTTTTTAATGTTG
326 CATATGAATTTATTTCATTTTCCATTTTGGTTGGCTATCCAGTGATTGAGTTGTTTTTAATGTTG
725389 ATCATTCATTTTTCTTTTGTTATCATATTTCCTC
391 ATCATTCATTTTTCTTTTGTTATCATATTTCCTC
725423 TTTTGGTTTTTTTTATTGATTGATTTGGTAAGCTACTGTTTTTTTATATGAAGTTTTGATTTGCT
1 TTTTGGTTTTTTTTATTGATTGATTTGGTAAGCTACTGTTTTTTTATATGAAGTTTTGATTTGCT
725488 GGTTTGATTTCTAATGAAGGG-TTTTTGTTAATTTCATGTAATTTTGGATCTAGAAATTGAGTTT
66 GGTTTGATTTCTAATGAAGGGTTTTTTGTTAATTTCATGTAATTTTGGATCTAGAAATTGAGTTT
* *
725552 ACTATGGTTGATCTGTTTTTCTATTTTGCTATTGCTTCATAGTTTGCATTTTGGTTTTGTTCTAG
131 ACTATGGTTGATCTGTTTTGCTATTTTGCTATTGCTTCATAGTTTGCACTTTGGTTTTGTTCTAG
*
725617 AGGTTTTGTTTGTGTTGTTTATTTAGATCAACCATTAAAATTTCCTAGAAATAAATCTGTCTACA
196 AGGTTTTGCTTGTGTTGTTTATTTAGATCAACCATTAAAATTTCCTAGAAATAAATCTGTCTACA
725682 GCCATTGTCTTCTTCATCTTCTCTATCTCTAATTCCAACACAGTTTTTGCCCTTTTGGCTCTTAG
261 GCCATTGTCTTCTTCATCTTCTCTATCTCTAATTCCAACACAGTTTTTGCCCTTTTGGCTCTTAG
*
725747 CATATGAATTTATTTCATTTTCCATTTTGGTTGGCTATCCAGTGATTGAGTTGTTTTTATTGTTG
326 CATATGAATTTATTTCATTTTCCATTTTGGTTGGCTATCCAGTGATTGAGTTGTTTTTAATGTTG
725812 ATCATTCATTTTTCTTTTGTTATCATATTTCCTC
391 ATCATTCATTTTTCTTTTGTTATCATATTTCCTC
725846 T
1 T
725847 ACAAGGTATT
Statistics
Matches: 414, Mismatches: 10, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
423 330 0.80
424 84 0.20
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (424 bp):
TTTTGGTTTTTTTTATTGATTGATTTGGTAAGCTACTGTTTTTTTATATGAAGTTTTGATTTGCT
GGTTTGATTTCTAATGAAGGGTTTTTTGTTAATTTCATGTAATTTTGGATCTAGAAATTGAGTTT
ACTATGGTTGATCTGTTTTGCTATTTTGCTATTGCTTCATAGTTTGCACTTTGGTTTTGTTCTAG
AGGTTTTGCTTGTGTTGTTTATTTAGATCAACCATTAAAATTTCCTAGAAATAAATCTGTCTACA
GCCATTGTCTTCTTCATCTTCTCTATCTCTAATTCCAACACAGTTTTTGCCCTTTTGGCTCTTAG
CATATGAATTTATTTCATTTTCCATTTTGGTTGGCTATCCAGTGATTGAGTTGTTTTTAATGTTG
ATCATTCATTTTTCTTTTGTTATCATATTTCCTC
Found at i:740753 original size:17 final size:17
Alignment explanation
Indices: 740731--740773 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
740721 CTAGTTTGAT
*
740731 TAGTTTAATGAACGAAC
1 TAGTTTAATGAACAAAC
* * *
740748 TAGTTTTATTAATAAAC
1 TAGTTTAATGAACAAAC
740765 TAGTTTAAT
1 TAGTTTAAT
740774 CAATGACCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (17 bp):
TAGTTTAATGAACAAAC
Found at i:741634 original size:17 final size:17
Alignment explanation
Indices: 741612--741647 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
741602 ATTTTTAACG
*
741612 AAAAATGATGAGTTTGA
1 AAAAATGACGAGTTTGA
741629 AAAAATGACGAGTTTGA
1 AAAAATGACGAGTTTGA
741646 AA
1 AA
741648 CATATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.25
Consensus pattern (17 bp):
AAAAATGACGAGTTTGA
Found at i:745602 original size:22 final size:22
Alignment explanation
Indices: 745577--745648 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
745567 AAGGGTTAAC
745577 ATGAAAAGACTTAATTTTTTTT
1 ATGAAAAGACTTAATTTTTTTT
* *
745599 ATGAAAAGGA-ATAATATTTTTTG
1 ATGAAAA-GACTTAAT-TTTTTTT
* * **
745622 ACGAAACGACTTAACCTTTTTT
1 ATGAAAAGACTTAATTTTTTTT
745644 ATGAA
1 ATGAA
745649 GAGAATTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
22 22 0.58
23 16 0.42
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (22 bp):
ATGAAAAGACTTAATTTTTTTT
Found at i:755002 original size:24 final size:24
Alignment explanation
Indices: 754975--755020 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
754965 AAAATTTAAC
*
754975 ATATTTTTT-GTATTTTATATATAA
1 ATATTTTTTAATATTTTA-ATATAA
754999 ATATTTTTTAATATTTTAATAT
1 ATATTTTTTAATATTTTAATAT
755021 TTTTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
ATATTTTTTAATATTTTAATATAA
Found at i:755012 original size:18 final size:17
Alignment explanation
Indices: 754987--755030 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
754977 ATTTTTTGTA
754987 TTTT-ATATATAAATATT
1 TTTTAATATATAAATA-T
* *
755004 TTTTAATATTTTAATAT
1 TTTTAATATATAAATAT
755021 TTTTAATATA
1 TTTTAATATA
755031 AATAAGTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATATATAAATAT
Found at i:755030 original size:33 final size:33
Alignment explanation
Indices: 754987--755056 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
754977 ATTTTTTGTA
* *
754987 TTTTATATATAAAT-ATTTTTTAATATTTTAATAT
1 TTTTATATATAAATAAGTTCTTAAT-TTTTAAT-T
755021 TTTTA-ATATAAATAAGTTCTTAATTTTTAATT
1 TTTTATATATAAATAAGTTCTTAATTTTTAATT
755053 TTTT
1 TTTT
755057 CCTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 15 0.45
34 13 0.39
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTTATATATAAATAAGTTCTTAATTTTTAATT
Found at i:755274 original size:25 final size:26
Alignment explanation
Indices: 755214--755277 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
755204 GTCAAAATTG
*
755214 ATTATTTTTTTTGGTTAAATGATCAT
1 ATTAATTTTTTTGGTTAAATGATCAT
755240 ATTAATTTTTTTGGTTAAATGATCAT
1 ATTAATTTTTTTGGTTAAATGATCAT
755266 ATTAATTTTTTT
1 ATTAATTTTTTT
755278 TTTTCAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.59
Consensus pattern (26 bp):
ATTAATTTTTTTGGTTAAATGATCAT
Found at i:755384 original size:2 final size:2
Alignment explanation
Indices: 755377--755402 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
755367 AAGTCTAACC
755377 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
755403 TATTCTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:760205 original size:24 final size:22
Alignment explanation
Indices: 760168--760215 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
760158 GCCAATCATC
*
760168 AAATTCCTTAATGTATGTCGTAAT
1 AAATTCATTAATGTAT-T-GTAAT
*
760192 AAATTCATTTATGTATTGTAAT
1 AAATTCATTAATGTATTGTAAT
760214 AA
1 AA
760216 CAATGATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 14 0.64
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (22 bp):
AAATTCATTAATGTATTGTAAT
Found at i:776776 original size:17 final size:18
Alignment explanation
Indices: 776743--776776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
776733 TGAAAAGGAC
*
776743 TAAAATGCCCTTAAAGTG
1 TAAAATGACCTTAAAGTG
776761 TAAAATGACC-TAAAGT
1 TAAAATGACCTTAAAGT
776777 ACCTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (18 bp):
TAAAATGACCTTAAAGTG
Found at i:779570 original size:65 final size:64
Alignment explanation
Indices: 779409--779709 Score: 235
Period size: 65 Copynumber: 4.7 Consensus size: 64
779399 AAAGGTTATA
* * * * * * * *
779409 ATCTTCGAGTATGTTTCTCTTGAAACAAATCTTGTCTCCCTTAAGATAATTTCTCATGAAATATC
1 ATCTTTGAGTCTGTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATGAAATACC
* ** *
779474 ATCTTTGAGTCTATTTCTCTAAAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATGAAAAACC
1 ATCTTTGAGTCTGTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATGAAATA-C
779539 C
64 C
* * *
779540 ATCTTTGAGATC-GTTTCCTTGAAACGAA-TTT-TCTCTCTTGAGACA-TCTTCTCTTTAAGCAT
1 ATCTTTGAG-TCTGTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT-TTCTCATGAA--AT
779601 A--
62 ACC
* * * *
779602 ATC--TAAGTCTGTTTCCTTTGAAACAAGTTTTGTCTCCCTTGAGACAGATTCT-ATTGAAATAC
1 ATCTTTGAGTCTGTTTCC-TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCA-TGAAATA-
779664 CC
63 CC
* *
779666 ATCTTTGAGT-TCGTTTCCCTCGAAATAAATTTTGTCTCTCTTGA
1 ATCTTTGAGTCT-GTTT-CCTTGAAACAAATTTTGTCTCTCTTGA
779710 ATAGATTTTC
Statistics
Matches: 187, Mismatches: 31, Indels: 35
0.74 0.12 0.14
Matches are distributed among these distances:
59 2 0.01
60 9 0.05
61 11 0.06
62 7 0.04
63 42 0.22
64 6 0.03
65 63 0.34
66 43 0.23
67 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (64 bp):
ATCTTTGAGTCTGTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATGAAATACC
Found at i:780109 original size:134 final size:130
Alignment explanation
Indices: 779763--780111 Score: 371
Period size: 131 Copynumber: 2.6 Consensus size: 130
779753 AACCAAAATC
*
779763 CCTAAAGATGGCCA-ACCGTCCTCATCACGTAGAACTGTGTCATCCCCCGACCAGACTTCCTCAT
1 CCTAAAGATGGCCAGACCGTCCTCATCACGTAGAACTGTGTCATCCCCTGACCAGAC-TCCTCAT
* * * * * *
779827 CACATAGGAGCCGTGTCACCCCTAGATAACTAGTCATCCTTATCACGTAGGAACCGTGTTATTAT
65 CACGTAGGAGCCGTGTCACCCCTAGATAACCAATCATCCTCATCACGTAGGAACCATGTTATCAT
779892 T
130 T
*** * * * *
779893 CCTAAAGATGGGTTG-CCGTCCTCATCGCTTAGGAACCGTGTCATCCCCTGACCAGACCTCCTAA
1 CCTAAAGATGGCCAGACCGTCCTCATCACGTA-GAACTGTGTCATCCCCTGACCAGA-CTCCTCA
* ** * *
779957 TCACGTAGGATCTATGTCACCCCTAGATAACCAATCGTCCTCATCACGTAGGAACTATGTTATCA
64 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAATCATCCTCATCACGTAGGAACCATGTTATCA
780022 CCCTT
129 ---TT
* * * * * * *
780027 TCTAAAGATGGCCAGAAC-TCTTCATCACGTATGAGCTATGTCATACACTGACCAGATCTCCTCA
1 CCTAAAGATGGCCAGACCGTCCTCATCACGTA-GAACTGTGTCATCCCCTGACCAGA-CTCCTCA
780091 TCACGTAGGAGCCGTGTCACC
64 TCACGTAGGAGCCGTGTCACC
780112 TTTAGACGAC
Statistics
Matches: 174, Mismatches: 38, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
130 25 0.14
131 81 0.47
132 1 0.01
134 66 0.38
135 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (130 bp):
CCTAAAGATGGCCAGACCGTCCTCATCACGTAGAACTGTGTCATCCCCTGACCAGACTCCTCATC
ACGTAGGAGCCGTGTCACCCCTAGATAACCAATCATCCTCATCACGTAGGAACCATGTTATCATT
Found at i:780994 original size:17 final size:18
Alignment explanation
Indices: 780969--781002 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
780959 ATCAAAAGAA
*
780969 AAAGGAAAAA-ATAGAGG
1 AAAGAAAAAAGATAGAGG
780986 AAAGAAAAAAGATAGAG
1 AAAGAAAAAAGATAGAG
781003 ATAGGGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (18 bp):
AAAGAAAAAAGATAGAGG
Found at i:783905 original size:21 final size:20
Alignment explanation
Indices: 783849--783911 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
783839 CATACTTGTT
* *
783849 GAAAATAAAA-AAAAATAAA
1 GAAAATAAAAGGATAATAAA
783868 GAAAAT-AAAGCTG-TAATATAA
1 GAAAATAAAAG--GATAATA-AA
*
783889 GAAAATAAAAGGATAATGAA
1 GAAAATAAAAGGATAATAAA
783909 GAA
1 GAA
783912 TACCGGTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
18 3 0.09
19 6 0.17
20 10 0.29
21 12 0.34
22 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAAATAAAAGGATAATAAA
Found at i:789613 original size:24 final size:24
Alignment explanation
Indices: 789527--789621 Score: 64
Period size: 24 Copynumber: 3.7 Consensus size: 24
789517 TAACATCAAC
* *
789527 ATTAGCATCATCAACATGATCATT
1 ATTAGCATCATCAACATTACCATT
* * *
789551 ATTAACATCATCCGCACATTCACCATCA
1 ATTAGCATCAT-C-AACATT-ACCAT-T
* * *
789579 ATATCGCCATCATCGACATTAGCATT
1 AT-TAG-CATCATCAACATTACCATT
789605 ATTAGCATCATCAACAT
1 ATTAGCATCATCAACAT
789622 CTTCGCCATG
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
24 21 0.40
25 3 0.06
26 6 0.11
27 8 0.15
28 7 0.13
29 2 0.04
30 6 0.11
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (24 bp):
ATTAGCATCATCAACATTACCATT
Found at i:790268 original size:15 final size:15
Alignment explanation
Indices: 790248--790276 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
790238 AAAAATGCAG
790248 TCGCAATCGCAGAGA
1 TCGCAATCGCAGAGA
790263 TCGCAATCGCAGAG
1 TCGCAATCGCAGAG
790277 GAGTGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.14
Consensus pattern (15 bp):
TCGCAATCGCAGAGA
Found at i:804885 original size:31 final size:31
Alignment explanation
Indices: 804809--804887 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
804799 TCTCCAATAT
* * * * *
804809 GTATTACAATAAAAAGCATTAATACATAATC
1 GTATTATAATAACAATCAGTAATACATAACC
*
804840 GTAATTATAGTAACAATCAGTAATACATAACC
1 GT-ATTATAATAACAATCAGTAATACATAACC
804872 GTATTATAATAACAAT
1 GTATTATAATAACAAT
804888 AACTAGTACG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 15 0.38
32 25 0.62
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (31 bp):
GTATTATAATAACAATCAGTAATACATAACC
Found at i:847409 original size:14 final size:15
Alignment explanation
Indices: 847390--847421 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
847380 GCACAAACAG
847390 AAAATTAAAT-ACTA
1 AAAATTAAATGACTA
847404 AAAATTAAATGACTA
1 AAAATTAAATGACTA
847419 AAA
1 AAA
847422 TGCATATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (15 bp):
AAAATTAAATGACTA
Found at i:854882 original size:131 final size:129
Alignment explanation
Indices: 854625--855282 Score: 535
Period size: 131 Copynumber: 5.0 Consensus size: 129
854615 AGGGAGGTTA
* * * * * **
854625 AATCGAGGTTGATTTGCTTTACTACTCTTCAGGGAAGATCAAATCTGCTAAAAGGGATATGCTCT
1 AATCAAGGTTGATTTACTTCACTATTCTT-ATGGAAGATCAAATCTGAGAAAAGGGATATGCTCT
* * * * * * *
854690 ACTACTGTT-CAGGGATGATCAGTTCTGGAAA-TATTGA-TCAACTTCGCTGTTC-TCTAAGGAA
65 ACT-GTGTTCCAGGTAT-ATCAGATCTAGAAACT-TTGATTC-ACTTCACTGCTCTTC-AGGGAA
*
854751 GCTTG
125 GATTG
* ** * * *
854756 AATCATGGCAGATTTACTTCACTATTCTTATGGGAAGATCAAATCTGAGAAAAGGTATCTCCTCT
1 AATCAAGGTTGATTTACTTCACTATTCTTAT-GGAAGATCAAATCTGAGAAAAGGGATATGCTCT
** * * * * *
854821 GTTGTGTTTCATGGTAGATCAAATCTGGAAACTTTGAATCACTTCACTGCTCTTCAGGGAAGATT
65 ACTGTGTTCCA-GGTATATCAGATCTAGAAACTTTGATTCACTTCACTGCTCTTCAGGGAAGATT
854886 G
129 G
* * * *
854887 AGT-AGAGGTTGATTTTCTTCACTATTCTTTATGGAATATAAAATCTGAGAAAAGGGATATGCTC
1 AATCA-AGGTTGATTTACTTCACTATTC-TTATGGAAGATCAAATCTGAGAAAAGGGATATGCTC
* * * *
854951 TACTGCGTTCCAAGGTATATCAGATCTAAAAAACTTTGATTCACTTCACTGTTCTTCAGCGAAGA
64 TACTGTGTTCC-AGGTATATCAGATCT-AGAAACTTTGATTCACTTCACTGCTCTTCAGGGAAGA
855016 TTG
127 TTG
* * * * *
855019 AATCAAGGTTGATTTGCTTCATTGTTCTTCATGGAAGATCAAATATGAGAAAAGGGATATGCTCC
1 AATCAAGGTTGATTTACTTCACTATTCTT-ATGGAAGATCAAATCTGAGAAAAGGGATATGCTCT
* * * *
855084 ACTGTGTTCCAGGTATATCAGATCTAGAAATTTTGATTCACATCACTGCTCTTTATGGAAGATTG
65 ACTGTGTTCCAGGTATATCAGATCTAGAAACTTTGATTCACTTCACTGCTCTTCAGGGAAGATTG
** * * * *
855149 AAT-AGAGGTTGATTTGTTTCAATGTTCTTCA-GAGAAGATCAAATCTGAGAAAA-TGATCTGCT
1 AATCA-AGGTTGATTTACTTCACTATTCTT-ATG-GAAGATCAAATCTGAGAAAAGGGATATGCT
* * ** * * * * *
855211 -TCACTGTATTTCAGGGTGGATCAGATCT-GTAAATTTTGATTCATTTTACTACTCTTTAGGGAA
63 CT-ACTGTGTTCCA-GGTATATCAGATCTAG-AAACTTTGATTCACTTCACTGCTCTTCAGGGAA
855274 GATTG
125 GATTG
855279 AATC
1 AATC
855283 GGGGTCAATT
Statistics
Matches: 433, Mismatches: 76, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
129 19 0.04
130 133 0.31
131 171 0.39
132 109 0.25
133 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (129 bp):
AATCAAGGTTGATTTACTTCACTATTCTTATGGAAGATCAAATCTGAGAAAAGGGATATGCTCTA
CTGTGTTCCAGGTATATCAGATCTAGAAACTTTGATTCACTTCACTGCTCTTCAGGGAAGATTG
Found at i:855132 original size:262 final size:262
Alignment explanation
Indices: 854629--855201 Score: 620
Period size: 262 Copynumber: 2.2 Consensus size: 262
854619 AGGTTAAATC
* * **
854629 GAGGTTGATTTGCTTTACTACTCTTCAGGGAAGATCAAATCTGCTAAAAGGGATATGCTCTACTA
1 GAGGTTGATTTGCTTCACTACTCTTCAGGGAAGATAAAATCTGAGAAAAGGGATATGCTCTACTA
* ** * *
854694 CTGTTCAGGGATGATCAGTTCTGGAAATATTGATCAACTTCGCTGTTCTCTAAGGAAGCTTGAAT
66 CTGTTCAGGGATGATCAGATCTAAAAATATTGATCAACTTCACTGTTCTCTAAGGAAGATTGAAT
* * * * ***
854759 CATGGCAGATTTACTTCACTATTCTTATGGGAAGATCAAATCTGAGAAAAGGTATCTCCTCTGTT
131 CAAGGCAGATTTACTTCACTATTCTTATGGGAAGATCAAATATGAGAAAAGGGATATCCTCCACT
* * * *
854824 GTGTTTCATGGTAGATCAAATCTGGAAACTTTGAATCACTTCACTGCTCTTCAGGGAAGATTGAG
196 GTGTTCCATGGTAGATCAAATCTAGAAACTTTGAATCACATCACTGCTCTTCAGGGAAGATTGAA
854889 TA
261 TA
* * * * * *
854891 GAGGTTGATTTTCTTCACTATTCTTTATGGAATATAAAATCTGAGAAAAGGGATATGCTCTACTG
1 GAGGTTGATTTGCTTCACTACTCTTCAGGGAAGATAAAATCTGAGAAAAGGGATATGCTCTACTA
* *
854956 C-GTTCCAAGGTAT-ATCAGATCTAAAAA-ACTTTGATTC-ACTTCACTGTTCT-TCAGCGAAGA
66 CTGTT-C-AGGGATGATCAGATCTAAAAATA--TTGA-TCAACTTCACTGTTCTCTAAG-GAAGA
** * * * *
855016 TTGAATCAAGGTTGATTTGCTTCATTGTTCTTCAT-GGAAGATCAAATATGAGAAAAGGGATATG
125 TTGAATCAAGGCAGATTTACTTCACTATTCTT-ATGGGAAGATCAAATATGAGAAAAGGGATATC
* * * * * *
855080 CTCCACTGTGTTCCA-GGTATATCAGATCTAGAAATTTTGATTCACATCACTGCTCTTTATGGAA
189 CTCCACTGTGTTCCATGGTAGATCAAATCTAGAAACTTTGAATCACATCACTGCTCTTCAGGGAA
855144 GATTGAATA
254 GATTGAATA
* * ** * *
855153 GAGGTTGATTTGTTTCAATGTTCTTCAGAGAAGATCAAATCTGAGAAAA
1 GAGGTTGATTTGCTTCACTACTCTTCAGGGAAGATAAAATCTGAGAAAA
855202 TGATCTGCTT
Statistics
Matches: 255, Mismatches: 49, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
261 4 0.02
262 160 0.63
263 87 0.34
264 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (262 bp):
GAGGTTGATTTGCTTCACTACTCTTCAGGGAAGATAAAATCTGAGAAAAGGGATATGCTCTACTA
CTGTTCAGGGATGATCAGATCTAAAAATATTGATCAACTTCACTGTTCTCTAAGGAAGATTGAAT
CAAGGCAGATTTACTTCACTATTCTTATGGGAAGATCAAATATGAGAAAAGGGATATCCTCCACT
GTGTTCCATGGTAGATCAAATCTAGAAACTTTGAATCACATCACTGCTCTTCAGGGAAGATTGAA
TA
Found at i:857898 original size:54 final size:54
Alignment explanation
Indices: 857835--858061 Score: 255
Period size: 54 Copynumber: 4.2 Consensus size: 54
857825 GATGCACAAG
* * * * * *
857835 TAGTACCTATACGGTCATTTATAAACATATTATGAATTTCAT-GGTTCACACACA
1 TAGTGCCTATACGGTCATTCATCAACATATGATGAATTTCATAGGTT-GCACACT
* * * *
857889 TAGTGCCTATACGGTCCTTCATTAATATATGATGAA-TTCAGTGGGTTGCACACT
1 TAGTGCCTATACGGTCATTCATCAACATATGATGAATTTCA-TAGGTTGCACACT
* * *
857943 TAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCGTAGGTTGCACACT
1 TAGTGCCTATACGGTCATTCATCAACATATGATGAATTTCATAGGTTGCACACT
* *
857997 TAGTGCCTATACGGT-AGTTCATCGACATATGATGAATTTCGT-GGCTTGCACACT
1 TAGTGCCTATACGGTCA-TTCATCAACATATGATGAATTTCATAGG-TTGCACACT
858051 TAGTGCCTATA
1 TAGTGCCTATA
858062 ATACATAAAT
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
53 6 0.04
54 138 0.91
55 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (54 bp):
TAGTGCCTATACGGTCATTCATCAACATATGATGAATTTCATAGGTTGCACACT
Found at i:858018 original size:108 final size:108
Alignment explanation
Indices: 857835--858061 Score: 287
Period size: 108 Copynumber: 2.1 Consensus size: 108
857825 GATGCACAAG
* * * *
857835 TAGTACCTATACGGTCATTTATAAACATATTATGAATTTCATGGTTCACACACATAGTGCCTATA
1 TAGTGCCTATACAGTCATTCATAAACATATGATGAATTTCATGGTTCACACACATAGTGCCTATA
* * * *
857900 CGGTCCTTCATTAATATATGATGAA-TTCAGTGGGTTGCACACT
66 CGGTACTTCATCAACATATGATGAATTTC-GTGGCTTGCACACT
* * * * *
857943 TAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCGTAGGTT-GCACACTTAGTGCCTAT
1 TAGTGCCTATACAGTCATTCATAAACATATGATGAATTTCAT-GGTTCACACACATAGTGCCTAT
* *
858007 ACGGTAGTTCATCGACATATGATGAATTTCGTGGCTTGCACACT
65 ACGGTACTTCATCAACATATGATGAATTTCGTGGCTTGCACACT
858051 TAGTGCCTATA
1 TAGTGCCTATA
858062 ATACATAAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
108 95 0.93
109 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (108 bp):
TAGTGCCTATACAGTCATTCATAAACATATGATGAATTTCATGGTTCACACACATAGTGCCTATA
CGGTACTTCATCAACATATGATGAATTTCGTGGCTTGCACACT
Found at i:858738 original size:24 final size:19
Alignment explanation
Indices: 858691--858732 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
858681 TTAAACTCTT
858691 CTTCACTTATCCCAACTAA
1 CTTCACTTATCCCAACTAA
858710 CTTCACTTATCCCAACTAA
1 CTTCACTTATCCCAACTAA
858729 CTTC
1 CTTC
858733 CCTTCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (19 bp):
CTTCACTTATCCCAACTAA
Found at i:878561 original size:94 final size:95
Alignment explanation
Indices: 878386--878567 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 95
878376 ATACCGAAGA
* *
878386 GGTAGTATCGATACCGTGATAAGGGTATCGATACCAAGCAACATCGAAGCTAAAATGGGTATCGA
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGA
* *
878451 TACTGGAAAGGGGTATCAGTACCATAGTCT
66 TACCGGAAAGGGGTATCAATACCATAGTCT
* * * *** *
878481 GGTAGTATCGATACTAT-AGTAAGGGTATC-ATACTAGGCAACATCGAACCTAAAATTTTTATGG
1 GGTAGTATCGATACCATGA-TAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCG
878544 ATACCGG-AAGGGAGTATCAATACC
65 ATACCGGAAAGGG-GTATCAATACC
878568 CTAATATAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
93 5 0.07
94 44 0.59
95 25 0.34
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGA
TACCGGAAAGGGGTATCAATACCATAGTCT
Found at i:879737 original size:21 final size:19
Alignment explanation
Indices: 879705--879763 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 19
879695 TAGATGAGTA
879705 GATGAATAGTATCGATACT
1 GATGAATAGTATCGATACT
879724 GATTGAATCAGTATCGATACT
1 GA-TGAAT-AGTATCGATACT
*
879745 GATGAGGTAGTATCGATAC
1 GATGA-ATAGTATCGATAC
879764 CATGATAAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.53
21 15 0.42
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (19 bp):
GATGAATAGTATCGATACT
Found at i:879855 original size:22 final size:22
Alignment explanation
Indices: 879827--879880 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
879817 ACGGTTAGGG
*
879827 GTATCGATACCCTAGTAAGGTA
1 GTATCGATACCATAGTAAGGTA
*
879849 GTATCGATACCATGGTAAGG--
1 GTATCGATACCATAGTAAGGTA
*
879869 GTATCAATACCA
1 GTATCGATACCA
879881 GGCAATATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (22 bp):
GTATCGATACCATAGTAAGGTA
Found at i:879923 original size:95 final size:95
Alignment explanation
Indices: 879749--879938 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 95
879739 GATACTGATG
* *
879749 AGGTAGTATCGATACCATGATAAGGGTATCGATACCAAAAAATATCGAATCTAATTTTGGTATCG
1 AGGTAGTATCGATACCATGATAAGGGTATCAATACCAAAAAATATCGAACCTAATTTTGGTATCG
**** *
879814 ATAACGGTTAGGGGTATCGATACCCTAGTA
66 ATAACCCAAAGGGGTATCGATACCATAGTA
* *** *
879844 AGGTAGTATCGATACCATGGTAAGGGTATCAATACCAGGCAATATCGAACCTATTTTTGGTATCG
1 AGGTAGTATCGATACCATGATAAGGGTATCAATACCAAAAAATATCGAACCTAATTTTGGTATCG
879909 AT-ACCCAAAGGGGGTATCGATACCATAGTA
66 ATAACCCAAA-GGGGTATCGATACCATAGTA
879939 TAGAAGTATC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
94 3 0.04
95 79 0.96
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (95 bp):
AGGTAGTATCGATACCATGATAAGGGTATCAATACCAAAAAATATCGAACCTAATTTTGGTATCG
ATAACCCAAAGGGGTATCGATACCATAGTA
Found at i:879968 original size:95 final size:95
Alignment explanation
Indices: 879753--879973 Score: 214
Period size: 95 Copynumber: 2.3 Consensus size: 95
879743 CTGATGAGGT
* * * * *** *
879753 AGTATCGATACCATGATAAGGGTATCGATACCAAAAAATATCGAATCTAATTTTGGTATCGATAA
1 AGTATCGATACCAGGGTAAGAGTATCAATACCAGGCAATATCGAACCTAATTTTGGTATCGATAA
**** * *
879818 CGGTTAGGGGTATCGATACCCTAGTAAGGT
66 CCCAAAGGGGTATCGATACCATAGTAAGGA
* * *
879848 AGTATCGATACCATGGTAAGGGTATCAATACCAGGCAATATCGAACCTATTTTTGGTATCGAT-A
1 AGTATCGATACCAGGGTAAGAGTATCAATACCAGGCAATATCGAACCTAATTTTGGTATCGATAA
879912 CCCAAAGGGGGTATCGATACCATAGTATA-GA
66 CCCAAA-GGGGTATCGATACCATAGTA-AGGA
* * *
879943 AGTATCGGTACTAGGGT-AGTAGTATCGATAC
1 AGTATCGATACCAGGGTAAG-AGTATCAATAC
879974 TATGGAGCCA
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
94 5 0.05
95 99 0.94
96 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGAGTATCAATACCAGGCAATATCGAACCTAATTTTGGTATCGATAA
CCCAAAGGGGTATCGATACCATAGTAAGGA
Found at i:880395 original size:59 final size:58
Alignment explanation
Indices: 880293--880460 Score: 248
Period size: 59 Copynumber: 2.9 Consensus size: 58
880283 ATTACCAAAT
* *
880293 GGCACTTCGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
* ** *
880351 GGCACTTCGTGTGCTAACATGATAAGAAATTCATACTAAATGTATGAATTTCTGTATTG
1 GGCACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
*
880410 GGCATCTT-GTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTC
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTC
880461 AGTATGAGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
58 48 0.48
59 49 0.49
60 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (58 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
Found at i:881167 original size:68 final size:68
Alignment explanation
Indices: 880834--881158 Score: 436
Period size: 68 Copynumber: 4.8 Consensus size: 68
880824 AAAAGATCAA
* * *
880834 GAGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAAACTAAGTGTT
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
880899 TTT
66 TTT
** * * * * *
880902 GAGGTATAATTGTGCCTATGACAGAAAGGTGTCATTTATACCAGTTAAATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
*
880967 TTA
66 TTT
* *
880970 GAGGCCTAACTGTGCATATGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAATTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
881035 TTT
66 TTT
* ** *
881038 AAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATAACAATTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
881103 TTT
66 TTT
* * * * *
881106 GAGGCCTAATTGTGCA-ATTGACAAAAAGGTGTCAATTATGCGAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAGAAATGTGTCATTTATGCCAGTTAGATGAA
881159 CAATTAAGTA
Statistics
Matches: 220, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
67 1 0.00
68 219 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:881222 original size:81 final size:81
Alignment explanation
Indices: 881108--881396 Score: 398
Period size: 81 Copynumber: 3.6 Consensus size: 81
881098 GTGTCTTTGA
* * * *
881108 GGCCTAATTGTGCAATTGACAAAAAGGTGTCAATTATGCGAGTTAGATGAACAATTAAGTACCGT
1 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAGTACCGT
881173 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* * * * * * **
881189 GGCATAGGTGTGCAATTTGTAGAAAGGTGTCAATAATGCTAGTTAGATGAACGGTTAAGTACCGT
1 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAGTACCGT
881254 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* * * **
881270 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAAATGAACTATTCAGTGTCGT
1 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAGTACCGT
881335 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* * *
881351 GGCCTAGTTGGGAAATTGGCAGAAATGTGTCAATTATGCCAGTTAG
1 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAG
881397 GCGAACGTTA
Statistics
Matches: 181, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 181 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (81 bp):
GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAGTACCGT
TGAGTAAAAGAAAAAT
Found at i:885780 original size:59 final size:58
Alignment explanation
Indices: 885690--885857 Score: 237
Period size: 59 Copynumber: 2.9 Consensus size: 58
885680 ACCAAATGGA
* * * *
885690 ACTTCGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGC
1 ACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGAGC
* * *
885748 ACTTTGTGTGCTAACATGATAAGAAATACATACTAAGTGTATGAATTTCTTTATTGAGC
1 ACTTTGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGAGC
* * *
885807 ACCTTGTGTGCTAAAGGATAAAAAATTCATACTAAGTGTATGAATTTCTGT
1 ACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGT
885858 GTGGGAATTA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 45 0.46
59 52 0.54
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (58 bp):
ACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGAGC
Found at i:886487 original size:68 final size:68
Alignment explanation
Indices: 886222--886478 Score: 372
Period size: 68 Copynumber: 3.8 Consensus size: 68
886212 AAAAGATCAA
*
886222 GAGGCCTAATTGTGCATATGACATAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
1 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
886287 TTT
66 TTT
* * * * *
886290 GAGGCCTAATTTTTCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGACTAAGTGAC
1 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
*
886355 TTA
66 TTT
* * *
886358 GAGGCCTAACTATGCATGTGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
1 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
886423 TTT
66 TTT
* * * *
886426 GAGGCCTAATTGTACA-ATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GAGGCCTAATTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAATTAGATGAA
886479 TGGTTAAGTA
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
68 166 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (68 bp):
GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
TTT
Found at i:886487 original size:136 final size:136
Alignment explanation
Indices: 886221--886478 Score: 419
Period size: 136 Copynumber: 1.9 Consensus size: 136
886211 TAAAAGATCA
* * *
886221 AGAGGCCTAATTGTGCATATGACATAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGT
1 AGAGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGT
* * *
886286 CTTTGAGGCCTAATTTTTCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGACTAAG
66 CTTTGAGGCCTAATTGTACATATGACAGAAAGGTGTCAATTATACCAGTTAGATGAAAGACTAAG
886351 TGACTT
131 TGACTT
*
886357 AGAGGCCTAACTATGCATGTGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGT
1 AGAGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGT
* *
886422 CTTTGAGGCCTAATTGTACA-ATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAA
66 CTTTGAGGCCTAATTGTACATA-TGACAGAAAGGTGTCAATTATACCAGTTAGATGAA
886479 TGGTTAAGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
135 1 0.01
136 111 0.99
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (136 bp):
AGAGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGT
CTTTGAGGCCTAATTGTACATATGACAGAAAGGTGTCAATTATACCAGTTAGATGAAAGACTAAG
TGACTT
Found at i:886566 original size:81 final size:81
Alignment explanation
Indices: 886428--886727 Score: 469
Period size: 81 Copynumber: 3.7 Consensus size: 81
886418 GTGTCTTTGA
* * **
886428 GGCCTAATTGT-ACAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCG
1 GGCCTAACTGTGA-AATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCG
*
886492 TTGAGTAAAAGAAAAAT
65 TTGAATAAAAGAAAAAT
** * * * *
886509 GGCCTAGTTGTGCAATTGGCAGAAATGTGTCAATGATGCCAGTTAGATGAACAGTTAAGTACCGT
1 GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGT
886574 TGAATAAAAGAAAAAT
66 TGAATAAAAGAAAAAT
*
886590 GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGACGAACAGTTAAGTACCGT
1 GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGT
886655 TGAATAAAAGAAAAAT
66 TGAATAAAAGAAAAAT
886671 GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAC-GTTAA
1 GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAA
886728 ACATTATTGA
Statistics
Matches: 201, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
80 5 0.02
81 196 0.98
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (81 bp):
GGCCTAACTGTGAAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGT
TGAATAAAAGAAAAAT
Found at i:887634 original size:59 final size:59
Alignment explanation
Indices: 887537--888145 Score: 857
Period size: 59 Copynumber: 10.3 Consensus size: 59
887527 TGGGTGTTAC
* * * *
887537 ACTACGTGTATAAATTTCCATATAGGACACTTCGTGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
* *
887596 ACTAAGTGTATAAATTTCAAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
*
887655 ACTAGGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
*
887714 ACTAGGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
* *
887773 ACTAGGTGTATGAATTTCCAGATAGGGCACTTCGGGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
* * *
887832 ACTAGGTGTATGAATTTCTAGATAGGGCACTTCGTGTGTTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
*
887891 ACTAAGTGTATGAATTTCCAGATAGGGTACTTCGTGTGCTAAAATGGTAAGGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
* * * * *
887950 ACTAAATGTATGAATTTCCAGATAGGGCACTTCATGCGCTAAAATTGTAAAGAAATCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
** * * * * * *
888009 ACTAAGTGTATGAATTTCCTTATAGGGCACTTCATGTACTAAACTGTTAAAGAATTCAT
1 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
* * * * *
888068 ACTAAGTGTATGAATTTCCGGA-ATGGACACTT--TGTG-TACAAATTGTTATGAAAGTCAT
1 ACTAAGTGTATGAATTTCCAGATA-GGGCACTTCGTGTGCTA-AAATGGTAAGGAAA-TCAT
* *
888126 ATTAAATGTATGAATTTCCA
1 ACTAAGTGTATGAATTTCCA
888146 TATGGGAAAT
Statistics
Matches: 504, Mismatches: 43, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
56 2 0.00
57 11 0.02
58 22 0.04
59 469 0.93
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (59 bp):
ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAAATGGTAAGGAAATCAT
Found at i:892858 original size:18 final size:18
Alignment explanation
Indices: 892837--892888 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
892827 ACATCGAATC
*
892837 TGAAATGGGTATCGATAA
1 TGAAAGGGGTATCGATAA
* *
892855 TGAAAGGGGGTATCGGTAC
1 TGAAA-GGGGTATCGATAA
892874 TGAAAAGGGGTATCG
1 TG-AAAGGGGTATCG
892889 GTACCATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.17
19 21 0.72
20 3 0.10
ACGTcount: A:0.33, C:0.08, G:0.37, T:0.23
Consensus pattern (18 bp):
TGAAAGGGGTATCGATAA
Found at i:892889 original size:19 final size:19
Alignment explanation
Indices: 892843--892892 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
892833 AATCTGAAAT
* * *
892843 GGGTATCGATAATGAAAGG
1 GGGTATCGGTACTGAAAAG
892862 GGGTATCGGTACTGAAAAG
1 GGGTATCGGTACTGAAAAG
892881 GGGTATCGGTAC
1 GGGTATCGGTAC
892893 CATAGTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.38, T:0.22
Consensus pattern (19 bp):
GGGTATCGGTACTGAAAAG
Found at i:893022 original size:114 final size:113
Alignment explanation
Indices: 892790--893030 Score: 254
Period size: 114 Copynumber: 2.1 Consensus size: 113
892780 TGATTCAATC
* * *
892790 AGTATTGATACCATGATAAGGGTATCGATACCAAGCAACATCGAATCTGAAATGGGTATCGATAA
1 AGTATTGATACTATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGATAA
* * ** *
892855 TGAAAGGGGGTATCGGTACTGAAAAGGGGTATCGGTACCATAGTATGGT
66 CGAAAGGGGGTATCGATACTGAAAAGAAGTATCGGTACCATAGTA-GGA
* * * * ** *
892904 AGTATCGATACTATGGTAAGGGTATCGATACTAGGCAACATCGAACCTAAAATTTGTATCGATAC
1 AGTATTGATACTATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGATAA
* * *
892969 CGGAA-GGGGTATCGATACCCTAGTATAGAAGTATCGGTACCA-ATGTA-GA
66 CGAAAGGGGGTATCGATA--CT-GAAAAGAAGTATCGGTACCATA-GTAGGA
893018 AGTATTGATACTA
1 AGTATTGATACTA
893031 GGAAGCCATA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
113 11 0.11
114 71 0.68
115 3 0.03
116 19 0.18
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (113 bp):
AGTATTGATACTATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGATAA
CGAAAGGGGGTATCGATACTGAAAAGAAGTATCGGTACCATAGTAGGA
Found at i:893427 original size:59 final size:59
Alignment explanation
Indices: 893359--893933 Score: 827
Period size: 59 Copynumber: 9.8 Consensus size: 59
893349 ATGGAACTAA
* * *
893359 GTGTGCTAAAATGGTAAGGAAATCGTACTAAGCGTATGAATTTCCAAATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
893418 GTGTACTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
893477 GTGTGCTAAAAAGGTTAGGAAATTATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
893536 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
893595 GTGTTCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTA
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
893654 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATA-GGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
893712 GTGTGCTAAAATGGAAAGGAAATCATACTAAGTGTATGAATTTTC-GTATAGGGAACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAG-ATAGGGCACTTC
* * * *
893771 GTGTGCTAAATTGTTAATGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * * * * * *
893830 TTCTACTAAACTGTTAAGGAATTCATACTAAGTGTATGAATTTCCAGA-ATGGGCACTTT
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATA-GGGCACTTC
* * * * *
893889 ATGTGC--AAATTGTTATGAAACTCATACTAAATGTATGAATTTCCA
1 GTGTGCTAAAATGGTAAGGAAA-TCATACTAAGTGTATGAATTTCCA
893934 TATGGGAAAT
Statistics
Matches: 468, Mismatches: 43, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
57 9 0.02
58 77 0.16
59 381 0.81
60 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
Found at i:895416 original size:14 final size:14
Alignment explanation
Indices: 895396--895446 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
895386 GGCTTTGGCC
895396 GAGTCAACTCGACT
1 GAGTCAACTCGACT
* * *
895410 AAGTCAACTTGGCT
1 GAGTCAACTCGACT
*
895424 GAGTCAACTC-ACC
1 GAGTCAACTCGACT
895437 GAGTCAACTC
1 GAGTCAACTC
895447 CTTGACTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (14 bp):
GAGTCAACTCGACT
Found at i:895508 original size:22 final size:22
Alignment explanation
Indices: 895448--895526 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
895438 AGTCAACTCC
*
895448 TTGACTTTGATCGAGT-CAACTCG
1 TTGACTTTGATCG-GTCCGAC-CG
* *
895471 TTGACCATTGACCGGTCCGACCG
1 TTGA-CTTTGATCGGTCCGACCG
* *
895494 TTGACTTTGATCGGTCAGACCA
1 TTGACTTTGATCGGTCCGACCG
895516 TTGACTGTTGA
1 TTGACT-TTGA
895527 CTTTGACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 20 0.43
23 16 0.35
24 10 0.22
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (22 bp):
TTGACTTTGATCGGTCCGACCG
Found at i:899234 original size:53 final size:54
Alignment explanation
Indices: 899103--899272 Score: 189
Period size: 53 Copynumber: 3.1 Consensus size: 54
899093 TTTCGATTGT
* * * *
899103 CATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCATTTAAAAATTCTTTTGGAACAT
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTC-TTTAAAAATTCATTT-GAA-AA
* * * * * *
899160 CATCAAAAAAACCCCTGAAAATCAAGCTTAGTTTC-TAAAAAACTCATTTGAAAA
1 CATC-AAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTGAAAA
*
899214 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTTAAAAGTTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTC-TTTAAAAATTCATTTGAAAA
899269 CATC
1 CATC
899273 CTATCAAGGA
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
53 26 0.28
54 5 0.05
55 23 0.25
56 11 0.12
57 4 0.04
58 24 0.26
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTGAAAA
Found at i:900256 original size:14 final size:14
Alignment explanation
Indices: 900237--900272 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
900227 ATATAGAAAT
*
900237 AAAGAAATAAATTA
1 AAAGAAATAAATAA
900251 AAAGAAATAAATAA
1 AAAGAAATAAATAA
900265 ATAAGAAA
1 A-AAGAAA
900273 GAAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (14 bp):
AAAGAAATAAATAA
Found at i:900264 original size:18 final size:19
Alignment explanation
Indices: 900225--900276 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
900215 AATGCATACA
* *
900225 AAATATAGAAATAAAGAAAT
1 AAATA-AGAAAGAAATAAAT
*
900245 AAATTA-AAAGAAATAAAT
1 AAATAAGAAAGAAATAAAT
900263 AAATAAGAAAGAAA
1 AAATAAGAAAGAAA
900277 ATTGATCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 15 0.56
19 8 0.30
20 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (19 bp):
AAATAAGAAAGAAATAAAT
Found at i:900944 original size:28 final size:28
Alignment explanation
Indices: 900902--900956 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
900892 GCAAGAAGTC
900902 AACCTGAAACACATTACC-TCCCCAAATT
1 AACCTGAAACACATTACCAT-CCCAAATT
* *
900930 AACCTTAAACGCATTACCATCCCAAAT
1 AACCTGAAACACATTACCATCCCAAAT
900957 CAGCCTAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.35, G:0.04, T:0.22
Consensus pattern (28 bp):
AACCTGAAACACATTACCATCCCAAATT
Found at i:904038 original size:29 final size:30
Alignment explanation
Indices: 904006--904090 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 30
903996 TTTTATGCAC
* *
904006 ATTTAAATTTATGTCTTTTACTTTTCT-TT
1 ATTTAAATTTATGTCTTTTACTTTTATGTG
* *
904035 ATTT-AATTTAAGTC-CTTACCTTTTATGTG
1 ATTTAAATTTATGTCTTTTA-CTTTTATGTG
* *
904064 CTTTAAATTTATGATCTTTTATTTTTA
1 ATTTAAATTTATG-TCTTTTACTTTTA
904091 CCCTTCATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
27 3 0.07
28 15 0.35
29 8 0.19
30 7 0.16
31 7 0.16
32 3 0.07
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.60
Consensus pattern (30 bp):
ATTTAAATTTATGTCTTTTACTTTTATGTG
Found at i:908371 original size:37 final size:37
Alignment explanation
Indices: 908289--908442 Score: 245
Period size: 37 Copynumber: 4.0 Consensus size: 37
908279 ATATAAGTTG
908289 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTATGCTTA
1 CACCAGTGATGTTTATTCAGCGAAT--C----GCTTATGCTTA
*
908332 CACCATTGATGTTTATTCAGCGAATCGCTTATGCTTA
1 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
908369 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
1 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
908406 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
1 CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
908443 ACTCGAAAAT
Statistics
Matches: 109, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
37 84 0.77
41 1 0.01
43 24 0.22
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (37 bp):
CACCAGTGATGTTTATTCAGCGAATCGCTTATGCTTA
Found at i:910961 original size:18 final size:17
Alignment explanation
Indices: 910938--910996 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
910928 CTAATTTTTA
910938 AAAAAAATAACAAATAAT
1 AAAAAAATAACAAA-AAT
*
910956 AAAAAAATAA-AAACAGT
1 AAAAAAATAACAAA-AAT
*
910973 ATAAAAAACAACATAAAAT
1 A-AAAAAATAACA-AAAAT
910992 AAAAA
1 AAAAA
910997 TAAAATAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.18
18 22 0.65
19 4 0.12
20 2 0.06
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAAAATAACAAAAAT
Found at i:912756 original size:35 final size:33
Alignment explanation
Indices: 912673--912759 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 33
912663 TTTATTGATG
* *
912673 AATTTAATAATTAAATTAAATTCATTTCTTTTTA
1 AATTTAAT-ATTAAAATAAATTCATTTCTCTTTA
* *
912707 AATATTATAAATTAAAATAAATTTATTATCTCTTTA
1 AAT-TTA-ATATTAAAATAAATTCATT-TCTCTTTA
912743 AATTTGAATATTAAAAT
1 AATTT-AATATTAAAAT
912760 GATATTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 3 0.07
35 29 0.66
36 12 0.27
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (33 bp):
AATTTAATATTAAAATAAATTCATTTCTCTTTA
Found at i:913557 original size:57 final size:57
Alignment explanation
Indices: 913461--913615 Score: 206
Period size: 57 Copynumber: 2.7 Consensus size: 57
913451 AATTTTATGT
* *
913461 TGATTCTAACTTTGT-AAGGGAAATAAATCGTTGAATTTATTTTTCTG-GAAATCTTAAA
1 TGATTCT-ACTTTGTAAAAGGAAATAAAT-GTTGAATTTATTTTCCTGTG-AATCTTAAA
* *
913519 TGATTCTATTTTGTAAAAGGAAATAAATGTTGAATTTATTTTCCTGTGAATCTTATA
1 TGATTCTACTTTGTAAAAGGAAATAAATGTTGAATTTATTTTCCTGTGAATCTTAAA
* *
913576 TGTTTCTACTTTGTAAAAAGAAATAAATTGTTGAATTTAT
1 TGATTCTACTTTGTAAAAGGAAATAAA-TGTTGAATTTAT
913616 ATTCATGATA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
57 55 0.63
58 32 0.37
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (57 bp):
TGATTCTACTTTGTAAAAGGAAATAAATGTTGAATTTATTTTCCTGTGAATCTTAAA
Found at i:919008 original size:42 final size:42
Alignment explanation
Indices: 918961--919050 Score: 139
Period size: 42 Copynumber: 2.1 Consensus size: 42
918951 TATCTTTTTA
*
918961 AATA-TTCTAAATTAAAATATATTTATTATCTCTTTA-AATTTG
1 AATATTTC-AAATTAAAAGATATTTATTATCTC-TTACAATTTG
919003 AATATTTCAAATTAAAAGATATTTATTATCTCTTACAATTTG
1 AATATTTCAAATTAAAAGATATTTATTATCTCTTACAATTTG
919045 AATATT
1 AATATT
919051 AAAAAGATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 3 0.07
42 39 0.87
43 3 0.07
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (42 bp):
AATATTTCAAATTAAAAGATATTTATTATCTCTTACAATTTG
Found at i:919067 original size:42 final size:42
Alignment explanation
Indices: 918973--919060 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
918963 TATTCTAAAT
** *
918973 TAAAATATATTTATTATCTCTTTAAATTTGAATATTTCAAAT
1 TAAAATATATTTATTATCTCTTTAAATTTGAATATTAAAAAA
*
919015 TAAAAGATATTTATTATCTC-TTACAATTTGAATATTAAAAAGA
1 TAAAATATATTTATTATCTCTTTA-AATTTGAATATTAAAAA-A
919058 TAA
1 TAA
919061 TTATATTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.08
42 34 0.85
43 3 0.08
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (42 bp):
TAAAATATATTTATTATCTCTTTAAATTTGAATATTAAAAAA
Found at i:920465 original size:14 final size:14
Alignment explanation
Indices: 920446--920489 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
920436 TAATTGATAT
920446 TAAAGTCCTAATAA
1 TAAAGTCCTAATAA
*
920460 TAAAG---T-ATAT
1 TAAAGTCCTAATAA
920470 TAAAGTCCTAATAA
1 TAAAGTCCTAATAA
920484 TAAAGT
1 TAAAGT
920490 ACATCAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
13 1 0.04
14 14 0.58
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (14 bp):
TAAAGTCCTAATAA
Found at i:920469 original size:24 final size:24
Alignment explanation
Indices: 920442--920504 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
920432 ATCCTAATTG
920442 ATATTAAAGTCCTAATAATAAAGT
1 ATATTAAAGTCCTAATAATAAAGT
920466 ATATTAAAGTCCTAATAATAAAGT
1 ATATTAAAGTCCTAATAATAAAGT
* *
920490 ACATCAAAGTCCTAA
1 ATATTAAAGTCCTAA
920505 CTAGTACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (24 bp):
ATATTAAAGTCCTAATAATAAAGT
Found at i:921290 original size:19 final size:19
Alignment explanation
Indices: 921266--921302 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
921256 TTCAAGTTGA
921266 TTACCAATCGATTAAAGCG
1 TTACCAATCGATTAAAGCG
921285 TTACCAATCGATTAAAGC
1 TTACCAATCGATTAAAGC
921303 CTTGGGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (19 bp):
TTACCAATCGATTAAAGCG
Found at i:921894 original size:42 final size:42
Alignment explanation
Indices: 921823--921940 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
921813 CTTTTTTTGT
* * * *
921823 CACAAACACCACTAATTCTCTTGTCTTTAGTGGCATTTTTTAC
1 CACAAACACTACTAATACTATTGTTTTTAGTGGC-TTTTTTAC
* * *
921866 CACCAACAC-GCTAATACTATTGTTTTTAGTGGCTTTTTTGC
1 CACAAACACTACTAATACTATTGTTTTTAGTGGCTTTTTTAC
* *
921907 CACAAACCCTACTAATGCTATTGTTTTTAGTGGC
1 CACAAACACTACTAATACTATTGTTTTTAGTGGC
921941 GTTTGTAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 14 0.22
42 42 0.66
43 8 0.12
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (42 bp):
CACAAACACTACTAATACTATTGTTTTTAGTGGCTTTTTTAC
Found at i:924745 original size:42 final size:41
Alignment explanation
Indices: 924627--924834 Score: 140
Period size: 42 Copynumber: 5.1 Consensus size: 41
924617 ACAAATGCCG
* * *
924627 CTAAAGTACCACTCTGTTGCAGCGTTTGTTAAAAAAAAGCCA
1 CTAAAGTATCACTCTGTTGCGGCATTTGTTAAAAAAAA-CCA
* * * ** *
924669 CTATAG-ATCAACACTATTATGGTATTTG-TAAAAAAATACCA
1 CTAAAGTATC-ACTCTGTTGCGGCATTTGTTAAAAAAA-ACCA
* *
924710 CTAAAGTATCACTCTGTTGCGGCGTTTGTTGAAAAAACACCA
1 CTAAAGTATCACTCTGTTGCGGCATTTGTT-AAAAAAAACCA
* * * * *
924752 CTATAG-ATGAATCCTATTGCGGAATTTG-TAAAAAAAACCA
1 CTAAAGTATCACT-CTGTTGCGGCATTTGTTAAAAAAAACCA
* * * *
924792 CTAAAGT-GC-CACAGTTGCGGCATTTGTTGAAAAAAAGCCA
1 CTAAAGTATCACTCTGTTGCGGCATTTGTT-AAAAAAAACCA
924832 CTA
1 CTA
924835 TAGATTAACC
Statistics
Matches: 124, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
38 12 0.10
39 1 0.01
40 28 0.23
41 35 0.28
42 42 0.34
43 6 0.05
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (41 bp):
CTAAAGTATCACTCTGTTGCGGCATTTGTTAAAAAAAACCA
Found at i:924825 original size:40 final size:39
Alignment explanation
Indices: 924698--924834 Score: 100
Period size: 40 Copynumber: 3.4 Consensus size: 39
924688 TGGTATTTGT
* * *
924698 AAAAAAATACCACTAAAGTATCACTCTGTTGCGGCGTTTGTTG
1 AAAAAAA-ACCACTAAAGT-GC-C-CAGTTGCGGCATTTGTTG
* * * *
924741 AAAAAACACCACTATAGATGAATCCTA-TTGCGGAATTTG-T-
1 AAAAAAAACCACTAAAG-TG---CCCAGTTGCGGCATTTGTTG
924781 AAAAAAAACCACTAAAGTGCCACAGTTGCGGCATTTGTTG
1 AAAAAAAACCACTAAAGTGCC-CAGTTGCGGCATTTGTTG
*
924821 AAAAAAAGCCACTA
1 AAAAAAAACCACTA
924835 TAGATTAACC
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
36 2 0.03
37 1 0.01
38 11 0.15
39 3 0.04
40 28 0.38
41 1 0.01
42 19 0.26
43 7 0.09
44 1 0.01
45 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (39 bp):
AAAAAAAACCACTAAAGTGCCCAGTTGCGGCATTTGTTG
Found at i:924867 original size:80 final size:83
Alignment explanation
Indices: 924627--924943 Score: 277
Period size: 83 Copynumber: 3.9 Consensus size: 83
924617 ACAAATGCCG
* * * * * * **
924627 CTAAAGTACCACTCTGTTGCAGCGTTTGTTAAAAAAAAGCCACTATAGATCAACACTATTATGGT
1 CTAAAGTAGCACACAGTTGCGGCGTTTGTTGAAAAAAAGCCACTATAGATCAACCCTATTGCGGT
924692 ATTTGTAAAAAAATACCA
66 ATTTGTAAAAAAATACCA
* * * * *
924710 CTAAAGTATCACTCTGTTGCGGCGTTTGTTGAAAAAACA-CCACTATAGATGAATCCTATTGCGG
1 CTAAAGTAGCACACAGTTGCGGCGTTTGTTGAAAAAA-AGCCACTATAGATCAACCCTATTGCGG
*
924774 AATTTGTAAAAAAA-ACCA
65 TATTTGTAAAAAAATACCA
* * *
924792 CTAAAGT-GC-CACAGTTGCGGCATTTGTTGAAAAAAAGCCACTATAGATTAACCCTATTGCAGT
1 CTAAAGTAGCACACAGTTGCGGCGTTTGTTGAAAAAAAGCCACTATAGATCAACCCTATTGCGGT
* * * ** *
924855 GTTTATATAAAAACGCCG
66 ATTTGTAAAAAAATACCA
* * * * * * ** *
924873 CTAAAATAGTACTCTA-TTGCGACATTTGTTG-AAAAACGCCACTATAGATGGACCTTATTGCGG
1 CTAAAGTAGCACAC-AGTTGCGGCGTTTGTTGAAAAAAAGCCACTATAGATCAACCCTATTGCGG
*
924936 CATTTGTA
65 TATTTGTA
924944 TTAAAACGCA
Statistics
Matches: 194, Mismatches: 34, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 55 0.28
81 9 0.05
82 44 0.23
83 83 0.43
84 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (83 bp):
CTAAAGTAGCACACAGTTGCGGCGTTTGTTGAAAAAAAGCCACTATAGATCAACCCTATTGCGGT
ATTTGTAAAAAAATACCA
Found at i:924949 original size:83 final size:82
Alignment explanation
Indices: 924806--924959 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 82
924796 AGTGCCACAG
* * **
924806 TTGCGGCATTTGTTGAAAAAAAGCCACTATAGATTAACCCTATTGCAGTGTTTATATAAAAACGC
1 TTGCGACATTTGTTGAAAAAAAGCCACTATAGATGAACCCTATTGCAGCATTTATAT-AAAACGC
*
924871 CGCTAAAATAGTACTCTA
65 AGCTAAAATAGTACTCTA
* * * * *
924889 TTGCGACATTTGTTG-AAAAACGCCACTATAGATGGACCTTATTGCGGCATTTGTATTAAAACGC
1 TTGCGACATTTGTTGAAAAAAAGCCACTATAGATGAACCCTATTGCAGCATTTATA-TAAAACGC
924953 AGCTAAA
65 AGCTAAA
924960 TTTATCATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
82 45 0.75
83 15 0.25
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (82 bp):
TTGCGACATTTGTTGAAAAAAAGCCACTATAGATGAACCCTATTGCAGCATTTATATAAAACGCA
GCTAAAATAGTACTCTA
Found at i:926506 original size:38 final size:38
Alignment explanation
Indices: 926455--926536 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
926445 TGAACCATTC
*
926455 CAATTAGTATATACTGACTTGGACAAATCTAATTGATA
1 CAATTAGTATATACTGACTTGGACAAATCTAATGGATA
926493 CAATTAGTATATACTGACTTGGACAAATCTAATGGATA
1 CAATTAGTATATACTGACTTGGACAAATCTAATGGATA
926531 CAATTA
1 CAATTA
926537 CTATGTTTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (38 bp):
CAATTAGTATATACTGACTTGGACAAATCTAATGGATA
Found at i:937001 original size:19 final size:20
Alignment explanation
Indices: 936979--937029 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 20
936969 TTTTGAAATT
936979 TTGTTTTTTTTG-TTTTTTG
1 TTGTTTTTTTTGCTTTTTTG
936998 TTG-TTTTTTTGCCTTTTTTG
1 TTGTTTTTTTTG-CTTTTTTG
937018 TGTGTTTTTTTT
1 T-TGTTTTTTTT
937030 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.29
19 3 0.11
20 8 0.29
21 2 0.07
22 7 0.25
ACGTcount: A:0.00, C:0.04, G:0.16, T:0.80
Consensus pattern (20 bp):
TTGTTTTTTTTGCTTTTTTG
Found at i:939844 original size:136 final size:136
Alignment explanation
Indices: 939600--939873 Score: 460
Period size: 136 Copynumber: 2.0 Consensus size: 136
939590 AATTTTGTTG
*
939600 TACTAGTTAATAATTCAAAAAAATTATCTTTTTATTTATGATTTAAGTGTGAAAAAATATACTAT
1 TACTAGTTAATAATTCAAAAAAATTATCCTTTTATTTATGATTTAAGTGTGAAAAAATATACTAT
* *
939665 TGCACGAATAAAACGATAGTAGTAAAGAAGTCGTTATTATTTATTTAAATATAAAATTCGAACTT
66 TGCACGAATAAAACGATAGTAGTAAAGAAATCGTTATTATTTATTTAAATATAAAATTCAAACTT
939730 CAAAAA
131 CAAAAA
* * * *
939736 TACTAGTTAATAATTCAAACAAATTTTCCTTTTATTTATGATTTATGTGTGAAAAAATATATTAT
1 TACTAGTTAATAATTCAAAAAAATTATCCTTTTATTTATGATTTAAGTGTGAAAAAATATACTAT
*
939801 TGCACGAATCAAACGAT-GATAGTAAAGAAATCGTTATTATTTATTTAAATATAAAATTCAAACT
66 TGCACGAATAAAACGATAG-TAGTAAAGAAATCGTTATTATTTATTTAAATATAAAATTCAAACT
939865 TCAAAAA
130 TCAAAAA
939872 TA
1 TA
939874 TTAAAAATAT
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
135 1 0.01
136 128 0.99
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (136 bp):
TACTAGTTAATAATTCAAAAAAATTATCCTTTTATTTATGATTTAAGTGTGAAAAAATATACTAT
TGCACGAATAAAACGATAGTAGTAAAGAAATCGTTATTATTTATTTAAATATAAAATTCAAACTT
CAAAAA
Found at i:939957 original size:3 final size:3
Alignment explanation
Indices: 939949--940029 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
939939 TTACTCGTAT
939949 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
939997 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
940030 AAGACAGCTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:943978 original size:17 final size:16
Alignment explanation
Indices: 943956--943997 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
943946 ATATTTTGTT
943956 TTTAATTTATTTAAGTA
1 TTTAATTTATTTAA-TA
*
943973 TTTAATTTTTTTAATA
1 TTTAATTTATTTAATA
*
943989 TTTTATTTA
1 TTTAATTTA
943998 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTAATTTATTTAATA
Found at i:943981 original size:24 final size:23
Alignment explanation
Indices: 943932--943999 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
943922 TTAAGGTATA
**
943932 TTTTATTATATTTAATATTTTGT
1 TTTTATTATATTTAATATTTAAT
943955 TTTTAATT-TATTTAAGTATTTAAT
1 TTTT-ATTATATTTAA-TATTTAAT
943979 TTTT-TTAATATTT--TATTTAAT
1 TTTTATT-ATATTTAATATTTAAT
944000 AAATTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 8 0.21
22 2 0.05
23 11 0.28
24 18 0.46
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTTATTATATTTAATATTTAAT
Found at i:945783 original size:33 final size:33
Alignment explanation
Indices: 945746--945809 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
945736 CCGATGTTAC
* *
945746 CGCCGCCACCGTCACCTG-GTTTTATGACCCCGG
1 CGCCGCCACCATCA-CAGAGTTTTATGACCCCGG
945779 CGCCGCCACCATCACAGAGTTTTATGACCCC
1 CGCCGCCACCATCACAGAGTTTTATGACCCC
945810 TCCTGGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.17, C:0.42, G:0.20, T:0.20
Consensus pattern (33 bp):
CGCCGCCACCATCACAGAGTTTTATGACCCCGG
Found at i:946320 original size:33 final size:34
Alignment explanation
Indices: 946283--946356 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
946273 TAATACTTAC
946283 TTTATTTCATT-AATTTGGTTGGA-TTTATT-TTAA
1 TTTATTTCATTAAATTT-GTTGGACTTT-TTGTTAA
**
946316 TTTATTTTGTTAAATTTGTTGGACTTTTTGTTAA
1 TTTATTTCATTAAATTTGTTGGACTTTTTGTTAA
*
946350 TGTATTT
1 TTTATTT
946357 TGGTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.62
Consensus pattern (34 bp):
TTTATTTCATTAAATTTGTTGGACTTTTTGTTAA
Found at i:946350 original size:34 final size:34
Alignment explanation
Indices: 946294--946370 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
946284 TTATTTCATT
*
946294 AATTTGGTTGGATTTATTTTAATTTATTTT-GTTA
1 AATTT-GTTGGATTTATTTTAATGTATTTTGGTTA
946328 AATTTGTTGGACTTT-TTGTTAATGTATTTTGGTTA
1 AATTTGTTGGA-TTTATT-TTAATGTATTTTGGTTA
*
946363 ATTTTGTT
1 AATTTGTT
946371 TATTACCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 8 0.21
34 19 0.50
35 11 0.29
ACGTcount: A:0.21, C:0.01, G:0.17, T:0.61
Consensus pattern (34 bp):
AATTTGTTGGATTTATTTTAATGTATTTTGGTTA
Found at i:950790 original size:185 final size:187
Alignment explanation
Indices: 950478--950834 Score: 531
Period size: 185 Copynumber: 1.9 Consensus size: 187
950468 TTTTTTCGCC
* * *
950478 GAAATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTATTAACTTTGGGGTCGTGGGATCGAGT
1 GAAATGACCATCCAGCTCAGTTGGTAGAGCACAAGGTTATTAACCTTGAGGTCGTGGGATCGAGT
** **
950543 CCCATGGAGGGCATTTCATAATTCGGAGGTCTCCTACGGAAGCTGTTCTCAACCTGGTGTT-GG-
66 CCCACAGAGGGCATTTCATAATTCGGAGGTCTCCTACGGAAGCTCCTCTCAACCTGGTGTTGGGT
*
950606 AG-ACTATCTTACCTCCTCCTTACCCCATTACATATGGGGATAAGGGTCAGCTAATTA
131 AGCACTATCTTACCTCCCCCTTACCCCA-TACATATGGGGATAAGGGTCAGCTAATTA
*
950663 GAAATGACCATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACCTTGAGGTCGTGGGATCGAGT
1 GAAATGACCATCCAGCTCAGTTGGTAGAGCACAAGGTTATTAACCTTGAGGTCGTGGGATCGAGT
* * *
950728 CCCACAGATGGCATTTCATAATTTGGAGGTCTCTTACGGAAGCTCCTCTCAACCTGGTGTTGGGG
66 CCCACAGAGGGCATTTCATAATTCGGAGGTCTCCTACGGAAGCTCCTCTCAACCTGGTGTT--GG
*
950793 GTAGCCTACTATCTTACCTCCCCCTTACCCCATATATATGGG
129 GTAG-C-ACTATCTTACCTCCCCCTTACCCCATACATATGGG
950835 AAAAAGGGAC
Statistics
Matches: 152, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
185 115 0.76
188 2 0.01
189 2 0.01
191 9 0.06
192 24 0.16
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (187 bp):
GAAATGACCATCCAGCTCAGTTGGTAGAGCACAAGGTTATTAACCTTGAGGTCGTGGGATCGAGT
CCCACAGAGGGCATTTCATAATTCGGAGGTCTCCTACGGAAGCTCCTCTCAACCTGGTGTTGGGT
AGCACTATCTTACCTCCCCCTTACCCCATACATATGGGGATAAGGGTCAGCTAATTA
Found at i:955301 original size:19 final size:17
Alignment explanation
Indices: 955279--955317 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
955269 ATTAACTGAA
955279 ATTATTAAATATTATATAT
1 ATTATT-AATA-TATATAT
*
955298 ATTATTTATATATATAT
1 ATTATTAATATATATAT
955315 ATT
1 ATT
955318 TTGCCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 3 0.16
19 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTAATATATATAT
Found at i:956767 original size:22 final size:22
Alignment explanation
Indices: 956727--956796 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
956717 AATAATTATA
956727 TCTTTGTGACAT-TTTATCTCT
1 TCTTTGTGACATGTTTATCTCT
956748 TCTTTGTGACATGTTTATCTCT
1 TCTTTGTGACATGTTTATCTCT
* * *
956770 TCTTTATGACACGTTTTTCTCT
1 TCTTTGTGACATGTTTATCTCT
*
956792 GCTTT
1 TCTTT
956797 TATGACACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 12 0.27
22 32 0.73
ACGTcount: A:0.13, C:0.20, G:0.11, T:0.56
Consensus pattern (22 bp):
TCTTTGTGACATGTTTATCTCT
Found at i:956802 original size:23 final size:22
Alignment explanation
Indices: 956738--956811 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
956728 CTTTGTGACA
* * *
956738 TTTTATCTCTTCTTTGTGACATG
1 TTTT-TCTCTGCTTTATGACACG
* *
956761 TTTATCTCTTCTTTATGACACG
1 TTTTTCTCTGCTTTATGACACG
956783 TTTTTCTCTGCTTTTATGACACG
1 TTTTTCTCTGC-TTTATGACACG
956806 TTTTTC
1 TTTTTC
956812 AGTCGTTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
22 25 0.56
23 20 0.44
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (22 bp):
TTTTTCTCTGCTTTATGACACG
Found at i:956820 original size:22 final size:23
Alignment explanation
Indices: 956772--956820 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
956762 TTATCTCTTC
* *
956772 TTTATGACACGTTTTTCTCTGCT
1 TTTATGACACGTTTTTCACTGCG
*
956795 TTTATGACACGTTTTTCAGT-CG
1 TTTATGACACGTTTTTCACTGCG
956817 TTTA
1 TTTA
956821 GCTATTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.51
Consensus pattern (23 bp):
TTTATGACACGTTTTTCACTGCG
Found at i:963238 original size:166 final size:166
Alignment explanation
Indices: 963052--963383 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
963042 CTTCAAATAC
963052 GTTCTTCAAGTTTCATCGGCAGATTCGGTCTAGGATCTTGTCGAATTTCTTGAAAATTCTACAGG
1 GTTCTTCAAGTTTCATCGGCAGATTCGGTCTAGGATCTTGTCGAATTTCTTGAAAATTCTACAGG
963117 AGGAATTTCGTGGTGAAAATTTCCAGATTGCAACTTCATATATTGAATATCATTTACACAAAAAA
66 AGGAATTTCGTGGTGAAAATTTCCAGATTGCAACTTCATATATTGAATATCATTTACACAAAAAA
963182 TCAGAATATTTGGAGATCAATAACACCTTCGAACAA
131 TCAGAATATTTGGAGATCAATAACACCTTCGAACAA
963218 GTTCTTCAAGTTTCATCGGCAGATTCGGTCTAGGATCTTGTCGAATTTCTTGAAAATTCTACAGG
1 GTTCTTCAAGTTTCATCGGCAGATTCGGTCTAGGATCTTGTCGAATTTCTTGAAAATTCTACAGG
963283 AGGAATTTCGTGGTGAAAATTTCCAGATTGCAACTTCATATATTGAATATCATTTACACAAAAAA
66 AGGAATTTCGTGGTGAAAATTTCCAGATTGCAACTTCATATATTGAATATCATTTACACAAAAAA
963348 TCAGAATATTTGGAGATCAATAACACCTTCGAACAA
131 TCAGAATATTTGGAGATCAATAACACCTTCGAACAA
963384 AGTGATCAAG
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (166 bp):
GTTCTTCAAGTTTCATCGGCAGATTCGGTCTAGGATCTTGTCGAATTTCTTGAAAATTCTACAGG
AGGAATTTCGTGGTGAAAATTTCCAGATTGCAACTTCATATATTGAATATCATTTACACAAAAAA
TCAGAATATTTGGAGATCAATAACACCTTCGAACAA
Found at i:966560 original size:12 final size:12
Alignment explanation
Indices: 966530--966564 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
966520 TATATTTTAT
966530 TTATCTTGTTT-
1 TTATCTTGTTTC
*
966541 TAATCTTGTTTC
1 TTATCTTGTTTC
966553 TTATCTTGTTTC
1 TTATCTTGTTTC
966565 CAGCACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:969482 original size:64 final size:63
Alignment explanation
Indices: 969389--969528 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
969379 ACATTGAGTG
* *
969389 TGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-AA
1 TGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTAA
* * * * * *
969452 TGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTAG
1 TGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCGATGCATAGGTAA
969516 TGCATCGATGCAC
1 TGCATCGATGCAC
969529 GTGTTAAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 17 0.26
64 49 0.74
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTAA
Found at i:969550 original size:24 final size:20
Alignment explanation
Indices: 969516--969573 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
969506 GCATGGGTAG
969516 TGCATCGATGCACGTGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
969540 TGCATCAATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
969560 TGCATCGATGCACT
1 TGCATCGATGCACT
969574 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.53
22 1 0.03
23 2 0.06
24 12 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:971205 original size:23 final size:23
Alignment explanation
Indices: 971170--971237 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
971160 AACCTTATAT
971170 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * * *
971193 GGCACTACAGTGCAATTCTATGT
1 GGCACTTCGGTGCATTTCTACGC
*
971216 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
971238 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:972363 original size:14 final size:14
Alignment explanation
Indices: 972341--972390 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
972331 GCCATTTCTT
972341 GATTCTTGATTTTG
1 GATTCTTGATTTTG
*
972355 GAATCTTGAATTTCT-
1 GATTCTTG-ATTT-TG
*
972370 GATTCTTGATCTTG
1 GATTCTTGATTTTG
972384 GATTCTT
1 GATTCTT
972391 CAATAGACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.03
14 17 0.57
15 11 0.37
16 1 0.03
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (14 bp):
GATTCTTGATTTTG
Found at i:972377 original size:29 final size:30
Alignment explanation
Indices: 972334--972390 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
972324 TCTTGCGGCC
*
972334 ATTTCTTGATTCTTGATTTTGGAATCTTGA
1 ATTTCTTGATTCTTGATCTTGGAATCTTGA
*
972364 ATTTC-TGATTCTTGATCTTGGATTCTT
1 ATTTCTTGATTCTTGATCTTGGAATCTT
972391 CAATAGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.54
Consensus pattern (30 bp):
ATTTCTTGATTCTTGATCTTGGAATCTTGA
Found at i:974814 original size:51 final size:51
Alignment explanation
Indices: 974746--974844 Score: 132
Period size: 51 Copynumber: 1.9 Consensus size: 51
974736 TTAATTTAGT
974746 CACTGTTAGTTTCTGATTTAGTTACTATTA-TTTTAATTT-TTGCATTTTGGC
1 CACTGTTAGTTTCTGATTTAGTTACTA--ACTTTTAATTTCTTGCATTTTGGC
* *
974797 CACTGTTTA-TTTTTGATTTAGTTACTAACTTTTATTTTCTTGCATTTT
1 CACTG-TTAGTTTCTGATTTAGTTACTAACTTTTAATTTCTTGCATTTT
974845 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 1 0.02
50 8 0.19
51 31 0.72
52 3 0.07
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.58
Consensus pattern (51 bp):
CACTGTTAGTTTCTGATTTAGTTACTAACTTTTAATTTCTTGCATTTTGGC
Found at i:974993 original size:15 final size:15
Alignment explanation
Indices: 974973--975047 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
974963 TAGGTCCTCA
974973 TATTTTATGTTTTTT
1 TATTTTATGTTTTTT
*
974988 TATTTTA-----ATT
1 TATTTTATGTTTTTT
974998 TATTTTATGTTTTTT
1 TATTTTATGTTTTTT
* *
975013 AATTTTATTGTTATTT
1 TATTTTA-TGTTTTTT
*
975029 TATTTGATATATTTTTT
1 TATTT--TATGTTTTTT
975046 TA
1 TA
975048 AATTGTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
10 9 0.20
15 15 0.33
16 11 0.24
17 8 0.18
18 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.73
Consensus pattern (15 bp):
TATTTTATGTTTTTT
Found at i:975003 original size:25 final size:26
Alignment explanation
Indices: 974973--975031 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
974963 TAGGTCCTCA
*
974973 TATTTTATGTTTTTTTATTTTAAT-T
1 TATTTTATGTTTTTTAATTTTAATGT
*
974998 TATTTTATGTTTTTTAATTTTATTGT
1 TATTTTATGTTTTTTAATTTTAATGT
975024 TATTTTAT
1 TATTTTAT
975032 TTGATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (26 bp):
TATTTTATGTTTTTTAATTTTAATGT
Found at i:975026 original size:6 final size:5
Alignment explanation
Indices: 974973--975033 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
974963 TAGGTCCTCA
* *
974973 TATTT TATGTT T-TTT TATTT TAATT TATTT TATGTT T-TTT AATTT TATTGT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TAT-TT TATTT TATTT TATT-T
975024 TATTT TATTT
1 TATTT TATTT
975034 GATATATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 5 0.11
5 31 0.66
6 11 0.23
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:977756 original size:63 final size:63
Alignment explanation
Indices: 977657--977783 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
977647 TTCGTGTAGG
977657 CCAGACTAAAGCGTAACAAACTTTTTCAATGGGTGAATATCTAACTTCGCAATCAGTGAACTT
1 CCAGACTAAAGCGTAACAAACTTTTTCAATGGGTGAATATCTAACTTCGCAATCAGTGAACTT
977720 CCAGACTAAAGCGTAACAAACTTTTTCAATGGGTGAATATCTAACTTCGCAATCAGTGAACTT
1 CCAGACTAAAGCGTAACAAACTTTTTCAATGGGTGAATATCTAACTTCGCAATCAGTGAACTT
977783 C
1 C
977784 TTGCTCAGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (63 bp):
CCAGACTAAAGCGTAACAAACTTTTTCAATGGGTGAATATCTAACTTCGCAATCAGTGAACTT
Found at i:980040 original size:54 final size:54
Alignment explanation
Indices: 979958--980261 Score: 371
Period size: 54 Copynumber: 5.6 Consensus size: 54
979948 TACATGCAAT
* *
979958 TGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTG
1 TGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
** *
980012 TGCAATTCACGAAATTCATCATATGTTGAAAAATAACCTTTTCGGCACTAAGTG
1 TGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
* * * *
980066 TGTAATTCAC-ATAATTCATCATATGTTGATGAATAACCATTTCAGTACTAAGTG
1 TGCAATTCACGA-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
* *
980120 TGCAATTCATTG-AATTCATCATATGTTGATGAATAACCGTTTCGGTACTAAGTG
1 TGCAATTCA-CGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
* * * *
980174 TGCAATTCAC-AGAATTCATCATATATTGATGAATAATCGTTTCAGCACTATGTG
1 TGCAATTCACGA-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
* ** * * *
980228 TGTAAACCACGAAATTCATAATATATTTATGAAT
1 TGCAATTCACGAAATTCATCATATGTTGATGAAT
980262 GACTGTATGT
Statistics
Matches: 218, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.00
54 216 0.99
55 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (54 bp):
TGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
Found at i:980246 original size:162 final size:162
Alignment explanation
Indices: 979958--980261 Score: 432
Period size: 162 Copynumber: 1.9 Consensus size: 162
979948 TACATGCAAT
*
979958 TGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAATTCACG
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACG
* * * ** *
980023 AAATTCATCATATGTTGAAAAATAACCTTTTCGGCACTAAGTGTGTAATTCACATAATTCATCAT
66 AAATTCATCATATATTGAAAAATAACCGTTTCAGCACTAAGTGTGTAAACCACATAATTCATAAT
*
980088 ATGTTGATGAATAACCATTTCAGTACTAAGTG
131 ATATTGATGAATAACCATTTCAGTACTAAGTG
** *
980120 TGCAATTCATTGAATTCATCATATGTTGATGAATAACCGTTTCGGTACTAAGTGTGCAATTCAC-
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACG
** * *
980184 AGAATTCATCATATATTGATGAATAATCGTTTCAGCACTATGTGTGTAAACCACGA-AATTCATA
66 A-AATTCATCATATATTGAAAAATAACCGTTTCAGCACTAAGTGTGTAAACCAC-ATAATTCATA
*
980248 ATATATTTATGAAT
129 ATATATTGATGAAT
980262 GACTGTATGT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
161 1 0.01
162 122 0.98
163 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (162 bp):
TGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACG
AAATTCATCATATATTGAAAAATAACCGTTTCAGCACTAAGTGTGTAAACCACATAATTCATAAT
ATATTGATGAATAACCATTTCAGTACTAAGTG
Found at i:988435 original size:3 final size:3
Alignment explanation
Indices: 988427--988465 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
988417 CTACAAAAAC
988427 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
988466 TAATTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:989679 original size:15 final size:15
Alignment explanation
Indices: 989656--989692 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
989646 CATATTGTAT
*
989656 ATTTTTTTAATTTTA
1 ATTTGTTTAATTTTA
*
989671 ATTTGTTTATTTTTA
1 ATTTGTTTAATTTTA
989686 ATTTGTT
1 ATTTGTT
989693 CATGTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (15 bp):
ATTTGTTTAATTTTA
Found at i:989982 original size:30 final size:30
Alignment explanation
Indices: 989919--990239 Score: 190
Period size: 30 Copynumber: 10.8 Consensus size: 30
989909 ATTTGAACTC
* * *
989919 TTAAGTTTCTATTTTTGCTA-TTTAGACCC-
1 TTAAGTTTATGTTTTTACTATTTTAG-CCCT
*
989948 TTAAGTTTTTGTTTTTACTATTTTAGCCCT
1 TTAAGTTTATGTTTTTACTATTTTAGCCCT
* * * *
989978 TTAAGTTTATGTTTCTGCCATTTTATTCCC-
1 TTAAGTTTATGTTTTTACTATTTTA-GCCCT
* * * *
990008 ATAAGTTTATGTTGTTGCTATTTTTGTCCC-
1 TTAAGTTTATGTTTTTACTATTTTAG-CCCT
* *
990038 TTAAATTTATGTTTTTACTATTTTAGTCCT
1 TTAAGTTTATGTTTTTACTATTTTAGCCCT
* * * *
990068 TTAAATTTATGTATTTT-CTATTGTGGTCCT
1 TTAAGTTTATGT-TTTTACTATTTTAGCCCT
* * * * *
990098 TTAACTTTATGTATTTACGA-TTCAACCCT
1 TTAAGTTTATGTTTTTACTATTTTAGCCCT
** * **
990127 TTAACATTATGTTTTT-TTATTTTATTCCT
1 TTAAGTTTATGTTTTTACTATTTTAGCCCT
* * * *
990156 TTAACTTTATGTTTTTATTATTTTAGTCAT
1 TTAAGTTTATGTTTTTACTATTTTAGCCCT
** *
990186 TTAAGTTTCTAT-TTTTTTTTATTTTAGTCCT
1 TTAAG-TT-TATGTTTTTACTATTTTAGCCCT
* * *
990217 GTAAATTTATGTTATTACTATTT
1 TTAAGTTTATGTTTTTACTATTT
990240 AGTCTTTTAT
Statistics
Matches: 232, Mismatches: 48, Indels: 23
0.77 0.16 0.08
Matches are distributed among these distances:
28 1 0.00
29 67 0.29
30 132 0.57
31 29 0.12
32 3 0.01
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (30 bp):
TTAAGTTTATGTTTTTACTATTTTAGCCCT
Found at i:994503 original size:2 final size:2
Alignment explanation
Indices: 994492--994528 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
994482 CAAAGGCAAT
994492 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
994529 CAATAAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:995359 original size:4 final size:4
Alignment explanation
Indices: 995352--995397 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
995342 ATACATCAAC
* *
995352 ACAT ACAT ACAT ATAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
995398 GATACATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ACAT
Found at i:995361 original size:16 final size:17
Alignment explanation
Indices: 995340--995403 Score: 78
Period size: 16 Copynumber: 3.8 Consensus size: 17
995330 TTGAGAAAAA
995340 ACATACATCA-ACACAT
1 ACATACATCATACACAT
*
995356 ACATACAT-ATATACAT
1 ACATACATCATACACAT
*
995372 ATATACATACATACACAT
1 ACATACAT-CATACACAT
*
995390 ACATACATGATACA
1 ACATACATCATACA
995404 TATAATTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 20 0.50
17 5 0.12
18 14 0.35
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (17 bp):
ACATACATCATACACAT
Found at i:995789 original size:36 final size:36
Alignment explanation
Indices: 995749--995820 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
995739 TGAGAATTTT
995749 AAAACAAATTTTATCTCGCTTGAGACAATTTCTCTC
1 AAAACAAATTTTATCTCGCTTGAGACAATTTCTCTC
* *
995785 AAAACAAATTTTGTCTCGCTTGAGACATTTTCTCTC
1 AAAACAAATTTTATCTCGCTTGAGACAATTTCTCTC
995821 TGATATACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTATCTCGCTTGAGACAATTTCTCTC
Found at i:996074 original size:28 final size:27
Alignment explanation
Indices: 996043--996111 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 27
996033 TCTTGAGACA
996043 GTTTCTCTTGAAACAAATCTTTGAGTTT
1 GTTTCTCTT-AAACAAATCTTTGAGTTT
*
996071 GTTTCTCTTAACAAAATTATCTTTGAGTTT
1 GTTTCTCTTAA-ACAA--ATCTTTGAGTTT
*
996101 ATTTCT-TTAAA
1 GTTTCTCTTAAA
996112 ACCAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
28 13 0.36
29 4 0.11
30 17 0.47
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (27 bp):
GTTTCTCTTAAACAAATCTTTGAGTTT
Found at i:996324 original size:64 final size:63
Alignment explanation
Indices: 996211--996329 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 63
996201 CATAACCCAT
* *
996211 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTCTTGAGACAGTTTCTTTTGAGGAAAAAG
1 CTTTGACTATGTTTCTTTGGAAACAAAATTTGTCTCTTGAGACAGTTTCTTTTGAGGAAAAAG
996274 CTTTGACTATGTTTCCTTT-GAAACAAAATTTTGTCT-TTCGAGACAGTTTCTTTTGA
1 CTTTGACTATGTTT-CTTTGGAAACAAAA-TTTGTCTCTT-GAGACAGTTTCTTTTGA
996330 ATACAAAGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
63 23 0.45
64 28 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (63 bp):
CTTTGACTATGTTTCTTTGGAAACAAAATTTGTCTCTTGAGACAGTTTCTTTTGAGGAAAAAG
Found at i:996444 original size:108 final size:109
Alignment explanation
Indices: 996243--996444 Score: 234
Period size: 108 Copynumber: 1.9 Consensus size: 109
996233 ACAAAATTTG
* *
996243 TCTCTTGAGACAGTTTCTTTTGAGGAAAAAGCTTTGACTATGTTTCCTTTGAAACAAAATTTTGT
1 TCTCTTGAGACAGTTTCTTTTGA-GAAAAAGCTTTGACTATGTTTCATTTGAAACAAAATCTTGT
**
996308 CTTTCGAGACAGTTTCTTTTGAATACAAAGATCTTTGAGTCTATC
65 CTTTCGAGACAGTTTCTCGTGAATACAAAGATCTTTGAGTCTATC
* * * * *
996353 TCTCTTGAGACAGTTT-TTCTTGA-AAACATCTTTGAGTCTGTTTGATTTGAAAC-AAATCTTGT
1 TCTCTTGAGACAGTTTCTT-TTGAGAAAAAGCTTTGACTATGTTTCATTTGAAACAAAATCTTGT
*
996415 CTCCCTT-GAGATAGTTTCTCGTGAA-ACAAA
65 CT---TTCGAGACAGTTTCTCGTGAATACAAA
996445 ACCATCTTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
107 10 0.13
108 29 0.37
109 17 0.22
110 22 0.28
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (109 bp):
TCTCTTGAGACAGTTTCTTTTGAGAAAAAGCTTTGACTATGTTTCATTTGAAACAAAATCTTGTC
TTTCGAGACAGTTTCTCGTGAATACAAAGATCTTTGAGTCTATC
Found at i:997000 original size:12 final size:12
Alignment explanation
Indices: 996983--997025 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
996973 CTACAAAAAC
996983 ATTATTTTTATT
1 ATTATTTTTATT
*
996995 ATTATTTTAATT
1 ATTATTTTTATT
* *
997007 TTTATTATATATT
1 ATTATT-TTTATT
997020 ATTATT
1 ATTATT
997026 AATTAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:997037 original size:25 final size:22
Alignment explanation
Indices: 996990--997044 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
996980 AACATTATTT
*
996990 TTAT-TATTATTTTAATTTTTA
1 TTATATATTATTTTAATTTATA
997011 TTATATATTATTATTAATTAATATA
1 TTATATATTATT-TTAATT--TATA
*
997036 TTACATATT
1 TTATATATT
997045 TTGTAGGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 6 0.21
25 11 0.39
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATATTATTTTAATTTATA
Found at i:998535 original size:59 final size:60
Alignment explanation
Indices: 998472--998585 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 60
998462 TTGTAATTAC
* * * *
998472 TGTTTTAGTCATATAAGTTTCTATTTTTGCTA-TTTAGACTCTTAAGTTTCTATTTTTAA
1 TGTTTTAGCCATATAAGTTTCTATTTCTGCCATTTTAGACCCTTAAGTTTCTATTTTTAA
* * * **
998531 TGTTTTAGCCCTTTAAGTTTCTGTTTCTGCCATTTTATTCCCTTAAGTTTCTATT
1 TGTTTTAGCCATATAAGTTTCTATTTCTGCCATTTTAGACCCTTAAGTTTCTATT
998586 ATTGCTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 26 0.58
60 19 0.42
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (60 bp):
TGTTTTAGCCATATAAGTTTCTATTTCTGCCATTTTAGACCCTTAAGTTTCTATTTTTAA
Found at i:998567 original size:30 final size:29
Alignment explanation
Indices: 998489--998642 Score: 105
Period size: 30 Copynumber: 5.2 Consensus size: 29
998479 GTCATATAAG
* * *
998489 TTTCTATTTTTGCTA-TTTAGACTCTTAAG
1 TTTCTATTTCTGCTATTTTAG-CCCTTAAA
* ** * *
998518 TTTCTATTTTTAATGTTTTAGCCCTTTAAG
1 TTTCTATTTCTGCTATTTTAGCCC-TTAAA
* * * *
998548 TTTCTGTTTCTGCCATTTTATTCCCTTAAG
1 TTTCTATTTCTGCTATTTTA-GCCCTTAAA
998578 TTTCTATTAT-TGCTATTTTAGTCCCTTAAA
1 TTTCTATT-TCTGCTATTTTAG-CCCTTAAA
* * *
998608 TGTCTATTTCTACTATTTTAGTCCTTTAAA
1 TTTCTATTTCTGCTATTTTAG-CCCTTAAA
998638 TTTCT
1 TTTCT
998643 GTATTTGCTA
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
29 15 0.15
30 81 0.81
31 4 0.04
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.55
Consensus pattern (29 bp):
TTTCTATTTCTGCTATTTTAGCCCTTAAA
Found at i:998597 original size:60 final size:60
Alignment explanation
Indices: 998512--998674 Score: 141
Period size: 60 Copynumber: 2.7 Consensus size: 60
998502 TATTTAGACT
* ** * * * *
998512 CTTAAGTTTCTATTTTTAATGTTTTAGCCCTTTAAGTTTCTGTTTCTGCCATTTTATTCC
1 CTTAAGTTTCTATTATTGCTATTTTAGCCCTTTAAATTTCTGTTTCTACCATTTTAGTCC
* * *
998572 CTTAAGTTTCTATTATTGCTATTTTAGTCCC-TTAAATGTCTATTTCTACTATTTTAGTCC
1 CTTAAGTTTCTATTATTGCTATTTTAG-CCCTTTAAATTTCTGTTTCTACCATTTTAGTCC
* * * * * * *
998632 TTTAAATTTCT-GTATTTGCTATTGTGGTCCTTTAACTTTCTGT
1 CTTAAGTTTCTATTA-TTGCTATTTTAGCCCTTTAAATTTCTGT
998675 ATTTACGATT
Statistics
Matches: 81, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
59 4 0.05
60 74 0.91
61 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.10, T:0.54
Consensus pattern (60 bp):
CTTAAGTTTCTATTATTGCTATTTTAGCCCTTTAAATTTCTGTTTCTACCATTTTAGTCC
Found at i:998654 original size:30 final size:29
Alignment explanation
Indices: 998533--998835 Score: 149
Period size: 30 Copynumber: 10.4 Consensus size: 29
998523 ATTTTTAATG
* * *
998533 TTTTAGCCCTTTAAGTTTCTGTTTCTGCCA
1 TTTTAGTCCTTTAAATTTCTGTTT-TGCTA
* * * *
998563 TTTTATTCCCTTAAGTTTCTATTATTGCTA
1 TTTTAGTCCTTTAAATTTCTGTT-TTGCTA
* * * *
998593 TTTTAGTCCCTTAAATGTCTATTTCTACTA
1 TTTTAGTCCTTTAAATTTCTGTTT-TGCTA
998623 TTTTAGTCCTTTAAATTTCTGTATTTGCTA
1 TTTTAGTCCTTTAAATTTCTGT-TTTGCTA
* * * * *
998653 TTGTGGTCCTTTAACTTTCTGTATTTACGA
1 TTTTAGTCCTTTAAATTTCTGT-TTTGCTA
* ** * *
998683 -TTCAACCCTTTAACTTTCT-ATTT-CTTA
1 TTTTAGTCCTTTAAATTTCTGTTTTGC-TA
* * **
998710 TTTTAGTCCTTTAACTTTTTGTTTTTATTA
1 TTTTAGTCCTTTAAATTTCTG-TTTTGCTA
* *
998740 TTTTAGT-C-----ATTTCTATTTTTGTTA
1 TTTTAGTCCTTTAAATTTCT-GTTTTGCTA
* * *
998764 TTTTAGTTCTGTAAATTTCTTGTTTTGTTA
1 TTTTAGTCCTTTAAATTTC-TGTTTTGCTA
* * *
998794 TTTTAGTCCTGTAAATTTTTGTTATTACTA
1 TTTTAGTCCTTTAAATTTCTGTT-TTGCTA
998824 -TTTAGTCCTTTA
1 TTTTAGTCCTTTA
998836 TTTTATTAAG
Statistics
Matches: 215, Mismatches: 41, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
24 18 0.08
25 1 0.00
26 1 0.00
27 4 0.02
28 15 0.07
29 31 0.14
30 141 0.66
31 4 0.02
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTTAGTCCTTTAAATTTCTGTTTTGCTA
Found at i:998672 original size:90 final size:89
Alignment explanation
Indices: 998489--998672 Score: 199
Period size: 90 Copynumber: 2.1 Consensus size: 89
998479 GTCATATAAG
* * * * * * *
998489 TTTCTATTTTTGCTATTTAGACTCTTAAGTTTCTATTTTTAATGTTTTAGCCCTTTAAGTTTCTG
1 TTTCTATTATTGCTATTTAGACCCTTAAATGTCTATTTCTAATATTTTAGCCCTTTAAATTTCTG
* * *
998554 TTTCTGCCATTTTATTCCCTTAAG
66 TTTCTGCCATTGTAGTCCCTTAAC
* * *
998578 TTTCTATTATTGCTATTTTAGTCCCTTAAATGTCTATTTCTACTATTTTAGTCCTTTAAATTTCT
1 TTTCTATTATTGCTA-TTTAGACCCTTAAATGTCTATTTCTAATATTTTAGCCCTTTAAATTTCT
* * *
998643 GTATT-TGCTATTGTGGTCCTTTAAC
65 GT-TTCTGCCATTGTAGTCCCTTAAC
998668 TTTCT
1 TTTCT
998673 GTATTTACGA
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
89 14 0.18
90 61 0.79
91 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.10, T:0.55
Consensus pattern (89 bp):
TTTCTATTATTGCTATTTAGACCCTTAAATGTCTATTTCTAATATTTTAGCCCTTTAAATTTCTG
TTTCTGCCATTGTAGTCCCTTAAC
Found at i:998781 original size:24 final size:24
Alignment explanation
Indices: 998731--998819 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
998721 TAACTTTTTG
* * * **
998731 TTTTTATTATTTTAGTCATTTCTA
1 TTTTTGTTATTTTAGTCCTGTAAA
*
998755 TTTTTGTTATTTTAGTTCTGTAAA
1 TTTTTGTTATTTTAGTCCTGTAAA
998779 TTTCTTGTTTTGTTATTTTAGTCCTGTAAA
1 -----T-TTTTGTTATTTTAGTCCTGTAAA
998809 TTTTTGTTATT
1 TTTTTGTTATT
998820 ACTATTTAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
24 28 0.54
25 1 0.02
29 1 0.02
30 22 0.42
ACGTcount: A:0.18, C:0.07, G:0.10, T:0.65
Consensus pattern (24 bp):
TTTTTGTTATTTTAGTCCTGTAAA
Found at i:998795 original size:54 final size:54
Alignment explanation
Indices: 998707--998819 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
998697 TTTCTATTTC
* * * **
998707 TTATTTTAGTCCTTTAACTTTTTGTTTTTATTATTTTAGTCATTTCTATTTTTG
1 TTATTTTAGTCCTGTAAATTTTTGTTTTTATTATTTTAGTCATGTAAATTTTTG
* * *
998761 TTATTTTAGTTCTGTAAATTTCTTG-TTTTGTTATTTTAGTCCTGTAAATTTTTG
1 TTATTTTAGTCCTGTAAATTT-TTGTTTTTATTATTTTAGTCATGTAAATTTTTG
998815 TTATT
1 TTATT
998820 ACTATTTAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
54 47 0.94
55 3 0.06
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.65
Consensus pattern (54 bp):
TTATTTTAGTCCTGTAAATTTTTGTTTTTATTATTTTAGTCATGTAAATTTTTG
Found at i:999815 original size:19 final size:20
Alignment explanation
Indices: 999780--999825 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
999770 TTAAAACCAT
*
999780 ATATTATACGTTTTTTTAAA
1 ATATTATACGATTTTTTAAA
999800 ATATTATAC-ATTTTTTAAA
1 ATATTATACGATTTTTTAAA
*
999819 AAATTAT
1 ATATTAT
999826 TTTAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTATACGATTTTTTAAA
Found at i:999953 original size:71 final size:71
Alignment explanation
Indices: 999824--1000034 Score: 268
Period size: 73 Copynumber: 3.0 Consensus size: 71
999814 TTAAAAAATT
* * * *
999824 ATTTTAAAAACTATATATTATATGATTTCAAGATTA-TTT-TAAACTATATACTACATGTTTTTC
1 ATTTTAAAAACTATATATTATATGTTTTCAAAATTACTTTAAAAACTATATACTATATGTTTTTC
999887 AAAAGC
66 AAAAGC
*
999893 ATTTTAAAAACTATATATTCTATGTTTTCAAAATTACTTTAAAAACTATATACTATATG-TTTTC
1 ATTTTAAAAACTATATATTATATGTTTTCAAAATTACTTTAAAAACTATATACTATATGTTTTTC
*
999957 AAAACC
66 AAAAGC
* * * * *
999963 GTTTTAAAAAAAACTATATGTTATATATTTTCAAAATTACTTTAAAAACTATGTACTATATATTT
1 ATTTT---AAAAACTATATATTATATGTTTTCAAAATTACTTTAAAAACTATATACTATATGTTT
1000028 TT-AAAAG
63 TTCAAAAG
1000035 TTATATTTGG
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
69 33 0.27
70 17 0.14
71 16 0.13
73 53 0.43
74 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (71 bp):
ATTTTAAAAACTATATATTATATGTTTTCAAAATTACTTTAAAAACTATATACTATATGTTTTTC
AAAAGC
Found at i:1000028 original size:35 final size:35
Alignment explanation
Indices: 999818--1000038 Score: 196
Period size: 35 Copynumber: 6.2 Consensus size: 35
999808 CATTTTTTAA
*
999818 AAAATTATTTTAAAAACTATATATTATATGA-TTTC
1 AAAATTATTTTAAAAACTATATACTATAT-ATTTTC
* * *
999853 AAGATTATTTT--AAACTATATACTACATGTTTTTC
1 AAAATTATTTTAAAAACTATATACTATAT-ATTTTC
** * * *
999887 AAAAGCATTTTAAAAACTATATATTCTATGTTTTC
1 AAAATTATTTTAAAAACTATATACTATATATTTTC
* *
999922 AAAATTACTTTAAAAACTATATACTATATGTTTTC
1 AAAATTATTTTAAAAACTATATACTATATATTTTC
*** **
999957 AAAACCGTTTTAAAAAAAACTATATGTTATATATTTTC
1 AAAATTATTTT---AAAAACTATATACTATATATTTTC
* * *
999995 AAAATTACTTTAAAAACTATGTACTATATATTTTT
1 AAAATTATTTTAAAAACTATATACTATATATTTTC
1000030 AAAAGTTAT
1 AAAA-TTAT
1000039 ATTTGGAATT
Statistics
Matches: 147, Mismatches: 32, Indels: 13
0.77 0.17 0.07
Matches are distributed among these distances:
33 15 0.10
34 12 0.08
35 76 0.52
36 16 0.11
38 28 0.19
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (35 bp):
AAAATTATTTTAAAAACTATATACTATATATTTTC
Found at i:1000727 original size:30 final size:30
Alignment explanation
Indices: 1000662--1000719 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1000652 GATTTGGCAA
* * *
1000662 TGAACCGGCTGAAAATCGGTAAAACCGGGG
1 TGAATCGGCTGAAAACCGGCAAAACCGGGG
1000692 TGAATCGGCTGAAAACCGGCAAAACCGG
1 TGAATCGGCTGAAAACCGGCAAAACCGG
1000720 TTTGAATCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.31, T:0.12
Consensus pattern (30 bp):
TGAATCGGCTGAAAACCGGCAAAACCGGGG
Found at i:1002429 original size:26 final size:26
Alignment explanation
Indices: 1002406--1002470 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
1002396 CTTATATTCG
*
1002406 GGTCGAGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1002432 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1002458 GGTCGGGTCGGGT
1 GGTCGGGTCGGGT
1002471 CGGTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.14, C:0.12, G:0.38, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1002695 original size:291 final size:281
Alignment explanation
Indices: 1002152--1002732 Score: 873
Period size: 291 Copynumber: 2.0 Consensus size: 281
1002142 ATATATTCGT
* *
1002152 GTCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTC
1 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGAGTC
* * **
1002217 GGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCTTATAT
66 AGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATAT
1002282 ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTA
131 ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTA
* *
1002347 TTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCTTATATTCGGGTCGA
196 TTGAATAAAAATATTTTTTATTATTTCAGGTCGGGTCGGATTTCTAATTCTTATATTCGAGTCGA
*
1002412 GTCGGGTGAAACTTTATTTTG
261 GTCAGGTGAAACTTTATTTTG
1002433 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTCGAG
1 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG--TTTTTTAAGTGTGATATTCGAG
* *
1002498 TCAGGTCGGGTTC-GAGTTTAGGGTGAAACATACCCGACCCGACCCAAAAAGTATATAATTTTAC
64 TCAGGTCGAGTTCAG-GTTTAGGGTGAAAAATACCCG--CC--CCCAAAAAGTATATAATTTTAC
*
1002562 CTTATATATTTAGGAATAATTACAATAATATCCCTCTCTCTATAT-ATTTTTTTCCAATTAAGTC
124 CTTATATATTTAGGAATAATTACAATAATAT-CCT-TCTATATATAATTTTTTT-CAATTAAGTC
*
1002626 ACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCAGGTTGGGTCAGG-TTTCTAATT-TA
186 ACTGTTTTTATTGAATAAAAAT-A-TTTTTTATTATTTCAGGTCGGGTC-GGATTTCTAATTCT-
*
1002689 TATATTCGAGTCGGGTCAGGTGAAACTTTATTTTG
247 TATATTCGAGTCGAGTCAGGTGAAACTTTATTTTG
*
1002724 GTTGGGTCG
1 GTCGGGTCG
1002733 AGTCTCGGAT
Statistics
Matches: 271, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
281 40 0.15
282 1 0.00
283 52 0.19
285 2 0.01
287 50 0.18
288 11 0.04
289 40 0.15
290 2 0.01
291 71 0.26
292 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (281 bp):
GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGAGTC
AGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATAT
ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTA
TTGAATAAAAATATTTTTTATTATTTCAGGTCGGGTCGGATTTCTAATTCTTATATTCGAGTCGA
GTCAGGTGAAACTTTATTTTG
Found at i:1006466 original size:26 final size:26
Alignment explanation
Indices: 1006443--1006502 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
1006433 CTTATATTCA
*
1006443 GGTCGGGTAGGGTTAAACTTTATTTT
1 GGTCGGGTAGGGTGAAACTTTATTTT
*
1006469 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTAGGGTGAAACTTTATTTT
1006495 GGTCGGGT
1 GGTCGGGT
1006503 TTGGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.15, C:0.10, G:0.37, T:0.38
Consensus pattern (26 bp):
GGTCGGGTAGGGTGAAACTTTATTTT
Done.