Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000402.1 Hibiscus syriacus cultivar Beakdansim tig00000738_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: 1701760
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:676970 original size:31 final size:30
Alignment explanation
Indices: 676906--676980 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
676896 ACAAAATTCG
* *
676906 TTTCAAGGGAAACGACTCAAAGATGGTTTTA
1 TTTCAAGAGAAACAACTCAAAGAT-GTTTTA
676937 TTTCAAGAGAAACAAACTCAAAGAT-TTTGTA
1 TTTCAAGAGAAAC-AACTCAAAGATGTTT-TA
* *
676968 TTTCTAGAAAAAC
1 TTTCAAGAGAAAC
676981 TGCCTCAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 25 0.66
32 10 0.26
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (30 bp):
TTTCAAGAGAAACAACTCAAAGATGTTTTA
Found at i:677091 original size:66 final size:66
Alignment explanation
Indices: 677032--677160 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
677022 CAAAGGTGGG
* *
677032 TATTTT-T-AAAAGAAATTGTC-TCGAGAGATAAAATTTTGTTTCAAAGGAAACAAACTCAAAGA
1 TATTTTCTCAAAAGAAATTGTCTTCAAGAGATAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
677094 T
66 T
* * * *
677095 TTTTTTCTCAAAAGAAATTGTCTTTAAGAGATAATATTTTGTTTCAAAAGAAACAGACTCAAAGA
1 TATTTTCTCAAAAGAAATTGTCTTCAAGAGATAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
677160 T
66 T
677161 AAATTACATC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 5 0.09
64 1 0.02
65 13 0.23
66 38 0.67
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (66 bp):
TATTTTCTCAAAAGAAATTGTCTTCAAGAGATAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
T
Found at i:677320 original size:29 final size:30
Alignment explanation
Indices: 677244--677312 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
677234 GAGAAACAAA
* * *
677244 ATTTGTTTTAATAGAAATAGACTCAAAGATG
1 ATTT-TTTTAAAAGAAACAAACTCAAAGATG
677275 ATTTTTTTAAAAGAAACAAACTCAAAGAT-
1 ATTTTTTTAAAAGAAACAAACTCAAAGATG
*
677304 TTTTTTTTA
1 ATTTTTTTA
677313 CGAAAAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.24
30 22 0.65
31 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (30 bp):
ATTTTTTTAAAAGAAACAAACTCAAAGATG
Found at i:677659 original size:28 final size:27
Alignment explanation
Indices: 677557--677664 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 27
677547 TCAAGAGAGA
*
677557 CAAAGTTTTGTTTCAAAAGAAATAGACT
1 CAAAGATTTGTTTCAAAAGAAATA-ACT
* *
677585 CAAAAATCCTTTGTTTTAAAAGAAATAACT
1 CAAAGA---TTTGTTTCAAAAGAAATAACT
*
677615 CAAAGATTTTTATTCAAAATGAACA-AACT
1 CAAAGATTTGT-TTCAAAA-GAA-ATAACT
*
677644 CAAAGATTTGTTTCAAGAGAA
1 CAAAGATTTGTTTCAAAAGAA
677665 CTTGTCTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
27 7 0.11
28 16 0.24
29 17 0.26
30 9 0.14
31 17 0.26
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.31
Consensus pattern (27 bp):
CAAAGATTTGTTTCAAAAGAAATAACT
Found at i:678033 original size:105 final size:105
Alignment explanation
Indices: 677833--678131 Score: 467
Period size: 105 Copynumber: 2.9 Consensus size: 105
677823 CTTTGAAAAA
* * * * ** * *
677833 CTCAAGTGAGATTAATTTTGTTTTAAGT-ACAACAACTTTGAAATTTGTAT-TCTAAGGGAAAAT
1 CTCAAGTAAGATTAATTTTGTTTCAAGTGA-AGCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
*
677896 GTCTCAAGTGAGACGAAATTTGTTTTGAAATAAACAACAAT
65 GTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAAT
*
677937 CTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGAAAAAATG
1 CTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAATG
*
678002 TCTCAAGCGAGATGAAATTTGTTTTGAAATAAACAACAAT
66 TCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAAT
678042 CTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAATG
1 CTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAATG
*
678107 TCTCAAGCGAGACAAAATTTGTTTT
66 TCTCAAGCGAGACGAAATTTGTTTT
678132 CAAAGGAAAC
Statistics
Matches: 179, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
104 42 0.23
105 137 0.77
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (105 bp):
CTCAAGTAAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAATG
TCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAAT
Found at i:678157 original size:37 final size:38
Alignment explanation
Indices: 678080--678178 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 38
678070 GAAGCAAATT
* * * *
678080 CAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGA
1 CAAAATTTGTATTTCAAAGG-AAACTGTCTCAAACAAGA
* *
678119 CAAAATTTGT-TTTCAAAGGAAACTGTCTTAAATAAGA
1 CAAAATTTGTATTTCAAAGGAAACTGTCTCAAACAAGA
*
678156 CAAAATTT-TGTTTCAAAGGAAAC
1 CAAAATTTGTATTTCAAAGGAAAC
678179 AAACTCAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 34 0.64
38 8 0.15
39 10 0.19
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (38 bp):
CAAAATTTGTATTTCAAAGGAAACTGTCTCAAACAAGA
Found at i:678189 original size:37 final size:37
Alignment explanation
Indices: 678116--678189 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
678106 GTCTCAAGCG
*** *
678116 AGACAAAATTTGTTTTCAAAGGAAACTGTCTTAAATA
1 AGACAAAATTTGTTTTCAAAGGAAACAAACTCAAATA
678153 AGACAAAATTT-TGTTTCAAAGGAAACAAACTCAAATA
1 AGACAAAATTTGT-TTTCAAAGGAAACAAACTCAAATA
678190 TTTTTTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (37 bp):
AGACAAAATTTGTTTTCAAAGGAAACAAACTCAAATA
Found at i:678597 original size:12 final size:11
Alignment explanation
Indices: 678560--678601 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
678550 TGTATCATGT
678560 ATGTATGTGTG
1 ATGTATGTGTG
*
678571 -TGTATGTATG
1 ATGTATGTGTG
678581 TATGTATGTGTTG
1 -ATGTATGTG-TG
678594 ATGTATGT
1 ATGTATGT
678602 TTTTCTCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 9 0.35
12 15 0.58
13 2 0.08
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
ATGTATGTGTG
Found at i:679804 original size:12 final size:11
Alignment explanation
Indices: 679776--679817 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
679766 TCCTCTTTTG
*
679776 TTCTTTGCTTT
1 TTCTTTGATTT
679787 TTCTTTGATTT
1 TTCTTTGATTT
679798 TTGCTTTGATTT
1 TT-CTTTGATTT
679810 TCTCTTTG
1 T-TCTTTG
679818 CTCTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.05, C:0.14, G:0.12, T:0.69
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:681919 original size:30 final size:32
Alignment explanation
Indices: 681865--681925 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
681855 TGACAAAATG
681865 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
681897 ACACAAACAAAAGAG-A-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
681926 CATGTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 13 0.45
31 1 0.03
32 15 0.52
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:685004 original size:20 final size:19
Alignment explanation
Indices: 684981--685028 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
684971 CGAATCTCTC
684981 TTTTTTTCTATCTTCTGTTT
1 TTTTTTTCTATCTTCT-TTT
* * *
685001 TTTTTTTTTGTTTTCTTTT
1 TTTTTTTCTATCTTCTTTT
685020 TTTTTTTCT
1 TTTTTTTCT
685029 CTGAACCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTTTTTCTATCTTCTTTT
Found at i:685552 original size:25 final size:25
Alignment explanation
Indices: 685521--685620 Score: 200
Period size: 25 Copynumber: 4.0 Consensus size: 25
685511 ATTTAGGGGA
685521 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
685546 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
685571 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
685596 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
685621 GGTTGATTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:685694 original size:3 final size:3
Alignment explanation
Indices: 685686--685725 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
685676 ATTAATAAAC
685686 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
685726 CGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:685711 original size:22 final size:22
Alignment explanation
Indices: 685678--685721 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
685668 AATATGTAAT
685678 TAATAAACATAATAATAATAAA
1 TAATAAACATAATAATAATAAA
685700 TAATAATA-ATAATAATAATAAA
1 TAATAA-ACATAATAATAATAAA
685722 ATAACGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAACATAATAATAATAAA
Found at i:686708 original size:249 final size:250
Alignment explanation
Indices: 686224--686718 Score: 899
Period size: 247 Copynumber: 2.0 Consensus size: 250
686214 CCGATCCGAA
686224 CAAAACAAGGTTTCACCCCGACCCGACCCGAATATATGACATAGAAACCCAACCCGAAATAATAA
1 CAAAACAAGGTTTCACCCCGACCCGACCCGAATATATGACATAGAAACCCAACCCGAAATAATAA
686289 AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTAT
66 AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTAT
686354 TATTGTAATTATCCCTAAATATATAGGGTAAAATTATATATTTTTTTCGGGTCAGGTCAGATTTT
131 TATTGTAATTATCCCTAAATATATAGGGTAAAATTATATATTTTTTTCGGGTCAGGTCAGATTTT
686419 TTTCACCCTAAACCCGACCCTGACCCGAACACAACATAAAAAAACC-GACCTGGC
196 TTTCACCCTAAACCCGACCCTGACCCGAACACAACATAAAAAAACCTGACCTGGC
*
686473 CAAAACAAGGTTTCA-CCCGACCCGACCCGAATATATGACATAGAAACCCGACCCGAAATAAT-A
1 CAAAACAAGGTTTCACCCCGACCCGACCCGAATATATGACATAGAAACCCAACCCGAAATAATAA
*
686536 ATAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTAT
66 AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTAT
* *
686601 TATTGTAATTATCCCTAAATATATAGGGTAAAATTATATTTATTTTTTTCGGGTCGGGTCGGATT
131 TATTGTAATTATCCCTAAATATATAGGGTAAAATTATA--TATTTTTTTCGGGTCAGGTCAGATT
686666 TTTTTCACCCTAAACCCGAACCC-GACCCGAACACAACATAAAAAAACCTGACC
194 TTTTTCACCCTAAACCCG-ACCCTGACCCGAACACAACATAAAAAAACCTGACC
686719 CAACCCGAAT
Statistics
Matches: 238, Mismatches: 4, Indels: 7
0.96 0.02 0.03
Matches are distributed among these distances:
247 103 0.43
248 46 0.19
249 81 0.34
250 8 0.03
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (250 bp):
CAAAACAAGGTTTCACCCCGACCCGACCCGAATATATGACATAGAAACCCAACCCGAAATAATAA
AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTAT
TATTGTAATTATCCCTAAATATATAGGGTAAAATTATATATTTTTTTCGGGTCAGGTCAGATTTT
TTTCACCCTAAACCCGACCCTGACCCGAACACAACATAAAAAAACCTGACCTGGC
Found at i:687730 original size:21 final size:21
Alignment explanation
Indices: 687706--687768 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
687696 GATCCATCAC
**
687706 AAAAAAGGATTTATCATTTTT
1 AAAAAAGGATCGATCATTTTT
687727 AAAAAAGGATCGATCATTTTT
1 AAAAAAGGATCGATCATTTTT
* *
687748 ATAAAGGGATCGATCATTTTT
1 AAAAAAGGATCGATCATTTTT
687769 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (21 bp):
AAAAAAGGATCGATCATTTTT
Found at i:698989 original size:12 final size:11
Alignment explanation
Indices: 698974--699025 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
698964 TTTTCTCCCC
*
698974 TTTTTCTTCTG
1 TTTTTCTTCTT
698985 TTTTT-TTCTGT
1 TTTTTCTTCT-T
*
698996 TTTTCCTTCTT
1 TTTTTCTTCTT
699007 CTTTTTCTTCTT
1 -TTTTTCTTCTT
699019 TTTTTCT
1 TTTTTCT
699026 GTTCTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 4 0.11
11 17 0.49
12 14 0.40
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:698999 original size:22 final size:22
Alignment explanation
Indices: 698973--699038 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
698963 TTTTTCTCCC
698973 CTTTTTCTTCTGTTTTTTTCTGT
1 CTTTTTCTTCTGTTTTTTTCT-T
* *
698996 -TTTTCCTTCT-TCTTTTTCTT
1 CTTTTTCTTCTGTTTTTTTCTT
699016 CTTTTT-TTCTGTTCTTTTATCTT
1 CTTTTTCTTCTGTT-TTTT-TCTT
699039 TGCTTGCTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 13 0.37
23 4 0.11
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.74
Consensus pattern (22 bp):
CTTTTTCTTCTGTTTTTTTCTT
Found at i:699031 original size:25 final size:25
Alignment explanation
Indices: 698977--699024 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
698967 TCTCCCCTTT
*
698977 TTCTTCTGTTTTTTTCTGTTTTTCC
1 TTCTTCTGTTTTCTTCTGTTTTTCC
*
699002 TTCTTCT-TTTTCTTCTTTTTTTC
1 TTCTTCTGTTTTCTTCTGTTTTTC
699025 TGTTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (25 bp):
TTCTTCTGTTTTCTTCTGTTTTTCC
Found at i:699419 original size:25 final size:25
Alignment explanation
Indices: 699391--699589 Score: 355
Period size: 25 Copynumber: 8.0 Consensus size: 25
699381 AGTTAGGGGA
**
699391 TTAGGGTTTGAAACCCTAGTCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699416 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699441 TTAGGGTTTGAAACCCT-AACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699465 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699490 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699515 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
699540 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
699565 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
699590 GGGTTGGTTC
Statistics
Matches: 170, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
24 24 0.14
25 146 0.86
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:699512 original size:74 final size:75
Alignment explanation
Indices: 699391--699589 Score: 364
Period size: 74 Copynumber: 2.7 Consensus size: 75
699381 AGTTAGGGGA
*
699391 TTAGGGTTTGAAACCCTAGTCTGATTTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACC
1 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACC
699456 CT-AACTGAT
66 CTAAACTGAT
*
699465 TTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACC
1 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACC
699530 CTAAACTGAT
66 CTAAACTGAT
*
699540 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAAACTGAT
699590 GGGTTGGTTC
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 65 0.54
75 55 0.46
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (75 bp):
TTAGGGTTTGAAACCCTAATCTGATTTAGGGTTTGAAACCCTAAACTGATTTAGGGTTTGAAACC
CTAAACTGAT
Found at i:699756 original size:3 final size:3
Alignment explanation
Indices: 699706--699745 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
699696 ACAAAATTTG
699706 TAA T-A TAA TTAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
699746 ATTAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:699990 original size:43 final size:43
Alignment explanation
Indices: 699943--700227 Score: 145
Period size: 40 Copynumber: 6.4 Consensus size: 43
699933 AATGAAAAGG
699943 TCTGGTCGTCTAAGGGTGACACGGCTCCTACGTGATGAAGAAA
1 TCTGGTCGTCTAAGGGTGACACGGCTCCTACGTGATGAAGAAA
* * **
699986 TCT-G--GTC-AAGGGATGACACGGCTCATACGCGATGAAGAGT
1 TCTGGTCGTCTAAGGG-TGACACGGCTCCTACGTGATGAAGAAA
* * * *
700026 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
1 TCTGGTCGTC--T---AAGGGTG---ACACGGCTCCTACGTGATGAAGAAA
* * **
700077 TCT-G--GTC-AAGGGATGACACGGCTCATACGCGATGAAGAGT
1 TCTGGTCGTCTAAGGG-TGACACGGCTCCTACGTGATGAAGAAA
* * * *
700117 TCTGGTCATCTTTAAGAAGGGTGATAATTCGGTTCCTACGTGATGAGGAAA
1 TCTGGTCGTC--T---AAGGGTGA-CA--CGGCTCCTACGTGATGAAGAAA
* * ** * * *
700168 TCCGATTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAAG
1 TCTGGTCGTCTAAGGGTGACACGGCTCCTACGTGATGAAGAAA
700211 TCTGGTCGTCTAAGGGT
1 TCTGGTCGTCTAAGGGT
700228 AGATGACATG
Statistics
Matches: 176, Mismatches: 40, Indels: 52
0.66 0.15 0.19
Matches are distributed among these distances:
39 5 0.03
40 50 0.28
41 2 0.01
42 6 0.03
43 41 0.23
45 1 0.01
46 7 0.04
48 7 0.04
49 12 0.07
50 1 0.01
51 44 0.25
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TCTGGTCGTCTAAGGGTGACACGGCTCCTACGTGATGAAGAAA
Found at i:700123 original size:91 final size:91
Alignment explanation
Indices: 699968--700169 Score: 386
Period size: 91 Copynumber: 2.2 Consensus size: 91
699958 GTGACACGGC
*
699968 TCCTACGTGATGAAGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
1 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
700033 ATCTTTAAGAAGGGTGATAACTCGGT
66 ATCTTTAAGAAGGGTGATAACTCGGT
700059 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
1 TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
*
700124 ATCTTTAAGAAGGGTGATAATTCGGT
66 ATCTTTAAGAAGGGTGATAACTCGGT
700150 TCCTACGTGATGAGGAAATC
1 TCCTACGTGATGAGGAAATC
700170 CGATTATCTA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 109 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (91 bp):
TCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
ATCTTTAAGAAGGGTGATAACTCGGT
Found at i:714300 original size:12 final size:11
Alignment explanation
Indices: 714285--714334 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
714275 TTTTTCCCCC
714285 TTTTCTTCTGTT
1 TTTTCTTCT-TT
*
714297 TTTTC-T-GTT
1 TTTTCTTCTTT
*
714306 TTTCCTTCTTCT
1 TTTTCTTCTT-T
714318 TTTTCTTCTTT
1 TTTTCTTCTTT
714329 TTTTCT
1 TTTTCT
714335 GTTCTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
9 6 0.19
10 1 0.03
11 9 0.29
12 15 0.48
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:714314 original size:24 final size:24
Alignment explanation
Indices: 714287--714333 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
714277 TTTCCCCCTT
714287 TTCTTCTGTTTT-TTCTGTTTTTCC
1 TTCTTCT-TTTTCTTCTGTTTTTCC
*
714311 TTCTTCTTTTTCTTCTTTTTTTC
1 TTCTTCTTTTTCTTCTGTTTTTC
714334 TGTTCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.74
Consensus pattern (24 bp):
TTCTTCTTTTTCTTCTGTTTTTCC
Found at i:714329 original size:21 final size:21
Alignment explanation
Indices: 714284--714342 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
714274 TTTTTTCCCC
714284 CTTTTCTTCTGTTTTTTCTGT
1 CTTTTCTTCTGTTTTTTCTGT
714305 -TTTTCCTTCT-TCTTTTTCT-T
1 CTTTT-CTTCTGT-TTTTTCTGT
*
714325 CTTTTTTTCTGTTCTTTT
1 CTTTTCTTCTGTT-TTTT
714343 ATCTTTGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (21 bp):
CTTTTCTTCTGTTTTTTCTGT
Found at i:714727 original size:25 final size:25
Alignment explanation
Indices: 714699--714873 Score: 314
Period size: 25 Copynumber: 7.0 Consensus size: 25
714689 AGTTAGGGGA
**
714699 TTAGGGTTTGAAACCCTAGTCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
714724 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
714749 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
714774 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
714799 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
714824 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
714849 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
714874 GGGTTGGTTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 147 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:715010 original size:3 final size:3
Alignment explanation
Indices: 715002--715044 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
714992 ATATATAATT
*
715002 TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA -AA TTA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA
715045 TAAAAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 29 0.83
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:715043 original size:13 final size:13
Alignment explanation
Indices: 715002--715044 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
714992 ATATATAATT
715002 TAATAATAAT-AA
1 TAATAATAATAAA
*
715014 TAATAATAATAAT
1 TAATAATAATAAA
715027 TAATAA-AATTAAA
1 TAATAATAA-TAAA
715040 TAATA
1 TAATA
715045 TAAAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:715049 original size:15 final size:16
Alignment explanation
Indices: 714998--715049 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
714988 TGTAATATAT
*
714998 AATTTAATAATAATAA
1 AATTAAATAATAATAA
*
715014 TAATAATAATAATTAATAA
1 -AATTA-AATAA-TAATAA
715033 AATTAAATAAT-ATAA
1 AATTAAATAATAATAA
715048 AA
1 AA
715050 AAAGACCCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.20
16 1 0.03
17 8 0.27
18 9 0.30
19 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAATAATAATAA
Found at i:717953 original size:29 final size:28
Alignment explanation
Indices: 717917--717999 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
717907 ATAATTCAGA
717917 AAATTAAAAG-CT-AGAATTTAAAGGACTG
1 AAATTAAAAGACTGA-AATTTAAAGG-CTG
*
717945 AAATATAAAGGACTGAAATTTAAAGGCTG
1 AAAT-TAAAAGACTGAAATTTAAAGGCTG
*
717974 AAATTAAAATAACAT-AAATTTAAAGG
1 AAATTAAAA-GAC-TGAAATTTAAAGG
718000 GCAGAAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 8 0.17
29 25 0.53
30 13 0.28
31 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (28 bp):
AAATTAAAAGACTGAAATTTAAAGGCTG
Found at i:717976 original size:14 final size:15
Alignment explanation
Indices: 717931--717978 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
717921 TAAAAGCTAG
717931 AATTTAAAGGACTGA
1 AATTTAAAGGACTGA
*
717946 AATATAAAGGACTGA
1 AATTTAAAGGACTGA
717961 AATTTAAAGG-CTGA
1 AATTTAAAGGACTGA
717975 AATT
1 AATT
717979 AAAATAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (15 bp):
AATTTAAAGGACTGA
Found at i:718014 original size:30 final size:29
Alignment explanation
Indices: 717960--718017 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
717950 TAAAGGACTG
*
717960 AAATTTAAAGGCTGAAATTAAAATAACAT
1 AAATTTAAAGGCAGAAATTAAAATAACAT
717989 AAATTTAAAGGGCAGAAATGT-AAATAACA
1 AAATTTAAA-GGCAGAAAT-TAAAATAACA
718018 GAAAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (29 bp):
AAATTTAAAGGCAGAAATTAAAATAACAT
Found at i:726980 original size:26 final size:27
Alignment explanation
Indices: 726950--727015 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
726940 AACCTTAAAC
726950 CCTAAACTCTAAATCATAAATCAT-AT
1 CCTAAACTCTAAATCATAAATCATAAT
* * *
726976 TCTAAA-TCTTAAATCTTAGATCATGAAT
1 CCTAAACTC-TAAATCATAAATCAT-AAT
727004 CCTAAACTCTAA
1 CCTAAACTCTAA
727016 CCTTAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.06
26 18 0.56
28 10 0.31
29 2 0.06
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (27 bp):
CCTAAACTCTAAATCATAAATCATAAT
Found at i:727171 original size:38 final size:38
Alignment explanation
Indices: 727128--727203 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
727118 GTCCCTCCCA
*
727128 CCTAATGGTTCGTTCAAATTAAATA-TCGACGGAGCCTG
1 CCTAATGGTTCGCTCAAATTAAATACT-GACGGAGCCTG
* *
727166 CCTAATGGTTGGCTCAAATTAAATACTGATGGAGCCTG
1 CCTAATGGTTCGCTCAAATTAAATACTGACGGAGCCTG
727204 TCGTACTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 33 0.97
39 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (38 bp):
CCTAATGGTTCGCTCAAATTAAATACTGACGGAGCCTG
Found at i:730023 original size:13 final size:13
Alignment explanation
Indices: 729992--730033 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
729982 GCTTACCCAA
729992 ATTAATAAAAAAT
1 ATTAATAAAAAAT
*
730005 AATAATCAAAAAAT
1 ATTAAT-AAAAAAT
730019 -TTAATAAAATAAT
1 ATTAATAAAA-AAT
730032 AT
1 AT
730034 CTTACCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 4 0.17
13 12 0.50
14 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTAATAAAAAAT
Found at i:730464 original size:2 final size:2
Alignment explanation
Indices: 730459--730491 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
730449 CTCTCTTCCG
*
730459 TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
730492 GCCGGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:733315 original size:60 final size:60
Alignment explanation
Indices: 732957--733321 Score: 452
Period size: 60 Copynumber: 6.1 Consensus size: 60
732947 TAGATTGGAG
* * *
732957 GCCAAGGAAGGATACGTAT-TATGAGGAGGAATTAAAGCCGAAGACGGATGCAGAGCTGAA
1 GCCAAGTAAGGATATG-ATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAGCTGAA
* * * * *
733017 TCCAAGTAAGGATATGTTTTTTGAGGAGGAATTAAAGCCGAAGAAGGAAGCAGAGCTGAA
1 GCCAAGTAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAGCTGAA
* * *
733077 GCCAAGTAAGGATACG-TACTATGAGGAGGAATTAAAGCCAAAGAAGGATACAGAGCTGAA
1 GCCAAGTAAGGATATGAT-CTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAGCTGAA
* * * * * *
733137 GCCAAGTAAGGATAAGCTCTATAAGGA-GACATTAAAGCC-AATGAAGGAAGCAGAACCGAA
1 GCCAAGTAAGGATATGATCTATGAGGAGGA-ATTAAAGCCGAA-GAAGGATGCAGAGCTGAA
* *
733197 ACCAAGTAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAACTGAA
1 GCCAAGTAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAGCTGAA
* * *
733257 ACCAAATAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCTG-GACTGAA
1 GCCAAGTAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAG-CTGAA
733317 GCCAA
1 GCCAA
733322 TGAAAGACGT
Statistics
Matches: 267, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
59 6 0.02
60 256 0.96
61 5 0.02
ACGTcount: A:0.42, C:0.13, G:0.29, T:0.16
Consensus pattern (60 bp):
GCCAAGTAAGGATATGATCTATGAGGAGGAATTAAAGCCGAAGAAGGATGCAGAGCTGAA
Found at i:735300 original size:25 final size:25
Alignment explanation
Indices: 735266--735350 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
735256 TGGTATAGTG
* *
735266 ACTTGTAAAAGTGTTG-ATGCAACGA
1 ACTTTTAAAAGTGTTGTA-GAAACGA
735291 ACTTTTAAAAGTGTTGTAGAAACGA
1 ACTTTTAAAAGTGTTGTAGAAACGA
* *
735316 ACTTTTAAAAGTGTCGTAAAAACGA
1 ACTTTTAAAAGTGTTGTAGAAACGA
735341 ACTTTTAAAA
1 ACTTTTAAAA
735351 ATATTGTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (25 bp):
ACTTTTAAAAGTGTTGTAGAAACGA
Found at i:735918 original size:29 final size:29
Alignment explanation
Indices: 735885--735942 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
735875 GGTAAGATTG
735885 ATGTTGATTGGGAAGAAAGCCCATTGAAT
1 ATGTTGATTGGGAAGAAAGCCCATTGAAT
735914 ATGTTGATTGGGAAGAAAGCCCATTGAAT
1 ATGTTGATTGGGAAGAAAGCCCATTGAAT
735943 GGATAATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (29 bp):
ATGTTGATTGGGAAGAAAGCCCATTGAAT
Found at i:736666 original size:51 final size:51
Alignment explanation
Indices: 736590--736691 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
736580 TCTAGCACCA
*
736590 CAAGTTGAAGCTAATGTTGGTGAAAATGATGAAAACAATTATA-ATGAAAAT
1 CAAGTTGAAGCTAATGTTGATGAAAATGATGAAAACAATTA-AGATGAAAAT
*
736641 CAAGTTGAAGCTAATGTTGATGAAAATGATGAAAACATTTAAGATGAAAAT
1 CAAGTTGAAGCTAATGTTGATGAAAATGATGAAAACAATTAAGATGAAAAT
736692 TATGTTAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (51 bp):
CAAGTTGAAGCTAATGTTGATGAAAATGATGAAAACAATTAAGATGAAAAT
Found at i:737687 original size:16 final size:16
Alignment explanation
Indices: 737666--737706 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
737656 ACAGAGCCTC
*
737666 TGAATCATTCAATATT
1 TGAATCATTCAACATT
*
737682 TGAATCATTCAACGTT
1 TGAATCATTCAACATT
737698 T-AATCATTC
1 TGAATCATTC
737707 TAAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:739466 original size:3 final size:3
Alignment explanation
Indices: 739458--739499 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
739448 CAAGGGACAC
739458 ATT 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 ATT
739500 GAAAATAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:742182 original size:2 final size:2
Alignment explanation
Indices: 742175--742220 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
742165 GAAAAATTAA
* *
742175 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT TT AA AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
742215 AT AT AT
1 AT AT AT
742221 CGTAATTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:745132 original size:35 final size:35
Alignment explanation
Indices: 745083--745153 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
745073 GTTAAAAACT
*
745083 ATATTAATATATTAAATTAAAAGCAGGACCCATAA
1 ATATTAATAAATTAAATTAAAAGCAGGACCCATAA
*
745118 ATATTAATAAATTAAATTAAAAGCATGACCCATAA
1 ATATTAATAAATTAAATTAAAAGCAGGACCCATAA
745153 A
1 A
745154 CTTATTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (35 bp):
ATATTAATAAATTAAATTAAAAGCAGGACCCATAA
Found at i:745249 original size:115 final size:118
Alignment explanation
Indices: 745073--745298 Score: 368
Period size: 115 Copynumber: 1.9 Consensus size: 118
745063 GTCATATAAC
745073 GTTAAAAACTATATTAATATATTAAATTAAAAGCAGGACCCATAAATATTAATAAATTAAATTAA
1 GTTAAAAACTATATTAATATATTAAATTAAAAGCA-GACCCATAAATATTAATAAATTAAATTAA
*
745138 AAGCATGACCCATAAACTTATTTCTTA-G-CTTATCGTTCTCATCATAAGTAAT
65 AAGCAGGACCCATAAACTTATTTCTTATGACTTATCGTTCTCATCATAAGTAAT
*
745190 GTTAAAAACTATATTAATATATTAAATTAAAAGCA-TCCCATAAATATTAATAAATTAAATTAAA
1 GTTAAAAACTATATTAATATATTAAATTAAAAGCAGACCCATAAATATTAATAAATTAAATTAAA
* * *
745254 AGCAGGGCCCATAAACTTATTTTTTATTGACTTATTGTTCTCATC
66 AGCAGGACCCATAAACTTATTTCTTA-TGACTTATCGTTCTCATC
745299 CTAACGTCTA
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
115 51 0.50
117 36 0.36
118 14 0.14
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (118 bp):
GTTAAAAACTATATTAATATATTAAATTAAAAGCAGACCCATAAATATTAATAAATTAAATTAAA
AGCAGGACCCATAAACTTATTTCTTATGACTTATCGTTCTCATCATAAGTAAT
Found at i:754794 original size:7 final size:7
Alignment explanation
Indices: 754782--754811 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
754772 TGAATGAAGA
754782 AAAGGGT
1 AAAGGGT
754789 AAAGGGT
1 AAAGGGT
754796 AAAGGGT
1 AAAGGGT
754803 AAAGGGT
1 AAAGGGT
754810 AA
1 AA
754812 GAGGCTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.13
Consensus pattern (7 bp):
AAAGGGT
Found at i:757351 original size:13 final size:13
Alignment explanation
Indices: 757335--757363 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
757325 CTTGCAGAAA
757335 CAATTATTGTTAG
1 CAATTATTGTTAG
757348 CAATTATTGTTAG
1 CAATTATTGTTAG
757361 CAA
1 CAA
757364 AGCTTATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (13 bp):
CAATTATTGTTAG
Found at i:760560 original size:20 final size:21
Alignment explanation
Indices: 760524--760571 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
760514 GGATTAGTAC
760524 AGAACCGGTAAAGAACC-GGA
1 AGAACCGGTAAAGAACCGGGA
*
760544 AGAACCGGCTGAA-AACCGGGA
1 AGAACCGG-TAAAGAACCGGGA
760565 A-AACCGG
1 AGAACCGG
760572 AGTGAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.42, C:0.23, G:0.31, T:0.04
Consensus pattern (21 bp):
AGAACCGGTAAAGAACCGGGA
Found at i:760581 original size:30 final size:29
Alignment explanation
Indices: 760537--760610 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
760527 ACCGGTAAAG
* *
760537 AACCGGAAGAACCGGCTGAAAACCGGGAA
1 AACCGGATGAACCGGCTGAAAACCGGCAA
* *
760566 AACCGGAGTGAACCGGTTGAAACCCGGCAA
1 AACCGGA-TGAACCGGCTGAAAACCGGCAA
*
760596 AACCGGTTTGAACCG
1 AACCGG-ATGAACCG
760611 CCGGTTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.35, C:0.26, G:0.30, T:0.09
Consensus pattern (29 bp):
AACCGGATGAACCGGCTGAAAACCGGCAA
Found at i:760862 original size:24 final size:24
Alignment explanation
Indices: 760833--760888 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
760823 TAAAAGTTCG
760833 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
760857 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
760881 ATTGAAGC
1 ATTGAAGC
760889 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:767168 original size:15 final size:14
Alignment explanation
Indices: 767127--767167 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
767117 TTAAGTCAAA
767127 TGATTTAATTTTTG
1 TGATTTAATTTTTG
*
767141 TGGTTTAATTTTTG
1 TGATTTAATTTTTG
767155 TGTATTT-ATTTTT
1 TG-ATTTAATTTTT
767168 TTTATTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (14 bp):
TGATTTAATTTTTG
Found at i:768859 original size:18 final size:16
Alignment explanation
Indices: 768820--768864 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
768810 AGACAATAAC
768820 AAATATAATATATGTG
1 AAATATAATATATGTG
768836 AAATATAATATATGTG
1 AAATATAATATATGTG
*
768852 ATATAT-ATATATG
1 AAATATAATATATG
768865 CTTTTGGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (16 bp):
AAATATAATATATGTG
Found at i:769450 original size:22 final size:22
Alignment explanation
Indices: 769422--769474 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
769412 ACACTGTAGC
*
769422 ACTGTTCATTACTGTTTACGGT
1 ACTGTTCATTACTGTTTACGAT
769444 ACTGTTCATTACTGTTTACGAT
1 ACTGTTCATTACTGTTTACGAT
769466 ACTGTTCAT
1 ACTGTTCAT
769475 ATCGTATAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (22 bp):
ACTGTTCATTACTGTTTACGAT
Found at i:769866 original size:21 final size:20
Alignment explanation
Indices: 769840--769879 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
769830 TATCTAAAAC
769840 TATTTTACTT-AAAATGAATTA
1 TATTTT-CTTGAAAAT-AATTA
769861 TATTTTCTTGAAAATAATT
1 TATTTTCTTGAAAATAATT
769880 TTCGGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTTCTTGAAAATAATTA
Found at i:778169 original size:2 final size:2
Alignment explanation
Indices: 778162--778202 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
778152 TTTATTTTAA
778162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
778203 AAGTATCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:778604 original size:37 final size:38
Alignment explanation
Indices: 778550--778626 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 38
778540 ATCTTCAAAC
778550 ATTTATTATATACTCCAAACTAATCAAAAATTAAATAA
1 ATTTATTATATACTCCAAACTAATCAAAAATTAAATAA
*
778588 ATTT-TTATTTACTCCAAACTAATCAAAAATTAAATAA
1 ATTTATTATATACTCCAAACTAATCAAAAATTAAATAA
778625 AT
1 AT
778627 AAATTTACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (38 bp):
ATTTATTATATACTCCAAACTAATCAAAAATTAAATAA
Found at i:780064 original size:12 final size:13
Alignment explanation
Indices: 780047--780080 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
780037 TGCATATGTA
780047 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
780059 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
780072 AATTAAGTG
1 ATTTAAGTG
780081 CATCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:791649 original size:25 final size:25
Alignment explanation
Indices: 791612--791670 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
791602 ATTAGAAATA
*
791612 TAAA-AATTTAATATTATATCCTAT
1 TAAATAATTTAATATTATATCATAT
*
791636 TAAATAATTTAATATTTTATCATAT
1 TAAATAATTTAATATTATATCATAT
791661 TAAAT-ATTTA
1 TAAATAATTTA
791671 TTTTAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 9 0.28
25 23 0.72
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAATAATTTAATATTATATCATAT
Found at i:792510 original size:36 final size:41
Alignment explanation
Indices: 792432--792528 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 41
792422 ATAGTTTAAA
*
792432 AATATTATTATTTTAATAAGTAATTAATACACTCAATAATAT
1 AATATTTTTATTTTAATAAGTAATTAATA-ACTCAATAATAT
* *
792474 ATTATTTTTATTTTAATAA-TATTTAAT-A-T-AAT-ATAT
1 AATATTTTTATTTTAATAAGTAATTAATAACTCAATAATAT
792510 AATATTTTTATTTTAATAA
1 AATATTTTTATTTTAATAA
792529 AGTATAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
36 22 0.43
37 3 0.06
38 1 0.02
39 1 0.02
41 7 0.14
42 17 0.33
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (41 bp):
AATATTTTTATTTTAATAAGTAATTAATAACTCAATAATAT
Found at i:792546 original size:33 final size:36
Alignment explanation
Indices: 792467--792555 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
792457 AATACACTCA
*
792467 ATAATATAT--TATTTTTATTTTAATAATATTTAAT
1 ATAATATATAATATTTTTATTTTAATAATATATAAT
792501 ATAATATATAATATTTTTATTTTAATAA-AGTATAA-
1 ATAATATATAATATTTTTATTTTAATAATA-TATAAT
792536 A-AATAT-TAATATTTTTATTT
1 ATAATATATAATATTTTTATTT
792556 AAAATTATAG
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
33 14 0.27
34 14 0.27
35 2 0.04
36 21 0.41
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (36 bp):
ATAATATATAATATTTTTATTTTAATAATATATAAT
Found at i:795728 original size:20 final size:20
Alignment explanation
Indices: 795679--795817 Score: 111
Period size: 20 Copynumber: 6.9 Consensus size: 20
795669 AAAATGACCA
*
795679 ACAAAATCGCAACGCGATAT
1 ACAAAATCGCAACGCGATTT
*
795699 -CAAAACCGCAACGCGATTT
1 ACAAAATCGCAACGCGATTT
* * * **
795718 AGAAAAGCGCAACGTTGA-AA
1 ACAAAATCGCAACG-CGATTT
* *
795738 AGAAGATCGCAACGCGATCTT
1 ACAAAATCGCAACGCGAT-TT
* *
795759 CCAAGAATCGCAACGCGATTC
1 ACAA-AATCGCAACGCGATTT
* *
795780 ATAAAATCGCAACGCGATTC
1 ACAAAATCGCAACGCGATTT
*
795800 ATAAAATCGCAACGCGAT
1 ACAAAATCGCAACGCGAT
795818 CTTCCAAAAC
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
19 19 0.20
20 57 0.59
21 7 0.07
22 13 0.14
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (20 bp):
ACAAAATCGCAACGCGATTT
Found at i:795791 original size:62 final size:61
Alignment explanation
Indices: 795681--795827 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 61
795671 AATGACCAAC
* * *
795681 AAAATCGCAACGCGAT-AT-CAAAACCGCAACGCGATTTAGAAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATCTTCCAAAACCGCAACGCGATTCAGAAAAGCGCAACG-CGATAAAG
* * * * ** *
795740 AAGATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCATAAAATCGCAACGCGATTCAT
1 AAAATCGCAACGCGATCTTCCAA-AACCGCAACGCGATTCAGAAAAGCGCAACGCGATAAAG
795802 AAAATCGCAACGCGATCTTCCAAAAC
1 AAAATCGCAACGCGATCTTCCAAAAC
795828 TTCCTCATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
59 15 0.21
60 1 0.01
61 7 0.10
62 49 0.68
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (61 bp):
AAAATCGCAACGCGATCTTCCAAAACCGCAACGCGATTCAGAAAAGCGCAACGCGATAAAG
Found at i:797820 original size:7 final size:7
Alignment explanation
Indices: 797808--797857 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
797798 ATATCATTTT
*
797808 ACTATCA
1 ACTAACA
*
797815 ACTATCA
1 ACTAACA
797822 ACTAACA
1 ACTAACA
797829 ACTAACA
1 ACTAACA
797836 ACTAACA
1 ACTAACA
797843 AC-ACACA
1 ACTA-ACA
797850 GACTAACA
1 -ACTAACA
797858 TAGAAAACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
6 1 0.03
7 32 0.82
8 5 0.13
9 1 0.03
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (7 bp):
ACTAACA
Found at i:798017 original size:19 final size:16
Alignment explanation
Indices: 797976--798015 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
797966 TACATCAGTA
797976 CATCATCACTCTAAAT
1 CATCATCACTCTAAAT
797992 CATCATCACTCTAAAT
1 CATCATCACTCTAAAT
*
798008 AATCATCA
1 CATCATCA
798016 TCCTTGTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (16 bp):
CATCATCACTCTAAAT
Found at i:799430 original size:2 final size:2
Alignment explanation
Indices: 799423--799461 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
799413 CTCACAAGGG
799423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
799462 ACCATTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:803317 original size:11 final size:11
Alignment explanation
Indices: 803301--803325 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
803291 CTCGTTATCT
803301 TTGTTTTTCTC
1 TTGTTTTTCTC
803312 TTGTTTTTCTC
1 TTGTTTTTCTC
803323 TTG
1 TTG
803326 ATGATGGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (11 bp):
TTGTTTTTCTC
Found at i:803336 original size:24 final size:24
Alignment explanation
Indices: 803308--803358 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
803298 TCTTTGTTTT
803308 TCTCTTGTTTTTCTCTTGATGATGGC
1 TCTC-TGTTTTT-TCTTGATGATGGC
* *
803334 TCTCTGTTTTTTGTTGTTGATGGC
1 TCTCTGTTTTTTCTTGATGATGGC
803358 T
1 T
803359 GGTAGTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 7 0.30
26 4 0.17
ACGTcount: A:0.06, C:0.16, G:0.22, T:0.57
Consensus pattern (24 bp):
TCTCTGTTTTTTCTTGATGATGGC
Found at i:804430 original size:55 final size:54
Alignment explanation
Indices: 804362--804543 Score: 231
Period size: 55 Copynumber: 3.3 Consensus size: 54
804352 CCCTATTGCT
* * * * * * * *
804362 TTCAGGGAATATGAAACTCGAATAATCTCTAAGAATCGTGTATGCTCTCTATTTC
1 TTCAGAGAGTATGAGACACGAACAATCT-TAATAATCTTGTCTGCTCTCTATTTC
804417 TTCAGAGAGTATGAGACACGAACAATCTTTAATAATCTTGTCTGCTCTCTA-TTC
1 TTCAGAGAGTATGAGACACGAACAATC-TTAATAATCTTGTCTGCTCTCTATTTC
*
804471 GTTCAGAGAGTATGAGACACGAACAATCTTCAATAATCTTGTCTGCTCTCTATTTG
1 -TTCAGAGAGTATGAGACACGAACAATCTT-AATAATCTTGTCTGCTCTCTATTTC
*
804527 TTCAGAGAGTATAAGAC
1 TTCAGAGAGTATGAGAC
804544 TCAAACATCT
Statistics
Matches: 113, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 5 0.04
55 105 0.93
56 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (54 bp):
TTCAGAGAGTATGAGACACGAACAATCTTAATAATCTTGTCTGCTCTCTATTTC
Found at i:804642 original size:54 final size:54
Alignment explanation
Indices: 804542--805568 Score: 1074
Period size: 54 Copynumber: 19.4 Consensus size: 54
804532 AGAGTATAAG
* * * ** * **
804542 ACTCAAACATCTTCTTCAAACAGGTTCGCTCTCTCCCTCTTCAGGGAGTATAAA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
** *
804596 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * * *
804650 ACTCGAAAATCTT-TT-ATTACGGGTTCTCTCCTTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCA-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * ** *
804703 ACTTGAACAT-ATCTTCAAACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* *
804756 ACTCGAACA---TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* ** * *
804807 ACTCGAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * * *
804861 ACTCGAAAATCTTCTT-ATTACGGGTTCTCTCCTTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCA-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * ** *
804915 ACCCGAACAT-ATCTTCAAACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * *
804968 ACTTGAACA---TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* ** * *
805019 ACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * *
805073 ACTCGAACATCTTCTTCAAACAGGTTCGCTCCCTCTTTCTCTAGGAAGTATAGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * ** * *
805127 ACTCAAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * ** *
805181 ACTCGAAAATCTTCTT-ATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCA-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * *
805235 ACTCGAACAT-ATCTTCAAACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* *
805288 ACTCGAACA---TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* ** *
805339 ACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* ** * * *
805393 ACTCGAACA--ATCTTCAAACGTTTTCGCTTCCTCTTTCTTTCAGGAAGTATAGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATGGA
* *
805446 ACTCGAACA--ATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* * * * *
805498 ACTCGAACA--ATCTTCAAATGGTTTCGCTCTCTCTTTCTATA-GGAGTATGGA
1 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
* *
805549 ACTCGGATATCTTCTTCAAA
1 ACTCGAACATCTTCTTCAAA
805569 TGTCGAACCT
Statistics
Matches: 829, Mismatches: 125, Indels: 39
0.83 0.13 0.04
Matches are distributed among these distances:
51 151 0.18
52 71 0.09
53 228 0.28
54 379 0.46
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGA
Found at i:804978 original size:212 final size:212
Alignment explanation
Indices: 804554--805552 Score: 1146
Period size: 212 Copynumber: 4.7 Consensus size: 212
804544 TCAAACATCT
* * ** * *
804554 TCTTCAAACAGGTTCGCTCTCTCCCTCTTCAGGGAGTATAAAACTCGAACATCTTCTTCTTACGG
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGG
* * *
804619 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTT-TTATTACGGGTTCTCTCCTT
66 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTA-AACGGGTTCGCTCCCT
* ** * *
804683 CTTTCTTTAAGGAGTATGGAACTTGAACAT-ATCTTCAAACGGGTTCGCTCATTCTTTCTTTAAG
130 CTTTCTTTAAGGAGTATAGAACTCAAACATCATCTTCAAACGGGTTCGCTCACTCTTTCTCTAAG
804747 GAGTATGGAACTCGAACA
195 GAGTATGGAACTCGAACA
*
804765 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACAG
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGG
* * *
804830 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTATTACGGGTTCTCTCCTT
66 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTA-AACGGGTTCGCTCCCT
* * * * *
804895 CTTTCTTTAAGGAGTATGGAACCCGAACAT-ATCTTCAAACGGGTTCGCTCATTCTTTCTTTAAG
130 CTTTCTTTAAGGAGTATAGAACTCAAACATCATCTTCAAACGGGTTCGCTCACTCTTTCTCTAAG
*
804959 GAGTATGGAACTTGAACA
195 GAGTATGGAACTCGAACA
804977 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-AAACATCTTCTTCTTACG
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAA-ATCTTCTTCTTACG
* * *
805041 GGTTCGTTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACAGGTTCGCTCCC
65 GGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT-AAACGGGTTCGCTCCC
* * * ** * *
805106 TCTTTCTCT-AGGAAGTATAGAACTCAAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTA
129 TCTTTCTTTAAGG-AGTATAGAACTCAAACATCATCTTCAAACGGGTTCGCTCACTCTTTCTCTA
* *
805170 GGGAGTATGGAACTCGAAAA
193 AGGAGTATGGAACTCGAACA
* * ** * * * * * **
805190 TCTTCTTATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGAACTCGAACAT-ATCTTCAAA
1 TCTTC--A-AACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTA
* * * * *
805254 CGAGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTC--AAACGGGTTCGCTCC
63 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTAAACGGGTTCGCTCC
* * * ** *
805317 CTCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTA
128 CTCTTTCTTTAAGGAGTATAGAACTCAAACATCATCTTCAAACGGGTTCGCTCACTCTTTCTCTA
*
805382 GGGAGTATGGAACTCGAACAA
193 AGGAGTATGGAACTCGAAC-A
** * * **
805403 TCTTCAAACGTTTTCGCTTCCTCTTTCTTTCAGGAAGTATAGAACTCGAACAA---TCTTCAAAC
1 TCTTCAAACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-AATCTTCTTCTTAC
* *
805465 GGGTTCGCTCCCTCTTTCT-TCAGGGAGTATGGAACTCGAACAATCTTC--AAATGGTTTCGCTC
64 GGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-AATCTTCTTAAACGGGTTCGCTC
* * *
805527 TCTCTTTCTAT-AGGAGTATGGAACTC
127 CCTCTTTCTTTAAGGAGTATAGAACTC
805553 GGATATCTTC
Statistics
Matches: 695, Mismatches: 78, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
209 1 0.00
210 71 0.10
211 153 0.22
212 327 0.47
213 56 0.08
215 50 0.07
216 35 0.05
217 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (212 bp):
TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGG
GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTAAACGGGTTCGCTCCCTC
TTTCTTTAAGGAGTATAGAACTCAAACATCATCTTCAAACGGGTTCGCTCACTCTTTCTCTAAGG
AGTATGGAACTCGAACA
Found at i:805138 original size:320 final size:316
Alignment explanation
Indices: 804615--805512 Score: 1322
Period size: 320 Copynumber: 2.8 Consensus size: 316
804605 TCTTCTTCTT
* * * * * * *
804615 ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTTTATTACGGGTTCTCTC
1 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATC-TTCA-AACGGGTTCGCTC
* * * * ** * ** ** *
804680 CTTCTTTCTTTAAGGAGTATGGAACTTGAACAT-ATCTTCAAACGGGTTCGCTCATTCTTTCTTT
64 CCTCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCT
* *
804744 AAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAAC
129 AGGGAGTATGGAACTCGAACATCTTCAAAC-GGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAAC
*
804809 TCGAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTT
193 TCAAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTT
*
804874 CTTATTACGGGTTCTCTCCTTCTTTCTTTAAGGAGTATGGAACCCGAACATATCTTCAA
258 CTTATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGAACCCGAACATATCTTCAA
* *
804933 ACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGGAACTTGAACATCTTCAAACGGGTTCGCTCCC
1 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCC
*
804998 TCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTCTCTAG
66 TCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAG
805063 GGAGTATGGAACTCGAACATCTTCTTCAAACAGGTTCGCTCCCTCTTTC-TCTAGGAAGTATAGA
131 GGAGTATGGAACTCGAACA---TCTTCAAAC-GGTTCGCTCCCTCTTTCTTC-AGGAAGTATAGA
805127 ACTCAAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATC
191 ACTCAAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATC
*
805192 TTCTTATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGAACTCGAACATATCTTCAA
256 TTCTTATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGAACCCGAACATATCTTCAA
*
805253 ACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCC
1 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCC
805318 TCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAG
66 TCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAG
* *
805383 GGAGTATGGAACTCGAACAATCTTCAAACGTTTTCGCTTCCTCTTTCTTTCAGGAAGTATAGAAC
131 GGAGTATGGAACTCGAAC-ATCTTCAAACG-GTTCGCTCCCTCTTTC-TTCAGGAAGTATAGAAC
* ** *
805448 TCGAACAA---TCTTCAAACGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATGGAACTCGAACAAT
193 TC-AAAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-AAT
805509 CTTC
255 CTTC
805513 AAATGGTTTC
Statistics
Matches: 530, Mismatches: 38, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
316 39 0.07
317 92 0.17
318 70 0.13
319 18 0.03
320 310 0.58
321 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (316 bp):
ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCC
TCTTTCTTCAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAG
GGAGTATGGAACTCGAACATCTTCAAACGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCA
AAAATCTTCTTCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT
ATTACGGGTTCTCTCATTCTTTCTTTAAGGAGTATGGAACCCGAACATATCTTCAA
Found at i:805951 original size:36 final size:36
Alignment explanation
Indices: 805890--806083 Score: 205
Period size: 36 Copynumber: 5.4 Consensus size: 36
805880 ACTCTTCTGA
* * * *
805890 GAAGGCTTAAAATGGATCTGATTCACTACTTTTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTACTTTCTGGT
* *
805927 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTACTTTCTGGT
*
805963 GAAGGCTTCAGATGGTTTGCTTCACTA-TTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTACTT-TCTGGT
* **
805999 GAAGGCTTAGGATGGTTTGCTTCACTA-TTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTACTT-TCTGGT
* * * *
806035 GAAGGATTCAGATGGTTTGCTTCACTCCTCTTC-AGT
1 GAAGGCTTAAGATGGTTTGCTTCACTACT-TTCTGGT
806071 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
806084 TGACTTTTCT
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
35 1 0.01
36 117 0.87
37 16 0.12
38 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTACTTTCTGGT
Found at i:811353 original size:20 final size:21
Alignment explanation
Indices: 811326--811485 Score: 184
Period size: 21 Copynumber: 7.7 Consensus size: 21
811316 TCCATGCGAT
* *
811326 ATGGTCTTCTCGTCTTTACGA
1 ATGGTCTTCTCGTCTTGATGA
*
811347 A-GGTCTTCTCGTCTTTATGA
1 ATGGTCTTCTCGTCTTGATGA
* *
811367 AGGGTTTTCTCGTCTTGATGA
1 ATGGTCTTCTCGTCTTGATGA
811388 ATGG-CATTCTCGTCTTGATGA
1 ATGGTC-TTCTCGTCTTGATGA
*
811409 ATGGCCTTCTCGTCTTGATGA
1 ATGGTCTTCTCGTCTTGATGA
*
811430 ATGG-CATTCTCATCTTGATGA
1 ATGGTC-TTCTCGTCTTGATGA
*
811451 AT-GACATTCTCGTCTTGATGA
1 ATGGTC-TTCTCGTCTTGATGA
*
811472 ATGCTCTTCTCGTC
1 ATGGTCTTCTCGTC
811486 CTTGGTACGA
Statistics
Matches: 124, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
20 21 0.17
21 101 0.81
22 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (21 bp):
ATGGTCTTCTCGTCTTGATGA
Found at i:814732 original size:24 final size:25
Alignment explanation
Indices: 814690--814736 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
814680 TGTTTTTCTC
814690 CTGTTTTTCTCTTGATGATGGCTCT
1 CTGTTTTTCTCTTGATGATGGCTCT
* *
814715 CTGTTTTT-TGTTGTTGATGGCT
1 CTGTTTTTCTCTTGATGATGGCT
814737 GGTAGGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.06, C:0.15, G:0.23, T:0.55
Consensus pattern (25 bp):
CTGTTTTTCTCTTGATGATGGCTCT
Found at i:815981 original size:15 final size:15
Alignment explanation
Indices: 815961--815997 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
815951 ATATTTAGCT
*
815961 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
815976 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
815991 GGGCGGG
1 GGGCGGG
815998 TAAGGTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.70, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:816290 original size:31 final size:31
Alignment explanation
Indices: 816250--816311 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
816240 CATTAAAAAA
*
816250 AGTTCCTTATGTACAT-TTTTATGCCATTCT
1 AGTTCCTTATGTAAATATTTTATGCCATTCT
* *
816280 AGTTCACTTATTTAAATATTTTTTGCCATTCT
1 AGTTC-CTTATGTAAATATTTTATGCCATTCT
816312 CTTATGTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 5 0.19
31 9 0.33
32 13 0.48
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.52
Consensus pattern (31 bp):
AGTTCCTTATGTAAATATTTTATGCCATTCT
Found at i:820291 original size:60 final size:61
Alignment explanation
Indices: 820163--820306 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 61
820153 GAATTTGGGG
* * * * * *
820163 ACCAATTTAGAATGAAATTCATAGTTTGAGGGATGAAATTGAAATATTCAAAAGTTTAAGA
1 ACCAATTTAGAATGAAAGTCATAATTTGAGGGATAAAATTAAAATATTCAAAAATTGAAGA
* * * * *
820224 ACTAATTTAGCATGATAGTCATAATTT-AGGGATAAAATTAAAATATTTAAAAATTGAAGT
1 ACCAATTTAGAATGAAAGTCATAATTTGAGGGATAAAATTAAAATATTCAAAAATTGAAGA
* * *
820284 ACCAATTTAAAATAAAAATCATA
1 ACCAATTTAGAATGAAAGTCATA
820307 CTTTAAAGTT
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
60 44 0.67
61 22 0.33
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (61 bp):
ACCAATTTAGAATGAAAGTCATAATTTGAGGGATAAAATTAAAATATTCAAAAATTGAAGA
Found at i:820673 original size:4 final size:4
Alignment explanation
Indices: 820664--820690 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
820654 CTCGATGAAT
820664 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
820691 ATCAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:823953 original size:12 final size:12
Alignment explanation
Indices: 823936--823961 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
823926 TCAAGGCTTT
823936 AAAAGGTTAAAG
1 AAAAGGTTAAAG
823948 AAAAGGTTAAAG
1 AAAAGGTTAAAG
823960 AA
1 AA
823962 GTACAGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAGGTTAAAG
Found at i:824556 original size:63 final size:61
Alignment explanation
Indices: 824480--824726 Score: 182
Period size: 63 Copynumber: 4.0 Consensus size: 61
824470 AAATTAGTTG
*
824480 CGATAGTTCAAGTTCGCGTTGCAATTTATTTCAAATTCGCGTTGCGATAGTCCAAGTTCGTTA
1 CGATAGTTCAAGTTCGCGTTGCAATTTATTCCAAATT--CGTTGCGATAGTCCAAGTTCGTTA
* * * *
824543 CGATAG-TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
1 CGATAGTTC-AAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTA
* * * * * *
824606 CGATTTA-TTCCAAGTT--CGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 CGA--TAGTT-CAAGTTCGCGTTGCAATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCG
*
824666 TTG
59 TTA
* * * * * *
824669 CGATAGTCCAAGTTCGCGTTACGATTTATTCCAAGTTCGTTGTGATAGTCGAAGTTCG
1 CGATAGTTCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
824727 CGTTGCGAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
61 45 0.30
62 3 0.02
63 76 0.51
65 25 0.17
66 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (61 bp):
CGATAGTTCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTA
Found at i:824589 original size:42 final size:42
Alignment explanation
Indices: 824515--824734 Score: 372
Period size: 42 Copynumber: 5.3 Consensus size: 42
824505 TTATTTCAAA
* *
824515 TTCGCGTTGCGA--TAGTCCAAGTTCGTTACGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
824555 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
824597 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
824639 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
824681 TTCGCGTTACGATTTATTCCAAGTTCGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
824723 TTCGCGTTGCGA
1 TTCGCGTTGCGA
824735 ATCTGGAAAC
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 12 0.07
42 157 0.93
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:825250 original size:26 final size:24
Alignment explanation
Indices: 825183--825248 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
825173 TCTTTAAGGT
* *
825183 ATTTGTTATTTTTTTATTAAATAA
1 ATTTATTATTATTTTATTAAATAA
*
825207 ATTTATTATTATTTTATTACAT-A
1 ATTTATTATTATTTTATTAAATAA
* *
825230 ATTTTTTATTATTTGATTA
1 ATTTATTATTATTTTATTA
825249 TTTAATTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (24 bp):
ATTTATTATTATTTTATTAAATAA
Found at i:825456 original size:14 final size:15
Alignment explanation
Indices: 825430--825458 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
825420 ATTTAAATTG
825430 TTAGAATTTTATTTA
1 TTAGAATTTTATTTA
825445 TTAGAA-TTTATTTA
1 TTAGAATTTTATTTA
825459 AATAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TTAGAATTTTATTTA
Found at i:848415 original size:9 final size:9
Alignment explanation
Indices: 848409--848487 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 9
848399 AAATAAAAGA
848409 GAAAAAAAT
1 GAAAAAAAT
848418 GAAAAAAAAT
1 G-AAAAAAAT
848428 GAAAAAATAAT
1 G-AAAAA-AAT
848439 -AATAAAAAT
1 GAA-AAAAAT
* *
848448 GAGAAGAA-
1 GAAAAAAAT
848456 GAAAAAGAA-
1 GAAAAA-AAT
848465 G-AAAAAAT
1 GAAAAAAAT
848473 GAGAAAAAA-
1 GA-AAAAAAT
848482 GAAAAA
1 GAAAAA
848488 TGATGGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
7 2 0.03
8 13 0.22
9 15 0.26
10 25 0.43
11 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:848474 original size:25 final size:25
Alignment explanation
Indices: 848442--848525 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
848432 AAATAATAAT
848442 AAAAATGAGAAGAAGAAAAAGAAGA
1 AAAAATGAGAAGAAGAAAAAGAAGA
* * *
848467 AAAAATGAGAAAAAAGAAAAATGATGG
1 AAAAATGAG-AAGAAGAAAAA-GAAGA
* *
848494 AAAAATGAAAAGAAAAAAAAGAAGA
1 AAAAATGAGAAGAAGAAAAAGAAGA
848519 AAAAATG
1 AAAAATG
848526 GAAAATGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 19 0.39
26 19 0.39
27 11 0.22
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (25 bp):
AAAAATGAGAAGAAGAAAAAGAAGA
Found at i:848516 original size:52 final size:50
Alignment explanation
Indices: 848391--848555 Score: 156
Period size: 52 Copynumber: 3.1 Consensus size: 50
848381 ATATTTCGCT
* * *
848391 TGAAGAAGAAATAAAAG-AGAAAAAAATGAAAAAAAATGAAAAAATAATAATAAAAA
1 TGAA-AAGAAAAAAAAGAAG-AAAAAATGAGAAAAAA-G-AAAAAT-AT--GAAAAA
* *
848447 TGAGAAGAAGAAAAAGAAGAAAAAATGAGAAAAAAGAAAAATGATGGAAAAA
1 TGAAAAGAAAAAAAAGAAGAAAAAATGAGAAAAAAGAAAAAT-AT-GAAAAA
848499 TGAAAAGAAAAAAAAGAAGAAAAAATG-GAAAATGGAAGAAAAA-ATGAAAAA
1 TGAAAAGAAAAAAAAGAAGAAAAAATGAGAAAA---AAGAAAAATATGAAAAA
848550 TGAAAA
1 TGAAAA
848556 AAAGAGAAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
51 17 0.18
52 32 0.33
53 8 0.08
54 9 0.09
55 25 0.26
56 5 0.05
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (50 bp):
TGAAAAGAAAAAAAAGAAGAAAAAATGAGAAAAAAGAAAAATATGAAAAA
Found at i:848542 original size:44 final size:43
Alignment explanation
Indices: 848456--848563 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 43
848446 ATGAGAAGAA
* *
848456 GAAAAAGAAGAAAAAATG-AGAAAAAAGAAAAATGATGGAAAAAT
1 GAAAAAGAA-AAAAAA-GAAGAAAAAAGAAAAATGAAGAAAAAAT
*
848500 G-AAAAGAAAAAAAAGAAGAAAAAATGGAAAATGGAAGAAAAAAT
1 GAAAAAGAAAAAAAAGAAGAAAAAA-GAAAAAT-GAAGAAAAAAT
848544 GAAAAATGAAAAAAAGAGAA
1 GAAAAA-GAAAAAAA-AGAA
848564 ATAAAAGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 14 0.25
43 13 0.24
44 11 0.20
45 4 0.07
46 8 0.15
47 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (43 bp):
GAAAAAGAAAAAAAAGAAGAAAAAAGAAAAATGAAGAAAAAAT
Found at i:848564 original size:25 final size:25
Alignment explanation
Indices: 848442--848560 Score: 109
Period size: 26 Copynumber: 4.6 Consensus size: 25
848432 AAATAATAAT
* *
848442 AAAAATGAGAAGAAGAAAAAGAAGA
1 AAAAATGAAAAAAAGAAAAAGAAGA
* *
848467 AAAAATGAGAAAAAAGAAAAATGATGG
1 AAAAATGA-AAAAAAGAAAAA-GAAGA
848494 AAAAATGAAAAGAAA-AAAAAGAAGA
1 AAAAATGAAAA-AAAGAAAAAGAAGA
* *
848519 AAAAATGGAAAATGGAAGAAAAA-ATG-
1 AAAAAT-GAAAA--AAAGAAAAAGAAGA
848545 AAAAATGAAAAAAAGA
1 AAAAATGAAAAAAAGA
848561 GAAATAAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
23 4 0.05
25 22 0.28
26 29 0.37
27 19 0.24
28 5 0.06
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (25 bp):
AAAAATGAAAAAAAGAAAAAGAAGA
Found at i:848564 original size:44 final size:42
Alignment explanation
Indices: 848458--848564 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 42
848448 GAGAAGAAGA
* * *
848458 AAAAGAAGAAAAAATGAGAAAAAAGAAAAATGATGGAAAAATG
1 AAAAG-AGAAAAAAAGAGAAAAAAGAAAAATGAAGAAAAAATG
*
848501 AAAAGA-AAAAAAAGAAGAAAAAATGGAAAATGGAAGAAAAAATG
1 AAAAGAGAAAAAAAG-AGAAAAAA-GAAAAAT-GAAGAAAAAATG
848545 AAAA-ATGAAAAAAAGAGAAA
1 AAAAGA-GAAAAAAAGAGAAA
848565 TAAAAGGAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
41 7 0.13
42 9 0.16
43 12 0.22
44 19 0.35
45 8 0.15
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (42 bp):
AAAAGAGAAAAAAAGAGAAAAAAGAAAAATGAAGAAAAAATG
Found at i:848565 original size:15 final size:15
Alignment explanation
Indices: 848422--848569 Score: 53
Period size: 16 Copynumber: 9.7 Consensus size: 15
848412 AAAAATGAAA
*
848422 AAAAATG-AAAAAAT
1 AAAAATGAAAAAAAG
* *
848436 AATAAT-AAAAATGAG
1 AAAAATGAAAAA-AAG
*
848451 AAGAA-GAAAAAGAAG
1 AAAAATGAAAAA-AAG
848466 AAAAAATGAGAAAAAAG
1 -AAAAATGA-AAAAAAG
*
848483 AAAAATGATGGAAAAATG
1 AAAAATGA---AAAAAAG
848501 -AAAA-G-AAAAAA-
1 AAAAATGAAAAAAAG
* *
848512 AAGAA-GAAAAAATG
1 AAAAATGAAAAAAAG
*
848526 GAAAATGGAAGAAAAAATG
1 AAAAAT-G-A-AAAAAA-G
848545 AAAAATGAAAAAAAG
1 AAAAATGAAAAAAAG
*
848560 AGAAAT-AAAA
1 AAAAATGAAAA
848570 GGAGGGTTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
12 9 0.09
13 5 0.05
14 16 0.16
15 18 0.18
16 20 0.20
17 11 0.11
18 17 0.17
19 6 0.06
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (15 bp):
AAAAATGAAAAAAAG
Found at i:850000 original size:55 final size:55
Alignment explanation
Indices: 849917--850401 Score: 509
Period size: 55 Copynumber: 8.9 Consensus size: 55
849907 GAAGCAAACT
* * *
849917 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACA
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
* * * *
849968 AGTTCGTTGAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
**
850023 CGTTTCATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
*
850078 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
* * *
850133 CATTT-TATGAAGATT-TCTTGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGT-TGAAGATTGT-TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
* * * * *
850188 CGTTTGTTAAAGA---TT-GAGTCCTATACTTTCTGAAAGAATAGGGAGCGGAC-
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
* *
850238 CTGTTTATTGAAGA-T-TTCTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 C-GTTTGTTGAAGATTGTTC-GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
* * * *
850293 CGTTTTTTTTTGGAAGATTGTTCAAG-TCTTATACTCTCTGAATGAATAGAGAGCAGACA
1 CG---TTTGTT-GAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACA
* *
850352 CATTT-TATGAAGATTGTTCGAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 CGTTTGT-TGAAGATTGTTCGAGTTC-TATACTCT-CTGAAGGAATAGAGAGC
850402 AAGCTCGTCA
Statistics
Matches: 373, Mismatches: 40, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.00
51 53 0.14
52 3 0.01
53 1 0.00
54 37 0.10
55 227 0.61
56 5 0.01
57 5 0.01
58 7 0.02
59 31 0.08
60 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (55 bp):
CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACA
Found at i:850065 original size:110 final size:109
Alignment explanation
Indices: 849932--850401 Score: 573
Period size: 110 Copynumber: 4.3 Consensus size: 109
849922 GTTGAAGATT
* * * *
849932 GAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACAAGTTCGTTGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTTCTATA
* *
849997 CTCTCTGAATGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTC
66 CTCTCTGAATGAATAGAGAGCGGACCCATTTTATGAAGATT-TTC
*
850042 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTGTTGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTTCTATA
* *
850107 CTCTCTGAAGGAATAGAGAGCGGACCCATTTTATGAAGATTTCTT
66 CTCTCTGAATGAATAGAGAGCGGACCCATTTTATGAAGATTT-TC
* *
850152 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTAAAGA---TT-GAGTCCTATA
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTTCTATA
* * *
850213 CTTTCTGAAAGAATAGGGAGCGGA-CC-TGTTTATTGAAGA-TTTC
66 CTCTCTGAATGAATAGAGAGCGGACCCAT-TTTA-TGAAGATTTTC
* * * *
850256 TGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTTTTTTGGAAGATTGTTCAAG-T
1 -GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACG---TTTGTT-GAAGATTGTTCGAGTT
* *
850320 CTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
61 C-TATACTCTCTGAATGAATAGAGAGCGGACCCATTTTATGAAGATT-TTC
850371 GAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTTC-TATACTCT-CTGAAGGAATAGGGAGC
850402 AAGCTCGTCA
Statistics
Matches: 313, Mismatches: 28, Indels: 34
0.83 0.07 0.09
Matches are distributed among these distances:
104 2 0.01
105 44 0.14
106 36 0.12
107 2 0.01
108 5 0.02
109 5 0.02
110 146 0.47
112 3 0.01
113 35 0.11
114 31 0.10
115 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (109 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGTTCGAGTTCTATA
CTCTCTGAATGAATAGAGAGCGGACCCATTTTATGAAGATTTTC
Found at i:863577 original size:21 final size:22
Alignment explanation
Indices: 863537--863583 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
863527 ATAGTTATTG
863537 ATGATTTTTTTTCAAGATTAAA
1 ATGATTTTTTTTCAAGATTAAA
* *
863559 ATGATTTTTTTTTAA-ATTATA
1 ATGATTTTTTTTCAAGATTAAA
863580 ATGA
1 ATGA
863584 CTAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (22 bp):
ATGATTTTTTTTCAAGATTAAA
Found at i:870444 original size:29 final size:29
Alignment explanation
Indices: 870404--870465 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
870394 AGCTTTAATA
* *
870404 TGTGTTGATAGATGTTAACTGCCATTTTT
1 TGTGCTGATAGATGTTAACTGCCATATTT
* *
870433 TGTGCTGATAGATGTTACCTGTCATATTT
1 TGTGCTGATAGATGTTAACTGCCATATTT
870462 TGTG
1 TGTG
870466 TCATTTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (29 bp):
TGTGCTGATAGATGTTAACTGCCATATTT
Found at i:870624 original size:72 final size:72
Alignment explanation
Indices: 870506--870651 Score: 240
Period size: 72 Copynumber: 2.0 Consensus size: 72
870496 CATCTTTAGT
870506 GTCATTTTTTGTATATGGCATAGTGACTTAGGCAATATGGTATGGTTGCCAAAACCATATACCAC
1 GTCATTTTTTGTATATGGCATAGTGACTTAGGCAATATGGTATGGTTGCC-AAACCATATACCAC
870571 GATATATG
65 GATATATG
* * * *
870579 GTCATTTTTTGTATAT-GCATAGTGGCTTAGTCAATATGGTATGGTTGTCAAACCATATACCATG
1 GTCATTTTTTGTATATGGCATAGTGACTTAGGCAATATGGTATGGTTGCCAAACCATATACCACG
870643 ATATATG
66 ATATATG
870650 GT
1 GT
870652 AACATTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 23 0.33
72 30 0.43
73 16 0.23
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (72 bp):
GTCATTTTTTGTATATGGCATAGTGACTTAGGCAATATGGTATGGTTGCCAAACCATATACCACG
ATATATG
Found at i:872515 original size:35 final size:35
Alignment explanation
Indices: 872470--872537 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
872460 ATTCATGTTC
* * *
872470 AAAATTCCAAAGCAATTCAATTTCATTCTAAACAA
1 AAAATCCCAAAACAATTCAATTACATTCTAAACAA
*
872505 AAAATCCCAAAATAATTCAATTACATTCTAAAC
1 AAAATCCCAAAACAATTCAATTACATTCTAAAC
872538 CTTAAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.28
Consensus pattern (35 bp):
AAAATCCCAAAACAATTCAATTACATTCTAAACAA
Found at i:876170 original size:158 final size:156
Alignment explanation
Indices: 875738--876313 Score: 706
Period size: 156 Copynumber: 3.6 Consensus size: 156
875728 TAGTCCATGA
* * * * *
875738 TTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCACATGC
1 TTTC-TTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTT-ACCAAATTTGAACCACATGC
** ** * *
875803 TCCTAATTCATCATAGAACGCATATGTACTTTCAATTCCTCCTTTCGATAACAAGTTTTATATTT
64 TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTT
* **
875868 TCAATTTAGTCCATCAATGCTTCATAAT
129 TCAATTTAGTCCCTCAATTTTTCATAAT
* * * * **
875896 TTCCTTATTTCTTCAATCCATCATTTATTTTAAGTCCGTTTTTACCAAATTTAAACCACACACTC
1 TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGCTC
* * * * *
875961 CTAAACTATCGTAGAATACATATGTACTTCCAATTCCCCTTTTCGATAACAAGTGTTCTATTTTC
66 CTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTTTC
876026 AATTTAGTCCCTCAATTTTTCATAAT
131 AATTTAGTCCCTCAATTTTTCATAAT
* * *
876052 TTTCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTGAACCATATGC
1 TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTG-T-TTTTACCAAATTTGAACCACATGC
* *
876117 TCTTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTACTT
64 TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTT
* *
876182 TCAGTTTAGTTCCTCAATTTTTCATAATT
129 TCAATTTAGTCCCTCAATTTTTCATAA-T
* * * *
876211 TCCTTTTTTTTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTCACCAAATTTGAATCACATGC
1 T--TTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
* * *
876276 TCATATACCA-CTATAGAATACCTATGTAAC-TTCAATTC
64 TCCTAAACCATC-ATAGAATACATATGT-ACTTTCAATTC
876314 TTATATTTTG
Statistics
Matches: 358, Mismatches: 53, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
156 130 0.36
157 33 0.09
158 106 0.30
159 52 0.15
160 3 0.01
161 34 0.09
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (156 bp):
TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGCTC
CTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTTTC
AATTTAGTCCCTCAATTTTTCATAAT
Found at i:876560 original size:2 final size:2
Alignment explanation
Indices: 876553--876581 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
876543 CGTGAAAAGA
876553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
876582 GTTAGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:876791 original size:17 final size:18
Alignment explanation
Indices: 876769--876810 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
876759 TTGGAAGTGT
876769 GTTTTGTA-ATATACCGG
1 GTTTTGTATATATACCGG
*
876786 GTTTTGGTATCTATACCGG
1 GTTTT-GTATATATACCGG
876805 GTTTTG
1 GTTTTG
876811 GGATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 13 0.59
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (18 bp):
GTTTTGTATATATACCGG
Found at i:879222 original size:158 final size:157
Alignment explanation
Indices: 878787--879314 Score: 686
Period size: 156 Copynumber: 3.4 Consensus size: 157
878777 TTAGTCCATG
* * * * * * * *
878787 ATTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCATATG
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTTACCAAATTTAAACCATATG
** **
878852 CT-TCTAATTCATCGTAGAACGCATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
66 CTCT-TAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
* **
878916 TTTCAATTTAGTCCATCAATGCTTCATA
130 TTTCAATTTAGTCCCTCAATTTTTCATA
* * *
878944 ATTTCCTTATTTCTTCAATCCATCATTTATTTTAAGTAC-G-TTTTTACCAAATTTAAACCACAC
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGT-CTGTTTTTTACCAAATTTAAACCATAT
* * * * * *
879007 ACTCCTAAACTATCGTAGAATACATATGTACTTCCAATTCCCCTTTTCGATAACAAGTGTTCTAT
65 GCTCTTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
879072 TTTCAATTTAGTCCCTCAATTTTTCATA
130 TTTCAATTTAGTCCCTCAATTTTTCATA
* *
879100 ATTTCCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTAAACCATAT
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTT-TTTTACCAAATTTAAACCATAT
* *
879165 GCTCTTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAC
65 GCTCTTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
*
879230 TTTCAATTTAGTTCCTCAATTTTTCATA
130 TTTCAATTTAGTCCCTCAATTTTTCATA
* * *
879258 ATTTCCTTTTTTTTTCTTCAATTCATCATTTATTTTAAGTCCG-TTTTCACCAAATTT
1 ATTTCC---TTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTTACCAAATTT
879315 GAATCACATG
Statistics
Matches: 320, Mismatches: 43, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
155 1 0.00
156 134 0.42
157 32 0.10
158 110 0.34
159 11 0.03
160 1 0.00
161 31 0.10
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (157 bp):
ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTTACCAAATTTAAACCATATG
CTCTTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATT
TTCAATTTAGTCCCTCAATTTTTCATA
Found at i:879616 original size:2 final size:2
Alignment explanation
Indices: 879604--879639 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
879594 CGTGAAAAGA
879604 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
879640 GTTAGTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:881266 original size:15 final size:15
Alignment explanation
Indices: 881246--881275 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
881236 ATAAATAGCT
881246 AGGTTTACATAAAAC
1 AGGTTTACATAAAAC
881261 AGGTTTACATAAAAC
1 AGGTTTACATAAAAC
881276 TAGCCTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
AGGTTTACATAAAAC
Found at i:891907 original size:28 final size:26
Alignment explanation
Indices: 891845--891908 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 26
891835 AAACTCAAAT
*
891845 AAAAAATACTCAAATTATTTAAAGAA
1 AAAAAATACTAAAATTATTTAAAGAA
*
891871 AATATAAATCCTAAAATTATTTGAAAAGAA
1 AA-A-AAATACTAAAATTATTT--AAAGAA
891901 AAAAAATA
1 AAAAAATA
891909 TCTTCTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 19 0.61
29 1 0.03
30 8 0.26
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAAAATACTAAAATTATTTAAAGAA
Found at i:891959 original size:10 final size:10
Alignment explanation
Indices: 891944--891978 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
891934 TTTTATGTTC
891944 GTTCGTTTAT
1 GTTCGTTTAT
891954 GTTCGTTTAT
1 GTTCGTTTAT
891964 GTTCGTTTAT
1 GTTCGTTTAT
891974 GTTCG
1 GTTCG
891979 GTCATTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:895879 original size:156 final size:155
Alignment explanation
Indices: 895620--896154 Score: 676
Period size: 156 Copynumber: 3.4 Consensus size: 155
895610 TTAGTCCATG
* * * * * * * * **
895620 ATTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCATATG
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTT-ACCAAATTTAAACCACACA
* ** **
895685 CTTCTAATTCATCGTAGAACGCATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATT
65 CTCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATT
**
895750 TTCAATTTAGTCCATCAATGCTTCATA
130 TTCAATTTAGTCC-TCAATTTTTCATA
* *
895777 ATTTCCTTATTTCTTCAATCCATCATTTATTTTAAGTCCGTTTTTACCAAATTTAAACCACACAC
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACACAC
* * *
895842 TCCTAAACTATCGTAGAATACATATGTAC-TTCTAATTCCCCTTTTCGATAACAAGTGTTCTATT
66 TCCTAAACCATCGTAGAATACATATGTACTTTC-AATTCCTCTTTTCGATAACAAGTTTTCTATT
895906 TTCAATTTAGTCCCTCAATTTTTCATA
130 TTCAATTTAGT-CCTCAATTTTTCATA
* * * * *
895933 ATTTCCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTGAACCATAT
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTG-T-TTTTACCAAATTTAAACCACAC
* * * *
895998 GCTCTTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAC
64 ACTCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
896063 TTTCAATTTAGTTCCTCAATTTTTCATA
129 TTTCAATTTAG-TCCTCAATTTTTCATA
* * *
896091 ATTTCCTTTTTTTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTCACCAAATTTAAATCACA
1 ATTTCC--TTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACA
896155 TGCTCATATA
Statistics
Matches: 327, Mismatches: 43, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
155 3 0.01
156 127 0.39
157 40 0.12
158 120 0.37
159 5 0.02
160 32 0.10
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (155 bp):
ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACACAC
TCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTT
TCAATTTAGTCCTCAATTTTTCATA
Found at i:896061 original size:158 final size:155
Alignment explanation
Indices: 895620--896195 Score: 706
Period size: 158 Copynumber: 3.7 Consensus size: 155
895610 TTAGTCCATG
* * * * * * * *
895620 ATTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCATATG
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTT-ACCAAATTTAAACCACATG
** * **
895685 CT-TCTAATTCATCGTAGAACGCATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
65 CTCT-TAAACCATCATAGAATACATATGTAC-TTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
* **
895749 TTTCAATTTAGTCCATCAATGCTTCATA
128 TTTCAATTTAGTCCCTCAATTTTTCATA
* * **
895777 ATTTCCTTATTTCTTCAATCCATCATTTATTTTAAGTCCGTTTTTACCAAATTTAAACCACACAC
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACATGC
* * * * *
895842 TCCTAAACTATCGTAGAATACATATGTACTTCTAATTCCCCTTTTCGATAACAAGTGTTCTATTT
66 TCTTAAACCATCATAGAATACATATGTACTTC-AATTCCTCTTTTCGATAACAAGTTTTCTATTT
895907 TCAATTTAGTCCCTCAATTTTTCATA
130 TCAATTTAGTCCCTCAATTTTTCATA
* * * *
895933 ATTTCCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTGAACCATAT
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTG-T-TTTTACCAAATTTAAACCACAT
*
895998 GCTCTTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAC
64 GCTCTTAAACCATCATAGAATACATATGTAC-TTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
*
896063 TTTCAATTTAGTTCCTCAATTTTTCATA
128 TTTCAATTTAGTCCCTCAATTTTTCATA
* * *
896091 ATTTCCTTTTTTTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTCACCAAATTTAAATCACAT
1 ATTTCC--TTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACAT
* * *
896156 GCTCATATACCA-CTATAGAATACCTATGTAACTTCAATTC
64 GCTCTTAAACCATC-ATAGAATACATATGT-ACTTCAATTC
896196 TTATATTTGT
Statistics
Matches: 362, Mismatches: 48, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
155 3 0.01
156 128 0.35
157 39 0.11
158 154 0.43
159 6 0.02
160 32 0.09
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.44
Consensus pattern (155 bp):
ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTAAACCACATGC
TCTTAAACCATCATAGAATACATATGTACTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTTT
CAATTTAGTCCCTCAATTTTTCATA
Found at i:896678 original size:19 final size:19
Alignment explanation
Indices: 896654--896698 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
896644 TTGGAAGTGT
896654 GTTTTGGTATCTATACCGG
1 GTTTTGGTATCTATACCGG
896673 GTTTTGGTATCTATACCGG
1 GTTTTGGTATCTATACCGG
*
896692 ATTTTGG
1 GTTTTGG
896699 GATACATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.44
Consensus pattern (19 bp):
GTTTTGGTATCTATACCGG
Found at i:900076 original size:28 final size:26
Alignment explanation
Indices: 900013--900077 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
900003 AAACTCAAAT
*
900013 AAAAAAATACTCAAATTAATTAAAGA
1 AAAAAAATACTAAAATTAATTAAAGA
* *
900039 AAATATAAATCCTAAAATTATTTGAAAAGA
1 AAA-A-AAATACTAAAATTAATT--AAAGA
900069 AAAAAAATA
1 AAAAAAATA
900078 TCTTCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
28 18 0.58
29 1 0.03
30 8 0.26
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAAAAATACTAAAATTAATTAAAGA
Found at i:900128 original size:10 final size:10
Alignment explanation
Indices: 900113--900137 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
900103 TTTTATGTTC
900113 GTTCGTTTAT
1 GTTCGTTTAT
900123 GTTCGTTTAT
1 GTTCGTTTAT
900133 GTTCG
1 GTTCG
900138 GTCATTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.56
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:900136 original size:24 final size:24
Alignment explanation
Indices: 900104--900156 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
900094 CTCAAATAAT
* *
900104 TTTATGTTCGTTCGTTTATGTTCG
1 TTTATGTTCGGTCATTTATGTTCG
*
900128 TTTATGTTCGGTCATTTGTGTTCG
1 TTTATGTTCGGTCATTTATGTTCG
900152 TTTAT
1 TTTAT
900157 ACATGAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.58
Consensus pattern (24 bp):
TTTATGTTCGGTCATTTATGTTCG
Found at i:904243 original size:158 final size:156
Alignment explanation
Indices: 903797--904372 Score: 688
Period size: 156 Copynumber: 3.6 Consensus size: 156
903787 TAGTCCATGA
* * * * *
903797 TTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCACATGC
1 TTTC-TTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTT-ACCAAATTTGAACCACATGC
** ** *
903862 TCCTAATTCATCATAGAACGCATATGTACTTTCAATTCCTCCTTTCGATAACAAGTTTTCTATTT
64 TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTT
**
903927 TCAATTTAGTCCATCAATGCTTCATAAT
129 TCAATTTAGTCCATCAATTTTTCATAAT
* * * * * **
903955 TTCCTTATTTCTTCAATCCATCATTTATTTTAAGTCCGTTTTTACCAAATTTAAATCACACACTC
1 TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGCTC
* * * * * *
904020 CTAAACTATCGTAGAATACATATGTGCTTCCAATTCCCCTTTTCGATAACAAGTGTTCTATTTTC
66 CTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTTTC
*
904085 AATTTAGTCCCTCAATTTTTCATAAT
131 AATTTAGTCCATCAATTTTTCATAAT
* * *
904111 TTTCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTGAACCATATGC
1 TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTG-T-TTTTACCAAATTTGAACCACATGC
* *
904176 TCTTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTACTT
64 TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTT
* * *
904241 TCAGTTTAGTTCTTCAATTTTTCATAATT
129 TCAATTTAGTCCATCAATTTTTCATAA-T
* * * *
904270 TCCTTTTTTTTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTCACCAAATTTGAATCACATGC
1 T--TTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
* * *
904335 TCATATACCA-CTATAGAATACCTATGTAAC-TTCAATTC
64 TCCTAAACCATC-ATAGAATACATATGT-ACTTTCAATTC
904373 TTATATTTTG
Statistics
Matches: 354, Mismatches: 57, Indels: 13
0.83 0.13 0.03
Matches are distributed among these distances:
156 129 0.36
157 33 0.09
158 103 0.29
159 52 0.15
160 3 0.01
161 34 0.10
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (156 bp):
TTTCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGCTC
CTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATTTTC
AATTTAGTCCATCAATTTTTCATAAT
Found at i:907756 original size:26 final size:26
Alignment explanation
Indices: 907704--907756 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
907694 TTACTTACAT
*
907704 ATTTAATCAATTTGATCCTAATTTCA
1 ATTTAATCAATATGATCCTAATTTCA
907730 ATTTAATTCAATAT-AT-CTAATTCTCA
1 ATTTAA-TCAATATGATCCTAATT-TCA
907756 A
1 A
907757 ATCAAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 12 0.50
27 6 0.25
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTAATCAATATGATCCTAATTTCA
Found at i:908744 original size:28 final size:26
Alignment explanation
Indices: 908681--908745 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
908671 AAACTCAAAT
*
908681 AAAAAAATACTCAAATTAATTAAAGA
1 AAAAAAATACTAAAATTAATTAAAGA
* *
908707 AAATATAAATCCTAAAATTATTTGAAAAGA
1 AAA-A-AAATACTAAAATTAATT--AAAGA
908737 AAAAAAATA
1 AAAAAAATA
908746 TCTTCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
28 18 0.58
29 1 0.03
30 8 0.26
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAAAAATACTAAAATTAATTAAAGA
Found at i:912896 original size:158 final size:157
Alignment explanation
Indices: 912455--913029 Score: 696
Period size: 156 Copynumber: 3.7 Consensus size: 157
912445 TTAGTCCATG
* * * * * * *
912455 ATTTCATTATTCCTTCAATTCATCGTTCATTTCAAGTCTATTTTTAACCAAATTTGAACCACATG
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTTACCAAATTTGAACCACATG
** * ** *
912520 CTCCTAATTCATCTTAGAACGCATATGTACTTTCAATTCCTCCTTTCGATAACAAGTTTTCTATT
66 CTCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATT
* **
912585 TTCAATTTAGTCCATCAATGCTTCATA
131 TTCAATTTAGTCCCTCAATTTTTCATA
* * *
912612 ATTTCCTTATTTCTTCAATCCATCATTTATTTTAAGT-TCG-TTTTTACCAAATTTAAACCACAC
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCT-GTTTTTTACCAAATTTGAACCACAT
* * * * * *
912675 ACTCCTAAACTATCGTAGAATACATATGTACTTCCAATTCCCCTTTTCGATAACAAGTGTTCTAT
65 GCTCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
912740 TTTCAATTTAGTCCCTCAATTTTTCATA
130 TTTCAATTTAGTCCCTCAATTTTTCATA
* * *
912768 ATTTCCTTATTTCTTCAATTCACCATTTATTTTAAGTCTGTTGTTTTATCAAATTTGAACCAAAT
1 ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTT-TTTTACCAAATTTGAACCACAT
* * *
912833 GCTCTTAAACCATCATAGAATACATATATACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAC
65 GCTCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTAT
*
912898 TTTCAATTTAGTTCCTCAATTTTTCATA
130 TTTCAATTTAGTCCCTCAATTTTTCATA
* * *
912926 ATTTCCTTTTTTTTCTTCAATTCATCATTTATTTTAAGT-TCG-TTTTCACCAAATTTGAATCAC
1 ATTTCC--TTATTTCTTCAATTCATCATTTATTTTAAGTCT-GTTTTTTACCAAATTTGAACCAC
* * *
912989 ATGCTCAT-TACCA-CTATAGAATACCTATGTAAC-TTCAATTC
63 ATGCTCCTAAACCATC-ATAGAATACATATGT-ACTTTCAATTC
913030 TTATATTTTT
Statistics
Matches: 359, Mismatches: 50, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
156 137 0.38
157 58 0.16
158 132 0.37
159 2 0.01
160 30 0.08
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.44
Consensus pattern (157 bp):
ATTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTCTGTTTTTTACCAAATTTGAACCACATG
CTCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTCTTTTCGATAACAAGTTTTCTATT
TTCAATTTAGTCCCTCAATTTTTCATA
Found at i:913281 original size:2 final size:2
Alignment explanation
Indices: 913269--913361 Score: 177
Period size: 2 Copynumber: 46.0 Consensus size: 2
913259 CGTGAAAAGA
913269 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
913312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
913354 AT AT AT AT
1 AT AT AT AT
913362 GGTTAGTGAA
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 88 0.98
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:913572 original size:17 final size:18
Alignment explanation
Indices: 913550--913591 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
913540 TTGGAAGTGT
913550 GTTTTGTA-ATATACCGG
1 GTTTTGTATATATACCGG
*
913567 GTTTTGGTATCTATACCGG
1 GTTTT-GTATATATACCGG
*
913586 ATTTTG
1 GTTTTG
913592 GATACATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.45
Consensus pattern (18 bp):
GTTTTGTATATATACCGG
Found at i:916423 original size:26 final size:26
Alignment explanation
Indices: 916371--916423 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
916361 TTACTTACAT
*
916371 ATTTAATCAATTTGATCCTAATTTCA
1 ATTTAATCAATATGATCCTAATTTCA
916397 ATTTAATTCAATAT-AT-CTAATTCTCA
1 ATTTAA-TCAATATGATCCTAATT-TCA
916423 A
1 A
916424 ATCAAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 12 0.50
27 6 0.25
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTAATCAATATGATCCTAATTTCA
Found at i:917273 original size:14 final size:14
Alignment explanation
Indices: 917254--917292 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
917244 TCAAATAATA
*
917254 TTATGTTCGTTCGT
1 TTATGTTCGTTCAT
*
917268 TTATGTTCGGTCAT
1 TTATGTTCGTTCAT
*
917282 TTGTGTTCGTT
1 TTATGTTCGTT
917293 TATACATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (14 bp):
TTATGTTCGTTCAT
Done.