Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 80 of 105
Found at i:14018188 original size:22 final size:21
Alignment explanation
Indices: 14018144--14018188 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
14018134 ATTTATCTTA
**
14018144 TTATTTTTTTATTTCTAGGAT
1 TTATTTTTTTATTTCTAAAAT
14018165 TTATTTTTGTTATTTCTAAAAT
1 TTATTTTT-TTATTTCTAAAAT
14018187 TT
1 TT
14018189 TCTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (21 bp):
TTATTTTTTTATTTCTAAAAT
Found at i:14020444 original size:16 final size:15
Alignment explanation
Indices: 14020423--14020452 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14020413 TAACGAAAAA
14020423 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
14020439 TTGAGAAAATGGAA
1 TTGAGAAAATGGAA
14020453 CATGATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:14023227 original size:2 final size:2
Alignment explanation
Indices: 14023218--14023248 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14023208 ATATGCACCC
14023218 GT GT -T GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
14023249 ATACAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
GT
Found at i:14028562 original size:23 final size:23
Alignment explanation
Indices: 14028536--14028585 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
14028526 AAGTAATAAT
* *
14028536 AAAAATATTATAATTATGATTAA
1 AAAAATATAATAATTATAATTAA
14028559 AAAAATATAATAATTATAATTAA
1 AAAAATATAATAATTATAATTAA
14028582 AAAA
1 AAAA
14028586 TTTATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAATATAATAATTATAATTAA
Found at i:14028771 original size:22 final size:21
Alignment explanation
Indices: 14028746--14028786 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14028736 AAAGATAAAA
14028746 ATAAAATTAAGATATGATAATG
1 ATAAAATTAA-ATATGATAATG
*
14028768 ATAAAATTAAATATTATAA
1 ATAAAATTAAATATGATAA
14028787 AATTGAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAAAATTAAATATGATAATG
Found at i:14030974 original size:258 final size:258
Alignment explanation
Indices: 14030517--14030982 Score: 711
Period size: 258 Copynumber: 1.8 Consensus size: 258
14030507 TCTTCTCAAA
*
14030517 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAGCAGTTCCTCCACATCATCTGGAAACCTT
1 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
* * *
14030582 GACATGAACTTCAAGAATTCATTCTCAGTATATTCCATGATGTAAAGAAAACTCCAATACATTTT
66 GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAAAGAAAACTCCAATACATTTT
* *
14030647 CAACAACTCCTTCTACTTAATAATCTGCAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
131 CAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
14030712 TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
196 TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
* * *
14030775 AAGAAGTGTGCAAAAGATGAGCTTTGTAAGCCATCAACAGTTCTTCCACATCATCTGGAAACCTT
1 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
* * * * * *
14030840 GATATGAACTCCAAGAATTTATTCTCTGTATATTCCAAGATGGAATA-AAAACTCCGATCCGTTT
66 GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAA-AGAAAACTCCAATACATTT
* * * ** *
14030904 TCAACAACTTCTTGGAGTTAATAATCTGAAAAACTCGGTATCT-AGGAATCACACGATCTTCCAA
130 TCAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATAT-TGAGGAATCACACGATCTCCCAA
14030968 ACTACTCATCAAAAG
194 ACTACTCATCAAAAG
14030983 ATTTGGCTTG
Statistics
Matches: 185, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
258 183 0.99
259 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (258 bp):
AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAAAGAAAACTCCAATACATTTT
CAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
Found at i:14031881 original size:16 final size:15
Alignment explanation
Indices: 14031860--14031890 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14031850 TAACGAAAAA
14031860 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
14031876 TTGAGAAAATGGAAG
1 TTGAGAAAATGGAAG
14031891 ATGATTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:14039470 original size:18 final size:18
Alignment explanation
Indices: 14039444--14039568 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
14039434 CTTTGTTCTT
14039444 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
14039462 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
14039477 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
14039495 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
14039513 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
14039531 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
*
14039552 GATACATTTGATGTGGA
1 GATACATTTGAGGTGGA
14039569 TAATAACCAT
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 53 0.63
19 1 0.01
21 17 0.20
ACGTcount: A:0.27, C:0.05, G:0.35, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:14039546 original size:21 final size:21
Alignment explanation
Indices: 14039522--14039562 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14039512 TGATACATTT
*
14039522 GAGGTGGAGGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
14039543 GAGGTGGAGGATACATTTGA
1 GAGGTGGAGGATACATTTGA
14039563 TGTGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:14039943 original size:27 final size:27
Alignment explanation
Indices: 14039913--14039964 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
14039903 CAAAATTTGC
*
14039913 ACCATCACCATCATCA-TCTGGACTTAA
1 ACCACCACCATCATCACTCT-GACTTAA
14039940 ACCACCACCATCATCACTCTGACTT
1 ACCACCACCATCATCACTCTGACTT
14039965 GGTATTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (27 bp):
ACCACCACCATCATCACTCTGACTTAA
Found at i:14043384 original size:26 final size:26
Alignment explanation
Indices: 14043335--14043383 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14043325 TTTCAAAAAT
*
14043335 TAAAAGTTTTCAAACTTAAATTTTAA
1 TAAAAGTTTTCAAACCTAAATTTTAA
*
14043361 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTAAATTTT
14043384 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTAAATTTTAA
Found at i:14043628 original size:19 final size:20
Alignment explanation
Indices: 14043606--14043643 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14043596 AAACAACAAA
*
14043606 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
14043625 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
14043644 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:14043905 original size:50 final size:50
Alignment explanation
Indices: 14043842--14043951 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
14043832 CACCCTCCAT
* * *
14043842 ACACCCTA-CCACACCCAATCCCTCCCCATCTTCCTCCCAACGCCCCACC
1 ACACCCAATCCACACCCAATCCCTCCCCACCTTCCCCCCAACGCCCCACC
14043891 ACACCCAATCCACACCCAATCCCTCCCCACCTTCCCCCCAACGCCCCACC
1 ACACCCAATCCACACCCAATCCCTCCCCACCTTCCCCCCAACGCCCCACC
*
14043941 ACACGCAATCC
1 ACACCCAATCC
14043952 TTTCCACCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
49 7 0.12
50 49 0.88
ACGTcount: A:0.25, C:0.61, G:0.03, T:0.12
Consensus pattern (50 bp):
ACACCCAATCCACACCCAATCCCTCCCCACCTTCCCCCCAACGCCCCACC
Found at i:14049435 original size:21 final size:19
Alignment explanation
Indices: 14049389--14049443 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 19
14049379 TTTATTTTAT
*
14049389 TAATGAATTTATTAATTATA
1 TAATG-ATTTATTAATAATA
14049409 TAAATGATTTATTAAATAATTA
1 T-AATGATTTATT-AATAA-TA
14049431 TAATGATATTATT
1 TAATGAT-TTATT
14049444 TGAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.27
21 14 0.47
22 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATGATTTATTAATAATA
Found at i:14055830 original size:51 final size:53
Alignment explanation
Indices: 14055699--14055850 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 53
14055689 ATAATATATG
*
14055699 GTATTATAGTAAATAGTTATAAAAGAATGAATATTTTCATAATTATTAAATAAAA
1 GTATTATAGTAAATA-TTATAAAAGAAT-AATATTTTCATAATTATGAAATAAAA
* * * * *
14055754 GCATCATAGTTAAT-TTATGAGAAAGAAT-AT-TTTT-GTAATTATGATATAAAA
1 GTATTATAGTAAATATTAT-A-AAAGAATAATATTTTCATAATTATGAAATAAAA
*
14055805 GTATTATAATAAATAATTATAAAAGAA-AGGATATTTTCATAATTAT
1 GTATTATAGTAAAT-ATTATAAAAGAATA--ATATTTTCATAATTAT
14055851 CATATGAAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
51 30 0.39
52 5 0.06
53 12 0.16
54 5 0.06
55 25 0.32
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (53 bp):
GTATTATAGTAAATATTATAAAAGAATAATATTTTCATAATTATGAAATAAAA
Found at i:14055848 original size:55 final size:55
Alignment explanation
Indices: 14055676--14055855 Score: 174
Period size: 55 Copynumber: 3.4 Consensus size: 55
14055666 AGTGAAGATG
* ** * *
14055676 TATTTCCATAATTATAATAT-ATGGTATTATAGTAAATAGTTATAAAAGAATGAA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
* * **
14055730 TATTTTCATAATTATTAA-ATAAAAGCATCATAGT---TAATT-TATGAGAAAGAA
1 TATTTTCATAATTA-TAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
** * * *
14055781 TATTTTTGTAATTATGATATAAAAGTATTATAATAAATAATTATAAAAGAAAGGA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
*
14055836 TATTTTCATAATTATCATAT
1 TATTTTCATAATTATAATAT
14055856 GAAGGTAAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
50 2 0.02
51 34 0.35
52 4 0.04
54 20 0.20
55 38 0.39
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (55 bp):
TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
Found at i:14059847 original size:20 final size:20
Alignment explanation
Indices: 14059811--14059848 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14059801 AAAATATTTA
*
14059811 AATAAAAAACTAGAATAACC
1 AATAAAAAAATAGAATAACC
14059831 AATAAAACAAATA-AATAA
1 AATAAAA-AAATAGAATAA
14059849 TAAAAAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (20 bp):
AATAAAAAAATAGAATAACC
Found at i:14059850 original size:16 final size:18
Alignment explanation
Indices: 14059809--14059853 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
14059799 TGAAAATATT
14059809 TAAATAA-AAAACTAGAA
1 TAAATAATAAAACTAGAA
**
14059826 TAACCAATAAAAC-A-AA
1 TAAATAATAAAACTAGAA
14059842 TAAATAATAAAA
1 TAAATAATAAAA
14059854 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 12 0.52
17 6 0.26
18 5 0.22
ACGTcount: A:0.71, C:0.09, G:0.02, T:0.18
Consensus pattern (18 bp):
TAAATAATAAAACTAGAA
Found at i:14061049 original size:21 final size:21
Alignment explanation
Indices: 14061023--14061065 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14061013 ATTTTTCTTA
*
14061023 GTATGTTCCAAGGAGATTATG
1 GTATGTTCCAAAGAGATTATG
14061044 GTATGTTCCAAAGAGATTATG
1 GTATGTTCCAAAGAGATTATG
14061065 G
1 G
14061066 ATAGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (21 bp):
GTATGTTCCAAAGAGATTATG
Found at i:14064958 original size:258 final size:258
Alignment explanation
Indices: 14064501--14064976 Score: 706
Period size: 258 Copynumber: 1.8 Consensus size: 258
14064491 TCTAGAAAAG
* * *
14064501 AAGTGTGCAAAAGATGAGCCTTGTAAGCTATCAGCAGTTCCTCCACATTACCTGGAAACCTTGAC
1 AAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCACCTGGAAACCTTGAC
14064566 ATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAAAACATTTGCAA
66 ATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAAAACATTTGCAA
* ** *
14064631 CAACTCCTTCTAACTAGTAATCTGCAAAACTCAATCTTGAGGAATCAAATGATCTCCCAAACTAC
131 CAACTCCTTCGAACTAACAATCTGCAAAACTCAATCTTGAGGAATCAAACGATCTCCCAAACTAC
14064696 TCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAGAAC
196 TCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAGAAC
* * * *
14064759 AAGTGTGCAAAAGATGAGCTTTGTAAGCCATCAACAGTTCTTCCACATCATCTGGAAACCTTGAT
1 AAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCACCTGGAAACCTTGAC
* ** * *
14064824 ATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCGATCCGTTTTCAA
66 ATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAAAACATTTGCAA
* * * * **
14064889 CAACTTCTT-GGACTTAACAATCTGCAAAACTCGGTATC-T-AGGAATCACACGATCTTTCAAAC
131 CAACTCCTTCGAAC-TAACAATCTGCAAAACTC--AATCTTGAGGAATCAAACGATCTCCCAAAC
14064951 TACTCATCAAAAGAATTGGCCTAGAA
193 TACTCATCAAAAGAATTGGCCTAGAA
14064977 GCCAAAACAT
Statistics
Matches: 193, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
257 2 0.01
258 187 0.97
259 1 0.01
260 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (258 bp):
AAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCACCTGGAAACCTTGAC
ATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAAAACATTTGCAA
CAACTCCTTCGAACTAACAATCTGCAAAACTCAATCTTGAGGAATCAAACGATCTCCCAAACTAC
TCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAGAAC
Found at i:14065862 original size:16 final size:15
Alignment explanation
Indices: 14065841--14065871 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14065831 TAACGAAAAA
14065841 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
14065857 TTGAGAAAATGGAAG
1 TTGAGAAAATGGAAG
14065872 ATGATTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:14069171 original size:17 final size:17
Alignment explanation
Indices: 14069149--14069183 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14069139 CTCTAAAAAG
*
14069149 CTTGAATAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069166 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069183 C
1 C
14069184 CCTCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:14069282 original size:81 final size:81
Alignment explanation
Indices: 14069147--14069307 Score: 250
Period size: 81 Copynumber: 2.0 Consensus size: 81
14069137 CTCTCTAAAA
* * * * * *
14069147 AGCTTGAATAGAACCCGATCTTGAACAGAACCCGATCCCTCAATGTAGCCCTGCTCGTTCCACCC
1 AGCTTCAACAGAACCCGATCTTAAACAAAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCC
14069212 ATTCGACGTTTGCAGC
66 ATTCGACGTTTGCAGC
*
14069228 AGCTTCAACAGAACCCGATCTTAAACAAAACCTGATCCCTCAACGAAGCCCTGCTCGTTCCACCC
1 AGCTTCAACAGAACCCGATCTTAAACAAAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCC
*
14069293 ATTCGATGTTTGCAG
66 ATTCGACGTTTGCAG
14069308 TAGCACCCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.23
Consensus pattern (81 bp):
AGCTTCAACAGAACCCGATCTTAAACAAAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCC
ATTCGACGTTTGCAGC
Found at i:14069318 original size:23 final size:23
Alignment explanation
Indices: 14069288--14069334 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
14069278 CTGCTCGTTC
*
14069288 CACCCATTCGATGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
14069311 CACCCATTCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
14069334 C
1 C
14069335 TTGAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (23 bp):
CACCCATTCGACGTTTGCAGTAG
Found at i:14069356 original size:17 final size:17
Alignment explanation
Indices: 14069334--14069366 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14069324 TTTGCAGTAG
14069334 CTTGAACAAAACCCGAT
1 CTTGAACAAAACCCGAT
*
14069351 CTTGAACAGAACCCGA
1 CTTGAACAAAACCCGA
14069367 ACCCTCAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.30, G:0.15, T:0.15
Consensus pattern (17 bp):
CTTGAACAAAACCCGAT
Found at i:14069387 original size:104 final size:104
Alignment explanation
Indices: 14069207--14069415 Score: 346
Period size: 104 Copynumber: 2.0 Consensus size: 104
14069197 CTGCTCGTTC
* * *
14069207 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTAAACAAAACCTGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAAAACCCGATCTTAAACAAAACCCGAACCCTCAAC
*
14069272 GAAGCCCTGCTCGTTCCACCCATTCGATGTTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
* * * *
14069311 CACCCATTCGACGTTTGCAGTAGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAAAACCCGATCTTAAACAAAACCCGAACCCTCAAC
14069376 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
14069415 C
1 C
14069416 TTGAACAGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (104 bp):
CACCCATTCGACGTTTGCAGCAGCTTCAACAAAACCCGATCTTAAACAAAACCCGAACCCTCAAC
GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
Found at i:14069411 original size:81 final size:81
Alignment explanation
Indices: 14069311--14069626 Score: 533
Period size: 81 Copynumber: 3.9 Consensus size: 81
14069301 TTTGCAGTAG
* *
14069311 CACCCATTCGACGTTTGCAGTAGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
14069376 GAAGCCCTGCTCGTTC
66 GAAGCCCTGCTCGTTC
*
14069392 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCAATCTTGAACAGAACCCGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
14069457 GAAGCCCTGCTCGTTC
66 GAAGCCCTGCTCGTTC
* *
14069473 CACCCATTCGACGTTTACAGTAGCTTGAATAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
* *
14069538 GTAGCCTTGCTCGTTC
66 GAAGCCCTGCTCGTTC
* * *
14069554 CACCCATTCAACGTTTGCAGAAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAT
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
*
14069619 GTAGCCCT
66 GAAGCCCT
14069627 TTCTCCTCTC
Statistics
Matches: 221, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 221 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.22
Consensus pattern (81 bp):
CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAAC
GAAGCCCTGCTCGTTC
Found at i:14069459 original size:185 final size:185
Alignment explanation
Indices: 14069147--14069496 Score: 583
Period size: 185 Copynumber: 1.9 Consensus size: 185
14069137 CTCTCTAAAA
* * * * *
14069147 AGCTTGAATAGAACCCGATCTTGAACAGAACCCGATCCCTCAATGTAGCCCTGCTCGTTCCACCC
1 AGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAACGAAGCCCTGCTCGTTCCACCC
* *
14069212 ATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTAAACAAAACCTGATCCCTCAACGAAGC
66 ATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTAAACAAAACCCGATCCCTCAACGAAGC
* *
14069277 CCTGCTCGTTCCACCCATTCGATGTTTGCAGTAGCACCCATTCGACGTTTGCAGT
131 CCTGCTCGTTCCACCCATTCGACGTTTACAGTAGCACCCATTCGACGTTTGCAGT
14069332 AGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAACGAAGCCCTGCTCGTTCCACCC
1 AGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAACGAAGCCCTGCTCGTTCCACCC
* * * *
14069397 ATTCGACGTTTGCAGTAGCTTGAACAGAACCCAATCTTGAACAGAACCCGATCCCTCAACGAAGC
66 ATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTAAACAAAACCCGATCCCTCAACGAAGC
14069462 CCTGCTCGTTCCACCCATTCGACGTTTACAGTAGC
131 CCTGCTCGTTCCACCCATTCGACGTTTACAGTAGC
14069497 TTGAATAGAA
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
185 152 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (185 bp):
AGCTTGAACAAAACCCGATCTTGAACAGAACCCGAACCCTCAACGAAGCCCTGCTCGTTCCACCC
ATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTAAACAAAACCCGATCCCTCAACGAAGC
CCTGCTCGTTCCACCCATTCGACGTTTACAGTAGCACCCATTCGACGTTTGCAGT
Found at i:14069518 original size:17 final size:17
Alignment explanation
Indices: 14069496--14069530 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14069486 TTTACAGTAG
*
14069496 CTTGAATAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069513 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069530 C
1 C
14069531 CCTCAACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:14069599 original size:17 final size:17
Alignment explanation
Indices: 14069577--14069611 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14069567 TTTGCAGAAG
14069577 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069594 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
14069611 C
1 C
14069612 CCTCAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:14069830 original size:25 final size:25
Alignment explanation
Indices: 14069802--14069855 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
14069792 GTTTAAATAA
*
14069802 GAATGCCTTAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
14069827 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
14069852 GAAT
1 GAAT
14069856 ATTGTGGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:14072282 original size:15 final size:15
Alignment explanation
Indices: 14072262--14072292 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14072252 GAGAAGCAAG
14072262 AAAAAATATTGCTAA
1 AAAAAATATTGCTAA
14072277 AAAAAATATTGCTAA
1 AAAAAATATTGCTAA
14072292 A
1 A
14072293 GTTCGAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAAATATTGCTAA
Found at i:14073382 original size:12 final size:12
Alignment explanation
Indices: 14073361--14073398 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14073351 TGTTGGTTTG
14073361 TTGT-AACTTAT
1 TTGTGAACTTAT
14073372 TTGTGAACTTAT
1 TTGTGAACTTAT
*
14073384 TTGCGAACTTAT
1 TTGTGAACTTAT
14073396 TTG
1 TTG
14073399 CTTGGATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (12 bp):
TTGTGAACTTAT
Found at i:14073399 original size:12 final size:12
Alignment explanation
Indices: 14073365--14073399 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
14073355 GGTTTGTTGT
*
14073365 AACTTATTTGTG
1 AACTTATTTGCG
14073377 AACTTATTTGCG
1 AACTTATTTGCG
14073389 AACTTATTTGC
1 AACTTATTTGC
14073400 TTGGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (12 bp):
AACTTATTTGCG
Found at i:14073552 original size:15 final size:15
Alignment explanation
Indices: 14073532--14073565 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
14073522 GTTATTATTA
14073532 TTATTGTTGTTGTTG
1 TTATTGTTGTTGTTG
14073547 TTATTGTTGTTGTTG
1 TTATTGTTGTTGTTG
14073562 TTAT
1 TTAT
14073566 CTTGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.24, T:0.68
Consensus pattern (15 bp):
TTATTGTTGTTGTTG
Found at i:14075310 original size:2 final size:2
Alignment explanation
Indices: 14075303--14075328 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14075293 GATTATAAGC
14075303 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14075329 CTTGCTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14076290 original size:11 final size:11
Alignment explanation
Indices: 14076268--14076314 Score: 76
Period size: 11 Copynumber: 4.3 Consensus size: 11
14076258 TCAAGCAATA
14076268 TCTAACAAATC
1 TCTAACAAATC
* *
14076279 TCAAATAAATC
1 TCTAACAAATC
14076290 TCTAACAAATC
1 TCTAACAAATC
14076301 TCTAACAAATC
1 TCTAACAAATC
14076312 TCT
1 TCT
14076315 TATAGGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.30
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:14077059 original size:116 final size:116
Alignment explanation
Indices: 14076921--14077148 Score: 366
Period size: 116 Copynumber: 2.0 Consensus size: 116
14076911 CTCAGTCTGC
* *
14076921 TCTAGTTCACTCACAAACAAATATACACACCTATAAGATGTAAATTTTTAGTAATCTTATGGGAT
1 TCTAGTTCACTCACAAACAAATATACACACCTATAAGATGTAAATCTTCAGTAATCTTATGGGAT
* * *
14076986 GTCTACCCATAAACCTTATAACTCTCTTATATCTTTTTCTCATACCTCTCA
66 ATCTACCCATAAACCTTACAACTCTCTTACATCTTTTTCTCATACCTCTCA
* *
14077037 TCTAGTTCATTCACAAACAAATATATACACCTATAAGATGTAAATCTTCAGTAATCTTATGGGAT
1 TCTAGTTCACTCACAAACAAATATACACACCTATAAGATGTAAATCTTCAGTAATCTTATGGGAT
* * *
14077102 ATCTACCCATAAATCTTACAATTCTCTTACATCTTTTTTTCATACCT
66 ATCTACCCATAAACCTTACAACTCTCTTACATCTTTTTCTCATACCT
14077149 AACCTTGTAG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (116 bp):
TCTAGTTCACTCACAAACAAATATACACACCTATAAGATGTAAATCTTCAGTAATCTTATGGGAT
ATCTACCCATAAACCTTACAACTCTCTTACATCTTTTTCTCATACCTCTCA
Found at i:14077335 original size:22 final size:22
Alignment explanation
Indices: 14077310--14077352 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14077300 AAGCAATATC
*
14077310 TAACAAATCTCAAATAAATCTT
1 TAACAAATCCCAAATAAATCTT
14077332 TAACAAATCCCAAATAAATCT
1 TAACAAATCCCAAATAAATCT
14077353 CTTATGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (22 bp):
TAACAAATCCCAAATAAATCTT
Found at i:14077486 original size:11 final size:11
Alignment explanation
Indices: 14077470--14077494 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14077460 TCACCATTTT
14077470 TCTCTTATGTA
1 TCTCTTATGTA
14077481 TCTCTTATGTA
1 TCTCTTATGTA
14077492 TCT
1 TCT
14077495 TCATGTTTTA
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:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (11 bp):
TCTCTTATGTA
Found at i:14078272 original size:22 final size:22
Alignment explanation
Indices: 14078244--14078286 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14078234 AAGTAATATC
*
14078244 TAACAAATCTTAAACAAATTTT
1 TAACAAATCTAAAACAAATTTT
*
14078266 TAACAAATCTAAAATAAATTT
1 TAACAAATCTAAAACAAATTT
14078287 CTTATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TAACAAATCTAAAACAAATTTT
Found at i:14081572 original size:8 final size:8
Alignment explanation
Indices: 14081559--14081603 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
14081549 TTTTTATTTA
14081559 TATATATT
1 TATATATT
14081567 TATATATT
1 TATATATT
*
14081575 TATATAAT
1 TATATATT
14081583 TATATATT
1 TATATATT
*
14081591 TAAATATT
1 TATATATT
14081599 TATAT
1 TATAT
14081604 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:14081607 original size:14 final size:16
Alignment explanation
Indices: 14081566--14081621 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
14081556 TTATATATAT
*
14081566 TTATATATTTATATAA
1 TTATATATTTAAATAA
14081582 TTATATATTTAAAT-A
1 TTATATATTTAAATAA
*
14081597 TT-TATATTTAAAAAA
1 TTATATATTTAAATAA
*
14081612 TAATAT-TTTA
1 TTATATATTTA
14081622 TTAATTTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 16 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATATTTAAATAA
Found at i:14084513 original size:24 final size:24
Alignment explanation
Indices: 14084481--14084540 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
14084471 TGACATGAAT
14084481 TAAGTACTACATTATGGAAGTCAC
1 TAAGTACTACATTATGGAAGTCAC
14084505 TAAGTACTACATTATGGAAGTCAC
1 TAAGTACTACATTATGGAAGTCAC
*
14084529 TAAGTGCTACAT
1 TAAGTACTACAT
14084541 CAAATATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
TAAGTACTACATTATGGAAGTCAC
Found at i:14085031 original size:12 final size:12
Alignment explanation
Indices: 14085014--14085041 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14085004 TAAGCCAAAG
14085014 TTTTTTTTTAAC
1 TTTTTTTTTAAC
14085026 TTTTTTTTTAAC
1 TTTTTTTTTAAC
14085038 TTTT
1 TTTT
14085042 CTAAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTAAC
Found at i:14085749 original size:14 final size:14
Alignment explanation
Indices: 14085730--14085756 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14085720 TTTTATCATT
14085730 TTCTTCCTTCTTTG
1 TTCTTCCTTCTTTG
14085744 TTCTTCCTTCTTT
1 TTCTTCCTTCTTT
14085757 TTTTTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (14 bp):
TTCTTCCTTCTTTG
Found at i:14092751 original size:31 final size:31
Alignment explanation
Indices: 14092663--14092752 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
14092653 TAATTTTGAC
* * *
14092663 CAATAATAA-A-AA-AGGTATTTTCGTAGTT
1 CAATAATAAGATAAGAGGTATTTCCATAATT
* * **
14092691 TAATAATAAGATAAGGGGTATTTTTATAATT
1 CAATAATAAGATAAGAGGTATTTCCATAATT
14092722 CAATAATAAG-TGAAGAGGTATTTCCATAATT
1 CAATAATAAGAT-AAGAGGTATTTCCATAATT
14092753 ATAATATATG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 8 0.16
29 1 0.02
30 3 0.06
31 37 0.76
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
CAATAATAAGATAAGAGGTATTTCCATAATT
Found at i:14092894 original size:51 final size:53
Alignment explanation
Indices: 14092763--14092914 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 53
14092753 ATAATATATG
*
14092763 GTATTATAGTAAATAGTTATAAAAGAATGAATATTTTCATAATTATTAAATAAAA
1 GTATTATAGTAAATA-TTATAAAAGAAT-AATATTTTCATAATTATGAAATAAAA
* * * * *
14092818 GCATCATAGTTAAT-TTATGAGAAAGAAT-AT-TTTT-GTAATTATGATATAAAA
1 GTATTATAGTAAATATTAT-A-AAAGAATAATATTTTCATAATTATGAAATAAAA
*
14092869 GTATTATAATAAATAATTATAAAAGAA-AGGATATTTTCATAATTAT
1 GTATTATAGTAAAT-ATTATAAAAGAATA--ATATTTTCATAATTAT
14092915 CATATGAAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
51 30 0.39
52 5 0.06
53 12 0.16
54 5 0.06
55 25 0.32
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (53 bp):
GTATTATAGTAAATATTATAAAAGAATAATATTTTCATAATTATGAAATAAAA
Found at i:14092912 original size:55 final size:55
Alignment explanation
Indices: 14092740--14092919 Score: 174
Period size: 55 Copynumber: 3.4 Consensus size: 55
14092730 AGTGAAGAGG
* ** * *
14092740 TATTTCCATAATTATAATAT-ATGGTATTATAGTAAATAGTTATAAAAGAATGAA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
* * **
14092794 TATTTTCATAATTATTAA-ATAAAAGCATCATAGT---TAATT-TATGAGAAAGAA
1 TATTTTCATAATTA-TAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
** * * *
14092845 TATTTTTGTAATTATGATATAAAAGTATTATAATAAATAATTATAAAAGAAAGGA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
*
14092900 TATTTTCATAATTATCATAT
1 TATTTTCATAATTATAATAT
14092920 GAAGGTAAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
50 2 0.02
51 34 0.35
52 4 0.04
54 20 0.20
55 38 0.39
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (55 bp):
TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
Found at i:14096915 original size:20 final size:20
Alignment explanation
Indices: 14096879--14096916 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14096869 AAAATATTTA
*
14096879 AATAAAAAACTAGAATAACC
1 AATAAAAAAATAGAATAACC
14096899 AATAAAACAAATA-AATAA
1 AATAAAA-AAATAGAATAA
14096917 TAAAAAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (20 bp):
AATAAAAAAATAGAATAACC
Found at i:14096918 original size:16 final size:18
Alignment explanation
Indices: 14096877--14096921 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
14096867 TGAAAATATT
14096877 TAAATAA-AAAACTAGAA
1 TAAATAATAAAACTAGAA
**
14096894 TAACCAATAAAAC-A-AA
1 TAAATAATAAAACTAGAA
14096910 TAAATAATAAAA
1 TAAATAATAAAA
14096922 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 12 0.52
17 6 0.26
18 5 0.22
ACGTcount: A:0.71, C:0.09, G:0.02, T:0.18
Consensus pattern (18 bp):
TAAATAATAAAACTAGAA
Found at i:14098118 original size:21 final size:21
Alignment explanation
Indices: 14098092--14098134 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14098082 ATTTTTCTTA
*
14098092 GTATGTTCCAAGGAGATTATG
1 GTATGTTCCAAAGAGATTATG
*
14098113 GTATGTTCTAAAGAGATTATG
1 GTATGTTCCAAAGAGATTATG
14098134 G
1 G
14098135 ATAGAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (21 bp):
GTATGTTCCAAAGAGATTATG
Found at i:14104006 original size:14 final size:14
Alignment explanation
Indices: 14103969--14104008 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
14103959 AATTTTAAAG
*
14103969 TTAACTCTACAACT
1 TTAACTCTATAACT
14103983 TTAACTCTATAACT
1 TTAACTCTATAACT
14103997 TTAACTCTATAA
1 TTAACTCTATAA
14104009 AAGTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAACTCTATAACT
Found at i:14113895 original size:31 final size:31
Alignment explanation
Indices: 14113807--14113896 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
14113797 TAATTTTGAC
* * *
14113807 CAATAATAA-A-AA-AGGTATTTTCGTAGTT
1 CAATAATAAGATAAGAGGTATTTCCATAATT
* * **
14113835 TAATAATAAGATAAGGGGTATTTTTATAATT
1 CAATAATAAGATAAGAGGTATTTCCATAATT
14113866 CAATAATAAG-TGAAGAGGTATTTCCATAATT
1 CAATAATAAGAT-AAGAGGTATTTCCATAATT
14113897 ATAATATATG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 8 0.16
29 1 0.02
30 3 0.06
31 37 0.76
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
CAATAATAAGATAAGAGGTATTTCCATAATT
Found at i:14114038 original size:51 final size:53
Alignment explanation
Indices: 14113907--14114058 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 53
14113897 ATAATATATG
*
14113907 GTATTATAGTAAATAGTTATAAAAGAATGAATATTTTCATAATTATTAAATAAAA
1 GTATTATAGTAAATA-TTATAAAAGAAT-AATATTTTCATAATTATGAAATAAAA
* * * * *
14113962 GCATCATAGTTAAT-TTATGAGAAAGAAT-AT-TTTT-GTAATTATGATATAAAA
1 GTATTATAGTAAATATTAT-A-AAAGAATAATATTTTCATAATTATGAAATAAAA
*
14114013 GTATTATAATAAATAATTATAAAAGAA-AGGATATTTTCATAATTAT
1 GTATTATAGTAAAT-ATTATAAAAGAATA--ATATTTTCATAATTAT
14114059 CATATGAAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
51 30 0.39
52 5 0.06
53 12 0.16
54 5 0.06
55 25 0.32
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (53 bp):
GTATTATAGTAAATATTATAAAAGAATAATATTTTCATAATTATGAAATAAAA
Found at i:14114056 original size:55 final size:55
Alignment explanation
Indices: 14113884--14114063 Score: 174
Period size: 55 Copynumber: 3.4 Consensus size: 55
14113874 AGTGAAGAGG
* ** * *
14113884 TATTTCCATAATTATAATAT-ATGGTATTATAGTAAATAGTTATAAAAGAATGAA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
* * **
14113938 TATTTTCATAATTATTAA-ATAAAAGCATCATAGT---TAATT-TATGAGAAAGAA
1 TATTTTCATAATTA-TAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
** * * *
14113989 TATTTTTGTAATTATGATATAAAAGTATTATAATAAATAATTATAAAAGAAAGGA
1 TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
*
14114044 TATTTTCATAATTATCATAT
1 TATTTTCATAATTATAATAT
14114064 GAAGGTAAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
50 2 0.02
51 34 0.35
52 4 0.04
54 20 0.20
55 38 0.39
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (55 bp):
TATTTTCATAATTATAATATAAAAGTATTATAGTAAATAATTATAAAAGAAAGAA
Found at i:14119248 original size:21 final size:21
Alignment explanation
Indices: 14119222--14119264 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14119212 ATTTTTCTTA
*
14119222 GTATGTTCCAAGGAGATTATG
1 GTATGTTCCAAAGAGATTATG
14119243 GTATGTTCCAAAGAGATTATG
1 GTATGTTCCAAAGAGATTATG
14119264 G
1 G
14119265 ATAGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (21 bp):
GTATGTTCCAAAGAGATTATG
Found at i:14123149 original size:258 final size:254
Alignment explanation
Indices: 14122671--14123166 Score: 719
Period size: 258 Copynumber: 1.9 Consensus size: 254
14122661 AGACTTGGCA
* *
14122671 TGTTTTTTCTTCTAGAAAAGAAGTGTGCAAAAGATGAGCCTTGTAAGCTATCAGCAGTTCCTCCA
1 TGTTTTTTCTTCTAGAAAAGAAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCA
*
14122736 CATTACCTGGAAACCTTGACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGA
66 CATCACCTGGAAACCTTGACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGA
* **
14122801 AAACTCCAATACATTTTCAACAACTCCTTCTAACTAGTAATCTGCAAAACTCAATCTTGAGGAAT
131 AAACTCCAATACATTTTCAACAACTCCTTCGAACTAACAATCTGCAAAACTCAATCTTGAGGAAT
* *
14122866 CAAATGATCTCCCAAACTGCTCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATG
196 CAAACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATG
* *
14122925 TGTTTTCTTCTTCTGAAGAAGAAGAAGTGTGCAAAAGATGAGCTTTGTAAGCCATCAACAGTTCT
1 TGTTTT-TTCTTCT--AGAA-AAGAAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCC
* *
14122990 TCCACATCATCTGGAAACCTTGATATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTA
62 TCCACATCACCTGGAAACCTTGACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTA
* * * * * *
14123055 AAGAAAACTCCGATCCGTTTTCAACAACTTCTT-GGACTTAACAATCTGCAAAACTCGGTATC-T
127 AAGAAAACTCCAATACATTTTCAACAACTCCTTCGAAC-TAACAATCTGCAAAACTC--AATCTT
* **
14123118 -AGGAATCACACGATCTTTCAAACTACTCATCAAAAGAATTGGCCTAGAA
189 GAGGAATCAAACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAA
14123167 GCCAAAACAT
Statistics
Matches: 214, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
254 6 0.03
255 7 0.03
257 6 0.03
258 191 0.89
259 1 0.00
260 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (254 bp):
TGTTTTTTCTTCTAGAAAAGAAGTGTGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCA
CATCACCTGGAAACCTTGACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGA
AAACTCCAATACATTTTCAACAACTCCTTCGAACTAACAATCTGCAAAACTCAATCTTGAGGAAT
CAAACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAAACAGACTTTTATCATG
Found at i:14130120 original size:15 final size:15
Alignment explanation
Indices: 14130100--14130143 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
14130090 CAATTTTTAA
*
14130100 AAAAAAAAATTTCTC
1 AAAAAAAAATTTCAC
14130115 AAAAAAATATATTTCAC
1 AAAAAAA-A-ATTTCAC
*
14130132 AAAAAACAATTT
1 AAAAAAAAATTT
14130144 TAAAGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 11 0.44
16 2 0.08
17 12 0.48
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAAAAATTTCAC
Found at i:14130120 original size:17 final size:17
Alignment explanation
Indices: 14130098--14130137 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14130088 ATCAATTTTT
*
14130098 AAAAAAAAAAATTTCTC
1 AAAAAAAAAAATTTCAC
* *
14130115 AAAAAAATATATTTCAC
1 AAAAAAAAAAATTTCAC
14130132 AAAAAA
1 AAAAAA
14130138 CAATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAAAAAAATTTCAC
Found at i:14130597 original size:80 final size:79
Alignment explanation
Indices: 14130417--14130627 Score: 277
Period size: 79 Copynumber: 2.7 Consensus size: 79
14130407 AAATGTAAAA
* * * * *
14130417 AAGAAACATTTTT-AAGAAAAAGTTGAAAGTATTAAATTTTC-TT-AAAAAATAATTTTTTTTTC
1 AAGAAATATTTTTAAAG-AAAAGTTGAAAGTA-TCAATTTTCTTTGAAAAAAAAATATTTCTTTC
14130479 AAAAAATGTATTTCAC
64 AAAAAATGTATTTCAC
* * *
14130495 AATAAAT-GTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAAAAAAAATATTTCTTTCA
1 AAGAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTT-GAAAAAAAAATATTTCTTTCA
*
14130559 AAAAATGTATTTCAT
65 AAAAATGTATTTCAC
*
14130574 AAGAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAT
1 AAGAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAAAAAAT
14130628 TTTTTAAAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
76 8 0.07
77 20 0.17
78 7 0.06
79 47 0.41
80 33 0.29
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (79 bp):
AAGAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAAAAAATATTTCTTTCAA
AAAATGTATTTCAC
Found at i:14130664 original size:59 final size:58
Alignment explanation
Indices: 14130577--14130803 Score: 232
Period size: 59 Copynumber: 3.9 Consensus size: 58
14130567 ATTTCATAAG
* *
14130577 AAATA-TTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTTTTTAA
1 AAATATTTTTTGAAGAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAAATTTTTAAA
* *
14130635 AAATATTTTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAGATACAATTTTCAAA
1 AAATATTTTTTGAAG-AAAAGTTGAAAGTATCAATTTTT-TTGAAA-ATAAAATTTTTAAA
* * * *
14130694 AGAT-TTCTTTTGAAGAAAGGTTGAGAA-TATCAATTTTTTTTGAAAACAAAATTTTCAAAA
1 AAATATT-TTTTGAAGAAAAGTTGA-AAGTATCAA-TTTTTTTGAAAATAAAATTTT-TAAA
* * * *
14130754 AAAAATTTTTTGAAAAAAAGTTGAAAGTATCAATTTTATT-CAAATAAAAT
1 AAATATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAAAT
14130804 CATTTGTCTT
Statistics
Matches: 142, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
58 22 0.15
59 79 0.56
60 39 0.27
61 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (58 bp):
AAATATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAAATTTTTAAA
Found at i:14130769 original size:15 final size:15
Alignment explanation
Indices: 14130729--14130772 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14130719 AATATCAATT
14130729 TTTTTTGAAAACAAAA
1 TTTTTTGAAAA-AAAA
**
14130745 -TTTTCAAAAAAAAA
1 TTTTTTGAAAAAAAA
14130759 TTTTTTGAAAAAAA
1 TTTTTTGAAAAAAA
14130773 GTTGAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTTTTGAAAAAAAA
Found at i:14133969 original size:6 final size:6
Alignment explanation
Indices: 14133952--14133981 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14133942 AATAAAATAT
*
14133952 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
14133982 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:14141262 original size:85 final size:84
Alignment explanation
Indices: 14141074--14141474 Score: 296
Period size: 85 Copynumber: 4.8 Consensus size: 84
14141064 ATTTGTCTAC
* * * * * * *** **
14141074 TTTTAGACTTTGATTCCATCCAGGTTATTTTGTTCTTAGAATTTGACCTATGTTAGGTCCTTCTT
1 TTTTAGACTTCGATTCCATCCAGATCATTTTGTT-TTGGATTTTGACTTATACCAAATCCTT-TT
* *
14141139 C-GGTTTAGTCCAAGTTACTTA
64 CTGG-TCAGTCTAAGTTACTTA
* * * *
14141160 TTTTAGATTTTGGTTCCATCCAGATCATTTTGTTTTGGATTTTGACTTATACCATATCCTTTTCT
1 TTTTAGACTTCGATTCCATCCAGATCATTTTGTTTTGGATTTTGACTTATACCAAATCCTTTTCT
14141225 GGGTCAGTCTAAGTTACTTA
66 -GGTCAGTCTAAGTTACTTA
* * * * ***
14141245 TTTCAGACTTCGATTCCATCTAGGTCATTTTGTTTTGGATTTTAACTTATGTTAAATCC-TTTCT
1 TTTTAGACTTCGATTCCATCCAGATCATTTTGTTTTGGATTTTGACTTATACCAAATCCTTTTCT
* *
14141309 --TCAATCCT-AGTTATTTA
66 GGTCAGT-CTAAGTTACTTA
* * * * *
14141326 TTTTAGACTTCGATTTCATCCA-AGTCAATTTGTTTTGGATTTT-AGCCTATACCAGATCTTTCT
1 TTTTAGACTTCGATTCCATCCAGA-TCATTTTGTTTTGGATTTTGA-CTTATACCAAATCCTT-T
* *
14141389 TC-GGCTTAGTCTAAGTTATTTA
63 TCTGG-TCAGTCTAAGTTACTTA
* * * * * * *
14141411 TTTTAGATTTTGATTCGATCCAGATCATTATGCTTTGGAATTTTGGCTTATGCCAAATCCTTTT
1 TTTTAGACTTCGATTCCATCCAGATCATTTTGTTTTGG-ATTTTGACTTATACCAAATCCTTTT
14141475 TCGACTTAGT
Statistics
Matches: 249, Mismatches: 52, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
80 1 0.00
81 57 0.23
82 3 0.01
83 3 0.01
84 10 0.04
85 125 0.50
86 50 0.20
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.47
Consensus pattern (84 bp):
TTTTAGACTTCGATTCCATCCAGATCATTTTGTTTTGGATTTTGACTTATACCAAATCCTTTTCT
GGTCAGTCTAAGTTACTTA
Found at i:14141332 original size:166 final size:167
Alignment explanation
Indices: 14141151--14141473 Score: 375
Period size: 166 Copynumber: 1.9 Consensus size: 167
14141141 GTTTAGTCCA
* * * * *
14141151 AGTTACTTATTTTAGATTTTGGTTCCATCC-AGATCATTTTGTTTTGGATTTT-GACTTATACCA
1 AGTTACTTATTTTAGACTTCGATTCCATCCAAG-TCAATTTGTTTTGGATTTTAG-CCTATACCA
* * * * * *
14141214 TATCCTT-TTCTGGGTCAGTCTAAGTTACTTATTTCAGACTTCGATTCCATCTAGGTCATTTTGT
64 GATCCTTCTTC-GGCTCAGTCTAAGTTACTTATTTCAGACTTCGATTCCATCCAGATCATTATGC
**
14141278 TTTGG-ATTTTAACTTATGTTAAATCCTTTCTTCAATCCT
128 TTTGGAATTTTAACTTATGCCAAATCCTTTCTTCAATCCT
* *
14141317 AGTTATTTATTTTAGACTTCGATTTCATCCAAGTCAATTTGTTTTGGATTTTAGCCTATACCAGA
1 AGTTACTTATTTTAGACTTCGATTCCATCCAAGTCAATTTGTTTTGGATTTTAGCCTATACCAGA
* * * * * * *
14141382 TCTTTCTTCGGCTTAGTCTAAGTTATTTATTTTAGATTTTGATTCGATCCAGATCATTATGCTTT
66 TCCTTCTTCGGCTCAGTCTAAGTTACTTATTTCAGACTTCGATTCCATCCAGATCATTATGCTTT
**
14141447 GGAATTTTGGCTTATGCCAAATCCTTT
131 GGAATTTTAACTTATGCCAAATCCTTT
14141474 TTCGACTTAG
Statistics
Matches: 129, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
166 103 0.80
167 26 0.20
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (167 bp):
AGTTACTTATTTTAGACTTCGATTCCATCCAAGTCAATTTGTTTTGGATTTTAGCCTATACCAGA
TCCTTCTTCGGCTCAGTCTAAGTTACTTATTTCAGACTTCGATTCCATCCAGATCATTATGCTTT
GGAATTTTAACTTATGCCAAATCCTTTCTTCAATCCT
Found at i:14141408 original size:81 final size:82
Alignment explanation
Indices: 14141157--14141409 Score: 203
Period size: 81 Copynumber: 3.1 Consensus size: 82
14141147 TCCAAGTTAC
* * * * *
14141157 TTATTTTAGATTTTGGTTCCATCC-AGATCATTTTGTTTTGGATTTT-GACTTATACCATATCCT
1 TTATTTTAGACTTCGATTCCATCCAAG-TCATTTTGTTTTGGATTTTAG-CTTATACCAAATCTT
* * *
14141220 T-TTCTGGGTCAGTCTAAG
64 TCTTCAGGCTTAGTCTAAG
* * * ***
14141238 TTACTTATTTCAGACTTCGATTCCATCTAGGTCATTTTGTTTTGGATTTTAACTTATGTTAAATC
1 TTA--T-TTT-AGACTTCGATTCCATCCAAGTCATTTTGTTTTGGATTTTAGCTTATACCAAAT-
** * *
14141303 CTTTCTTCAATCCTAGT-T-AT
61 CTTTCTTCAGGCTTAGTCTAAG
* * * *
14141323 TTATTTTAGACTTCGATTTCATCCAAGTCAATTTGTTTTGGATTTTAGCCTATACCAGATCTTTC
1 TTATTTTAGACTTCGATTCCATCCAAGTCATTTTGTTTTGGATTTTAGCTTATACCAAATCTTTC
14141388 TTC-GGCTTAGTCTAAG
66 TTCAGGCTTAGTCTAAG
14141404 TTATTT
1 TTATTT
14141410 ATTTTAGATT
Statistics
Matches: 130, Mismatches: 32, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
79 5 0.04
80 9 0.07
81 53 0.41
82 3 0.02
83 2 0.02
84 3 0.02
85 44 0.34
86 5 0.04
87 6 0.05
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (82 bp):
TTATTTTAGACTTCGATTCCATCCAAGTCATTTTGTTTTGGATTTTAGCTTATACCAAATCTTTC
TTCAGGCTTAGTCTAAG
Found at i:14144152 original size:15 final size:15
Alignment explanation
Indices: 14144132--14144168 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14144122 AAACAAAAGA
* *
14144132 CAAGTGCAGCAATGG
1 CAAGTGCAACAATAG
14144147 CAAGTGCAACAATAG
1 CAAGTGCAACAATAG
14144162 CAAGTGC
1 CAAGTGC
14144169 TATTTCAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.14
Consensus pattern (15 bp):
CAAGTGCAACAATAG
Found at i:14145164 original size:15 final size:15
Alignment explanation
Indices: 14145144--14145199 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
14145134 TTTTTTATTT
* *
14145144 TTATATATATGTGAA
1 TTATATATATATAAA
* *
14145159 TTATATATAAATTAA
1 TTATATATATATAAA
*
14145174 TTCACATATATATAAA
1 TT-ATATATATATAAA
14145190 TTATATATAT
1 TTATATATAT
14145200 TTAATTAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (15 bp):
TTATATATATATAAA
Found at i:14145246 original size:24 final size:24
Alignment explanation
Indices: 14145214--14145280 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 24
14145204 TTAAACTTAA
14145214 TTTTTATTTTTATATAATTTTTAT
1 TTTTTATTTTTATATAATTTTTAT
14145238 TTTTTATTTTAGATATATAATTTTTAT
1 TTTTTATTTT---TATATAATTTTTAT
* *
14145265 TTTTAATTTATATATA
1 TTTTTATTTTTATATA
14145281 TGTAAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 16 0.42
27 22 0.58
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (24 bp):
TTTTTATTTTTATATAATTTTTAT
Found at i:14145254 original size:27 final size:26
Alignment explanation
Indices: 14145224--14145281 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
14145214 TTTTTATTTT
*
14145224 TATATAATTTTTATTTTTTATTTTAGA
1 TATATAATTTTTA-TTTTTAATTTAGA
*
14145251 TATATAATTTTTATTTTTAATTTATA
1 TATATAATTTTTATTTTTAATTTAGA
14145277 TATAT
1 TATAT
14145282 GTAAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TATATAATTTTTATTTTTAATTTAGA
Found at i:14145276 original size:20 final size:19
Alignment explanation
Indices: 14145210--14145276 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
14145200 TTAATTAAAC
*
14145210 TTAATTT-TTATTTTTA-T
1 TTAATTTATAATTTTTATT
* * *
14145227 ATAATTTTTATTTTTTATT
1 TTAATTTATAATTTTTATT
*
14145246 TTAGATATATAATTTTTATTT
1 TTA-ATTTATAATTTTTA-TT
14145267 TTAATTTATA
1 TTAATTTATA
14145277 TATATGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
17 6 0.16
18 7 0.18
19 3 0.08
20 17 0.45
21 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (19 bp):
TTAATTTATAATTTTTATT
Found at i:14146354 original size:30 final size:31
Alignment explanation
Indices: 14146300--14146363 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
14146290 AAATAGGCTT
*
14146300 TACTGTGCTTCTTGTCTAAATCTTGCAAGAA
1 TACTGTGCTTATTGTCTAAATCTTGCAAGAA
*
14146331 TACTGTGCTTATTGTCT-AATCTTGCAAGCA
1 TACTGTGCTTATTGTCTAAATCTTGCAAGAA
14146361 TAC
1 TAC
14146364 ACAAAGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TACTGTGCTTATTGTCTAAATCTTGCAAGAA
Found at i:14154595 original size:30 final size:29
Alignment explanation
Indices: 14154556--14154617 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
14154546 CTCCTGAATT
14154556 AAAAAAAAATACTTTAAATTTT-TTATTTC
1 AAAAAAAAATACTTTAAATTTTATT-TTTC
* *
14154585 AAAAATAAAATACTTTTACTTTTATTTTTC
1 AAAAA-AAAATACTTTAAATTTTATTTTTC
14154615 AAA
1 AAA
14154618 GTGAGATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 22 0.76
31 2 0.07
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAAAAAAATACTTTAAATTTTATTTTTC
Found at i:14156013 original size:35 final size:32
Alignment explanation
Indices: 14155965--14156028 Score: 74
Period size: 35 Copynumber: 1.9 Consensus size: 32
14155955 ATATTATTTC
* *
14155965 AATAATAATATATTTAATTTTAAAACATATTTAAA
1 AATAATAAAATA-TT-ATTATAAAA-ATATTTAAA
*
14156000 AATATTAAAATATTATTATAAAAATATTT
1 AATAATAAAATATTATTATAAAAATATTT
14156029 TTAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 6 0.23
33 8 0.31
34 2 0.08
35 10 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (32 bp):
AATAATAAAATATTATTATAAAAATATTTAAA
Found at i:14156035 original size:23 final size:22
Alignment explanation
Indices: 14155984--14156027 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
14155974 ATATTTAATT
*
14155984 TTAAAACA-TATT-TAAAAATA
1 TTAAAATATTATTATAAAAATA
14156004 TTAAAATATTATTATAAAAATA
1 TTAAAATATTATTATAAAAATA
14156026 TT
1 TT
14156028 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATATTATTATAAAAATA
Found at i:14156950 original size:27 final size:26
Alignment explanation
Indices: 14156920--14156987 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
14156910 TATGTTGGGG
*
14156920 AATTAAATATTTTTTATTTTAAATATA
1 AATTAAATATTTTTTATTTT-AATAGA
** *
14156947 AATTATTTAATTTTTATTTTAATAGA
1 AATTAAATATTTTTTATTTTAATAGA
*
14156973 AATTAAA-ATTATTTA
1 AATTAAATATTTTTTA
14156988 GCTCACTTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 6 0.18
26 10 0.30
27 17 0.52
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTAAATATTTTTTATTTTAATAGA
Found at i:14157376 original size:61 final size:61
Alignment explanation
Indices: 14157225--14157377 Score: 159
Period size: 62 Copynumber: 2.5 Consensus size: 61
14157215 TCGTATAAGG
* * * *
14157225 GACATAATAATAATTTTGATCAATTATGGTAGGAGGGACATTTTTGTTAATATAGTATGAAT
1 GACATTAT-ATAATTTTGATCAATTATAGTAGGAGAGACATTTTTGTTAATATAGTAAGAAT
* * * * *
14157287 GATATTATATAAATTTTGGTCAAATATAGTATGAGAGATATTTTTG-TAAT-TATGATAAG-AT
1 GACATTATAT-AATTTTGATCAATTATAGTAGGAGAGACATTTTTGTTAATATA-G-TAAGAAT
14157348 GACATTATACTAATTTTGATCAATTATAGT
1 GACATTATA-TAATTTTGATCAATTATAGT
14157378 TGGTGGGTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
60 2 0.03
61 34 0.45
62 39 0.52
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (61 bp):
GACATTATATAATTTTGATCAATTATAGTAGGAGAGACATTTTTGTTAATATAGTAAGAAT
Found at i:14157672 original size:18 final size:20
Alignment explanation
Indices: 14157632--14157673 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
14157622 AATTTATTAA
*
14157632 AAAAATAATTTTAGAGTTTG
1 AAAAATAATTTTAGAGTTCG
14157652 AAAAATAA-TTT-GAGTTCG
1 AAAAATAATTTTAGAGTTCG
14157670 AAAA
1 AAAA
14157674 TCAATTACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.33
Consensus pattern (20 bp):
AAAAATAATTTTAGAGTTCG
Found at i:14160658 original size:163 final size:164
Alignment explanation
Indices: 14160465--14160802 Score: 384
Period size: 163 Copynumber: 2.1 Consensus size: 164
14160455 GATACTTATG
* * ** *
14160465 AATGCTCCTCT-TATTAGAGGCTCTACAAC-TTTAAATTTTTAAAATATT-TTGCTCGAAGGACT
1 AATGCTCCTCTATATTAGAGGCTCCACAACTTTTAAA-ATTTAAAATATTCTACCT-AAAGGACT
* * * * * * * * *
14160527 TAT-GAATCTTGATACTAAATAGATTTAGCTTGGAAGATTTATGAATCTTGCCTGAAA-GACTTG
64 T-TCAAATCATGACACTAAATAGATTTAACTCGAAAGACTTAAGAATCTTG-CTCAAAGGACTTG
* * * *
14160590 AAGACTATGCTCGAAGGTCTTAT-AATTCTCAACACTTA
127 AAGACTATGCTCAAAAGTATTATAAATT-TCAACAATTA
*
14160628 AATGCTCCTCTATA-TAGATGCTCCACAACTTTTAAAATTTAAAATATTCTACCTAAAGGACTTT
1 AATGCTCCTCTATATTAGAGGCTCCACAACTTTTAAAATTTAAAATATTCTACCTAAAGGACTTT
* *
14160692 CAAATCATGACACTAAATAGATTTAACTCGAAAGACTTAAGAATCTTGTTCAAAGGACTTGGAGA
66 CAAATCATGACACTAAATAGATTTAACTCGAAAGACTTAAGAATCTTGCTCAAAGGACTTGAAGA
*
14160757 CTATGCTCAAAAGTATTATAAATTTTAACAATTA
131 CTATGCTCAAAAGTATTATAAATTTCAACAATTA
14160791 AATGCTCCTCTA
1 AATGCTCCTCTA
14160803 AACAAAGGCT
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
162 5 0.03
163 127 0.86
164 15 0.10
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (164 bp):
AATGCTCCTCTATATTAGAGGCTCCACAACTTTTAAAATTTAAAATATTCTACCTAAAGGACTTT
CAAATCATGACACTAAATAGATTTAACTCGAAAGACTTAAGAATCTTGCTCAAAGGACTTGAAGA
CTATGCTCAAAAGTATTATAAATTTCAACAATTA
Found at i:14170348 original size:31 final size:31
Alignment explanation
Indices: 14170261--14170354 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
14170251 GTAATTTTGA
*
14170261 TCAATAATAAGAAAAGAGGTATTTTCGTAAT
1 TCAATAATAAGAAAAGAGGTATTTTTGTAAT
*
14170292 TCAACAATAAGAAAATG-GGTATTTTTGTAAT
1 TCAATAATAAGAAAA-GAGGTATTTTTGTAAT
** *
14170323 TCAATAATAAGTGAAGAGGTATTTTTATAAT
1 TCAATAATAAGAAAAGAGGTATTTTTGTAAT
14170354 T
1 T
14170355 ATGATATGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 53 0.96
32 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (31 bp):
TCAATAATAAGAAAAGAGGTATTTTTGTAAT
Found at i:14170409 original size:54 final size:54
Alignment explanation
Indices: 14170342--14170521 Score: 174
Period size: 55 Copynumber: 3.4 Consensus size: 54
14170332 AGTGAAGAGG
* *
14170342 TATTTTTATAATTATGATATGATGGTATTATAGTAAATAATTATAAAAGAATGGA
1 TATTTTCATAATTATGATATGATGGTATTATAATAAATAATTATAAAAGAA-GGA
* * * * * * * *
14170397 TATTTT-GTAATTATTATATGAGGGCATAACAATCAAT--TTAT-GAA-AAGGA
1 TATTTTCATAATTATGATATGATGGTATTATAATAAATAATTATAAAAGAAGGA
* *
14170446 GTATTTTCATAATTATGATATAAAT-GTATTATAACAAATAATTATAAAAGAAAGGA
1 -TATTTTCATAATTATGATAT-GATGGTATTATAATAAATAATTATAAAAG-AAGGA
14170502 TATTTTCATAATTATGATAT
1 TATTTTCATAATTATGATAT
14170522 AAGGATAAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
49 3 0.03
50 8 0.08
51 22 0.22
52 5 0.05
53 4 0.04
54 25 0.26
55 26 0.27
56 5 0.05
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (54 bp):
TATTTTCATAATTATGATATGATGGTATTATAATAAATAATTATAAAAGAAGGA
Found at i:14170643 original size:4 final size:4
Alignment explanation
Indices: 14170636--14170660 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14170626 TATATATATT
14170636 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
14170661 GTAGCTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:14177298 original size:20 final size:20
Alignment explanation
Indices: 14177260--14177299 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14177250 CATATCTTTG
*
14177260 AAGTAAATTGTAAAGTAAAA
1 AAGTAAATTGCAAAGTAAAA
14177280 AAGTAAA-TGCAAAGCTAAAA
1 AAGTAAATTGCAAAG-TAAAA
14177300 CTTTGAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (20 bp):
AAGTAAATTGCAAAGTAAAA
Found at i:14183904 original size:20 final size:19
Alignment explanation
Indices: 14183867--14183905 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14183857 TCAACTAAGC
14183867 TAAATTTTAAATTAAAAAA
1 TAAATTTTAAATTAAAAAA
* *
14183886 TAAATATTTGAATTTAAAAA
1 TAAAT-TTTAAATTAAAAAA
14183906 CAATAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TAAATTTTAAATTAAAAAA
Found at i:14184376 original size:5 final size:5
Alignment explanation
Indices: 14184368--14184408 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
14184358 TAAAATAATA
*
14184368 TTATT TTATT TTATT TTATT TATAATA TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT T-T-ATT TTATT TTATT TTAT
14184409 CATAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 27 0.84
6 2 0.06
7 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:14185724 original size:34 final size:34
Alignment explanation
Indices: 14185685--14185752 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
14185675 AGTTGCCAAC
*
14185685 GCGCTTTTGCTTGGATTACCGTTTTAGTTGCTTT
1 GCGCTTTTGCTTGGATTACCGTTCTAGTTGCTTT
*
14185719 GCGCTTTTGCTTGGATTTCCGTTCTAGTTGCTTT
1 GCGCTTTTGCTTGGATTACCGTTCTAGTTGCTTT
14185753 ATGCTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.07, C:0.19, G:0.24, T:0.50
Consensus pattern (34 bp):
GCGCTTTTGCTTGGATTACCGTTCTAGTTGCTTT
Found at i:14197693 original size:16 final size:16
Alignment explanation
Indices: 14197668--14197698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14197658 ACTTGAGGTC
14197668 CAAAAACAGCAAAAAG
1 CAAAAACAGCAAAAAG
*
14197684 CAAAAGCAGCAAAAA
1 CAAAAACAGCAAAAA
14197699 AACCCGGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.19, G:0.13, T:0.00
Consensus pattern (16 bp):
CAAAAACAGCAAAAAG
Found at i:14198607 original size:20 final size:21
Alignment explanation
Indices: 14198565--14198611 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
14198555 TATTTTTAAA
* **
14198565 TTATAATAAAATTTTAATTTT
1 TTATAATAAAATTTAAAAATT
14198586 TTAT-ATAAAATTTAAAAATT
1 TTATAATAAAATTTAAAAATT
14198606 TT-TAAT
1 TTATAAT
14198612 GTGATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 17 0.77
21 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATAAAATTTAAAAATT
Found at i:14198607 original size:21 final size:21
Alignment explanation
Indices: 14198565--14198609 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14198555 TATTTTTAAA
* *
14198565 TTATAATAAAATTTTAATTTT
1 TTATAATAAAATTTAAAATTT
14198586 TTAT-ATAAAATTTAAAAATTT
1 TTATAATAAAATTT-AAAATTT
14198607 TTA
1 TTA
14198610 ATGTGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATAAAATTTAAAATTT
Found at i:14198753 original size:16 final size:16
Alignment explanation
Indices: 14198732--14198772 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
14198722 CAAATATCAT
14198732 ATTAAATATTTTAAAA
1 ATTAAATATTTTAAAA
*
14198748 ATTAAAATATTTTTAAA
1 ATT-AAATATTTTAAAA
14198765 ATTAAATA
1 ATTAAATA
14198773 ATAATGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAATATTTTAAAA
Found at i:14198844 original size:28 final size:28
Alignment explanation
Indices: 14198718--14198853 Score: 88
Period size: 28 Copynumber: 4.9 Consensus size: 28
14198708 TTATTATTTT
* *
14198718 AATTCAAATATCATATTAAATATTTTAAA
1 AATTAAAATATTATATTAAATATTTT-AA
14198747 AATTAAAATATT-T-TTAAA-A--TTAA
1 AATTAAAATATTATATTAAATATTTTAA
* * * *
14198770 ATAATAATGATCATTTTATTAATTTATTTTAA
1 A-ATTAA-AAT-ATTATATTAA-ATATTTTAA
* *
14198802 ATTTAAACA-A-CATATTAAATATTTTAA
1 AATTAAA-ATATTATATTAAATATTTTAA
*
14198829 AATTAAAATATTATATTAAACATTT
1 AATTAAAATATTATATTAAATATTT
14198854 AATTATAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 25
0.68 0.12 0.21
Matches are distributed among these distances:
23 3 0.04
24 6 0.07
25 2 0.02
26 5 0.06
27 21 0.26
28 23 0.28
29 11 0.14
30 1 0.01
31 4 0.05
32 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (28 bp):
AATTAAAATATTATATTAAATATTTTAA
Found at i:14207062 original size:16 final size:17
Alignment explanation
Indices: 14207041--14207073 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14207031 TATTTGGTAC
14207041 AATA-TTATAAATCACT
1 AATATTTATAAATCACT
*
14207057 AATATTTTTAAATCACT
1 AATATTTATAAATCACT
14207074 GTATTTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATTTATAAATCACT
Found at i:14214254 original size:12 final size:12
Alignment explanation
Indices: 14214233--14214291 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
14214223 GAATGGGGAA
14214233 GAAGACGATGAT
1 GAAGACGATGAT
* *
14214245 GAAGAGGATGGT
1 GAAGACGATGAT
*
14214257 GAAGATCCAGAGGAT
1 GAAGA--C-GATGAT
14214272 GAAGACGATGAT
1 GAAGACGATGAT
*
14214284 GATGACGA
1 GAAGACGA
14214292 CGAAGAGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 27 0.73
13 1 0.03
15 9 0.24
ACGTcount: A:0.39, C:0.08, G:0.37, T:0.15
Consensus pattern (12 bp):
GAAGACGATGAT
Found at i:14214287 original size:15 final size:15
Alignment explanation
Indices: 14214265--14214306 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14214255 GTGAAGATCC
14214265 AGAGGATGAAGACGA
1 AGAGGATGAAGACGA
* * *
14214280 TGATGATGACGACGA
1 AGAGGATGAAGACGA
14214295 AGAGGATGAAGA
1 AGAGGATGAAGA
14214307 TGAGGAAGAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.38, T:0.12
Consensus pattern (15 bp):
AGAGGATGAAGACGA
Found at i:14215263 original size:2 final size:2
Alignment explanation
Indices: 14215256--14215294 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
14215246 AGGAACCATT
* *
14215256 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14215295 GAAGGGGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14229999 original size:35 final size:35
Alignment explanation
Indices: 14229865--14230052 Score: 132
Period size: 35 Copynumber: 5.4 Consensus size: 35
14229855 CAAGATGTGT
* * * *
14229865 CTCAACCTTTAAAG-CTTCTTTCCTTGATTGAAAAC
1 CTCAACCTATAAAGATTTCTTT-CTTGGTTGAAAAA
*
14229900 CTCAACCTATAAAGATTT-TTCCTTGGTT-AAAAA
1 CTCAACCTATAAAGATTTCTTTCTTGGTTGAAAAA
* * *** *
14229933 CCCCAACCTATAAAGCTTTCAACCTTAGTTGAAAAA
1 -CTCAACCTATAAAGATTTCTTTCTTGGTTGAAAAA
* * *
14229969 CTCAACCTATAAAGATTTCTTTTTTGGTTGAGATA
1 CTCAACCTATAAAGATTTCTTTCTTGGTTGAAAAA
* * * * * *
14230004 CTGAACTTATAGA-ACTTCTTTCCTTGGTCGAAATA
1 CTCAACCTATAAAGATTTCTTT-CTTGGTTGAAAAA
*
14230039 CTCAAGCTATAAAG
1 CTCAACCTATAAAG
14230053 GTCCGTTTAT
Statistics
Matches: 117, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
33 4 0.03
34 29 0.25
35 77 0.66
36 7 0.06
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (35 bp):
CTCAACCTATAAAGATTTCTTTCTTGGTTGAAAAA
Found at i:14232508 original size:165 final size:165
Alignment explanation
Indices: 14232234--14232544 Score: 398
Period size: 165 Copynumber: 1.9 Consensus size: 165
14232224 GGGGAATGGA
* * *
14232234 ATATAACTTCAAATGGTCTGAAAAAAGTTTTTAGTAATGATGCATGCTAGAATCTGATTTATTTT
1 ATATAACTTCAAATGGTCTGAAAAAAGTTTCTAGTAATGAAGCATGCTAGAATCTAATTTATTTT
* * * * * *
14232299 TAGAGCGGGTTGCATTAGCTTCTTATTTATTTGATATACTAAGCTTTTGAAGTGTTGCTAATGGT
66 TAAAGCAGGTTGCATTAGCTTCTTATTTATTTAATATACTAAGCTATTGAAGTGGTGCTAATGAT
14232364 -GGGATTGAAGCACATAAATTGTTATTATGGAAATC
131 GGGGA-TGAAGCACATAAATTGTTATTATGGAAATC
* * *
14232399 ATATAACTTCAAATGGTCTGAAAGAACA-TTTCT-GTATTTGACAG-ATTCTAGGATCTAATTTA
1 ATATAACTTCAAATGGTCTGAAA-AA-AGTTTCTAGTA-ATGA-AGCATGCTAGAATCTAATTTA
* * *
14232461 -TTTTAAAGCAGGTTGGATTTGCTTCTTATTTATTTAATATGCTAAGCTATTGAAGTGGTGCTAA
62 TTTTTAAAGCAGGTTGCATTAGCTTCTTATTTATTTAATATACTAAGCTATTGAAGTGGTGCTAA
*
14232525 TGATGGGGATGAAGTACATA
127 TGATGGGGATGAAGCACATA
14232545 TATATCATTC
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
165 95 0.76
166 28 0.22
167 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (165 bp):
ATATAACTTCAAATGGTCTGAAAAAAGTTTCTAGTAATGAAGCATGCTAGAATCTAATTTATTTT
TAAAGCAGGTTGCATTAGCTTCTTATTTATTTAATATACTAAGCTATTGAAGTGGTGCTAATGAT
GGGGATGAAGCACATAAATTGTTATTATGGAAATC
Found at i:14247920 original size:29 final size:30
Alignment explanation
Indices: 14247887--14247948 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
14247877 TTTAAAAATT
*
14247887 TTTTTA-ATTATGTATTA-TTATTAAGTTTA
1 TTTTTATATTAT-TATTATTTATAAAGTTTA
* *
14247916 TTTTTATTTTATTTTTATTTATAAAGTTTA
1 TTTTTATATTATTATTATTTATAAAGTTTA
14247946 TTT
1 TTT
14247949 AAAAATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (30 bp):
TTTTTATATTATTATTATTTATAAAGTTTA
Found at i:14249072 original size:16 final size:18
Alignment explanation
Indices: 14249046--14249078 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14249036 TCTTTGTTTC
14249046 TTGGCTTTTGT-TTTTTT
1 TTGGCTTTTGTATTTTTT
14249063 TTGG-TTTTGTATTTTT
1 TTGGCTTTTGTATTTTT
14249079 GGTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.03, G:0.18, T:0.76
Consensus pattern (18 bp):
TTGGCTTTTGTATTTTTT
Found at i:14249098 original size:21 final size:22
Alignment explanation
Indices: 14249074--14249119 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
14249064 TGGTTTTGTA
* *
14249074 TTTTTGGTTTATTTT-TTTCAT
1 TTTTTGGTGTATTTTGTTTAAT
*
14249095 TTTTTTGTGTATTTTGTTTAAT
1 TTTTTGGTGTATTTTGTTTAAT
14249117 TTT
1 TTT
14249120 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (22 bp):
TTTTTGGTGTATTTTGTTTAAT
Found at i:14249140 original size:5 final size:5
Alignment explanation
Indices: 14249122--14249160 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
14249112 TTAATTTTAA
14249122 AAAAT AATAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAA
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
14249161 AAGGGTAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:14249153 original size:9 final size:9
Alignment explanation
Indices: 14249130--14249159 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14249120 AAAAAATAAT
14249130 AATAAAATAA
1 AATAAAAT-A
14249140 AATAAAATA
1 AATAAAATA
14249149 AATAAAATA
1 AATAAAATA
14249158 AA
1 AA
14249160 AAAGGGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAATA
Found at i:14249153 original size:14 final size:15
Alignment explanation
Indices: 14249122--14249160 Score: 62
Period size: 14 Copynumber: 2.6 Consensus size: 15
14249112 TTAATTTTAA
14249122 AAAATAATAATAAAAT
1 AAAATAA-AATAAAAT
14249138 AAAATAAAAT-AAAT
1 AAAATAAAATAAAAT
14249152 AAAATAAAA
1 AAAATAAAA
14249161 AAGGGTAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:14249215 original size:23 final size:23
Alignment explanation
Indices: 14249189--14249234 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14249179 AATAACAAAA
* **
14249189 TAGGCTTCAGGCCTGATCGAATT
1 TAGGCTTCAAGCCCAATCGAATT
14249212 TAGGCTTCAAGCCCAATCGAATT
1 TAGGCTTCAAGCCCAATCGAATT
14249235 GAAATTAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
TAGGCTTCAAGCCCAATCGAATT
Found at i:14249531 original size:49 final size:47
Alignment explanation
Indices: 14249452--14250162 Score: 344
Period size: 49 Copynumber: 14.8 Consensus size: 47
14249442 AAATTGAAAT
* * * *
14249452 GCTCCTCTTACTCGAGGCTTCACAACTTTAAAAATTTTTATCTTAAAAA
1 GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAA-TTCTATCTTAAAAA
* * *
14249501 GCTCTTATTAGTAGAGGTTTAATAACTTTAAAAATTCTATCTTAAAAA
1 GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTTAAAAA
* * * *
14249549 GGCTCCTCTAAGCAGAGGTTAACAAC-TTAAAAACTCTATCTTGAAAAG
1 -GCTCCTCTTAGTAGAGGTTAACAACTTTAAAAATTCTATCTT-AAAAA
*
14249597 GCTCCTCTTAGTAGAGGCTCAACAACTTT-AAAATTC--TCTTGAAAAA
1 GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* * * * * *
14249643 GACTCTTCTCAGCAGAGGCTCAACAATTTTAAAAATTCTATATTAAAAA
1 G-CTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTTAAAAA
* * * *
14249692 GGCTTCTCTCAGCAGAGGTTTAACAACTTTAAAACTT-TATCTTGAAAAA
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* * * * *
14249741 GGCTCATCTCAGCAGAGGCTCAATAACTTT-AAAATTC--TCTTGAAAAA
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* ** * *
14249788 GGCTCATCCCAGCAGAGGCTTAACAACTTT-AAAA--CTCTCTTGAAAAA
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* * ** * * *
14249835 GGCTCATCTCAACAGAAGCTCAACAAC-TTAAAAATTTTATCTTAAAAA
1 -GCTCCTCTTAGTAG-AGGTTAACAACTTTAAAAATTCTATCTTAAAAA
* * * * * * * *
14249883 TACTTCTCTTAGCAGAGGCTCAATAACTTT-AGAACTCTATCTTGAAAAG
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* ** *
14249932 GCTCCTCTCAACAGAGGCTTAACAATTTTAAAAATTCTATCTTAAAAA
1 GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTTAAAAA
* * * *
14249980 GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAACTT-TATCTTGAAAAA
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT-AAAAA
* * * * * * *
14250029 GGCT-ATTTTCAGCAGAGGCTCAATAA-TTTTAAAATTTTATCTTAAAAA
1 -GCTCCTCTT-AGTAGAGG-TTAACAACTTTAAAAATTCTATCTTAAAAA
* * **
14250077 GGGTCCTCTCAACAGAGGCTTAACAACTTT-AAAATTCT-T-TTAAAAAAA
1 -GCTCCTCTTAGTAGAGG-TTAACAACTTTAAAAATTCTATCTT--AAAAA
* * * *
14250125 GCTCATCTTAGCAGAAGCTCAACAACTTTAAAAATTCT
1 GCTCCTCTTAGTAG-AGGTTAACAACTTTAAAAATTCT
14250163 CTTGAAAAAG
Statistics
Matches: 538, Mismatches: 93, Indels: 63
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.00
46 14 0.03
47 152 0.28
48 172 0.32
49 195 0.36
50 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (47 bp):
GCTCCTCTTAGTAGAGGTTAACAACTTTAAAAATTCTATCTTAAAAA
Found at i:14249576 original size:48 final size:49
Alignment explanation
Indices: 14249465--14250208 Score: 706
Period size: 48 Copynumber: 15.5 Consensus size: 49
14249455 CCTCTTACTC
* * * * *
14249465 GAGGCTTC-ACAACTTTAAAAATTTTTATCTTAAAAA-GCTCTTATTAGTA
1 GAGGC-TCAACAACTTTAAAAA-TTCTATCTTAAAAAGGCTCCTCTCAGCA
* * * *
14249514 GAGGTTTAATAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTAAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* * * * *
14249563 GAGG-TTAACAAC-TTAAAAACTCTATCTTGAAAAGGCTCCTCTTAGTA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* *
14249610 GAGGCTCAACAACTTT-AAAATTC--TCTTGAAAAAGACTCTTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * *
14249657 GAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTTCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* * * *
14249706 GAGGTTTAACAACTTTAAAACTT-TATCTTGAAAAAGGCTCATCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * *
14249755 GAGGCTCAATAACTTT-AAAATTC--TCTTGAAAAAGGCTCATCCCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * * *
14249802 GAGGCTTAACAACTTT-AAAA--CTCTCTTGAAAAAGGCTCATCTCAACA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * ** * *
14249849 GAAGCTCAACAAC-TTAAAAATTTTATCTTAAAAATACTTCTCTTAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* * * * *
14249897 GAGGCTCAATAACTTT-AGAACTCTATCTTGAAAAGGCTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* *
14249945 GAGGCTTAACAATTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* ** *
14249994 GAGGCTCAACAACTTTAAAACTT-TATCTTGAAAAAGGCTATTTTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * * * *
14250043 GAGGCTCAATAA-TTTTAAAATTTTATCTTAAAAAGGGTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
* * * *
14250091 GAGGCTTAACAACTTT-AAAATTCT-T-TTAAAAAAAGCTCATCTTAGCA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
* * *
14250138 GAAGCTCAACAACTTTAAAAATTC--TCTTGAAAAAGGCTCATCTCAACA
1 GAGGCTCAACAACTTTAAAAATTCTATCTT-AAAAAGGCTCCTCTCAGCA
*
14250186 GAGCCTCAACAACTTTAAAAATT
1 GAGGCTCAACAACTTTAAAAATT
14250209 TTCATATGTT
Statistics
Matches: 573, Mismatches: 99, Indels: 47
0.80 0.14 0.07
Matches are distributed among these distances:
45 1 0.00
46 8 0.01
47 172 0.30
48 202 0.35
49 187 0.33
50 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (49 bp):
GAGGCTCAACAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCA
Found at i:14249596 original size:47 final size:48
Alignment explanation
Indices: 14249524--14250205 Score: 619
Period size: 47 Copynumber: 14.2 Consensus size: 48
14249514 GAGGTTTAAT
* * * *
14249524 AACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTAAGCAGAGG-TTAAC
1 AACTTT-AAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249572 AACTTAAAAACTCTATCTTGAAAAGGCTCCTCTTAGTAGAGGCTCAAC
1 AACTTTAAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249620 AACTTTAAAA-T-TCTCTTGAAAAAGACTCTTCTCAGCAGAGGCTCAAC
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * * * * *
14249667 AATTTTAAAAATTCTATATTAAAAAGGCTTCTCTCAGCAGAGGTTTAAC
1 AACTTT-AAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249716 AACTTTAAAACTTTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAAT
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * *
14249765 AACTTTAAAA-T-TCTCTTGAAAAAGGCTCATCCCAGCAGAGGCTTAAC
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249812 AACTTTAAAACTC--TCTTGAAAAAGGCTCATCTCAACAGAAGCTCAAC
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * * ** * * *
14249859 AACTTAAAAATTTTATCTTAAAAATACTTCTCTTAGCAGAGGCTCAAT
1 AACTTTAAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249907 AACTTTAGAACTCTATCTTGAAAAGGCTCCTCTCAACAGAGGCTTAAC
1 AACTTTAAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * *
14249955 AATTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCAGAGGCTCAAC
1 AACTTT-AAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* ** * *
14250004 AACTTTAAAACTTTATCTTGAAAAAGGCTATTTTCAGCAGAGGCTCAAT
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * * * * *
14250053 AATTTTAAAATTTTATCTTAAAAAGGGTCCTCTCAACAGAGGCTTAAC
1 AACTTTAAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * * * *
14250101 AACTTTAAAATTCT-T-TTAAAAAAAGCTCATCTTAGCAGAAGCTCAAC
1 AACTTTAAAACTCTATCTT-GAAAAGGCTCCTCTCAGCAGAGGCTCAAC
* * * * *
14250148 AACTTTAAAAAT-TCTCTTGAAAAAGGCTCATCTCAACAGAGCCTCAAC
1 AACTTTAAAACTCTATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAAC
14250196 AACTTTAAAA
1 AACTTTAAAA
14250206 ATTTTCATAT
Statistics
Matches: 515, Mismatches: 103, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
46 9 0.02
47 179 0.35
48 174 0.34
49 149 0.29
50 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (48 bp):
AACTTTAAAACTCTATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAAC
Found at i:14249807 original size:192 final size:194
Alignment explanation
Indices: 14249465--14250205 Score: 832
Period size: 192 Copynumber: 3.9 Consensus size: 194
14249455 CCTCTTACTC
* * * * * *
14249465 GAGGCTTC-ACAACTTTAAAAATTTTTATCTTAAAAA-GC-TCTTATTAGTAGAGGTTTAATAAC
1 GAGGC-TCAACAATTTTAAAAA-TTTTATCTTAAAAAGGCTTC-TCTCAGCAGAGGCTTAACAAC
* * * * *
14249527 TTTAAAAATTCTATCTT-AAAAAGGCTCCTCTAAGCAGAGG-TTAACAAC-TTAAAAACTCTATC
63 TTTAAAACTTCTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAA-T-TCTC
* * * *
14249589 TTG-AAAAGGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGACTCTTCTC
126 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGGCTCTTCTC
14249653 AGCA
191 AGCA
* * *
14249657 GAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTTCTCTCAGCAGAGGTTTAACAACTTT
1 GAGGCTCAACAATTTTAAAAATTTTATCTTAAAAAGGCTTCTCTCAGCAGAGGCTTAACAACTTT
*
14249722 AAAACTT-TATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTT-AAAATTCTCTTGAA
66 AAAACTTCTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCTTGAA
* * * * *
14249785 AAAGGCTCATCCCAGCAGAGGCTTAACAACTTTAAAACTCTCTTGAAAAAGGCTCATCTCAACA
131 AAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGGCTCTTCTCAGCA
* * ** * * *
14249849 GAAGCTCAACAA-CTTAAAAATTTTATCTTAAAAATACTTCTCTTAGCAGAGGCTCAATAACTTT
1 GAGGCTCAACAATTTTAAAAATTTTATCTTAAAAAGGCTTCTCTCAGCAGAGGCTTAACAACTTT
* * * * *
14249913 AGAAC-TCTATCTTG-AAAAGGCTCCTCTCAACAGAGGCTTAACAATTTTAAAAATTCTATCTT-
66 AAAACTTCTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTC--TCTTG
* * * *
14249975 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAACTTTATCTTGAAAAAGGCTATTTTCA
129 AAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA--TTCTCTTGAAAAAGGCTCTTCTCA
14250040 GCA
192 GCA
* * * *
14250043 GAGGCTCAATAATTTT-AAAATTTTATCTTAAAAAGGGTCCTCTCAACAGAGGCTTAACAACTTT
1 GAGGCTCAACAATTTTAAAAATTTTATCTTAAAAAGGCTTCTCTCAGCAGAGGCTTAACAACTTT
* * * *
14250107 AAAA-TTCT-T-TTAAAAAAAGCTCATCTTAGCAGAAGCTCAACAACTTTAAAAATTCTCTTGAA
66 AAAACTTCTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCTTGAA
* *
14250169 AAAGGCTCATCTCAACAGAGCCTCAACAACTTTAAAA
131 AAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA
14250206 ATTTTCATAT
Statistics
Matches: 462, Mismatches: 70, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
190 30 0.06
191 91 0.20
192 208 0.45
193 52 0.11
194 79 0.17
195 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (194 bp):
GAGGCTCAACAATTTTAAAAATTTTATCTTAAAAAGGCTTCTCTCAGCAGAGGCTTAACAACTTT
AAAACTTCTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCTTGAA
AAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGGCTCTTCTCAGCA
Found at i:14250043 original size:288 final size:285
Alignment explanation
Indices: 14249513--14250205 Score: 849
Period size: 288 Copynumber: 2.4 Consensus size: 285
14249503 TCTTATTAGT
* * * * * *
14249513 AGAGGTTTAATAACTTTAAAAATTCTATCTTAAAAAGGCTCCTCTAAGCAG-AGGTTAACAACTT
1 AGAGGCTTAACAACTTT-AAAA--CTCTCTTAAAAAGGCTCATCTAA-CAGAAGCTCAACAACTT
* * * * *
14249577 AAAAACTCTATCTTGAAAAGGCTCCTCTTAGTAGAGGCTCAACAACTTTAAAATTCTCTTGAAAA
62 AAAAATTCTATCTTAAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTATCTTGAAAA
* * *
14249642 AGACTCTTCTCAGCAGAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTTCTCTCAGCAG
127 AGACTCCTCTCAACAGAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTCCTCTCAGCAG
* *
14249707 AGGTTTAACAACTTTAAAACTTTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTA
192 AGGCTCAACAACTTTAAAACTTTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTA
* *
14249772 AAA-TTCTCTTGAAAAAGGCTCATCCCAGC
257 AAATTTATCTT-AAAAAGGCTCATCCCAAC
14249801 AGAGGCTTAACAACTTTAAAACTCTCTTGAAAAAGGCTCATCTCAACAGAAGCTCAACAACTTAA
1 AGAGGCTTAACAACTTTAAAACTCTCTT-AAAAAGGCTCATCT-AACAGAAGCTCAACAACTTAA
* * * * *
14249866 AAATTTTATCTTAAAAATACTTCTCTTAGCAGAGGCTCAATAACTTTAGAACTCTATCTTG-AAA
64 AAATTCTATCTTAAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTA-AAAT-TATCTTGAAAA
* * *
14249930 AGGCTCCTCTCAACAGAGGCTTAACAATTTTAAAAATTCTATCTTAAAAAGGCTCCTCTCAGCAG
127 AGACTCCTCTCAACAGAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTCCTCTCAGCAG
* *
14249995 AGGCTCAACAACTTTAAAACTTTATCTTGAAAAAGGCT-ATTTTCAGCAGAGGCTCAATAATTTT
192 AGGCTCAACAACTTTAAAACTTTATCTTGAAAAAGGCTCA-TCTCAGCAGAGGCTCAATAACTTT
* * *
14250059 AAAATTTTATCTTAAAAAGGGTCCTCTCAAC
256 AAAA-TTTATCTTAAAAAGGCTCATCCCAAC
* * * *
14250090 AGAGGCTTAACAACTTTAAAATTCTTTTAAAAAAAGCTCATCTTAGCAGAAGCTCAACAACTTTA
1 AGAGGCTTAACAACTTTAAAACTCTCTT-AAAAAGGCTCATC-TAACAGAAGCTCAACAAC-TTA
* * * * *
14250155 AAAATTC--TCTTGAAAAAGGCTCATCTCAACAGAGCCTCAACAACTTTAAAA
63 AAAATTCTATCTT-AAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAA
14250206 ATTTTCATAT
Statistics
Matches: 348, Mismatches: 46, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
285 6 0.02
286 16 0.05
287 60 0.17
288 148 0.43
289 102 0.29
290 16 0.05
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (285 bp):
AGAGGCTTAACAACTTTAAAACTCTCTTAAAAAGGCTCATCTAACAGAAGCTCAACAACTTAAAA
ATTCTATCTTAAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTATCTTGAAAAAGAC
TCCTCTCAACAGAGGCTCAACAATTTTAAAAATTCTATATTAAAAAGGCTCCTCTCAGCAGAGGC
TCAACAACTTTAAAACTTTATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTAAAAT
TTATCTTAAAAAGGCTCATCCCAAC
Found at i:14251026 original size:8 final size:8
Alignment explanation
Indices: 14251013--14251059 Score: 62
Period size: 8 Copynumber: 6.0 Consensus size: 8
14251003 ATAAGTCATC
14251013 ATTTTTTT
1 ATTTTTTT
14251021 ATTTTTTT
1 ATTTTTTT
14251029 ATTTTTTT
1 ATTTTTTT
*
14251037 GA-CTTTTT
1 -ATTTTTTT
14251045 A-TTTTTT
1 ATTTTTTT
14251052 ATTTTTTT
1 ATTTTTTT
14251060 TCAAGCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 7 0.20
8 27 0.77
9 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:14257085 original size:9 final size:9
Alignment explanation
Indices: 14257071--14257101 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
14257061 GGTTGTGGTA
14257071 ATGACTGAT
1 ATGACTGAT
14257080 ATGACTGAT
1 ATGACTGAT
14257089 ATGACTGAT
1 ATGACTGAT
14257098 ATGA
1 ATGA
14257102 ATGAGGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (9 bp):
ATGACTGAT
Found at i:14260907 original size:15 final size:15
Alignment explanation
Indices: 14260887--14260918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14260877 TGATCTTTTA
*
14260887 TTGTTTGTTTTGTTT
1 TTGTTTGTGTTGTTT
14260902 TTGTTTGTGTTGTTT
1 TTGTTTGTGTTGTTT
14260917 TT
1 TT
14260919 TTTTACACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (15 bp):
TTGTTTGTGTTGTTT
Found at i:14262674 original size:21 final size:22
Alignment explanation
Indices: 14262631--14262683 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
14262621 AAATATTAAT
* *
14262631 AATAAAATTTAAAAT-AACAAA
1 AATAATATTTAAAATAAAAAAA
14262652 AATAATATTTAAAA-AAAATAAA
1 AATAATATTTAAAATAAAA-AAA
*
14262674 AAAAATATTT
1 AATAATATTT
14262684 TTACCTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATATTTAAAATAAAAAAA
Found at i:14262674 original size:22 final size:21
Alignment explanation
Indices: 14262631--14262683 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
14262621 AAATATTAAT
* *
14262631 AATAAAATTTAAAATAACAAA
1 AATAATATTTAAAAAAACAAA
*
14262652 AATAATATTTAAAAAAAATAAA
1 AATAATATTT-AAAAAAACAAA
*
14262674 AAAAATATTT
1 AATAATATTT
14262684 TTACCTGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAATATTTAAAAAAACAAA
Found at i:14263703 original size:28 final size:28
Alignment explanation
Indices: 14263667--14263722 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
14263657 TCAAATTGAA
14263667 ATTAAGCCTCAGCCCAATTGAACTTGGG
1 ATTAAGCCTCAGCCCAATTGAACTTGGG
* * *
14263695 ATTAGGCCTCAGCTCGATTGAACTTGGG
1 ATTAAGCCTCAGCCCAATTGAACTTGGG
14263723 CTTCGACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (28 bp):
ATTAAGCCTCAGCCCAATTGAACTTGGG
Found at i:14263816 original size:14 final size:14
Alignment explanation
Indices: 14263797--14263843 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
14263787 TTGTCTTATG
14263797 TTTTGTATTTTGTT
1 TTTTGTATTTTGTT
*
14263811 TTTTGTTTTTTGTACT
1 TTTTGTATTTTGT--T
14263827 TTTT-TATTTTGTT
1 TTTTGTATTTTGTT
14263840 TTTT
1 TTTT
14263844 CAAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 5 0.17
14 12 0.41
15 7 0.24
16 5 0.17
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTTGTATTTTGTT
Found at i:14263843 original size:7 final size:7
Alignment explanation
Indices: 14263797--14263843 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
14263787 TTGTCTTATG
*
14263797 TTTTGTA
1 TTTTGTT
14263804 TTTTGTT
1 TTTTGTT
14263811 TTTTGTT
1 TTTTGTT
14263818 TTTTGTACT
1 TTTTGT--T
*
14263827 TTTT-TA
1 TTTTGTT
14263833 TTTTGTT
1 TTTTGTT
14263840 TTTT
1 TTTT
14263844 CAAAATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 4 0.12
7 24 0.71
8 1 0.03
9 5 0.15
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (7 bp):
TTTTGTT
Found at i:14264705 original size:6 final size:6
Alignment explanation
Indices: 14264667--14264701 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
14264657 CTTGATTTTT
*
14264667 ACCGCC ACCGCC ACCGCC ACCGCC ACCGCT ACCGC
1 ACCGCC ACCGCC ACCGCC ACCGCC ACCGCC ACCGC
14264702 TACCACCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.63, G:0.17, T:0.03
Consensus pattern (6 bp):
ACCGCC
Found at i:14278263 original size:15 final size:15
Alignment explanation
Indices: 14278243--14278272 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14278233 CATCCTTATA
*
14278243 TGGCTTGTGACATTG
1 TGGCTTGTGAAATTG
14278258 TGGCTTGTGAAATTG
1 TGGCTTGTGAAATTG
14278273 ATATCTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (15 bp):
TGGCTTGTGAAATTG
Done.