Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 73
Found at i:6871735 original size:7 final size:7
Alignment explanation
Indices: 6871723--6871761 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
6871713 TACATATATA
6871723 GTTTAGG
1 GTTTAGG
*
6871730 GTTTAGA
1 GTTTAGG
*
6871737 GTTTAGA
1 GTTTAGG
6871744 GTTTAGG
1 GTTTAGG
6871751 GTTTAGG
1 GTTTAGG
6871758 GTTT
1 GTTT
6871762 CTATAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:6871748 original size:21 final size:21
Alignment explanation
Indices: 6871722--6871761 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6871712 ATACATATAT
6871722 AGTTTAGGGTTTAGAGTTTAG
1 AGTTTAGGGTTTAGAGTTTAG
*
6871743 AGTTTAGGGTTTAGGGTTT
1 AGTTTAGGGTTTAGAGTTT
6871762 CTATAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (21 bp):
AGTTTAGGGTTTAGAGTTTAG
Found at i:6871828 original size:2 final size:2
Alignment explanation
Indices: 6871813--6872046 Score: 80
Period size: 2 Copynumber: 119.0 Consensus size: 2
6871803 AGTGTTTCTA
*
6871813 AT AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A-
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * * * *
6871855 AT AT AA AT -T AT AGT TT AT A- AA AT AT AT ACT TT TT AT AGT TT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT A-T AT
* * * *
6871896 AT AC AT AT AT AT AT AT AT AT AT AGT TT AT AT AC AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
* * * * * * *
6871940 AT AT AGT TT AT AT AA AC AT A- AT TT TT AT AT AG CT -T AT A- AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
6871980 A- AT -T AT AC AG GT -T AT A- AT AT AA AT AT AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
6872019 AT -T AT AT -T 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
6872047 TCAATTTTTT
Statistics
Matches: 171, Mismatches: 39, Indels: 44
0.67 0.15 0.17
Matches are distributed among these distances:
1 13 0.08
2 148 0.87
3 10 0.06
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6871831 original size:13 final size:13
Alignment explanation
Indices: 6871813--6871953 Score: 93
Period size: 13 Copynumber: 11.2 Consensus size: 13
6871803 AGTGTTTCTA
6871813 ATATATAGTTTAT
1 ATATATAGTTTAT
6871826 ATATATA---TAT
1 ATATATAGTTTAT
*
6871836 ATATATA-TATACT
1 ATATATAGTTTA-T
* * *
6871849 ATAT-TAATATAA
1 ATATATAGTTTAT
6871861 AT-TATAGTTTAT
1 ATATATAGTTTAT
* *
6871873 A-AAATA-TATACT
1 ATATATAGTTTA-T
* *
6871885 TTTTATAGTTTAT
1 ATATATAGTTTAT
*
6871898 ACATATATA-TATAT
1 --ATATATAGTTTAT
6871912 ATATATAGTTTAT
1 ATATATAGTTTAT
*
6871925 ATACATAGTTTAT
1 ATATATAGTTTAT
6871938 ATATATAGTTTAT
1 ATATATAGTTTAT
6871951 ATA
1 ATA
6871954 AACATAATTT
Statistics
Matches: 100, Mismatches: 16, Indels: 24
0.71 0.11 0.17
Matches are distributed among these distances:
10 10 0.10
11 4 0.04
12 23 0.23
13 51 0.51
14 7 0.07
15 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:6871968 original size:26 final size:27
Alignment explanation
Indices: 6871863--6871977 Score: 89
Period size: 26 Copynumber: 4.4 Consensus size: 27
6871853 TAATATAAAT
* *
6871863 TATAGTTTATA-AAATATATACTTTT-
1 TATAGTTTATATAAACATATATTTTTA
* * * * *
6871888 TATAGTTTATACATATATATATATATA
1 TATAGTTTATATAAACATATATTTTTA
*
6871915 TATAGTTTATAT--ACATAGT-TTATATA
1 TATAGTTTATATAAACATA-TATT-TTTA
6871941 TATAGTTTATATAAACATA-ATTTTTA
1 TATAGTTTATATAAACATATATTTTTA
*
6871967 TATAGCTTATA
1 TATAGTTTATA
6871978 ATAATTATAC
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
25 16 0.22
26 40 0.54
27 13 0.18
28 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (27 bp):
TATAGTTTATATAAACATATATTTTTA
Found at i:6873010 original size:17 final size:17
Alignment explanation
Indices: 6872988--6873031 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6872978 TGTAAAAAAT
6872988 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
6873005 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
6873022 AAATATTTAA
1 AAATATTTAA
6873032 TCAAGTTTGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:6874139 original size:16 final size:15
Alignment explanation
Indices: 6874120--6874157 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
6874110 ATAAATTAAA
6874120 TTAATGATACTCGTCG
1 TTAATG-TACTCGTCG
6874136 TTAATTGTACTCGTCG
1 TTAA-TGTACTCGTCG
6874152 TTAATG
1 TTAATG
6874158 GTGCTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (15 bp):
TTAATGTACTCGTCG
Found at i:6874493 original size:66 final size:66
Alignment explanation
Indices: 6874326--6874659 Score: 314
Period size: 66 Copynumber: 5.1 Consensus size: 66
6874316 CACAAGGTAA
* * ** * * * * * *
6874326 AGTGATTATTGAATATTGTATTGATCAATCGAAGTGACTCATGTACC-TTATGGTACATGAGGTG
1 AGTGATAATTGAATATTATACAGATCACTCGATGTGTCTCGTGTACCTTTGTGGTGCATGAGGTG
6874390 G
66 G
* ** * *
6874391 AGTGATAATTTAATATTGCACAAGATCACTCGATGTGTCTCGTGTACATTTGTGATGCATGAGGT
1 AGTGATAATTGAATATTATAC-AGATCACTCGATGTGTCTCGTGTACCTTTGTGGTGCATGAGGT
6874456 GG
65 GG
* *
6874458 AGTGATAATTGAATACTT-TATAGATCACTCGATGTGAT-TCGTGTACCTTTGTGGTGCATGAAG
1 AGTGATAATTGAATA-TTATACAGATCACTCGATGTG-TCTCGTGTACCTTTGTGGTGCATGAGG
6874521 TGG
64 TGG
* * * * * * * *
6874524 AGTGATAATTGAATAATGTACAGATCACTCGATATGACTCGTGTACCTTTGTGGGGTATGAGATA
1 AGTGATAATTGAATATTATACAGATCACTCGATGTGTCTCGTGTACCTTTGTGGTGCATGAGGTG
6874589 G
66 G
* * ** * * * * *
6874590 AGTGATAATTAAATATTATACAGATCACTCGATATAACTCGTGTATCTTAGTGGTACACGAGATG
1 AGTGATAATTGAATATTATACAGATCACTCGATGTGTCTCGTGTACCTTTGTGGTGCATGAGGTG
6874655 G
66 G
6874656 AGTG
1 AGTG
6874660 TATCGGCTAC
Statistics
Matches: 224, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
65 18 0.08
66 173 0.77
67 31 0.14
68 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (66 bp):
AGTGATAATTGAATATTATACAGATCACTCGATGTGTCTCGTGTACCTTTGTGGTGCATGAGGTG
G
Found at i:6874549 original size:132 final size:132
Alignment explanation
Indices: 6874326--6874647 Score: 360
Period size: 132 Copynumber: 2.4 Consensus size: 132
6874316 CACAAGGTAA
* * * * * *
6874326 AGTGATTATTGAATATTGTATTGATCAATCGAAGTGACTCATGTACCTTATGGTACATGAGGTGG
1 AGTGATAATTGAATATTATATAGATCACTCGATGTGACTCATGTACCTTATGGTACATGAAGTGG
* * * * * *
6874391 AGTGATAATTTAATATTGCACAAGATCACTCGATGTGTCTCGTGTACATTTGTGATGCATGAGGT
66 AGTGATAATTGAATAATGCACAAGATCACTCGATATGACTCGTGTACATTTGTGAGGCATGAGAT
*
6874456 GG
131 AG
* * * *
6874458 AGTGATAATTGAATACTT-TATAGATCACTCGATGTGATTCGTGTACCTTTGTGGTGCATGAAGT
1 AGTGATAATTGAATA-TTATATAGATCACTCGATGTGACTCATGTACC-TTATGGTACATGAAGT
* * * *
6874522 GGAGTGATAATTGAATAATGTAC-AGATCACTCGATATGACTCGTGTACCTTTGTGGGGTATGAG
64 GGAGTGATAATTGAATAATGCACAAGATCACTCGATATGACTCGTGTACATTTGTGAGGCATGAG
6874586 ATAG
129 ATAG
* * * * * *
6874590 AGTGATAATTAAATATTATACAGATCACTCGATATAACTCGTGTATCTTAGTGGTACA
1 AGTGATAATTGAATATTATATAGATCACTCGATGTGACTCATGTACCTTA-TGGTACA
6874648 CGAGATGGAG
Statistics
Matches: 158, Mismatches: 28, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
131 4 0.03
132 119 0.75
133 35 0.22
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (132 bp):
AGTGATAATTGAATATTATATAGATCACTCGATGTGACTCATGTACCTTATGGTACATGAAGTGG
AGTGATAATTGAATAATGCACAAGATCACTCGATATGACTCGTGTACATTTGTGAGGCATGAGAT
AG
Found at i:6878745 original size:72 final size:72
Alignment explanation
Indices: 6878625--6878768 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
6878615 TCCACTCATC
* * * *
6878625 ATCCTCAAGCTTCCCTCTTGAATACCGACTCTGAAAGCAAAAAGCAAAAGTAATGAGGCGAGAGC
1 ATCCTCAAGCTTCCCTCTTGAATACCGACTCTGAAACCAAAAAGCAAAAATAATGAGACGAAAGC
6878690 ACATGAT
66 ACATGAT
* *
6878697 ATCCTCAAGCTTTCCTCTTGAATACCGACTCTGAAACCAAAACA-CAAAAATAATGAGATGAAAG
1 ATCCTCAAGCTTCCCTCTTGAATACCGACTCTGAAACCAAAA-AGCAAAAATAATGAGACGAAAG
6878761 CACATGAT
65 CACATGAT
6878769 GCAGCCGCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 64 0.98
73 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.21
Consensus pattern (72 bp):
ATCCTCAAGCTTCCCTCTTGAATACCGACTCTGAAACCAAAAAGCAAAAATAATGAGACGAAAGC
ACATGAT
Found at i:6879821 original size:81 final size:81
Alignment explanation
Indices: 6879709--6880441 Score: 961
Period size: 81 Copynumber: 9.0 Consensus size: 81
6879699 TTTCAAAGTG
* * * *
6879709 AAAGATTAATAGTCTAGTTGTACATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
6879774 TAGATACCTTTAAGTA
66 TAAATACCTTTGAGTA
* * * * *
6879790 AAAGATTAATGGCCTAGTTGTGAATTAGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
6879855 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
* * *
6879871 AAAGATTAATAGCCTAGTTGTGCATTTGGAAGAAAGGTGCCAATTAT-CTCAGTTAGATGAAATG
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGC-CAGTTAGATGAAAGG
6879935 TTAAATACCTTTGAGTA
65 TTAAATACCTTTGAGTA
* * * * *
6879952 AACGATTAATAGCCTAGTTTTTCATTTGGCAGAAATGTGTCAATTATACCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
6880017 TAGATACCTTTGAGCA
66 TAAATACCTTTGAGTA
* *
6880033 AAAGATTAGA-AGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAGATTA-ATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
6880097 TTAGATACCTTTGAGTA
65 TTAAATACCTTTGAGTA
* * * * *
6880114 AAAGATTAATGGCCTAGTTGTGCATTTGGCAAAAAGGTGTCAATTATGTCAGCTAGATGAAAGAT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
6880179 TAAATAGCTTTGAGTA
66 TAAATACCTTTGAGTA
* * * * * *
6880195 AAAGATTAATGGCCTAGCTATGCATTTGGTAGAAAAGTGTCAATTATGCCAATTAGATGAAAGGT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
6880260 TAGATACATTTGAGTA
66 TAAATACCTTTGAGTA
*
6880276 AAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
6880341 T-AATAACCTTTGAGTA
66 TAAAT-ACCTTTGAGTA
* * * * * * * * *
6880357 AAAGATTAATGGTCTAGCTGTGCAATTAGAAGAAAAGTGTCAATTATGCAAGTTAGATGAAAGGC
1 AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
6880422 TAAATGCCTTT-ATGTA
66 TAAATACCTTTGA-GTA
6880438 AAAG
1 AAAG
6880442 TCTAAAGGAA
Statistics
Matches: 576, Mismatches: 69, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
80 5 0.01
81 566 0.98
82 5 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTA
Found at i:6885152 original size:13 final size:12
Alignment explanation
Indices: 6885099--6885161 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 12
6885089 TTTAAATTGT
6885099 ATTTTTAAAAATC
1 ATTTTTAAAAA-C
*
6885112 ACTTTT-AAAAC
1 ATTTTTAAAAAC
* *
6885123 ATTTTTTCTATAAC
1 A-TTTTT-AAAAAC
6885137 ATTTTTAAAAATC
1 ATTTTTAAAAA-C
6885150 ATTTTTAAAAAC
1 ATTTTTAAAAAC
6885162 GTTGCTAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 2 0.05
12 12 0.29
13 22 0.54
14 5 0.12
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTTTAAAAAC
Found at i:6886456 original size:60 final size:61
Alignment explanation
Indices: 6886358--6886482 Score: 180
Period size: 60 Copynumber: 2.1 Consensus size: 61
6886348 CTTTACCTGA
* * * * *
6886358 GTTTTAGCTGACTGGGATGCCATGCGAGTAAGGCGCATCCTTGGGGGCGCGTTTTCACGGG
1 GTTTTAACTGACTGGGATGCCACGCGAGTAAGGCGCATCATTGGGGGCGCGCTTTCACAGG
* *
6886419 GTTTTAACTGACT-GGATGCCACGCGAGTAAGGTGCATCATTGGGGGTGCGCTTTCACAGG
1 GTTTTAACTGACTGGGATGCCACGCGAGTAAGGCGCATCATTGGGGGCGCGCTTTCACAGG
6886479 GTTT
1 GTTT
6886483 GGTGACACGT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
60 45 0.79
61 12 0.21
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (61 bp):
GTTTTAACTGACTGGGATGCCACGCGAGTAAGGCGCATCATTGGGGGCGCGCTTTCACAGG
Found at i:6886768 original size:30 final size:32
Alignment explanation
Indices: 6886732--6886802 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
6886722 GTTGTTATGT
6886732 TTTTTTATT-AAT-ATAATTATATAAATATTA
1 TTTTTTATTAAATAATAATTATATAAATATTA
* *
6886762 TTTTTTATTAAAATAATATTTATATAATTATTA
1 TTTTTTATT-AAATAATAATTATATAAATATTA
6886795 TTTATTTA
1 TTT-TTTA
6886803 AATTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 9 0.26
32 3 0.09
33 19 0.54
34 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTTTATTAAATAATAATTATATAAATATTA
Found at i:6886809 original size:25 final size:24
Alignment explanation
Indices: 6886779--6886825 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
6886769 TTAAAATAAT
6886779 ATTTATATAATT-ATTATTTATTTAA
1 ATTTAT-TAATTAATTA-TTATTTAA
6886804 ATTTATTAATTAATTATTATTT
1 ATTTATTAATTAATTATTATTT
6886826 GTGCTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTATTAATTAATTATTATTTAA
Found at i:6888617 original size:42 final size:42
Alignment explanation
Indices: 6888552--6888642 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
6888542 GTATATGCCC
*
6888552 AGCCCACCAGTTCAGATGCCATCTCCGCAAGGGTT-TATTCCA
1 AGCCCACCAGTTCAGATGCCATCTCCGC-AGGGTTACATTCCA
* * *
6888594 AGCCCACCAGTTCATATGTCATCTCCGCAGGGTTACATTCCT
1 AGCCCACCAGTTCAGATGCCATCTCCGCAGGGTTACATTCCA
6888636 AGCCCAC
1 AGCCCAC
6888643 AGGGGTACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 6 0.14
42 38 0.86
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
AGCCCACCAGTTCAGATGCCATCTCCGCAGGGTTACATTCCA
Found at i:6888672 original size:21 final size:21
Alignment explanation
Indices: 6888618--6888690 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
6888608 TATGTCATCT
* *
6888618 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATACCCAGC
* *
6888639 CCACAGGGGTACATACCCAGC
1 CCGCAGGGTTACATACCCAGC
* * *
6888660 CCGCAAGGTTACATGCCCAAC
1 CCGCAGGGTTACATACCCAGC
*
6888681 CCGTAGGGTT
1 CCGCAGGGTT
6888691 TTATGACACC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (21 bp):
CCGCAGGGTTACATACCCAGC
Found at i:6889812 original size:140 final size:139
Alignment explanation
Indices: 6889550--6890160 Score: 851
Period size: 139 Copynumber: 4.4 Consensus size: 139
6889540 AAATTTCAAG
* * * * * *
6889550 CATAATAGGGTAATTATAACATATT-AC--A-AAAAAAAGGGAAGGCACACCCCCTGAAACACGC
1 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAACGCGC
* * ** *
6889611 TTTCACCACTTTAG-TGCGTCCTCTCAAACATGATAGTTACTGACATGAATAGTTTCCCTGGGGG
66 TTTCACCACTTT-GTTGCGTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGG
6889675 ACATGAGTCA
130 ACATGAGTCA
* *
6889685 CATAATAGGGAAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGTGCCCCCTGAAACGCGC
1 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAACGCGC
* * *
6889750 TTTCACCACTTTGTTGCGTCCCCCTCAAACATGATAGTTACTGACATAAATAGTGCCCCTGGGGG
66 TTTCACCACTTTGTTGCGT-CCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGG
6889815 ACATGAGTCA
130 ACATGAGTCA
* * * * *
6889825 CATAATAGGGTAATTATAACATATTCTCTGACAAAATAAGGGAAGACGCGTCCCCTGAAATGCTC
1 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAACGCGC
*
6889890 TTTCACCACTTTGTTGCATCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGGA
66 TTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGGA
6889955 CATGAGTCA
131 CATGAGTCA
*
6889964 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAATGGAA-G-GCGCCCCCTGAAACGCGC
1 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAACGCGC
* *
6890027 TTTCACCACTTT-TCTGCGTCCTCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGAGG
66 TTTCACCACTTTGT-TGCGTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGG
*
6890091 ACACGAGTCA
130 ACATGAGTCA
* * * * * *
6890101 CTTAATAGGGCAATTATAACTTATTATCTGACAAAATAATGGAATGTGCGCCCCCTGAAA
1 CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAA
6890161 TATGCTTTCA
Statistics
Matches: 433, Mismatches: 34, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
135 24 0.06
136 2 0.00
137 124 0.29
138 3 0.01
139 152 0.35
140 128 0.30
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (139 bp):
CATAATAGGGCAATTATAACATATTCTCTGACAAAATAAGGGAAGGCGCGCCCCCTGAAACGCGC
TTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCCGGGGGA
CATGAGTCA
Found at i:6897582 original size:118 final size:115
Alignment explanation
Indices: 6897387--6897938 Score: 490
Period size: 118 Copynumber: 4.7 Consensus size: 115
6897377 TTTGAATAGG
* * * * * *
6897387 CTAGATGAGCTCTCCTATATGAACTCCATACTCTCCCACAAAGGCCACATTGAGTTCGAATAAGC
1 CTAGATGAGATCTCTTATATGAACTCCCTACTCTCCCACAAAGGCCATATTGAGGTCGAACAAGC
* * * *
6897452 CCTCCTATATGAACTATTTATTCTTTTGATAACTTCCTCTCTTTTTGAACAAA
66 TCTCATATATGAACT-TTTCTTC-TTTGATAACTTCCTC-CTTTATGAACAAA
* *
6897505 CTAGATGAGATCTCTTATATGAACTCCCTACTCTCCCAAAAAGGCCATATTGAGGTCGAAAAAGC
1 CTAGATGAGATCTCTTATATGAACTCCCTACTCTCCCACAAAGGCCATATTGAGGTCGAACAAGC
* * * * *
6897570 TCTCATAAATGAAATCCTTCTTCATTTGATAGCTTCCTCCTTTCTGAACAAA
66 TCTCATATATGAACT-TTTCTTC-TTTGATAACTTCCTCCTTTATGAACAAA
* * * * *
6897622 CTAGACGAGATCT-TCTATATAAACT-CTTACTCTCTCACAAAGGCCATATTGAGGTCGAATAAG
1 CTAGATGAGATCTCT-TATATGAACTCCCTACTCTCCCACAAAGGCCATATTGAGGTCGAACAAG
* **
6897685 CTCTCATATATGAAC--TTCTTCCTTTGATATAGTTTTATCCTTTATGAACAAA
65 CTCTCATATATGAACTTTTCTT-CTTTGATA-A-CTTCCTCCTTTATGAACAAA
* * * * * ** * * *
6897737 CTAGACGAGCTTTCCTATATAAACTTGCTACTATCTCACAAAGGCCATATTTGAGGTTGAACAAG
1 CTAGATGAGATCTCTTATATGAACTCCCTACTCTCCCACAAAGGCCATA-TTGAGGTCGAACAAG
* * * * *
6897802 -TACTCTTATATGAACTTAT-TTCTTTGATAGCTTCATCATTTATGAACAAA
65 CT-CTCATATATGAACTTTTCTTCTTTGATAACTTCCTCCTTTATGAACAAA
** * * * * * *
6897852 CTCTATGA-ACTCTATTATATGAAC-CCCTTAATCTTCTATAAAGGTCATATTGAGGTCGAACAA
1 CTAGATGAGA-TCTCTTATATGAACTCCC-TACTCTCCCACAAAGGCCATATTGAGGTCGAACAA
6897915 GCTCTCATATATGAACTTCTTCTT
64 GCTCTCATATATGAACTT-TTCTT
6897939 AGTGGATGAA
Statistics
Matches: 355, Mismatches: 64, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
113 12 0.03
114 30 0.08
115 85 0.24
116 71 0.20
117 66 0.19
118 90 0.25
119 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (115 bp):
CTAGATGAGATCTCTTATATGAACTCCCTACTCTCCCACAAAGGCCATATTGAGGTCGAACAAGC
TCTCATATATGAACTTTTCTTCTTTGATAACTTCCTCCTTTATGAACAAA
Found at i:6897686 original size:116 final size:114
Alignment explanation
Indices: 6897387--6897938 Score: 448
Period size: 115 Copynumber: 4.8 Consensus size: 114
6897377 TTTGAATAGG
* * * * * * * *
6897387 CTAGATGAGCTCTCCTATATGAACTCCATACTCTCCCACAAAGGCCACATTGAGTTCGAATAAGC
1 CTAGATGAGATCTTCTATATAAACT-CTTACTCTCTCACAAAGGCCATATTGAGGTCGAACAAGC
* * * * * *
6897452 CCTCCTATATGAACTAT-TTATTCTTTTGATAACTTCCTCTCTTTTTGAACAAA
65 TCTCATATATGAA--ATCTTCTTC-TTTGATAGCTTCATC-CTTTATGAACAAA
* * * * *
6897505 CTAGATGAGATC-TCTTATATGAACTCCCTACTCTCCCAAAAAGGCCATATTGAGGTCGAAAAAG
1 CTAGATGAGATCTTC-TATATAAACT-CTTACTCTCTCACAAAGGCCATATTGAGGTCGAACAAG
* * *
6897569 CTCTCATAAATGAAATCCTTCTTCATTTGATAGCTTCCTCCTTTCTGAACAAA
64 CTCTCATATATGAAAT-CTTCTTC-TTTGATAGCTTCATCCTTTATGAACAAA
* *
6897622 CTAGACGAGATCTTCTATATAAACTCTTACTCTCTCACAAAGGCCATATTGAGGTCGAATAAGCT
1 CTAGATGAGATCTTCTATATAAACTCTTACTCTCTCACAAAGGCCATATTGAGGTCGAACAAGCT
* *
6897687 CTCATATATG-AA-CTTCTTCCTTTGATATAGTTTTATCCTTTATGAACAAA
66 CTCATATATGAAATCTTCTT-CTTTG--ATAGCTTCATCCTTTATGAACAAA
* * * *
6897737 CTAGACGAGCT-TTCCTATATAAACT-TGCTACTATCTCACAAAGGCCATATTTGAGGTTGAACA
1 CTAGATGAGATCTT-CTATATAAACTCT--TACTCTCTCACAAAGGCCATA-TTGAGGTCGAACA
* * *
6897800 AG-TACTCTTATATG-AA-CTTATTTCTTTGATAGCTTCATCATTTATGAACAAA
62 AGCT-CTCATATATGAAATCTT-CTTCTTTGATAGCTTCATCCTTTATGAACAAA
** * * * * *
6897852 CTCTATGA-ACTCTAT-TATATGAACCCCTTAATCT-TCTATAAAGGTCATATTGAGGTCGAACA
1 CTAGATGAGA-TCT-TCTATAT-AAACTCTTACTCTCTC-ACAAAGGCCATATTGAGGTCGAACA
6897914 AGCTCTCATATATG-AA-CTTCTTCTT
62 AGCTCTCATATATGAAATCTTCTTCTT
6897939 AGTGGATGAA
Statistics
Matches: 367, Mismatches: 47, Indels: 45
0.80 0.10 0.10
Matches are distributed among these distances:
113 15 0.04
114 34 0.09
115 90 0.25
116 72 0.20
117 67 0.18
118 89 0.24
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (114 bp):
CTAGATGAGATCTTCTATATAAACTCTTACTCTCTCACAAAGGCCATATTGAGGTCGAACAAGCT
CTCATATATGAAATCTTCTTCTTTGATAGCTTCATCCTTTATGAACAAA
Found at i:6913580 original size:17 final size:16
Alignment explanation
Indices: 6913558--6913589 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6913548 CAAACTCCGA
6913558 TTATTATTTTATTCTAT
1 TTATTATTTT-TTCTAT
6913575 TTATTATTTTTTCTA
1 TTATTATTTTTTCTA
6913590 CTTTGTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTATTTTTTCTAT
Found at i:6915489 original size:48 final size:44
Alignment explanation
Indices: 6915378--6915508 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 44
6915368 GTATTCCCGG
* *
6915378 TACAT-TAGCACCACCGTCACTCAGACGTCACTGATGTGCTAAG
1 TACATATAGCACCACCGTCACACAGACGTCACTGATGTGCTAAA
* * * * *
6915421 TACCTA-CGCACCATCGTCACACATATGTCACTGATGTGCATAGAA
1 TACATATAGCACCACCGTCACACAGACGTCACTGATGTGC-TA-AA
*
6915466 TGACATAGTAGCACCACCGTCACACAGGCGTCACTGATGTGCT
1 T-ACATA-TAGCACCACCGTCACACAGACGTCACTGATGTGCT
6915509 TTAATCATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
43 32 0.46
44 2 0.03
45 2 0.03
46 4 0.06
47 1 0.01
48 28 0.41
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (44 bp):
TACATATAGCACCACCGTCACACAGACGTCACTGATGTGCTAAA
Found at i:6918172 original size:29 final size:30
Alignment explanation
Indices: 6918107--6918172 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
6918097 AAGTTACATT
*
6918107 TTTAGT-TCTTAAAGTTTTACAACTTTACAC
1 TTTAGTCTC-TAAACTTTTACAACTTTACAC
*
6918137 TTTAGTCTCTAAACTTTTA-AATTTTACA-
1 TTTAGTCTCTAAACTTTTACAACTTTACAC
6918165 TTTCAGTC
1 TTT-AGTC
6918173 ACCAATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.09
29 12 0.38
30 15 0.47
31 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (30 bp):
TTTAGTCTCTAAACTTTTACAACTTTACAC
Found at i:6919484 original size:26 final size:26
Alignment explanation
Indices: 6919453--6919509 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
6919443 ACCGATACCA
6919453 AGGTAAGGGAAGTATCGATACTCACT
1 AGGTAAGGGAAGTATCGATACTCACT
6919479 AGGTAAGGGAAGTATCGATACTCACT
1 AGGTAAGGGAAGTATCGATACTCACT
6919505 AGGTA
1 AGGTA
6919510 GTACTGATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (26 bp):
AGGTAAGGGAAGTATCGATACTCACT
Found at i:6921529 original size:19 final size:19
Alignment explanation
Indices: 6921505--6921541 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6921495 TGAAAATGAT
6921505 TTGATTTTGAAAACCAAAG
1 TTGATTTTGAAAACCAAAG
*
6921524 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
6921542 ATGAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:6933990 original size:18 final size:18
Alignment explanation
Indices: 6933967--6934004 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6933957 TAATCTTGAG
6933967 TAAGTTCTTCAAAGGACT
1 TAAGTTCTTCAAAGGACT
6933985 TAAGTTCTTCAAAGGACT
1 TAAGTTCTTCAAAGGACT
6934003 TA
1 TA
6934005 GCAAGAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (18 bp):
TAAGTTCTTCAAAGGACT
Found at i:6959124 original size:44 final size:44
Alignment explanation
Indices: 6959073--6959335 Score: 271
Period size: 44 Copynumber: 6.0 Consensus size: 44
6959063 TTGTTCTAAA
** * * *
6959073 ATAAATGAAAATGCATAATAGTGCATTATTGTCAGAAAGGTAAT
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
* * ** * * **
6959117 AAAAATGAAAATGCATAGCAATACATTATTGGCATAAATGTGCC
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
**
6959161 ATAAATGAAAATGCATAACGGTGTATTATTGGCAGAAA-G-GAT
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
* **
6959203 CCATAAATGAAAATGCATAACGGTACATTATTGGTAGAAAGGTGCC
1 --ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
*
6959249 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAATGTG-T
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
* * *
6959292 CATAAATGAAAAATTCATAACTGTGCATTATTGGCAGAAAGGTG
1 -ATAAATG-AAAATGCATAACGGTACATTATTGGCAGAAAGGTG
6959336 CCACTCATGG
Statistics
Matches: 181, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 146 0.81
45 32 0.18
46 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGTGAT
Found at i:6959242 original size:132 final size:133
Alignment explanation
Indices: 6959073--6959333 Score: 364
Period size: 132 Copynumber: 2.0 Consensus size: 133
6959063 TTGTTCTAAA
* * * *
6959073 ATAAATGAAAATGCATAATAGTGCATTATTGTCAGAAAGGTAATAAAAATGAAAATGCATAGCAA
1 ATAAATGAAAATGCATAACAGTACATTATTGTCAGAAAGGTAACAAAAATGAAAATGCATAACAA
* *
6959138 TACATTATTGGCATAAATGTGCCATAAATG-AAAATGCATAACGGTGTATTATTGGCAGAAAGGA
66 TACATTATTGGCAGAAATGTGCCATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAAGGA
6959202 TCC
131 TCC
* ** * *
6959205 ATAAATGAAAATGCATAACGGTACATTATTGGT-AGAAAGGTGCCATAAATGAAAATGCATAACG
1 ATAAATGAAAATGCATAACAGTACATTATT-GTCAGAAAGGTAACAAAAATGAAAATGCATAACA
* * * *
6959269 GTACATTATTGGCAGAAATGTGTCATAAATGAAAAATTCATAACTGTGCATTATTGGCAGAAAGG
65 ATACATTATTGGCAGAAATGTGCCATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAAGG
6959334 TGCCACTCAT
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
132 80 0.71
133 32 0.29
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (133 bp):
ATAAATGAAAATGCATAACAGTACATTATTGTCAGAAAGGTAACAAAAATGAAAATGCATAACAA
TACATTATTGGCAGAAATGTGCCATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAAGGA
TCC
Found at i:6959354 original size:88 final size:88
Alignment explanation
Indices: 6959073--6959338 Score: 315
Period size: 88 Copynumber: 3.0 Consensus size: 88
6959063 TTGTTCTAAA
** * * * *
6959073 ATAAATGAAAATGCATAATAGTGCATTATTGTCAGAAAGGTAAT--AAAAATGAAAATGCATAGC
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGG--ATCCATAAATGAAAATGCATAAC
** * *
6959136 AATACATTATTGGCATAAATGTGCC
64 GGTACATTATTGGCAGAAAGGTGCC
**
6959161 ATAAATGAAAATGCATAACGGTGTATTATTGGCAGAAAGGATCCATAAATGAAAATGCATAACGG
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGATCCATAAATGAAAATGCATAACGG
*
6959226 TACATTATTGGTAGAAAGGTGCC
66 TACATTATTGGCAGAAAGGTGCC
*
6959249 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAATGTG-T-CATAAATGAAAAATTCATAA
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAA-G-GATCCATAAATG-AAAATGCATAA
* *
6959312 CTGTGCATTATTGGCAGAAAGGTGCC
63 CGGTACATTATTGGCAGAAAGGTGCC
6959338 A
1 A
6959339 CTCATGGTAT
Statistics
Matches: 156, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
86 2 0.01
88 117 0.75
89 36 0.23
90 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (88 bp):
ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAGGATCCATAAATGAAAATGCATAACGG
TACATTATTGGCAGAAAGGTGCC
Found at i:6961949 original size:43 final size:43
Alignment explanation
Indices: 6961896--6961986 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
6961886 AACTATATTC
6961896 GATAC-ATAGAATTATTAAACCTATTGTCCATCAACTTAAGTT
1 GATACTATAGAATTATTAAACCTATTGTCCATCAACTTAAGTT
6961938 GATACTATAGAATTATTAAACCTATTGTCCATCAACTTAAGTT
1 GATACTATAGAATTATTAAACCTATTGTCCATCAACTTAAGTT
6961981 GATACT
1 GATACT
6961987 GAAAACTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.10
43 43 0.90
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (43 bp):
GATACTATAGAATTATTAAACCTATTGTCCATCAACTTAAGTT
Found at i:6963558 original size:21 final size:22
Alignment explanation
Indices: 6963511--6963558 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
6963501 GAAACTGCCT
*
6963511 AAATAGAAATTCAACTTTACTA
1 AAATAGAAATACAACTTTACTA
*
6963533 TAATA-AAATACAACTTTA-TCA
1 AAATAGAAATACAACTTTACT-A
6963554 AAATA
1 AAATA
6963559 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATAGAAATACAACTTTACTA
Found at i:6970285 original size:35 final size:35
Alignment explanation
Indices: 6970220--6970287 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
6970210 TTAGGTCCAC
* *
6970220 AAGGAATTACCAGTTCGATCGGTCTGAACCTATAT
1 AAGGAATTACCAGTTCGACCGGTCTAAACCTATAT
*
6970255 AAGGAATTACCAGTTTGACCGAG-CTAAACCTAT
1 AAGGAATTACCAGTTCGACCG-GTCTAAACCTAT
6970288 GAAACTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (35 bp):
AAGGAATTACCAGTTCGACCGGTCTAAACCTATAT
Found at i:6970455 original size:21 final size:21
Alignment explanation
Indices: 6970436--6970473 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6970426 TAAATCTTTA
6970436 TAAATC-AA-AAATCATACTT
1 TAAATCAAATAAATCATACTT
6970455 TAAATCAAATAAATCATAC
1 TAAATCAAATAAATCATAC
6970474 AGAAACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATCAAATAAATCATACTT
Found at i:6976184 original size:26 final size:28
Alignment explanation
Indices: 6976124--6976186 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 28
6976114 GTAATTCTTT
6976124 TTTTC-TTATTTCTTTGTTCAATTTTGTC
1 TTTTCTTTATTTCTTTGTTC-ATTTTGTC
*
6976152 TTGTCTTTATTTCCTTT-TTC-TTTT-TC
1 TTTTCTTTATTT-CTTTGTTCATTTTGTC
6976178 TTTTCTTTA
1 TTTTCTTTA
6976187 AAAAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 10 0.32
27 4 0.13
28 4 0.13
29 9 0.29
30 4 0.13
ACGTcount: A:0.08, C:0.16, G:0.05, T:0.71
Consensus pattern (28 bp):
TTTTCTTTATTTCTTTGTTCATTTTGTC
Found at i:6983463 original size:36 final size:36
Alignment explanation
Indices: 6983415--6983491 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
6983405 TATACACAAT
* *
6983415 ATCATTAGTAGCAAGC-ATATGTATATTATGCATATA
1 ATCATTACTAGCAAGCGAT-TGTATATCATGCATATA
* *
6983451 ATCATTACTAGCAAGCGCTTGTATATCATGCATGTA
1 ATCATTACTAGCAAGCGATTGTATATCATGCATATA
6983487 ATCAT
1 ATCAT
6983492 CAATATCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (36 bp):
ATCATTACTAGCAAGCGATTGTATATCATGCATATA
Found at i:6983502 original size:36 final size:35
Alignment explanation
Indices: 6983434--6983565 Score: 106
Period size: 36 Copynumber: 3.8 Consensus size: 35
6983424 AGCAAGCATA
* * *
6983434 TGTATATTATGCATATAATCATTACTAGCAAGCGC
1 TGTATATCATGCATATAATCATCAATAGCAAGCGC
* * *
6983469 TTGTATATCATGCATGTAATCATCAATATCAAGCAC
1 -TGTATATCATGCATATAATCATCAATAGCAAGCGC
* * * * *
6983505 --AATACCTTGCATATAATCAACAATAGCAAGTGC
1 TGTATATCATGCATATAATCATCAATAGCAAGCGC
* * *
6983538 ATGTATATCATACATGTTATCATCAATA
1 -TGTATATCATGCATATAATCATCAATA
6983566 TTGGGGTATC
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
33 25 0.35
36 47 0.65
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (35 bp):
TGTATATCATGCATATAATCATCAATAGCAAGCGC
Found at i:6984619 original size:51 final size:51
Alignment explanation
Indices: 6984557--6984840 Score: 286
Period size: 51 Copynumber: 5.6 Consensus size: 51
6984547 TCTTAGAGTA
* * *
6984557 ACACCAGTCAAATTTAACATATAATTCTAGCACTAAACTCGTTATAGACTT
1 ACACCAGTCAAATTTAACATATAATTCCAGCACTAAACTCATCATAGACTT
* * * *
6984608 AAACCAGTCAAATTTAACATATAACTCCAGCACTAAAATCATCATAAACTT
1 ACACCAGTCAAATTTAACATATAATTCCAGCACTAAACTCATCATAGACTT
* * ** * *
6984659 ACACCAATAAAATTTAACATATAATTCCATAACTAAACTCAGCACTA-ATTT
1 ACACCAGTCAAATTTAACATATAATTCCAGCACTAAACTCATCA-TAGACTT
* * * *
6984710 ACACCAGTCAAATTTAACACATAATTCCTTG-ATTAATCTCATCATAGACTT
1 ACACCAGTCAAATTTAACATATAATTCC-AGCACTAAACTCATCATAGACTT
* * * * * *
6984761 ACACTAGTAAAATTTAATATATAATTCCAACACTAAACTCATCACT-TATTT
1 ACACCAGTCAAATTTAACATATAATTCCAGCACTAAACTCATCA-TAGACTT
* * *
6984812 ACACTAGTAAAATTTAATATATAATTCCA
1 ACACCAGTCAAATTTAACATATAATTCCA
6984841 ACGTTGAACC
Statistics
Matches: 193, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
50 2 0.01
51 188 0.97
52 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (51 bp):
ACACCAGTCAAATTTAACATATAATTCCAGCACTAAACTCATCATAGACTT
Found at i:6984835 original size:153 final size:153
Alignment explanation
Indices: 6984557--6984840 Score: 374
Period size: 153 Copynumber: 1.9 Consensus size: 153
6984547 TCTTAGAGTA
* * * *
6984557 ACACCAGTCAAATTTAACATATAATTCTAGCACTAAACTCGTTATAGACTTAAACCAGTCAAATT
1 ACACCAGTCAAATTTAACACATAATTCTAGCACTAAACTCATCATAGACTTAAACCAGTAAAATT
*
6984622 TAACATATAACTCCAGCACTAAAATCATCATAAACTTACACCAATAAAATTTAACATATAATTCC
66 TAACATATAACTCCAACACTAAAATCATCATAAACTTACACCAATAAAATTTAACATATAATTCC
6984687 ATAACTAAACTCAGCACTAATTT
131 ATAACTAAACTCAGCACTAATTT
* * * * *
6984710 ACACCAGTCAAATTTAACACATAATTCCTTG-ATTAATCTCATCATAGACTTACACTAGTAAAAT
1 ACACCAGTCAAATTTAACACATAATT-CTAGCACTAAACTCATCATAGACTTAAACCAGTAAAAT
* * * * * * * *
6984774 TTAATATATAATTCCAACACTAAACTCATCACT-TATTTACACTAGTAAAATTTAATATATAATT
65 TTAACATATAACTCCAACACTAAAATCATCA-TAAACTTACACCAATAAAATTTAACATATAATT
6984838 CCA
129 CCA
6984841 ACGTTGAACC
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
153 107 0.96
154 4 0.04
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (153 bp):
ACACCAGTCAAATTTAACACATAATTCTAGCACTAAACTCATCATAGACTTAAACCAGTAAAATT
TAACATATAACTCCAACACTAAAATCATCATAAACTTACACCAATAAAATTTAACATATAATTCC
ATAACTAAACTCAGCACTAATTT
Found at i:6987795 original size:51 final size:51
Alignment explanation
Indices: 6987708--6987888 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 51
6987698 TTTTGTAGTG
* * * * * * *
6987708 CACCAATCAAATTTAATACATAATTCAAGCATTGAACTTATGACAGACTTA
1 CACCAGTCAAATTTAACACATAATTCCAGCAATGAACCTATCACACACTTA
*
6987759 CACTAGTCAAATTTAACACATAATTCCAGCAATGAACCTATCACACACTTA
1 CACCAGTCAAATTTAACACATAATTCCAGCAATGAACCTATCACACACTTA
* * * * * * *
6987810 CACCAATTAAATTTAACACATGATTCCAACAATAAACCTATCACATAATTA
1 CACCAGTCAAATTTAACACATAATTCCAGCAATGAACCTATCACACACTTA
* *
6987861 CACCAGTTAAATTTAACTCATAATTCCA
1 CACCAGTCAAATTTAACACATAATTCCA
6987889 ATCTTGAGCC
Statistics
Matches: 111, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 111 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (51 bp):
CACCAGTCAAATTTAACACATAATTCCAGCAATGAACCTATCACACACTTA
Found at i:6987842 original size:26 final size:26
Alignment explanation
Indices: 6987767--6987889 Score: 79
Period size: 25 Copynumber: 4.8 Consensus size: 26
6987757 TACACTAGTC
*
6987767 AAATTTAACACATAATTCCAGCAA-T
1 AAATTTAACACATAATTCCAACAATT
* ** * * * * *
6987792 GAACCTATCACACACTTACACCAATT
1 AAATTTAACACATAATTCCAACAATT
*
6987818 AAATTTAACACATGATTCCAACAA-T
1 AAATTTAACACATAATTCCAACAATT
** * * * *
6987843 AAACCTATCACATAATTACACCAGTT
1 AAATTTAACACATAATTCCAACAATT
*
6987869 AAATTTAACTCATAATTCCAA
1 AAATTTAACACATAATTCCAA
6987890 TCTTGAGCCT
Statistics
Matches: 66, Mismatches: 30, Indels: 3
0.67 0.30 0.03
Matches are distributed among these distances:
25 34 0.52
26 32 0.48
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (26 bp):
AAATTTAACACATAATTCCAACAATT
Found at i:6996460 original size:20 final size:18
Alignment explanation
Indices: 6996437--6996488 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
6996427 CTCTAAATCA
6996437 TTTTTCAAAGATTCATTTTG
1 TTTTTCAAA-A-TCATTTTG
6996457 TTTTTCAAAATCATTTT-
1 TTTTTCAAAATCATTTTG
6996474 TTGCTTTCAAAATCA
1 TT--TTTCAAAATCA
6996489 AATCATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.07
18 7 0.23
19 12 0.40
20 9 0.30
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (18 bp):
TTTTTCAAAATCATTTTG
Found at i:6996867 original size:18 final size:18
Alignment explanation
Indices: 6996841--6996882 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6996831 GCTTCACTTC
* *
6996841 CTTGGAAGTCATGAATCT
1 CTTGAAAGTCATGAATAT
*
6996859 CTTGAAAGTCGTGAATAT
1 CTTGAAAGTCATGAATAT
6996877 CTTGAA
1 CTTGAA
6996883 TCTTTTGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (18 bp):
CTTGAAAGTCATGAATAT
Found at i:7006895 original size:2 final size:2
Alignment explanation
Indices: 7006888--7006922 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7006878 AATTACGTCG
7006888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7006923 TCATATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7007061 original size:29 final size:29
Alignment explanation
Indices: 7007028--7007083 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
7007018 TGTTAAAATA
* *
7007028 ATATTATTAT-AATTAGTAGTTAGTTAGTT
1 ATATTATCATAAATTA-TAATTAGTTAGTT
*
7007057 ATATTCTCATAAATTATAATTAGTTAG
1 ATATTATCATAAATTATAATTAGTTAG
7007084 GTTTAACAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.48
Consensus pattern (29 bp):
ATATTATCATAAATTATAATTAGTTAGTT
Found at i:7012747 original size:24 final size:24
Alignment explanation
Indices: 7012720--7012776 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
7012710 AATTGACATG
*
7012720 TCTTGTGGAACTTCAAGTGACACC
1 TCTTGTGGAACTTCAAGAGACACC
* * * **
7012744 TCTTTTGAAACTTGAAGAGACATG
1 TCTTGTGGAACTTCAAGAGACACC
7012768 TCTTGTGGA
1 TCTTGTGGA
7012777 TCACCAAAAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (24 bp):
TCTTGTGGAACTTCAAGAGACACC
Found at i:7012759 original size:48 final size:48
Alignment explanation
Indices: 7012678--7012776 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 48
7012668 CATATCTCTG
* * * **
7012678 GGAACTTCATGTGACTCATCCTTTAAAATTTGAATTGACATGTCTTGT
1 GGAACTTCAAGTGACACATCCTTTAAAACTTGAAGAGACATGTCTTGT
* * *
7012726 GGAACTTCAAGTGACACCTCTTTTGAAACTTGAAGAGACATGTCTTGT
1 GGAACTTCAAGTGACACATCCTTTAAAACTTGAAGAGACATGTCTTGT
7012774 GGA
1 GGA
7012777 TCACCAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (48 bp):
GGAACTTCAAGTGACACATCCTTTAAAACTTGAAGAGACATGTCTTGT
Found at i:7022818 original size:21 final size:22
Alignment explanation
Indices: 7022789--7022830 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7022779 CTTTCATCTT
7022789 TTTCTCTTCATTTTCCTCCTCG
1 TTTCTCTTCATTTTCCTCCTCG
* *
7022811 TTTC-CTTCTTTTTCTTCCTC
1 TTTCTCTTCATTTTCCTCCTC
7022831 TATATATGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.02, C:0.36, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTCTCTTCATTTTCCTCCTCG
Found at i:7023387 original size:19 final size:20
Alignment explanation
Indices: 7023349--7023388 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7023339 TTCTAGTTAG
*
7023349 GAGTATCGATACTATTAGGGA
1 GAGTATCGATAC-ATCAGGGA
7023370 GAGTATCGATAC-TCAGGGA
1 GAGTATCGATACATCAGGGA
7023389 TACAATATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACATCAGGGA
Found at i:7036423 original size:162 final size:162
Alignment explanation
Indices: 7036136--7036462 Score: 449
Period size: 162 Copynumber: 2.0 Consensus size: 162
7036126 CATCAATATT
* * **
7036136 TTAAAGGTCACCATTTATCTCTATTGGTTAAAAAGATAATTGATTTTTTTTAATTTAAGGGTTTA
1 TTAAAGGTCACCATTTATCTCTATTGGTTAAAAAGATAATTGATTTTTCTCAATTTAAGGGTACA
* *
7036201 CTGAGTGTAAAAATATAAAAATAATTCAAGCATCACATTAGTTTTTTTAAATCACTAACACGATT
66 CAGAGTG-------ATAAAAATAATTCAAGCATCACATTAGTTTTTTAAAATCACTAACACGATT
* *
7036266 TATTTTAGGATAAAATATATGAGTGACCACTAAACCATC
124 TATTTTAGGATAAAATATATGAATGACCACCAAACCATC
* * * *
7036305 TTAACGGTCACCATTTATCTTTGTTGGTTAAAAAGATAATTGGTTTTTCTCAATTTAAGGGTCAC
1 TTAAAGGTCACCATTTATCTCTATTGGTTAAAAAGATAATTGATTTTTCTCAATTTAAGGGT-AC
7036370 ACAGAGTG-TAAAAATAATTCAAGCATCACATTAGTTTTTTAAAATCACTAACACGATTTATTTT
65 ACAGAGTGATAAAAATAATTCAAGCATCACATTAGTTTTTTAAAATCACTAACACGATTTATTTT
* *
7036434 AGGGTAAACTATATGAATGACCACCAAAC
130 AGGATAAAATATATGAATGACCACCAAAC
7036463 TTTGGGGTTG
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
162 80 0.56
169 56 0.39
170 7 0.05
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (162 bp):
TTAAAGGTCACCATTTATCTCTATTGGTTAAAAAGATAATTGATTTTTCTCAATTTAAGGGTACA
CAGAGTGATAAAAATAATTCAAGCATCACATTAGTTTTTTAAAATCACTAACACGATTTATTTTA
GGATAAAATATATGAATGACCACCAAACCATC
Found at i:7036852 original size:29 final size:29
Alignment explanation
Indices: 7036819--7036892 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
7036809 TGGGGTTGGT
* *
7036819 GTCAATATGACGACTATTTTCAAAATTGA
1 GTCAATATGACCACTATTTTCAAAAATGA
7036848 GTCAATATGACCACTATTTTCAAAAATGA
1 GTCAATATGACCACTATTTTCAAAAATGA
7036877 GTCAATATGACCACTA
1 GTCAATATGACCACTA
7036893 AAGTATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (29 bp):
GTCAATATGACCACTATTTTCAAAAATGA
Found at i:7038168 original size:18 final size:18
Alignment explanation
Indices: 7038145--7038181 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7038135 ACCCTTTATT
7038145 TTATTAGTTTAACCAGAG
1 TTATTAGTTTAACCAGAG
7038163 TTATTAGTTTAACCAGAG
1 TTATTAGTTTAACCAGAG
7038181 T
1 T
7038182 CTTGTGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
TTATTAGTTTAACCAGAG
Found at i:7045474 original size:18 final size:18
Alignment explanation
Indices: 7045453--7045487 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7045443 AATAAAGATG
*
7045453 AAAATAAACCTCACCAAC
1 AAAACAAACCTCACCAAC
*
7045471 AAAACAAATCTCACCAA
1 AAAACAAACCTCACCAA
7045488 TACGCTCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.31, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACAAACCTCACCAAC
Found at i:7047442 original size:18 final size:18
Alignment explanation
Indices: 7047400--7047445 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
7047390 TAGTTTGATT
*
7047400 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
7047418 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
7047436 AATGAACTAA
1 AATGAACTAA
7047446 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:7047521 original size:17 final size:17
Alignment explanation
Indices: 7047501--7047542 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
7047491 ACTACTTCCC
*
7047501 TAAATGAAATACATGCT
1 TAAATGAAACACATGCT
*
7047518 TAAATGCAACACATGCT
1 TAAATGAAACACATGCT
*
7047535 TTAATGAA
1 TAAATGAA
7047543 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (17 bp):
TAAATGAAACACATGCT
Found at i:7048738 original size:28 final size:28
Alignment explanation
Indices: 7048693--7048746 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7048683 ATATATGAAT
* *
7048693 ATATATTTTAGAAAACCATATAAAACAC
1 ATATATATTAGAAAACCACATAAAACAC
7048721 ATATATATTA-AAATACCACATAAAAC
1 ATATATATTAGAAA-ACCACATAAAAC
7048747 CGTATAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.28
Consensus pattern (28 bp):
ATATATATTAGAAAACCACATAAAACAC
Found at i:7050040 original size:18 final size:18
Alignment explanation
Indices: 7050017--7050065 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
7050007 GGTCGATCAA
*
7050017 CGGGTCGGGTTAAT-GAGT
1 CGGGTCGGGTCAATAG-GT
7050035 CGGGTCGGGTCAATAGGT
1 CGGGTCGGGTCAATAGGT
*
7050053 CGAGTCGGGTCAA
1 CGGGTCGGGTCAA
7050066 CCGAGTCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.18, C:0.16, G:0.43, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAATAGGT
Found at i:7050863 original size:21 final size:23
Alignment explanation
Indices: 7050837--7050882 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7050827 TGATCGTTAC
7050837 ATATGAT-GTTATCATGAA-CAT
1 ATATGATAGTTATCATGAATCAT
*
7050858 ATATGATATTTATCATGAATCAT
1 ATATGATAGTTATCATGAATCAT
7050881 AT
1 AT
7050883 TTTGGGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (23 bp):
ATATGATAGTTATCATGAATCAT
Found at i:7052316 original size:19 final size:19
Alignment explanation
Indices: 7052292--7052346 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
7052282 AGCTGGTCTG
7052292 ACCCGTTGACTTTGACCCA
1 ACCCGTTGACTTTGACCCA
**
7052311 ACCCGTTGACTTTGACCTG
1 ACCCGTTGACTTTGACCCA
* *
7052330 ACCCATTAACTTTGACC
1 ACCCGTTGACTTTGACC
7052347 AAAAAGTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.29
Consensus pattern (19 bp):
ACCCGTTGACTTTGACCCA
Found at i:7054405 original size:14 final size:14
Alignment explanation
Indices: 7054386--7054422 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7054376 AAAGTATAAT
7054386 ATTATTATAATATA
1 ATTATTATAATATA
*
7054400 ATTATTAAAATATA
1 ATTATTATAATATA
7054414 ATTATTATA
1 ATTATTATA
7054423 TTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATTATAATATA
Found at i:7067342 original size:81 final size:81
Alignment explanation
Indices: 7067247--7067400 Score: 254
Period size: 81 Copynumber: 1.9 Consensus size: 81
7067237 GCTGTTCAAA
* *
7067247 TTCTTCTTGAAGACATGCAGTAACAAGCATTCAAATCATGCATTCAAGGCCACATTTATCATCTT
1 TTCTTCTTGAAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTT
7067312 TTGAAGGCTTTTCATG
66 TTGAAGGCTTTTCATG
* * * *
7067328 TTCTTCTTGAAGACATGCAATAATAAGCATTCAAACCATGTATTCAAGTCCATATTTATCATCTT
1 TTCTTCTTGAAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTT
7067393 TTGAAGGC
66 TTGAAGGC
7067401 AATTCACATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (81 bp):
TTCTTCTTGAAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTT
TTGAAGGCTTTTCATG
Found at i:7067425 original size:81 final size:81
Alignment explanation
Indices: 7067256--7067429 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 81
7067246 ATTCTTCTTG
* * *
7067256 AAGACATGCAGTAACAAGCATTCAAATCATGCATTCAAGGCCACATTTATCATCTTTTGAAGGCT
1 AAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTTTTGAAGGCA
* ** ***
7067321 TTTCATGTTCTTCTTG
66 ATTCACATTCTTCAAC
* * * *
7067337 AAGACATGCAATAATAAGCATTCAAACCATGTATTCAAGTCCATATTTATCATCTTTTGAAGGCA
1 AAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTTTTGAAGGCA
7067402 ATTCACATT-TT-AAC
66 ATTCACATTCTTCAAC
7067416 AAGGTACATGCAAT
1 AA-G-ACATGCAAT
7067430 GAAGGATGGT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.03
80 3 0.04
81 73 0.94
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (81 bp):
AAGACATGCAATAACAAGCATTCAAACCATGCATTCAAGGCCACATTTATCATCTTTTGAAGGCA
ATTCACATTCTTCAAC
Found at i:7071310 original size:14 final size:14
Alignment explanation
Indices: 7071291--7071327 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7071281 AGATTTTTAC
7071291 GCAGGGATTTATTT
1 GCAGGGATTTATTT
*
7071305 GTAGGGATTTATTT
1 GCAGGGATTTATTT
7071319 GCAGGGATT
1 GCAGGGATT
7071328 ACTTCCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (14 bp):
GCAGGGATTTATTT
Found at i:7071313 original size:28 final size:28
Alignment explanation
Indices: 7071272--7071327 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
7071262 GGTTTCGGTC
7071272 TATTTGAAGAGATTT-TTACGCAGGGATT
1 TATTTGAAGAGATTTATT-CGCAGGGATT
* * *
7071300 TATTTGTAGGGATTTATTTGCAGGGATT
1 TATTTGAAGAGATTTATTCGCAGGGATT
7071328 ACTTCCCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (28 bp):
TATTTGAAGAGATTTATTCGCAGGGATT
Found at i:7073397 original size:34 final size:35
Alignment explanation
Indices: 7073336--7073411 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 35
7073326 TAAGTGTGTT
**
7073336 GTTCATTAAAAGCATGCATTGTGTTTAAGTTGCTA
1 GTTCATTAAAAGCATGCATTGAATTTAAGTTGCTA
7073371 GTTCATTAAAA-CATGCATTGAATTTAAGTTGCTA
1 GTTCATTAAAAGCATGCATTGAATTTAAGTTGCTA
7073405 GTTCATT
1 GTTCATT
7073412 TAGGAAAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 28 0.72
35 11 0.28
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (35 bp):
GTTCATTAAAAGCATGCATTGAATTTAAGTTGCTA
Found at i:7076117 original size:18 final size:19
Alignment explanation
Indices: 7076096--7076133 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
7076086 TGAAAATGAT
7076096 TTGATTTTGAAAAA-AAAA
1 TTGATTTTGAAAAACAAAA
7076114 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
7076133 T
1 T
7076134 GAAACTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (19 bp):
TTGATTTTGAAAAACAAAA
Found at i:7082122 original size:21 final size:21
Alignment explanation
Indices: 7082085--7082146 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
7082075 TTAAATAATA
*
7082085 TAAAGGAAGTACTGGTACTCAT
1 TAAAGG-AGTACCGGTACTCAT
7082107 TAAAGGAGTACCGGTACTCAT
1 TAAAGGAGTACCGGTACTCAT
*
7082128 TAAAGGAGTACCGATACTC
1 TAAAGGAGTACCGGTACTC
7082147 CCTATCGTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 32 0.84
22 6 0.16
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (21 bp):
TAAAGGAGTACCGGTACTCAT
Found at i:7084717 original size:29 final size:29
Alignment explanation
Indices: 7084675--7084759 Score: 136
Period size: 29 Copynumber: 2.9 Consensus size: 29
7084665 ATAGGATTAG
*
7084675 TGTCGATATGACCACTATACTTTTAATTT
1 TGTCAATATGACCACTATACTTTTAATTT
7084704 TGTCAATATGACCACTATACTTTTAATTT
1 TGTCAATATGACCACTATACTTTTAATTT
7084733 TGTCAATATGACCA-TATAACTATTTAA
1 TGTCAATATGACCACTAT-ACT-TTTAA
7084760 GTGATTTCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 3 0.06
29 45 0.85
30 5 0.09
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (29 bp):
TGTCAATATGACCACTATACTTTTAATTT
Found at i:7085154 original size:16 final size:17
Alignment explanation
Indices: 7085118--7085155 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7085108 AAATAAAAAC
7085118 ATTTTAATGATATTTAA
1 ATTTTAATGATATTTAA
* *
7085135 ATTTTAAT-ATTTTTAT
1 ATTTTAATGATATTTAA
7085151 ATTTT
1 ATTTT
7085156 TAAATAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTAATGATATTTAA
Found at i:7085650 original size:18 final size:19
Alignment explanation
Indices: 7085600--7085650 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
7085590 ATTTAAAATT
7085600 TTTATATTTTAAACAATTATA
1 TTTA-ATTTTAAAC-ATTATA
**
7085621 TTTAATACTAAAC-TTATA
1 TTTAATTTTAAACATTATA
7085639 TTTAATTTTAAA
1 TTTAATTTTAAA
7085651 ATTTTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 15 0.58
20 7 0.27
21 4 0.15
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAATTTTAAACATTATA
Found at i:7086843 original size:2 final size:2
Alignment explanation
Indices: 7086834--7086869 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7086824 AAAATAAAAA
7086834 AT AT -T 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 A
7086870 ATCGAGGCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7086976 original size:21 final size:21
Alignment explanation
Indices: 7086950--7086998 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
7086940 GATATCCGAT
7086950 CCGACCCGATATTATTCAAAC
1 CCGACCCGATATTATTCAAAC
7086971 CCGACCCGATATTATTCAAAC
1 CCGACCCGATATTATTCAAAC
7086992 CCGACCC
1 CCGACCC
7086999 AACCCGAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.39, G:0.10, T:0.20
Consensus pattern (21 bp):
CCGACCCGATATTATTCAAAC
Found at i:7086998 original size:26 final size:24
Alignment explanation
Indices: 7086945--7087005 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 24
7086935 AACCCGATAT
*
7086945 CCGATCCGACCCGATATTATTCAA
1 CCGACCCGACCCGATATTATTCAA
7086969 ---ACCCGACCCGATATTATTCAAA
1 CCGACCCGACCCGATATTATTC-AA
*
7086991 CCCGACCCAACCCGA
1 -CCGACCCGACCCGA
7087006 ACTTAACCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 18 0.60
22 2 0.07
26 10 0.33
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.18
Consensus pattern (24 bp):
CCGACCCGACCCGATATTATTCAA
Found at i:7090057 original size:20 final size:20
Alignment explanation
Indices: 7090032--7090087 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
7090022 TTAGTTTAGA
7090032 AATATAAAAATAATAAATTT
1 AATATAAAAATAATAAATTT
* *
7090052 AATATAAAAATATTGAATTT
1 AATATAAAAATAATAAATTT
*
7090072 AATTTAAAAAT-ATAAA
1 AATATAAAAATAATAAA
7090088 AACAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATAAAAATAATAAATTT
Found at i:7090069 original size:48 final size:48
Alignment explanation
Indices: 7090009--7090100 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
7089999 TATAGATGTG
* * *
7090009 AAAAATACTGAATTTAGTTTAGAAATATAAAAATAATAAATTTAATAT
1 AAAAATACTGAATTTAATTTAAAAATATAAAAACAATAAATTTAATAT
*
7090057 AAAAATATTGAATTTAATTTAAAAATATAAAAACAATAAATTTA
1 AAAAATACTGAATTTAATTTAAAAATATAAAAACAATAAATTTA
7090101 TTTTAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (48 bp):
AAAAATACTGAATTTAATTTAAAAATATAAAAACAATAAATTTAATAT
Found at i:7090083 original size:28 final size:28
Alignment explanation
Indices: 7090052--7090107 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
7090042 TAATAAATTT
* * *
7090052 AATATAAAAATATTGAATTTAATTTAAA
1 AATATAAAAACAATAAATTTAATTTAAA
*
7090080 AATATAAAAACAATAAATTTATTTTAAA
1 AATATAAAAACAATAAATTTAATTTAAA
7090108 TTTTAAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AATATAAAAACAATAAATTTAATTTAAA
Found at i:7094212 original size:25 final size:23
Alignment explanation
Indices: 7094168--7094213 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
7094158 TCTTACCCTT
7094168 ATTTTAATTACTTAAATTTAAGA
1 ATTTTAATTACTTAAATTTAAGA
*
7094191 ATTTTAATTTAACTTAATTTTAA
1 ATTTTAA-TT-ACTTAAATTTAA
7094214 AAAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTAATTACTTAAATTTAAGA
Found at i:7094409 original size:2 final size:2
Alignment explanation
Indices: 7094402--7094448 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7094392 CGCCATATGT
7094402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7094444 TA TA T
1 TA TA T
7094449 CAACATTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7126561 original size:19 final size:19
Alignment explanation
Indices: 7126533--7126572 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7126523 ATTCAAGAAT
7126533 TTGAGCTTGTAAGGTCAAG
1 TTGAGCTTGTAAGGTCAAG
*
7126552 TTGAGTTTGTAAGGTCAAG
1 TTGAGCTTGTAAGGTCAAG
7126571 TT
1 TT
7126573 TGAATCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (19 bp):
TTGAGCTTGTAAGGTCAAG
Found at i:7127363 original size:4 final size:4
Alignment explanation
Indices: 7127354--7127390 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
7127344 TGGAGAGGAG
* *
7127354 AAGA AAGA AAGA AAGA AAGA AAGA AATA AATA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
7127391 GAATAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (4 bp):
AAGA
Found at i:7128747 original size:21 final size:20
Alignment explanation
Indices: 7128717--7128755 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7128707 TTATAAGGCA
*
7128717 AAATTAATTTATATAATTTTT
1 AAATTAATTT-TACAATTTTT
*
7128738 AAATTTATTTTACAATTT
1 AAATTAATTTTACAATTT
7128756 ATTTGGAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTAATTTTACAATTTTT
Found at i:7132680 original size:67 final size:67
Alignment explanation
Indices: 7132591--7132782 Score: 208
Period size: 66 Copynumber: 2.9 Consensus size: 67
7132581 AAAGAATCTA
* * * * * *
7132591 AAAGGTTTATATTTCAAGAGAATCTTTCTCAAGTGAGATAAAACTTTGTTTCAAGAAAACCAGTC
1 AAAGGTTTATGTTTTAAGAGAATCTATCTTAAGTGAGACAAAACTTTGTTTCAAGAAAACCAGTA
7132656 CC
66 CC
* * * * * * * *
7132658 AAATGTTTGTGTTTTAATAGAATATGTCTTAAGCGAGACAAAA-TTTGTTTCAA-AATAAGCATT
1 AAAGGTTTATGTTTTAAGAGAATCTATCTTAAGTGAGACAAAACTTTGTTTCAAGAA-AACCAGT
*
7132721 ATC
65 ACC
* *
7132724 AAAGGTTTATGTTTTAAGAGAAACTATCTTAAGTGAGACAAAACTTTGTTTCGAGAAAA
1 AAAGGTTTATGTTTTAAGAGAATCTATCTTAAGTGAGACAAAACTTTGTTTCAAGAAAA
7132783 ATAGTCTCAA
Statistics
Matches: 100, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
65 2 0.02
66 52 0.52
67 44 0.44
68 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (67 bp):
AAAGGTTTATGTTTTAAGAGAATCTATCTTAAGTGAGACAAAACTTTGTTTCAAGAAAACCAGTA
CC
Found at i:7138397 original size:15 final size:15
Alignment explanation
Indices: 7138353--7138403 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
7138343 TGAAAATGGT
*
7138353 ACATATCTTTTTAAA
1 ACATAACTTTTTAAA
*
7138368 ACAGTAACATTTTAAA
1 ACA-TAACTTTTTAAA
*
7138384 ACATAATTTTTTAAA
1 ACATAACTTTTTAAA
7138399 ACATA
1 ACATA
7138404 GTAAAACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (15 bp):
ACATAACTTTTTAAA
Found at i:7144604 original size:29 final size:30
Alignment explanation
Indices: 7144550--7144606 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
7144540 AGGAACACTA
*
7144550 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTTCCCAAGAACATAGGTAACTG
*
7144580 TCCATATG-TCCCAAGGACATAGGTAAC
1 TCCATATGTTCCCAAGAACATAGGTAAC
7144607 CCTCGACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
TCCATATGTTCCCAAGAACATAGGTAACTG
Found at i:7144900 original size:2 final size:2
Alignment explanation
Indices: 7144893--7144923 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7144883 ACTTATGTAA
7144893 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
7144924 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7148212 original size:30 final size:30
Alignment explanation
Indices: 7148178--7148234 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7148168 AGGACCACTA
* *
7148178 TCCATATGTTCTGAA-GAACATAGGTAATTG
1 TCCATATGTCCCGAATG-ACATAGGTAATTG
7148208 TCCATATGTCCCGAATGACATAGGTAA
1 TCCATATGTCCCGAATGACATAGGTAA
7148235 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
TCCATATGTCCCGAATGACATAGGTAATTG
Found at i:7149043 original size:15 final size:15
Alignment explanation
Indices: 7149023--7149052 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7149013 TACATGCCTG
*
7149023 ATGGTATCGGTACCT
1 ATGGTATCGATACCT
7149038 ATGGTATCGATACCT
1 ATGGTATCGATACCT
7149053 CTTCTTTGGG
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:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
ATGGTATCGATACCT
Found at i:7151165 original size:21 final size:21
Alignment explanation
Indices: 7151139--7151182 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
7151129 ATTCTTGCAT
*
7151139 TTCATCTTCAATAATTGAAAC
1 TTCATCCTCAATAATTGAAAC
7151160 TTCATCCTCAATAATTGAAAC
1 TTCATCCTCAATAATTGAAAC
7151181 TT
1 TT
7151183 AAATTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (21 bp):
TTCATCCTCAATAATTGAAAC
Found at i:7152350 original size:14 final size:14
Alignment explanation
Indices: 7152333--7152362 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7152323 ATTTTTTGCT
7152333 TTTTGATCTTTGAG
1 TTTTGATCTTTGAG
*
7152347 TTTTGGTCTTTGAG
1 TTTTGATCTTTGAG
7152361 TT
1 TT
7152363 GATTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.23, T:0.60
Consensus pattern (14 bp):
TTTTGATCTTTGAG
Found at i:7152463 original size:2 final size:2
Alignment explanation
Indices: 7152456--7152499 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7152446 AAATATTTTA
7152456 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
7152498 AT
1 AT
7152500 TAGTTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7153480 original size:18 final size:18
Alignment explanation
Indices: 7153444--7153479 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
7153434 TAATAGTGGG
7153444 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
7153462 TTATTAT--AATATATTT
1 TTATTATAAAATATATTT
7153478 TT
1 TT
7153480 TGTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
18 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:7153756 original size:27 final size:27
Alignment explanation
Indices: 7153726--7153811 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
7153716 TAAACTGCAC
*
7153726 TTTTTTAAACACTATTTTAAAAAGTTA
1 TTTTTTAAACAATATTTTAAAAAGTTA
** *
7153753 TTTTTTCTACAATATTTTTAAAAGTTA
1 TTTTTTAAACAATATTTTAAAAAGTTA
** * * *
7153780 TTTTTTCTATAATATTTTTAAAAGTTG
1 TTTTTTAAACAATATTTTAAAAAGTTA
7153807 TTTTT
1 TTTTT
7153812 CAAAGGTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTTTAAACAATATTTTAAAAAGTTA
Found at i:7154104 original size:3 final size:3
Alignment explanation
Indices: 7154096--7154121 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7154086 TCTTCTAACA
7154096 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7154122 CTAAAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7156417 original size:18 final size:19
Alignment explanation
Indices: 7156382--7156417 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7156372 TTTAATCTTC
7156382 TTTAATTTATTATATTATG
1 TTTAATTTATTATATTATG
*
7156401 TTTAATTT-TTATTTTAT
1 TTTAATTTATTATATTAT
7156418 TGTGTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTAATTTATTATATTATG
Found at i:7156520 original size:26 final size:26
Alignment explanation
Indices: 7156492--7156541 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
7156482 AAGAAAAGTA
*
7156492 AAAAAAATAACAAA-AACCAAAAATC
1 AAAAAAATAACAAACAAACAAAAATC
*
7156517 AAAAAAATAATAAACAAACAAAAAT
1 AAAAAAATAACAAACAAACAAAAAT
7156542 GTTGCGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (26 bp):
AAAAAAATAACAAACAAACAAAAATC
Found at i:7157331 original size:20 final size:20
Alignment explanation
Indices: 7157306--7157344 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7157296 TACTACCCTA
7157306 TGAGTATCGAAACCCGAATT
1 TGAGTATCGAAACCCGAATT
7157326 TGAGTATCGAAACCCGAAT
1 TGAGTATCGAAACCCGAAT
7157345 CGTAGTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TGAGTATCGAAACCCGAATT
Found at i:7158520 original size:23 final size:23
Alignment explanation
Indices: 7158494--7158540 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7158484 AAAGAACCAC
*
7158494 AATAAACT-TAAATATACCATTAA
1 AATAAACTCTAAACAT-CCATTAA
*
7158517 AATAAAGTCTAAACATCCATTAA
1 AATAAACTCTAAACATCCATTAA
7158540 A
1 A
7158541 CCAACCACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (23 bp):
AATAAACTCTAAACATCCATTAA
Found at i:7162197 original size:45 final size:45
Alignment explanation
Indices: 7162147--7162283 Score: 247
Period size: 45 Copynumber: 3.0 Consensus size: 45
7162137 TTTATTATTG
7162147 TAGTAACGATTATTAATGGTGAGGGATCGATTTGTTATAAATCGA
1 TAGTAACGATTATTAATGGTGAGGGATCGATTTGTTATAAATCGA
* *
7162192 TAGTAATGATTATTAACGGTGAGGGATCGATTTGTTATAAATCGA
1 TAGTAACGATTATTAATGGTGAGGGATCGATTTGTTATAAATCGA
*
7162237 TAGTAACGATTATTAATGGTGAGGAATCGATTTGTTATAAATCGA
1 TAGTAACGATTATTAATGGTGAGGGATCGATTTGTTATAAATCGA
7162282 TA
1 TA
7162284 ATGTTAATGA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (45 bp):
TAGTAACGATTATTAATGGTGAGGGATCGATTTGTTATAAATCGA
Found at i:7165750 original size:139 final size:139
Alignment explanation
Indices: 7165591--7166361 Score: 1217
Period size: 139 Copynumber: 5.5 Consensus size: 139
7165581 TATGACAAGT
* * * *
7165591 TAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCATCAGATGAGTTCTACTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
* * *
7165656 TGAACTTTCTACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCCGATTCAACTCCATATGTGAT
66 TGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAT
7165721 GAATCGAGC
131 GAATCGAGC
* * *
7165730 GAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCA-CTGGATGAGTTTTTCTCATT
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC-GGATGAGTTCTTCTCATT
* *
7165794 ATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTTCATATGTGA
65 ATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
*
7165859 CGAATCGAGC
130 TGAATCGAGC
* * *
7165869 GT-AGGTTGAACAAGTGCTTCTCATTATGAACTTTTTCTCCCTCATTGGATGAGTTCTTCTCATT
1 -TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
*
7165933 ATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
65 ATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
* *
7165998 TTAATGGAGC
130 TGAATCGAGC
* ** *
7166008 TAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGGCGGATGAGTTATTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
7166073 TGAACTCTCCACT-AGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
66 TGAACTCTCCACTGA-AAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
7166137 TGAATCGAGC
130 TGAATCGAGC
7166147 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCTGG-TGAGTTCTTCTCATT
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC-GGATGAGTTCTTCTCATT
* * *
7166211 ATGAACTCTCCACTGTAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCTATAAGTGA
65 ATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
7166276 TGAATCGAGC
130 TGAATCGAGC
* * *
7166286 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
7166351 TGAACTCTCCA
66 TGAACTCTCCA
7166362 TTGGAAATAA
Statistics
Matches: 582, Mismatches: 42, Indels: 16
0.91 0.07 0.03
Matches are distributed among these distances:
138 4 0.01
139 576 0.99
140 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (139 bp):
TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
TGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAT
GAATCGAGC
Found at i:7166552 original size:91 final size:91
Alignment explanation
Indices: 7166282--7166552 Score: 461
Period size: 91 Copynumber: 3.0 Consensus size: 91
7166272 GTGATGAATC
*
7166282 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
*
7166347 ATTATGAACTCTCCATTGGAAATAAT
66 ATTATGAACTCTCCATTGGAAATGAT
* * *
7166373 GAACCAAGGTTGAACAAGTTCTTCGCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
* *
7166438 ATTATGAACTCTCCACTGGAAATGCT
66 ATTATGAACTCTCCATTGGAAATGAT
*
7166464 GAGCCAAGGTTAAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
*
7166529 ATTATGAACTCTCCGTTGGAAATG
66 ATTATGAACTCTCCATTGGAAATG
7166553 TTGATCGATT
Statistics
Matches: 167, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 167 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (91 bp):
GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTC
ATTATGAACTCTCCATTGGAAATGAT
Found at i:7166922 original size:65 final size:65
Alignment explanation
Indices: 7166843--7166988 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 65
7166833 TAAAATTTCT
* * * *
7166843 TGTTTCGAGGGAAACAAAT-TCAAAGA-TTGATGTTTCAAGGGAAACTGTCTCAAGGGAGA-AAA
1 TGTTTCAAGAGAAAC-AATCTCAAA-ATTTG-TGTTTCAAGGGAAACTGTCTAAAGAGAGACAAA
7166905 ATA
63 ATA
* *
7166908 TGTTTCAAGAGAAACGATCTCAAAATTTTGTGTTTCAAGGGAAATTGTCTAAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTCAAAA-TTTGTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAAT
*
7166973 T
65 A
* *
7166974 TGCTTAAAGAGAAAC
1 TGTTTCAAGAGAAAC
7166989 TGCCTCAAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 3 0.04
65 44 0.65
66 21 0.31
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (65 bp):
TGTTTCAAGAGAAACAATCTCAAAATTTGTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAATA
Found at i:7166996 original size:66 final size:65
Alignment explanation
Indices: 7166873--7166996 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
7166863 CAAAGATTGA
* * * * *
7166873 TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAATATGTTTCAAGAGAAACGATCTCAAAATTTTG
1 TGTTTCAAGGGAAACTGTCTAAAGAGAGAAAAATATGCTTAAAGAGAAACGACCTCAAAATTTTG
* *
7166938 TGTTTCAAGGGAAATTGTCTAAAGAGAGACAAAATTTGCTTAAAGAGAAACTG-CCTCAA
1 TGTTTCAAGGGAAACTGTCTAAAGAGAGA-AAAATATGCTTAAAGAGAAAC-GACCTCAA
7166997 GGGAGACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 26 0.52
66 23 0.46
67 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (65 bp):
TGTTTCAAGGGAAACTGTCTAAAGAGAGAAAAATATGCTTAAAGAGAAACGACCTCAAAATTTTG
Found at i:7167006 original size:36 final size:36
Alignment explanation
Indices: 7166938--7167129 Score: 206
Period size: 36 Copynumber: 5.2 Consensus size: 36
7166928 CAAAATTTTG
* * * *
7166938 TGTTTCAAGGGAAATTGTCTAAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * *
7166974 TGCTTAAAGAGAAACTGCCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
7167010 TGTTTCAAGGGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
* * *
7167047 TGTTTCAAGAGAAA-TTTACTCAAGGGAGATGAAATTT
1 TGTTTCAAGAGAAACTGT-CTCAAGGGAGA-CAAAATT
* * *
7167084 TGTTTCAAGTGAAATTGTCTCAAAGGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
7167121 TGTTTCAAG
1 TGTTTCAAG
7167130 GGAGACAAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
36 63 0.49
37 61 0.47
38 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
Found at i:7167069 original size:37 final size:36
Alignment explanation
Indices: 7166928--7167129 Score: 192
Period size: 37 Copynumber: 5.5 Consensus size: 36
7166918 GAAACGATCT
* * *
7166928 CAAAATTTTGTGTTTCAAGGGAAATTGTCTAAAGAGAGA
1 CAAAA-TTT-TGTTTCAAGAGAAATT-TCTCAAGGGAGA
* * **
7166967 CAAAA-TTTGCTTAAAGAGAAACTGCCTCAAGGGAGA
1 CAAAATTTTGTTTCAAGAGAAA-TTTCTCAAGGGAGA
* * *
7167003 CAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGG
1 CAAAATTTTGTTTCAAGAGAAA-TTTCTCAAGGGAGA
7167039 CAAAATTTTGTTTCAAGAGAAATTTACTCAAGGGAGA
1 CAAAATTTTGTTTCAAGAGAAATTT-CTCAAGGGAGA
** * *
7167076 TGAAATTTTGTTTCAAGTGAAATTGTCTCAAAGGAGA
1 CAAAATTTTGTTTCAAGAGAAATT-TCTCAAGGGAGA
*
7167113 CAAAACTTTGTTTCAAG
1 CAAAATTTTGTTTCAAG
7167130 GGAGACAAAA
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
36 58 0.42
37 73 0.53
38 1 0.01
39 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (36 bp):
CAAAATTTTGTTTCAAGAGAAATTTCTCAAGGGAGA
Found at i:7167123 original size:74 final size:72
Alignment explanation
Indices: 7166938--7167129 Score: 242
Period size: 74 Copynumber: 2.6 Consensus size: 72
7166928 CAAAATTTTG
* * *
7166938 TGTTTCAAGGGAAATTGTCT-AAAGAGAGACAAAATTTGCTTAAAGAGAAACTGCCTCAAGGGAG
1 TGTTTCAAGGGAAATTGTCTCAAAG-GAGACAAAATTTGTTTCAAGAGAAACTGACTCAAGGGAG
7167002 ACAAAATT
65 ACAAAATT
* * * * *
7167010 TGTTTCAAGGGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAGAAATTTACTCAAGGGAG
1 TGTTTCAAGGGAAATTGTCTCAAAGGAGACAAAA-TTTGTTTCAAGAGAAACTGACTCAAGGGAG
* *
7167075 ATGAAATTT
65 A-CAAAATT
*
7167084 TGTTTCAAGTGAAATTGTCTCAAAGGAGACAAAACTTTGTTTCAAG
1 TGTTTCAAGGGAAATTGTCTCAAAGGAGACAAAA-TTTGTTTCAAG
7167130 GGAGACAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
72 27 0.26
73 29 0.28
74 46 0.45
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (72 bp):
TGTTTCAAGGGAAATTGTCTCAAAGGAGACAAAATTTGTTTCAAGAGAAACTGACTCAAGGGAGA
CAAAATT
Found at i:7167144 original size:21 final size:22
Alignment explanation
Indices: 7167098--7167146 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
7167088 TCAAGTGAAA
*
7167098 TTGTCTCAAAGGAGACAAAACT
1 TTGTTTCAAAGGAGACAAAACT
*
7167120 TTGTTTCAAGGGAGACAAAAC-
1 TTGTTTCAAAGGAGACAAAACT
7167141 TTGTTT
1 TTGTTT
7167147 TAAGTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (22 bp):
TTGTTTCAAAGGAGACAAAACT
Found at i:7167612 original size:90 final size:89
Alignment explanation
Indices: 7167455--7167663 Score: 305
Period size: 90 Copynumber: 2.3 Consensus size: 89
7167445 CATCCTTCCC
* *
7167455 GAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTAAAGGCTTAGTTTCTAAA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCGAAA-GCATAGTTTCTAAA
* *
7167520 ATCTCATTT-AAATGCATCCTGCACT
65 ATCTCATTTGAAA-ACATCCAGCACT
* *
7167545 GAAGGTCTTATGGATGGCCTGAAGGACTTACAAATCAAGAAATCCCCGAATA-CATAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAA-CCCCGAA-AGCATAGTTTCTAA
7167609 AATCTCATTTGAAAACATCCAGCACT
64 AATCTCATTTGAAAACATCCAGCACT
*
7167635 GAAGGTCTTATGGATGGCCCGAAGAACTT
1 GAAGGTCTTATGGATGGCCCGAAGGACTT
7167664 GCGCATCATG
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
90 98 0.91
91 9 0.08
92 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (89 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCGAAAGCATAGTTTCTAAAA
TCTCATTTGAAAACATCCAGCACT
Found at i:7167856 original size:43 final size:43
Alignment explanation
Indices: 7167754--7168092 Score: 475
Period size: 43 Copynumber: 7.9 Consensus size: 43
7167744 TAGTTATCAC
* *
7167754 CAAGGAACCCCTACATATCACGTTGGTCCCTCAAG--TGTTCAT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTG-TCCT
*
7167796 CAAGGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCCT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* *
7167839 CAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCCT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* *
7167882 CAAGGAACCCCTACATATAACGATGGTCCCTCAAACTTGTCCT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* * * * *
7167925 CAAGAAACCCCTACATATCACGATGATCTCTCAAGCTTTTCTT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* *
7167968 CAAGGAACCCCTACATATCACGATGATCCCTCAAACTTGTCCT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* **
7168011 CAATGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTTAT
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
* * *
7168054 CAATGAACCCCTACATATCACGATGATCCCTCAAACTTG
1 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTG
7168093 GTTTCTTATA
Statistics
Matches: 266, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
42 33 0.12
43 231 0.87
44 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (43 bp):
CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCCT
Found at i:7170090 original size:7 final size:7
Alignment explanation
Indices: 7170078--7170165 Score: 63
Period size: 7 Copynumber: 11.7 Consensus size: 7
7170068 ATATGTATAT
7170078 TTTTTTC
1 TTTTTTC
7170085 TTTTTT-
1 TTTTTTC
7170091 TGTTTTTC
1 T-TTTTTC
*
7170099 TAGTTTTC
1 T-TTTTTC
7170107 TTATGTTTTC
1 -T-T-TTTTC
**
7170117 CCTTT-C
1 TTTTTTC
7170123 TTTTTTC
1 TTTTTTC
7170130 TTTTTTTC
1 -TTTTTTC
7170138 TTTTTTCTC
1 -TTTTT-TC
7170147 TTTTTTC
1 TTTTTTC
7170154 TTTTTTC
1 TTTTTTC
7170161 TTTTT
1 TTTTT
7170166 GTGTTTTTCC
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
6 5 0.07
7 29 0.43
8 24 0.36
9 4 0.06
10 5 0.07
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:7170139 original size:15 final size:15
Alignment explanation
Indices: 7170119--7170165 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
7170109 ATGTTTTCCC
7170119 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
7170134 TTTCTTTTTTCTCTTT
1 TTTCTTTTTTCT-TTT
7170150 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
7170165 T
1 T
7170166 GTGTTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 16 0.52
16 15 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:7170153 original size:9 final size:8
Alignment explanation
Indices: 7170119--7170165 Score: 64
Period size: 7 Copynumber: 6.1 Consensus size: 8
7170109 ATGTTTTCCC
7170119 TTTC-TTT
1 TTTCTTTT
7170126 TTTCTTTT
1 TTTCTTTT
7170134 TTTC-TTT
1 TTTCTTTT
7170141 TTTCTCTTT
1 TTTCT-TTT
7170150 TTTC-TTT
1 TTTCTTTT
7170157 TTTCTTTT
1 TTTCTTTT
7170165 T
1 T
7170166 GTGTTTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 18 0.50
8 11 0.31
9 7 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTCTTTT
Found at i:7170153 original size:24 final size:23
Alignment explanation
Indices: 7170121--7170165 Score: 81
Period size: 23 Copynumber: 1.9 Consensus size: 23
7170111 GTTTTCCCTT
7170121 TCTTTTTTCTTTTTTTCTTTTTTC
1 TCTTTTTTC-TTTTTTCTTTTTTC
7170145 TCTTTTTTCTTTTTTCTTTTT
1 TCTTTTTTCTTTTTTCTTTTT
7170166 GTGTTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TCTTTTTTCTTTTTTCTTTTTTC
Found at i:7170173 original size:16 final size:14
Alignment explanation
Indices: 7170077--7170165 Score: 63
Period size: 16 Copynumber: 5.9 Consensus size: 14
7170067 GATATGTATA
7170077 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
*
7170091 TGTTTTTCTAGTTTTCT
1 TTTTTTTCT--TTTT-T
* **
7170108 TATGTTTTC-CCTTT
1 T-TTTTTTCTTTTTT
*
7170122 CTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
7170136 TCTTTTTTCTCTTTTT
1 T-TTTTTTCT-TTTTT
7170152 TCTTTTTTCTTTTT
1 T-TTTTTTCTTTTT
7170166 GTGTTTTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.10
14 12 0.21
15 14 0.24
16 19 0.33
17 2 0.03
18 5 0.09
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:7173650 original size:28 final size:28
Alignment explanation
Indices: 7173618--7173681 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
7173608 AAAGGAATAT
7173618 AATAATTTTCCTAAGAATTCAATATTAA
1 AATAATTTTCCTAAGAATTCAATATTAA
7173646 AATAATTTTCCTAAGAATTCAATATTAA
1 AATAATTTTCCTAAGAATTCAATATTAA
7173674 AATAATTT
1 AATAATTT
7173682 CTATTCTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (28 bp):
AATAATTTTCCTAAGAATTCAATATTAA
Found at i:7177304 original size:2 final size:2
Alignment explanation
Indices: 7177292--7177354 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
7177282 CCCGTCCCTT
* * *
7177292 TC TC CC TC TC TC TC TC TC -C TC TC CC TC TC TT TC TC TC TC -C
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
7177332 TC TC CC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
7177355 AACATTTCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:7177326 original size:21 final size:20
Alignment explanation
Indices: 7177292--7177351 Score: 95
Period size: 21 Copynumber: 3.0 Consensus size: 20
7177282 CCCGTCCCTT
7177292 TCTCCCTCTC-TCTCTCTCC
1 TCTCCCTCTCTTCTCTCTCC
7177311 TCTCCCTCTCTTTCTCTCTCC
1 TCTCCCTCTC-TTCTCTCTCC
7177332 TCTCCCTCTCTCTCTCTCTC
1 TCTCCCTCTCT-TCTCTCTC
7177352 TCTAACATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.26
20 1 0.03
21 27 0.71
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (20 bp):
TCTCCCTCTCTTCTCTCTCC
Found at i:7178529 original size:23 final size:23
Alignment explanation
Indices: 7178482--7178531 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7178472 AATAACATAT
**
7178482 TAGGTAGCGCTTAGATAATGTAA
1 TAGGTAGCGCTTAGATAATAAAA
*
7178505 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTAGATAATAAAA
7178528 TAGG
1 TAGG
7178532 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (23 bp):
TAGGTAGCGCTTAGATAATAAAA
Found at i:7178586 original size:23 final size:23
Alignment explanation
Indices: 7178560--7178607 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7178550 ATCAAGTACA
7178560 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAGCGCTTAT
**
7178583 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAGCGCTTAT
7178606 AT
1 AT
7178608 TGACCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAATCAAATAGGTAGCGCTTAT
Found at i:7178592 original size:87 final size:87
Alignment explanation
Indices: 7178446--7178607 Score: 297
Period size: 87 Copynumber: 1.9 Consensus size: 87
7178436 ATGTTATATT
*
7178446 ATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAGATAATGTAATAGGTA
1 ATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
7178511 GCGCTTATATAATAAAATAGGC
66 GCGCTTATATAATAAAATAGGC
* *
7178533 ATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
7178598 GCGCTTATAT
66 GCGCTTATAT
7178608 TGACCTATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (87 bp):
ATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
GCGCTTATATAATAAAATAGGC
Found at i:7178671 original size:20 final size:20
Alignment explanation
Indices: 7178646--7178698 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
7178636 TTTAAACCGG
*
7178646 TTACATTATAAATTGATCTA
1 TTACATTATAAATTGACCTA
7178666 TTACATTATAAATTGACCTA
1 TTACATTATAAATTGACCTA
7178686 TTACATTATAAAT
1 TTACATTATAAAT
7178699 ATCGGTTTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (20 bp):
TTACATTATAAATTGACCTA
Found at i:7182779 original size:201 final size:200
Alignment explanation
Indices: 7182251--7183247 Score: 1105
Period size: 201 Copynumber: 5.0 Consensus size: 200
7182241 ATTTTCAAAA
* * *
7182251 GTATCGACACTAATTTAA-AAAGTATCGATACATTCTGTAGACCTATTTTCTCATAAAACCGGTA
1 GTATCGACAC-AAATGAATAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTA
* * * *
7182315 AATTTAAACCGGTTACATTGTAAAGTGACCTATTA-ATTACAATTATGGGTTTCGATGTATTTAG
65 AATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
*
7182379 GATCGACAC-TTTT-TAAATGTATCGACAC-TTTTCGTGAACTT-GTTTGGAAAATTATTATGGA
130 GATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAA-CATTATGGA
* *
7182440 CATA-AA
194 CACACAT
* * * * *
7182446 GTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCT-TTTT-TTA-AATAACCAGTA
1 GTATCGACACAAATGAATAAAGTATCGATACATTATGTAGACCTATTTTCTCATAA-AACCGGTA
* * * * * * * * * * *
7182508 TATTTACACCGATTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGATGTTTGTAG
65 AATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
* *
7182573 GATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATACATTCTGG
130 GATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAA-ACATTATGG
7182638 ACA-ACAT
193 ACACACAT
* *
7182645 GTATCGACACAAATGAATAAAGTATCGACACA-TATTGTAGACCTATTTTCTCATAAAATCGGTA
1 GTATCGACACAAATGAATAAAGTATCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGGTA
* *
7182709 AATTTAAATCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGG
65 AATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
** *
7182774 GATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACATTA
130 GATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTG----GTTTGGAAAACATTA
*
7182838 TGGACACAAAT
190 TGGACACACAT
** ** * * * * * *
7182849 -TATCGGTAC-AATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCAT-AAACCGGTAT
1 GTATCGACACAAATGAATAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAA
* * ** * *
7182911 ATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTACGGATTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
* * * * *
7182976 ATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTAGAATACATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAAACATTATGGAC
7183041 A-ACAT
195 ACACAT
* *
7183046 GTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAATGAATAAAGTATCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGGTA
* *
7183110 AACTTAAACCGGTTACATTTTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
65 AATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
** *
7183175 GATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACACAT
130 GATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTG----GTTTGG-AAA-ACAT
7183239 TATGGACAC
188 TATGGACAC
7183248 TTTTACCTTT
Statistics
Matches: 663, Mismatches: 104, Indels: 59
0.80 0.13 0.07
Matches are distributed among these distances:
192 2 0.00
193 37 0.06
194 42 0.06
195 37 0.06
196 15 0.02
197 5 0.01
198 40 0.06
199 97 0.15
200 109 0.16
201 186 0.28
202 43 0.06
203 25 0.04
204 14 0.02
205 11 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (200 bp):
GTATCGACACAAATGAATAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAA
ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGG
ATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAACATTATGGACA
CACAT
Done.