Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 39
Found at i:4335756 original size:36 final size:35
Alignment explanation
Indices: 4335711--4336043 Score: 302
Period size: 36 Copynumber: 9.6 Consensus size: 35
4335701 TATTTAAAAA
*
4335711 ATATAATATAT-TTTGAAAACATTTTGAAAACATT
1 ATATAATATATATTTTAAAACATTTTGAAAACATT
*
4335745 ATATATTATATAGTTTTTAAAACATTTTGAAAAC-TT
1 ATATAATATATA--TTTTAAAACATTTTGAAAACATT
* *
4335781 ATATAGTATAGTTTTTTAAAACATTTTGAAAAC-TT
1 ATATAATATA-TATTTTAAAACATTTTGAAAACATT
* *
4335816 ATATAGTATA-GTTTTAAAACAATTTTGAAAA-ATT
1 ATATAATATATATTTTAAAAC-ATTTTGAAAACATT
* * *
4335850 ATATAATATATAGTTTAAAAACATTTTTAAAAAATT
1 ATATAATATATA-TTTTAAAACATTTTGAAAACATT
* * *
4335886 TTATAATATATAGTTTTAAAAAGATTTTGGAAA-ATT
1 ATATAATATATA-TTTT-AAAACATTTTGAAAACATT
4335922 ATATAATATATAGTTTTAAAACATTTTTGAAAA-ATT
1 ATATAATATATA-TTTTAAAACA-TTTTGAAAACATT
* *
4335958 ATATAAAATATAGTTTTAAAAATATTTTTGAAAAC--T
1 ATATAATATATA-TTTT-AAAACA-TTTTGAAAACATT
4335994 -TAT-ATA-ATATTTTAAAACATTTTTGAAAAC---
1 ATATAATATATATTTTAAAACA-TTTTGAAAACATT
4336024 -TATAATATATAGTTTTAAAA
1 ATATAATATATA-TTTTAAAA
4336044 ACTTTTTTAA
Statistics
Matches: 262, Mismatches: 21, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.01
31 19 0.07
32 7 0.03
33 20 0.08
34 33 0.13
35 49 0.19
36 84 0.32
37 47 0.18
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATAATATATATTTTAAAACATTTTGAAAACATT
Found at i:4335804 original size:35 final size:34
Alignment explanation
Indices: 4335663--4336069 Score: 246
Period size: 37 Copynumber: 11.9 Consensus size: 34
4335653 TAATTTTCAG
* * *
4335663 AAAACAATTTCGAAAATTTATATATATAG-TTTTG
1 AAAAC-ATTTTGAAAACTTATATATATAGTTTTTT
* ** *
4335697 AAAATA-TTT-AAAAAATATA-ATATA--TTTTG
1 AAAACATTTTGAAAACTTATATATATAGTTTTTT
4335726 AAAACATTTTGAAAACATTATATATTATA-TAGTTTTT
1 AAAACATTTTGAAAAC-TTATATA-TATAGT--TTTTT
4335763 AAAACATTTTGAAAACTTATATAGTATAGTTTTTT
1 AAAACATTTTGAAAACTTATATA-TATAGTTTTTT
4335798 AAAACATTTTGAAAACTTATATAGTATAG--TTTT
1 AAAACATTTTGAAAACTTATATA-TATAGTTTTTT
* * *
4335831 AAAACAATTTTGAAAAATTATATAATATA-TAGTTTA
1 AAAAC-ATTTTGAAAACTTATAT-ATATAGT-TTTTT
* * *
4335867 AAAACATTTTTAAAAAATTTTATAATATATAG-TTTTA
1 AAAACA-TTTT-GAAAA-CTTAT-ATATATAGTTTTTT
* *
4335904 AAAAGATTTTGGAAAA-TTATATAATATA-TAGTTTT
1 AAAACATTTT-GAAAACTTATAT-ATATAGT-TTTTT
* *
4335939 AAAACATTTTTGAAAAATTATATAAAATATAG-TTTTA
1 AAAACA-TTTTGAAAACTTATAT---ATATAGTTTTTT
*
4335976 AAAATATTTTTGAAAACTTATATA-ATA---TTTT
1 AAAACA-TTTTGAAAACTTATATATATAGTTTTTT
*
4336007 AAAACATTTTTGAAAAC-TATAATATATAG-TTTTA
1 AAAACA-TTTTGAAAACTTAT-ATATATAGTTTTTT
* * *
4336041 AAAACTTTTTTAAAA-ATATA-ATATAGTTT
1 AAAACATTTTGAAAACTTATATATATAGTTT
4336070 AAAAATATTT
Statistics
Matches: 311, Mismatches: 29, Indels: 68
0.76 0.07 0.17
Matches are distributed among these distances:
29 10 0.03
30 11 0.04
31 40 0.13
32 12 0.04
33 27 0.09
34 46 0.15
35 49 0.16
36 41 0.13
37 58 0.19
38 15 0.05
39 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
AAAACATTTTGAAAACTTATATATATAGTTTTTT
Found at i:4335809 original size:72 final size:71
Alignment explanation
Indices: 4335643--4336098 Score: 378
Period size: 72 Copynumber: 6.7 Consensus size: 71
4335633 TTTTGACAAA
* * * *
4335643 ATATAATATATAATTTTCAGAAAACAATTTCG-AAA-ATT-TATATATATAGTTTTGAAAATA-T
1 ATATAATATATAGTTTT---AAAAC-ATTTTGAAAACATTATATATATATAGTTTTAAAAACATT
*
4335704 TT-AAAA--A
62 TTGAAAACTT
* *
4335711 ATATAATATAT--TTTGAAAACATTTTGAAAACATTATATATTATATAGTTTTTAAAACATTTTG
1 ATATAATATATAGTTTTAAAACATTTTGAAAACATTATATA-TATATAGTTTTAAAAACATTTTG
4335774 AAAACTT
65 AAAACTT
* * *
4335781 ATATAGTATAGT-TTTTTAAAACATTTTGAAAAC-TTATATA-GTATAGTTTT-AAAACAATTTT
1 ATATAATATA-TAGTTTTAAAACATTTTGAAAACATTATATATATATAGTTTTAAAAAC-ATTTT
*
4335842 GAAAAATT
64 GAAAACTT
* * * * *
4335850 ATATAATATATAGTTTAAAAACATTTTTAAAAAATTTTATAATATATAGTTTTAAAAAGATTTTG
1 ATATAATATATAGTTTTAAAACATTTTGAAAACATTATAT-ATATATAGTTTTAAAAACATTTT-
4335915 GAAAA-TT
64 GAAAACTT
* *
4335922 ATATAATATATAGTTTTAAAACATTTTTGAAAA-ATTATATAAAATATAGTTTTAAAAATATTTT
1 ATATAATATATAGTTTTAAAACA-TTTTGAAAACATTATAT-ATATATAGTTTTAAAAACA-TTT
4335986 TGAAAAC-T
63 TGAAAACTT
* *
4335994 -TAT-ATA-ATA-TTTTAAAACATTTTTGAAAAC--TATA-ATATATAGTTTTAAAAACTTTTTT
1 ATATAATATATAGTTTTAAAACA-TTTTGAAAACATTATATATATATAGTTTTAAAAACATTTTG
4336052 AAAA---
65 AAAACTT
* * *
4336056 ATAT-A-ATATAGTTTAAAAATATTTTGAATACA-TATAT-TATATA
1 ATATAATATATAGTTTTAAAACATTTTGAAAACATTATATATATATA
4336099 ATTTATATTA
Statistics
Matches: 333, Mismatches: 29, Indels: 56
0.80 0.07 0.13
Matches are distributed among these distances:
62 6 0.02
63 24 0.07
64 29 0.09
65 20 0.06
66 19 0.06
67 7 0.02
68 41 0.12
69 50 0.15
70 17 0.05
71 12 0.04
72 87 0.26
73 21 0.06
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (71 bp):
ATATAATATATAGTTTTAAAACATTTTGAAAACATTATATATATATAGTTTTAAAAACATTTTGA
AAACTT
Found at i:4336119 original size:15 final size:15
Alignment explanation
Indices: 4336099--4336158 Score: 61
Period size: 14 Copynumber: 4.0 Consensus size: 15
4336089 ATATTATATA
4336099 ATTTATATTATTTT-T
1 ATTTAT-TTATTTTCT
4336114 ATTTATTTATTTTCT
1 ATTTATTTATTTTCT
*
4336129 ATTTA-TTAATTTCT
1 ATTTATTTATTTTCT
* *
4336143 TTTTATGTTCTTTTCT
1 ATTTAT-TTATTTTCT
4336159 TTTCTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
14 19 0.50
15 12 0.32
16 7 0.18
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (15 bp):
ATTTATTTATTTTCT
Found at i:4337561 original size:5 final size:5
Alignment explanation
Indices: 4337547--4337592 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
4337537 TGATTTACCA
* *
4337547 TTTA- TTTAT TTTAT TTTAT TTCAT TTTAT TTCAT TTT-T ATTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TT
4337593 ATCTATGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 5 0.14
5 29 0.83
6 1 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:4342972 original size:84 final size:83
Alignment explanation
Indices: 4342791--4343616 Score: 639
Period size: 84 Copynumber: 10.0 Consensus size: 83
4342781 GTCTATTTGC
* * * * * *
4342791 CAACAAAAGACCCTT-GAGTTCGA-TTACACTCAGCTTCGAGAGCACATCATTTACAGTATAACT
1 CAACCAAAGA-CCTTCGAGTTCGACTT-CGCTCAGCTCCAAG-GCACATCATTTGCAGCATAACT
* * * *
4342854 CAAGGCTAGAAGGGTTATTTG
63 TAAGTCGAGAAGGGTTATCTG
** *
4342875 TGACCAAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTA
1 CAACC-AAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
* *
4342940 AGTCGAAAATGGTTATCTG
65 AGTCGAGAAGGGTTATCTG
* *
4342959 CCAACCAAAGACCTTCGAGTTCGACAAT-GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
1 -CAACCAAAGACCTTCGAGTTCGAC-TTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT
*
4343023 AAGTCGAGAAGGGCTATCTG
64 AAGTCGAGAAGGGTTATCTG
* * * * * * * *
4343043 ---CCAAAGACCCTCGAGTTTGA-TTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTC
1 CAACCAAAGACCTTCGAGTTCGACTT-CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTT
* * *
4343104 AAGGCTAGAAAGGTTATCTG
64 AAGTCGAGAAGGGTTATCTG
** * * *
4343124 TGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTC
1 CAACC-AAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
*
4343189 AGTCGAGAAGGGTTATCTTC
65 AGTCGAGAAGGGTTATC-TG
* *
4343209 CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA
1 CAACCAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
* *
4343274 GTCGAAAAGGGCTATCTG
66 GTCGAGAAGGGTTATCTG
* * * * * * * * *
4343292 ---CCAAATACCCTCGAGTTC-AATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTC
1 CAACCAAAGACCTTCGAGTTCGACTT-CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTT
* * *
4343353 AAGGCTAGAAGGGTTATCTA
64 AAGTCGAGAAGGGTTATCTG
** * * * * * *
4343373 TGACCAAAAGACCTTTGAGTTTGACTTTGCTCAGCTCCAAGGCATATCATTTACAGTATAACTTA
1 CAACC-AAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTA
4343438 AGTCGAGAAGGGTTATCTG
65 AGTCGAGAAGGGTTATCTG
* * * * * * *
4343457 CCAACCAAAGACCCTCGAGTTGGA-TTACACTCAGCTTCGAGGGCACATCATTTACAACATAACT
1 -CAACCAAAGACCTTCGAGTTCGACTT-CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACT
* *** *
4343521 CAAGGATAGAAGGGTTATTTG
63 TAAGTCGAGAAGGGTTATCTG
* * * * * ** *
4343542 ---TC----A-CTTCGAGTTCGACTACGCTCAGCTCTAAGACACATCATTTACATTATAACTCAA
1 CAACCAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
* *
4343599 GGCAAGAAGGGTTATCTG
66 GTCGAGAAGGGTTATCTG
4343617 TCAATAAAAT
Statistics
Matches: 597, Mismatches: 120, Indels: 59
0.77 0.15 0.08
Matches are distributed among these distances:
75 41 0.07
76 17 0.03
77 2 0.00
78 1 0.00
79 2 0.00
80 47 0.08
81 78 0.13
83 3 0.01
84 283 0.47
85 116 0.19
86 7 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
CAACCAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
GTCGAGAAGGGTTATCTG
Found at i:4343242 original size:249 final size:249
Alignment explanation
Indices: 4342796--4343617 Score: 1192
Period size: 249 Copynumber: 3.3 Consensus size: 249
4342786 TTTGCCAACA
* *
4342796 AAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGAGCACATCATTTACAGTATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
* *
4342861 AGAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCATATCATT
66 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATT
* * * *
4342926 TGCAGCATAACTTAAGTCGAAAATGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACAATGCTC
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
*
4342991 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
196 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCC
*
4343045 AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
*
4343110 AGAAAGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATT
66 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATT
* *
4343175 TGCAGCATAACTTCAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTC
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
4343240 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCC
196 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCC
* *
4343294 AAATACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
* * *
4343359 AGAAGGGTTATCTATGACCAAAAGACCTTTGAGTTTGACTTTGCTCAGCTCCAAGGCATATCATT
66 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATT
* * * * * *
4343424 TACAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTCGAGTTGGATTACACTC
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
* * * * * * * * *
4343489 AGCTTCGAGGGCACATCATTTACAACATAACTCAAG--GATAGAAGGGTTATTTGTC
196 AGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA-A-AAGGGCTATCTGCC
* * * * * * * *
4343544 ----A-CTTCGAGTTCGACTACGCTCAGC-TCTAAGACACATCATTTACATTATAACTCAAGGCA
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
4343603 AGAAGGGTTATCTGT
66 AGAAGGGTTATCTGT
4343618 CAATAAAATT
Statistics
Matches: 523, Mismatches: 47, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
244 44 0.08
245 19 0.04
246 1 0.00
248 2 0.00
249 420 0.80
250 37 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (249 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTTCGCTCAGCTCCAAGGCATATCATT
TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTGCC
Found at i:4343340 original size:165 final size:166
Alignment explanation
Indices: 4342796--4343616 Score: 752
Period size: 165 Copynumber: 5.0 Consensus size: 166
4342786 TTTGCCAACA
* * *
4342796 AAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGAGCACATCATTTACAGTATAAC-TCAAGGC
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAGGC
* * * *
4342860 TAGAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTTCGCTCAGCTCCAAGGCATATCAT
66 GAGAAGGGTTATCT-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* *
4342925 TTGCAGCATAACTTAAGTCGAAAATGGTTATCTGCCAACC
130 TTACAGCATAACTTAAGTCGAAAAGGGTTATCTG---ACC
* ** ** * * * * *
4342965 AAAGACCTTCGAGTTCGACAATGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTT-AAGTC
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAGGC
* * * * * * *
4343028 GAGAAGGGCTATC-TG-CC-AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCAT
66 GAGAAGGGTTATCTTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCAT
* * * *
4343090 TTACAGTATAACTCAAGGCTAGAAA-GGTTATCTGTGACC
130 TTACAGCATAACTTAAGTCGA-AAAGGGTTATC--TGACC
* * * * * * *
4343129 AAAAGACCTTCGAGTTTGACTT-CGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTC-AG
1 -AAAGACCCTCGAGTTCGA-TTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAG
* *
4343191 TCGAGAAGGGTTATCTTCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
64 GCGAGAAGGGTTATCTT--GACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
4343255 CATTTGCAGCATAGCTTAAGTCGAAAAGGGCTATCTG-CC
127 CATTTACAGCATAACTTAAGTCGAAAAGGGTTATCTGACC
* * *
4343294 AAATACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAAC-TCAAGGC
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAGGC
* * * ** *
4343358 TAGAAGGGTTATCTATGACCAAAAGACCTTTGAGTTTGACTTTGCTCAGCTCCAAGGCATATCAT
66 GAGAAGGGTTATCT-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* *
4343423 TTACAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACC
130 TTACAGCATAACTTAAGTCGAAAAGGGTTATCTG---ACC
* * *
4343463 AAAGACCCTCGAGTTGGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAAC-TCAAGGA
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAGGC
* * * *
4343527 TAGAAGGGTTAT-TTG-TC-----A-CTTCGAGTTCGACTACGCTCAGCTCTAAGACACATCATT
66 GAGAAGGGTTATCTTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
** * *
4343584 TACATTATAACTCAAGGC-AAGAAGGGTTATCTG
131 TACAGCATAACTTAAGTCGAA-AAGGGTTATCTG
4343617 TCAATAAAAT
Statistics
Matches: 538, Mismatches: 91, Indels: 55
0.79 0.13 0.08
Matches are distributed among these distances:
159 1 0.00
160 59 0.11
161 1 0.00
163 2 0.00
164 53 0.10
165 212 0.39
166 10 0.02
167 7 0.01
168 70 0.13
169 123 0.23
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (166 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTCAAGGC
GAGAAGGGTTATCTTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TACAGCATAACTTAAGTCGAAAAGGGTTATCTGACC
Found at i:4344297 original size:40 final size:37
Alignment explanation
Indices: 4344247--4344621 Score: 173
Period size: 36 Copynumber: 10.4 Consensus size: 37
4344237 TTTTGACAAA
4344247 ATATAATATATAATTTTCAGAAAATGATTTTCAAAAATTT
1 ATATAATATATAATTTT-AGAAAAT-ATTTT-AAAAATTT
* * * *
4344287 ATATATTATATAGTTTTTGAAAATATTTTAAAAA--G
1 ATATAATATATAATTTTAGAAAATATTTTAAAAATTT
* *
4344322 ATATAATATATAGTTTT-GAAAACA-TTT----A--T
1 ATATAATATATAATTTTAGAAAATATTTTAAAAATTT
* * * * *
4344351 ATAT--TATATAGTTTT-TAAAACATTTTGAAAACTT
1 ATATAATATATAATTTTAGAAAATATTTTAAAAATTT
* * * * *
4344385 ATATAGTATATAGTTTTTA-AAACATTTTTTGAAAACTT
1 ATATAATATATA-ATTTTAGAAA-ATATTTTAAAAATTT
* * ** * *
4344423 ATATAGTATATAGTTTTTTAAAACAATTTTGAAAAA-CT
1 ATATAATATATAATTTTAGAAAA-TATTTT-AAAAATTT
* * *
4344461 ATATAATATAT-AGTTTA-AAAACATTTTTAAAAAATT
1 ATATAATATATAATTTTAGAAAATA-TTTTAAAAATTT
* * *
4344497 ATATAATATATAGTTTTA-AAAAGATTTTGGAAAA-TT
1 ATATAATATATAATTTTAGAAAATATTTT-AAAAATTT
* *
4344533 ATATAATATATAGTTTTA-AAAACATTTTTGAAAAA-TT
1 ATATAATATATAATTTTAGAAAATA-TTTT-AAAAATTT
* * ** *
4344570 ATATAATATATAGTTTT-TAAAATATTTTTGAAATAT
1 ATATAATATATAATTTTAGAAAATATTTTAAAAATTT
*
4344606 ATATATTATATAATTT
1 ATATAATATATAATTT
4344622 ATATTATTTT
Statistics
Matches: 278, Mismatches: 35, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
27 17 0.06
28 3 0.01
29 5 0.02
32 1 0.00
33 3 0.01
34 11 0.04
35 25 0.09
36 74 0.27
37 66 0.24
38 48 0.17
39 10 0.04
40 15 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATAATATATAATTTTAGAAAATATTTTAAAAATTT
Found at i:4344309 original size:27 final size:28
Alignment explanation
Indices: 4344274--4344375 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 28
4344264 CAGAAAATGA
*
4344274 TTTTCAAAA-ATTTATATATTATATAGT
1 TTTTGAAAACATTTATATATTATATAGT
* *
4344301 TTTTGAAAATATTTTAAAAAGATATAATATATAG-
1 TTTTGAAAACA-TTT------ATATATTATATAGT
4344335 TTTTGAAAACATTTATATATTATATAGT
1 TTTTGAAAACATTTATATATTATATAGT
4344363 TTTT-AAAACATTT
1 TTTTGAAAACATTT
4344376 TGAAAACTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
27 29 0.47
28 5 0.08
29 3 0.05
33 3 0.05
34 10 0.16
35 12 0.19
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (28 bp):
TTTTGAAAACATTTATATATTATATAGT
Found at i:4344349 original size:62 final size:63
Alignment explanation
Indices: 4344274--4344411 Score: 192
Period size: 62 Copynumber: 2.2 Consensus size: 63
4344264 CAGAAAATGA
*
4344274 TTTTCAAAA-ATTTATATATTATATAGTTTTTGAAAATATTTT-AAAA-AGATATAATATATAG
1 TTTTCAAAACATTTATATATTATATAGTTTTT-AAAACATTTTGAAAACAGATATAATATATAG
* ** *
4344335 TTTTGAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAG
1 TTTTCAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAAACAGATATAATATATAG
*
4344398 TTTTTAAAACATTT
1 TTTTCAAAACATTT
4344412 TTTGAAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
61 17 0.25
62 26 0.38
63 25 0.37
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (63 bp):
TTTTCAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAAACAGATATAATATATAG
Found at i:4344395 original size:36 final size:37
Alignment explanation
Indices: 4344335--4344602 Score: 346
Period size: 36 Copynumber: 7.2 Consensus size: 37
4344325 TAATATATAG
*
4344335 TTTTGAAAACATTTATATATTATATAGTTTTTAAAACA-
1 TTTTGAAAAC--TTATATAATATATAGTTTTTAAAACAT
*
4344373 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACATT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACA-T
* *
4344411 TTTTGAAAACTTATATAGTATATAGTTTTTTAAAACAA
1 TTTTGAAAACTTATATAATATATAG-TTTTTAAAACAT
*
4344449 TTTTGAAAAAC-TATATAATATATAG-TTTAAAAACAT
1 TTTTG-AAAACTTATATAATATATAGTTTTTAAAACAT
* * * *
4344485 TTTTAAAAAATTATATAATATATAGTTTTAAAAAGAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
* *
4344522 TTTGGAAAA-TTATATAATATATAGTTTTAAAAACAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
* *
4344558 TTTTGAAAAATTATATAATATATAGTTTTTAAAATAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
4344595 TTTTGAAA
1 TTTTGAAA
4344603 TATATATATT
Statistics
Matches: 209, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
35 4 0.02
36 86 0.41
37 50 0.24
38 53 0.25
39 16 0.08
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
Found at i:4344435 original size:74 final size:73
Alignment explanation
Indices: 4344335--4344602 Score: 362
Period size: 73 Copynumber: 3.6 Consensus size: 73
4344325 TAATATATAG
* *
4344335 TTTTGAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAGTT
1 TTTTGAAAA-A-TTATATAATATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAGTT
*
4344400 TTTAAAACATT
64 TTAAAAACA-T
* *
4344411 TTTTGAAAACTTATATAGTATATAGTTTTTTAAAACAATTTTGAAAAAC-TATATAATATATAG-
1 TTTTGAAAAATTATATAATATATAG-TTTTTAAAAC-ATTTTG-AAAACTTATATAATATATAGT
4344474 TTTAAAAACAT
63 TTTAAAAACAT
* * *
4344485 TTTTAAAAAATTATATAATATATAGTTTTAAAAAGATTTTGGAAAA-TTATATAATATATAGTTT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACATTTT-GAAAACTTATATAATATATAGTTT
4344549 TAAAAACAT
65 TAAAAACAT
*
4344558 TTTTGAAAAATTATATAATATATAGTTTTTAAAATATTTTTGAAA
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACA-TTTTGAAA
4344603 TATATATATT
Statistics
Matches: 173, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
72 23 0.13
73 57 0.33
74 41 0.24
75 19 0.11
76 28 0.16
77 5 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (73 bp):
TTTTGAAAAATTATATAATATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAGTTTT
AAAAACAT
Found at i:4344630 original size:34 final size:36
Alignment explanation
Indices: 4344335--4344632 Score: 237
Period size: 36 Copynumber: 8.1 Consensus size: 36
4344325 TAATATATAG
* * *
4344335 TTTTGAAAACATTTATATATTATATAGTTTTTAAAACA-
1 TTTTGAAAA-A-TTATATAATATATAG-ATTTAAAATAT
* * * *
4344373 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACATT
1 TTTTGAAAAATTATATAATATATAG-ATTTAAAATA-T
* * * * *
4344411 TTTTGAAAACTTATATAGTATATAGTTTTTTAAAACAA
1 TTTTGAAAAATTATATAATATATAG--ATTTAAAATAT
* *
4344449 TTTTGAAAAACTATATAATATATAG-TTTAAAAACAT
1 TTTTGAAAAATTATATAATATATAGATTT-AAAATAT
* * *
4344485 TTTTAAAAAATTATATAATATATAGTTTTAAAA-AGA
1 TTTTGAAAAATTATATAATATATAGATTTAAAATA-T
* * *
4344521 TTTTGGAAAATTATATAATATATAGTTTTAAAAACAT
1 TTTTGAAAAATTATATAATATATAGATTT-AAAATAT
*
4344558 TTTTGAAAAATTATATAATATATAGTTTTTAAAATAT
1 TTTTGAAAAATTATATAATATATAG-ATTTAAAATAT
* * * *
4344595 TTTTGAAATA-TATATATTATATA-ATTTATATTAT
1 TTTTGAAAAATTATATAATATATAGATTTAAAATAT
4344629 TTTT
1 TTTT
4344633 ATTTATTTAT
Statistics
Matches: 231, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
34 12 0.05
35 4 0.02
36 97 0.42
37 46 0.20
38 61 0.26
39 11 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (36 bp):
TTTTGAAAAATTATATAATATATAGATTTAAAATAT
Found at i:4344638 original size:15 final size:15
Alignment explanation
Indices: 4344618--4344659 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
4344608 ATATTATATA
4344618 ATTTATATTATTTT-T
1 ATTTAT-TTATTTTCT
4344633 ATTTATTTATTTTCT
1 ATTTATTTATTTTCT
*
4344648 ATTTATTAATTT
1 ATTTATTTATTT
4344660 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTATTTTCT
Found at i:4345875 original size:2 final size:2
Alignment explanation
Indices: 4345870--4345915 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4345860 TTTTTCTTTG
4345870 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
4345912 AT AT
1 AT AT
4345916 TCTATTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4345964 original size:15 final size:17
Alignment explanation
Indices: 4345930--4345966 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
4345920 TTTTTATTTC
4345930 TTTCTTTCCTTTGAATT
1 TTTCTTTCCTTTGAATT
*
4345947 TTTCTTT-CTTT-CATT
1 TTTCTTTCCTTTGAATT
4345962 TTTCT
1 TTTCT
4345967 CATCTCTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTCTTTCCTTTGAATT
Found at i:4346051 original size:2 final size:2
Alignment explanation
Indices: 4346046--4346072 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4346036 TATGTGTGTG
4346046 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 T
4346073 CCTCTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4347992 original size:112 final size:112
Alignment explanation
Indices: 4347779--4348237 Score: 767
Period size: 112 Copynumber: 4.1 Consensus size: 112
4347769 TTGTCGGTTT
** *
4347779 GTGTCGATACTTTATAAAAATGTATTAATCCATAACAATATAACAGGT-AAAAAATGACAAAACG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
4347843 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
* *
4347890 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
4347955 GGTCTATAAATGACAAAACATGTAAAGCGCTATCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
* * * * *
4348002 ATGTCTATACTTTATAAAAATGTATCGACCCATAACAATATAACAGGTAAAAAAAGGACAAAGCC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
4348067 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGTATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
* * *
4348114 GTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAAAATGATAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
4348179 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
4348226 GTGTCGATACTT
1 GTGTCGATACTT
4348238 GTTGACGAAA
Statistics
Matches: 324, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
111 46 0.14
112 278 0.86
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
Found at i:4348528 original size:20 final size:20
Alignment explanation
Indices: 4348503--4348552 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4348493 GTTGATAGTG
4348503 TCGATACTTTATTATAAGTA
1 TCGATACTTTATTATAAGTA
4348523 TCGATACTTTATTATAAGTA
1 TCGATACTTTATTATAAGTA
*
4348543 TCGACACTTT
1 TCGATACTTT
4348553 TGGAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (20 bp):
TCGATACTTTATTATAAGTA
Found at i:4348816 original size:184 final size:183
Alignment explanation
Indices: 4348518--4348860 Score: 557
Period size: 184 Copynumber: 1.9 Consensus size: 183
4348508 ACTTTATTAT
* *
4348518 AAGTATCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGC
1 AAGTATCGATACTTTATTATAAATATCGACACTTTTGGAATTTAAAAGAAAAAAAGTTATAGCGC
4348583 TAATAAAGTGTCGATACTTTATAAAAATGTATCAATTCATAACAATATAACAGGT-AAAAATATG
66 TAATAAAGTGTCGATACTTTATAAAAATGTATCAATTCATAACAATATAACAGGTAAAAAATATG
4348647 ACAAAACCGGTCTCGAAATGACAAAACCGATAAAGAGCTACCAGATATGTTGA
131 ACAAAACCGGTCTCGAAATGACAAAACCGATAAAGAGCTACCAGATATGTTGA
* * *
4348700 AAGTGTCGATATTTTATTATAAATATCGACATTTTTGGAATTTAAAAGAAAAAAAAAGTTATAGC
1 AAGTATCGATACTTTATTATAAATATCGACACTTTTGGAATTTAAAAG--AAAAAAAGTTATAGC
* *
4348765 GAC-AATAAAGTGTCGATACTTTATAAAAATGTATCGA-TCGATAATAATATAACAGGTAAAAAA
64 G-CTAATAAAGTGTCGATACTTTATAAAAATGTATCAATTC-ATAACAATATAACAGGTAAAAAA
*
4348828 TATGACAAAATCGGTCTCGAAATGACAAAACCG
127 TATGACAAAACCGGTCTCGAAATGACAAAACCG
4348861 GTAGTAAAAA
Statistics
Matches: 148, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
182 44 0.30
183 2 0.01
184 64 0.43
185 38 0.26
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (183 bp):
AAGTATCGATACTTTATTATAAATATCGACACTTTTGGAATTTAAAAGAAAAAAAGTTATAGCGC
TAATAAAGTGTCGATACTTTATAAAAATGTATCAATTCATAACAATATAACAGGTAAAAAATATG
ACAAAACCGGTCTCGAAATGACAAAACCGATAAAGAGCTACCAGATATGTTGA
Found at i:4349458 original size:23 final size:23
Alignment explanation
Indices: 4349429--4349476 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4349419 AAATAGGTCA
*
4349429 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
4349452 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
4349475 AT
1 AT
4349477 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:4349786 original size:21 final size:21
Alignment explanation
Indices: 4349745--4349784 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4349735 TTGTTTTTGT
4349745 TTTTAGAAAATAATATTTTTA
1 TTTTAGAAAATAATATTTTTA
*
4349766 TTTTATAAAATAA-ATTTTT
1 TTTTAGAAAATAATATTTTT
4349785 TAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAGAAAATAATATTTTTA
Found at i:4351913 original size:20 final size:20
Alignment explanation
Indices: 4351856--4351913 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 20
4351846 TTCGCAACGT
*
4351856 GAATATGTAAATCGCATTGC
1 GAATATGTAAATCGCAATGC
* * **
4351876 GACTTTCCAAATTCGCAATGC
1 GAATATGTAAA-TCGCAATGC
*
4351897 GAATCTGTAAATCGCAA
1 GAATATGTAAATCGCAA
4351914 CACAAAAGTC
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
GAATATGTAAATCGCAATGC
Found at i:4351931 original size:20 final size:20
Alignment explanation
Indices: 4351908--4352015 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
4351898 AATCTGTAAA
4351908 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
4351928 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
** * *
4351948 TCGCAATGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
4351968 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* **
4351988 TCGCAACGCGAAATTTCAAAT
1 TCGCAACAC-AAAAGTCAAAT
4352009 TCGCAAC
1 TCGCAAC
4352016 TGAATTTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
20 60 0.79
21 16 0.21
ACGTcount: A:0.44, C:0.25, G:0.13, T:0.19
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:4351954 original size:60 final size:61
Alignment explanation
Indices: 4351883--4352014 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 61
4351873 TGCGACTTTC
*
4351883 CAAATTCGCAATGCGAATCTGT-AAA-TCGCAACACAAAAGTCAAATTCGCAACAC-AAAAGT
1 CAAATTCGCAATGCG-AT-AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAAGT
* **
4351943 CAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAATTT
1 CAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAAGT
4352004 CAAATTCGCAA
1 CAAATTCGCAA
4352015 CTGAATTTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
58 2 0.03
59 5 0.08
60 43 0.66
61 15 0.23
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (61 bp):
CAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAAGT
Found at i:4352023 original size:19 final size:20
Alignment explanation
Indices: 4351908--4352074 Score: 117
Period size: 20 Copynumber: 8.4 Consensus size: 20
4351898 AATCTGTAAA
* **
4351908 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAATTTCAAAT
* **
4351928 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAATTTCAAAT
** *
4351948 TCGCAATGCG-ATAGTCAAAT
1 TCGCAACACGAAT-TTCAAAT
* **
4351968 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAATTTCAAAT
*
4351988 TCGCAACGCGAAATTTCAAAT
1 TCGCAACACG-AATTTCAAAT
*
4352009 TCGCAAC-TGAATTTCAAAT
1 TCGCAACACGAATTTCAAAT
* * *
4352028 TCGTAACTA-GATTTTCGAAT
1 TCGCAAC-ACGAATTTCAAAT
*
4352048 TCGCAACACGAATTT-AATT
1 TCGCAACACGAATTTCAAAT
4352067 TCGCAACA
1 TCGCAACA
4352075 AGTTTTAGTT
Statistics
Matches: 121, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
19 28 0.23
20 77 0.64
21 16 0.13
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.24
Consensus pattern (20 bp):
TCGCAACACGAATTTCAAAT
Found at i:4352026 original size:40 final size:41
Alignment explanation
Indices: 4351922--4352073 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 41
4351912 AACACAAAAG
* ** * * *
4351922 TCAAATTCGCAACACAAAAGTCAAATTCGCAATGCGATA-G
1 TCAAATTCGCAACACGAATTTCAAATTCGCAACGCGAAATT
* **
4351962 TCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAATT
1 TCAAATTCGCAACACGAATTTCAAATTCGCAACGCGAAATT
* * ** *
4352003 TCAAATTCGCAAC-TGAATTTCAAATTCGTAACTAG-ATTT
1 TCAAATTCGCAACACGAATTTCAAATTCGCAACGCGAAATT
* *
4352042 TCGAATTCGCAACACGAATTT-AATTTCGCAAC
1 TCAAATTCGCAACACGAATTTCAAATTCGCAAC
4352074 AAGTTTTAGT
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 24 0.25
40 58 0.61
41 13 0.14
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (41 bp):
TCAAATTCGCAACACGAATTTCAAATTCGCAACGCGAAATT
Found at i:4352026 original size:60 final size:60
Alignment explanation
Indices: 4351883--4352030 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 60
4351873 TGCGACTTTC
*
4351883 CAAATTCGCAATGCGAATCTGT-AAA-TCGCAACACAAAAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAATGC-AAT-AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAAAGT
* * **
4351943 CAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAATTT
1 CAAATTCGCAATGCAATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACAC-AAAAGT
*
4352004 CAAATTCGCAACTG-AAT-TTCAAATTCG
1 CAAATTCGCAA-TGCAATAGTCAAATTCG
4352031 TAACTAGATT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
58 2 0.03
59 5 0.06
60 51 0.66
61 17 0.22
62 2 0.03
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.22
Consensus pattern (60 bp):
CAAATTCGCAATGCAATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAAAGT
Found at i:4352048 original size:20 final size:19
Alignment explanation
Indices: 4351982--4352073 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 19
4351972 AACACAAAAG
*
4351982 TCAAATTCGCAACGCGAAATT
1 TCAAATTCGCAAC-TG-AATT
4352003 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
4352022 TCAAATTCGTAACTAGATTT
1 TCAAATTCGCAACT-GAATT
* *
4352042 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
4352062 T-AATTTCGCAAC
1 TCAAATTCGCAAC
4352074 AAGTTTTAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 26 0.43
20 21 0.35
21 13 0.22
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:4352882 original size:12 final size:12
Alignment explanation
Indices: 4352861--4352894 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4352851 ACCACATTTC
*
4352861 CAATACCAAACA
1 CAATATCAAACA
4352873 CAATATCAAACA
1 CAATATCAAACA
*
4352885 CAATCTCAAA
1 CAATATCAAA
4352895 ACCCACAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:4353035 original size:24 final size:24
Alignment explanation
Indices: 4353006--4353061 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4352996 GTGAGTACTA
**
4353006 GTCAATATTCAAAATTTGATCTTG
1 GTCAATACCCAAAATTTGATCTTG
** *
4353030 GTCAATACCCGGACTTTGATCTTG
1 GTCAATACCCAAAATTTGATCTTG
4353054 GTCAATAC
1 GTCAATAC
4353062 TCGGATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (24 bp):
GTCAATACCCAAAATTTGATCTTG
Found at i:4353066 original size:24 final size:24
Alignment explanation
Indices: 4353020--4353073 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4353010 ATATTCAAAA
4353020 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4353044 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4353068 TTTGAT
1 TTTGAT
4353074 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4355713 original size:14 final size:14
Alignment explanation
Indices: 4355675--4355713 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4355665 AAAGTTAAAT
4355675 TCGCAACGCG-AAA
1 TCGCAACGCGAAAA
4355688 TCGCAAAC-CGAAAA
1 TCGC-AACGCGAAAA
4355702 TCGCAACGCGAA
1 TCGCAACGCGAA
4355714 TTTGACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.41, C:0.31, G:0.21, T:0.08
Consensus pattern (14 bp):
TCGCAACGCGAAAA
Found at i:4355782 original size:20 final size:21
Alignment explanation
Indices: 4355753--4355816 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
4355743 ATAACGCTTA
*
4355753 TTTCGCGTTGCGAATTTGA-C
1 TTTCACGTTGCGAATTTGACC
*
4355773 TTTCATGTTGCGAATTT-ACC
1 TTTCACGTTGCGAATTTGACC
*
4355793 TTTCGCGTTGCGAATTTGTACC
1 TTTCACGTTGCGAATTTG-ACC
4355815 TT
1 TT
4355817 CAACAGGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.84
22 5 0.14
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTCACGTTGCGAATTTGACC
Found at i:4355975 original size:51 final size:51
Alignment explanation
Indices: 4355879--4355989 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
4355869 ATCAAGTTTT
4355879 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAA
1 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATC-AATTAA
* *
4355931 ACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCCCATCAATTAA
1 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTAA
4355981 ACAAATCAA
1 ACAAATCAA
4355990 CTTTCAATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 15 0.26
51 23 0.40
52 19 0.33
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.26
Consensus pattern (51 bp):
ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTAA
Found at i:4357394 original size:21 final size:21
Alignment explanation
Indices: 4357370--4357445 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
4357360 GCGGTCGGGA
*
4357370 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
4357391 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
4357412 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
4357433 CCTCTTGAACGAT
1 CCTCTTGAACGAT
4357446 ATGAGTTACG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:4357416 original size:42 final size:42
Alignment explanation
Indices: 4357350--4357443 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
4357340 GTGAATCGGG
**
4357350 CTCTTGAACGGCGGTCGGGACCTCTT-GAACGATGACAGGGGC
1 CTCTTGAACGGCGGGAGGGACCTCTTCG-ACGATGACAGGGGC
* * * *
4357392 CTCTTGAACGGTGGGAGGGGCCTCTTCGATGATGAGAGGGGC
1 CTCTTGAACGGCGGGAGGGACCTCTTCGACGATGACAGGGGC
4357434 CTCTTGAACG
1 CTCTTGAACG
4357444 ATATGAGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.37, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGCGGGAGGGACCTCTTCGACGATGACAGGGGC
Found at i:4359969 original size:22 final size:22
Alignment explanation
Indices: 4359942--4359999 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
4359932 GAGATAGACG
* *
4359942 GATTTCGTCGGAGATGGGGACA
1 GATTTCGCCGGAGATAGGGACA
* *
4359964 GATTTCGCCAGAGATAGGGACG
1 GATTTCGCCGGAGATAGGGACA
*
4359986 GATGTCGCCGGAGA
1 GATTTCGCCGGAGA
4360000 AAGTGAGAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.40, T:0.19
Consensus pattern (22 bp):
GATTTCGCCGGAGATAGGGACA
Found at i:4360148 original size:40 final size:40
Alignment explanation
Indices: 4360104--4360391 Score: 391
Period size: 40 Copynumber: 7.2 Consensus size: 40
4360094 TGTGTTTCGC
*
4360104 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
*
4360144 GTTGCGAATTTGA-AATTCAGTGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTA-TC-GTGTTGCGAATTTGACTTTTGT
* * *
4360185 GTTGCGAATTTGACTTTTGTGTTGCGGATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
* * * *
4360225 GTTGCGGATTTGACTATCGTGTTGCGGATTTGACTATTGC
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
* * *
4360265 GTTGCGAATTTGACT-TCTGTGTTGTGAATTTGACTATTGC
1 GTTGCGAATTTGACTATC-GTGTTGCGAATTTGACTTTTGT
**
4360305 GTTGCGAATTTGACTATCGCATTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
* *
4360345 GTTGCGGATTTGACTATCGTGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
4360385 GTTGCGA
1 GTTGCGA
4360392 TTTACAAATT
Statistics
Matches: 219, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.01
40 179 0.82
41 37 0.17
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGT
Found at i:4360168 original size:21 final size:20
Alignment explanation
Indices: 4360104--4360391 Score: 342
Period size: 20 Copynumber: 14.3 Consensus size: 20
4360094 TGTGTTTCGC
* * *
4360104 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
4360124 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* **
4360144 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTG-ACTTTTGT
4360165 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
4360185 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
*
4360205 GTTGCGGATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
4360225 GTTGCGGATTTGACTATCGT
1 GTTGCGAATTTGACTTTTGT
* * *
4360245 GTTGCGGATTTGACTATTGC
1 GTTGCGAATTTGACTTTTGT
*
4360265 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
* * *
4360285 GTTGTGAATTTGACTATTGC
1 GTTGCGAATTTGACTTTTGT
* * *
4360305 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
4360325 ATTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
4360345 GTTGCGGATTTGACTATCGT
1 GTTGCGAATTTGACTTTTGT
*
4360365 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
4360385 GTTGCGA
1 GTTGCGA
4360392 TTTACAAATT
Statistics
Matches: 231, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
20 214 0.93
21 17 0.07
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:4360256 original size:60 final size:60
Alignment explanation
Indices: 4360104--4360391 Score: 378
Period size: 60 Copynumber: 4.8 Consensus size: 60
4360094 TGTGTTTCGC
* * *
4360104 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTG-ACTTCTGT
* * * *
4360165 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTTTGTGTTGCGGATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGT
* * * *
4360225 GTTGCGGATTTGACTATCGTGTTGCGGATTTGACTATTGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGT
* * * * * ** *
4360285 GTTGTGAATTTGACTATTGCGTTGCGAATTTGACTATCGCATTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGT
* *
4360345 GTTGCGGATTTGACTATCGTGTTGCGAATTTGACTTCTGTGTTGCGA
1 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGA
4360392 TTTACAAATT
Statistics
Matches: 195, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
60 147 0.75
61 48 0.25
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (60 bp):
GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGT
Found at i:4369822 original size:31 final size:31
Alignment explanation
Indices: 4369784--4369851 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
4369774 AGGGTACATG
*
4369784 GTCCCTAACGTTATCGATTCATTCAATTTTA
1 GTCCCTAACGTTATCAATTCATTCAATTTTA
* *
4369815 GTCCCTAATGTTATCAATTCGTTCAATTTTA
1 GTCCCTAACGTTATCAATTCATTCAATTTTA
*
4369846 TTCCCT
1 GTCCCT
4369852 CGGCCATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (31 bp):
GTCCCTAACGTTATCAATTCATTCAATTTTA
Found at i:4372004 original size:28 final size:26
Alignment explanation
Indices: 4371958--4372052 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 26
4371948 AAAGTTACTT
* *
4371958 TCTAAAAAACCCACGAAA-TTATTAAAA
1 TCTAAAAAACAC-CTAAATTTA-TAAAA
4371985 TTCTAAAAAACACCTTAAATTCTATAAAA
1 -TCTAAAAAACACC-TAAATT-TATAAAA
* * *
4372014 TCTCAAAAAACTCCTAAGTTTCTAAAAA
1 TCT-AAAAAACACCTAAATTTAT-AAAA
4372042 TCTAAAAAACA
1 TCTAAAAAACA
4372053 TAAACTCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
27 10 0.18
28 29 0.52
29 15 0.27
30 2 0.04
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (26 bp):
TCTAAAAAACACCTAAATTTATAAAA
Found at i:4372012 original size:29 final size:28
Alignment explanation
Indices: 4371980--4372052 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
4371970 ACGAAATTAT
4371980 TAAAATTCTAAAAAACACCTTAA-ATTCTA
1 TAAAA-TCTAAAAAACACC-TAAGATTCTA
* *
4372009 TAAAATCTCAAAAAACTCCTAAGTTTCTA
1 TAAAATCT-AAAAAACACCTAAGATTCTA
4372038 -AAAATCTAAAAAACA
1 TAAAATCTAAAAAACA
4372053 TAAACTCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 7 0.18
28 13 0.33
29 19 0.49
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.27
Consensus pattern (28 bp):
TAAAATCTAAAAAACACCTAAGATTCTA
Found at i:4372321 original size:28 final size:30
Alignment explanation
Indices: 4372273--4372346 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
4372263 AGTTTATGGT
4372273 TTTTTATGAGATTTT-TAGGAACTT-AGGAG
1 TTTTT-TGAGATTTTATAGGAACTTAAGGAG
* *
4372302 TTTTTTGAGATTTTAT-GGAATTTAAGGTG
1 TTTTTTGAGATTTTATAGGAACTTAAGGAG
*
4372331 TTTTTTTAGAATTTTA
1 TTTTTTGAG-ATTTTA
4372347 ATAATTTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 15 0.38
29 18 0.46
30 6 0.15
ACGTcount: A:0.26, C:0.01, G:0.20, T:0.53
Consensus pattern (30 bp):
TTTTTTGAGATTTTATAGGAACTTAAGGAG
Found at i:4372336 original size:30 final size:30
Alignment explanation
Indices: 4372271--4372346 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 30
4372261 AGAGTTTATG
4372271 GTTTTTTATGAGATTTT-TAGGAACTTAGGA
1 GTTTTTT-TGAGATTTTATAGGAACTTAGGA
* *
4372301 G-TTTTTTGAGATTTTAT-GGAATTTAAGGT
1 GTTTTTTTGAGATTTTATAGGAACTT-AGGA
4372330 GTTTTTTT-AGAATTTTA
1 GTTTTTTTGAG-ATTTTA
4372347 ATAATTTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 15 0.38
29 12 0.30
30 13 0.32
ACGTcount: A:0.25, C:0.01, G:0.21, T:0.53
Consensus pattern (30 bp):
GTTTTTTTGAGATTTTATAGGAACTTAGGA
Found at i:4372479 original size:20 final size:20
Alignment explanation
Indices: 4372450--4372566 Score: 103
Period size: 20 Copynumber: 5.8 Consensus size: 20
4372440 AAATGATCAA
**
4372450 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGATTTC
* *
4372470 CAATTTCGCAACAC-AGTTTC
1 CAAATTCGCAACGCGA-TTTC
4372490 CAAATTCGCAACGCGATTTC
1 CAAATTCGCAACGCGATTTC
**
4372510 CAAATTCGCAACATTGAATTT-
1 CAAATTCGCAAC-GCG-ATTTC
*
4372531 CAAATTCGCAACTCGATTTC
1 CAAATTCGCAACGCGATTTC
** *
4372551 TGAATTCGCAATGCGA
1 CAAATTCGCAACGCGA
4372567 ATTTTGTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.06
20 56 0.71
21 14 0.18
22 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGCGATTTC
Found at i:4372548 original size:41 final size:40
Alignment explanation
Indices: 4372450--4372561 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
4372440 AAATGATCAA
** * *
4372450 CAAATTCGCAACGCGAACTCCAATTTCGCAACACAGTTTC
1 CAAATTCGCAACGCGATTTCCAAATTCGCAACACAATTTC
*
4372490 CAAATTCGCAACGCGATTTCCAAATTCGCAACATTGAATTT-
1 CAAATTCGCAACGCGATTTCCAAATTCGCAACA--CAATTTC
* **
4372531 CAAATTCGCAACTCGATTTCTGAATTCGCAA
1 CAAATTCGCAACGCGATTTCCAAATTCGCAA
4372562 TGCGAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 30 0.48
41 28 0.45
42 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (40 bp):
CAAATTCGCAACGCGATTTCCAAATTCGCAACACAATTTC
Found at i:4373449 original size:23 final size:23
Alignment explanation
Indices: 4373422--4373474 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4373412 TCAATATTCA
4373422 ATTTGATCTTGGTC-ATACCCGG
1 ATTTGATCTTGGTCAATACCCGG
*
4373444 ACTTTGATCTTGGTCAATACTCGG
1 A-TTTGATCTTGGTCAATACCCGG
4373468 ATTTGAT
1 ATTTGAT
4373475 GATTTCAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 1 0.04
23 19 0.68
24 8 0.29
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
ATTTGATCTTGGTCAATACCCGG
Found at i:4373640 original size:24 final size:23
Alignment explanation
Indices: 4373612--4373665 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
4373602 AATATTCAAA
4373612 ATTTGATCTTGGTCAATACCCGG
1 ATTTGATCTTGGTCAATACCCGG
*
4373635 ACTTTGATCTTGGTCAATACTCGG
1 A-TTTGATCTTGGTCAATACCCGG
4373659 ATTTGAT
1 ATTTGAT
4373666 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTTGATCTTGGTCAATACCCGG
Found at i:4373659 original size:191 final size:185
Alignment explanation
Indices: 4373344--4373721 Score: 636
Period size: 191 Copynumber: 2.0 Consensus size: 185
4373334 CAATCAACTT
4373344 TCAGCACCAAATTTGGTTTTCGTATTGACCTGTTAGATATGAGCCAATAGAAAAATTGTGAGTAC
1 TCAGCACCAAATTTGGTTTTCGTATTGACCTGTTAGATATGAGCCAATAGAAAAATTGTGAGTAC
4373409 TAGTCAATATTCAATTTGATCTTGGTCATACCCGGACTTTGATCTTGGTCAATACTCGGATTTGA
66 TAGTCAATATTCAATTTGATCTTGGTCATACCCGGACTTTGATCTTGGTCAATACTCGGATTTGA
4373474 TGA-TTTCAGAAGAAGAAACAGACCCTGCGTGT-ATGATTT-TATTGGTCAATAC
131 TGAGTTTCAGAAGAAGAAACAGACCCTGCGTGTAATGATTTATATTGGTCAATAC
4373526 TCAGCACCAAATTTTGGTTTTCGTATTGACCTGTTAGACGATTATGAGCCAATAGAAAAAATTGT
1 TCAGCACCAAA-TTTGGTTTTCGTATTGACCTGTT--A-GA-TATGAGCCAATAG-AAAAATTGT
4373591 GAGTACTAGTCAATATTCAAAATTTGATCTTGGTCAATACCCGGACTTTGATCTTGGTCAATACT
60 GAGTACTAGTCAATATTC--AATTTGATCTTGGTC-ATACCCGGACTTTGATCTTGGTCAATACT
4373656 CGGATTTGATGATGTTTCAGAAGAAGAAACAGACCCTGCGTGTAATGATTTGATATTGGTCAATA
122 CGGATTTGATGA-GTTTCAGAAGAAGAAACAGACCCTGCGTGTAATGATTT-ATATTGGTCAATA
4373721 C
185 C
4373722 CTGAATTTTG
Statistics
Matches: 182, Mismatches: 0, Indels: 14
0.93 0.00 0.07
Matches are distributed among these distances:
182 11 0.06
183 23 0.13
185 1 0.01
186 2 0.01
187 13 0.07
188 27 0.15
190 15 0.08
191 41 0.23
193 29 0.16
194 7 0.04
196 13 0.07
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (185 bp):
TCAGCACCAAATTTGGTTTTCGTATTGACCTGTTAGATATGAGCCAATAGAAAAATTGTGAGTAC
TAGTCAATATTCAATTTGATCTTGGTCATACCCGGACTTTGATCTTGGTCAATACTCGGATTTGA
TGAGTTTCAGAAGAAGAAACAGACCCTGCGTGTAATGATTTATATTGGTCAATAC
Found at i:4377735 original size:21 final size:21
Alignment explanation
Indices: 4377709--4377827 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
4377699 GTGAATCGGG
* * *
4377709 CTCTTGAACGGTGGGAGTGAC
1 CTCTTGAACGATGAGAGGGAC
* *
4377730 CTCTTGAACGATGACAGATGA-
1 CTCTTGAACGATGAGAG-GGAC
* * *
4377751 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
*
4377772 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
* *
4377793 CTCTTGAACGATAAGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
*
4377814 CTCTTGAATGATGA
1 CTCTTGAACGATGA
4377828 CAGGTGAATC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.01
21 79 0.95
22 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGAC
Found at i:4377775 original size:42 final size:42
Alignment explanation
Indices: 4377709--4377830 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
4377699 GTGAATCGGG
* * *
4377709 CTCTTGAACGGTGGGAGTGACCTCTTGAACGATGACAGATGA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGAGGA
* * *
4377751 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGAGGA
* ** *
4377793 CTCTTGAACGATAAGAGGGGCCTCTTGAATGATGACAG
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAG
4377831 GTGAATCGGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGAGGA
Found at i:4378268 original size:21 final size:21
Alignment explanation
Indices: 4378239--4378279 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4378229 ATCGTGACGT
*
4378239 AAAGTACTGACCTCATCACGC
1 AAAGCACTGACCTCATCACGC
*
4378260 AAAGCACTGGCCTCATCACG
1 AAAGCACTGACCTCATCACG
4378280 TAACTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAGCACTGACCTCATCACGC
Found at i:4379866 original size:19 final size:19
Alignment explanation
Indices: 4379815--4379868 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
4379805 AGTAGTTTCT
* *
4379815 GAAACTTAAATTCACAACGC
1 GAAAC-TAAAATCGCAACGC
*
4379835 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
4379855 GAAACTAAAATCGC
1 GAAACTAAAATCGC
4379869 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:4380257 original size:22 final size:22
Alignment explanation
Indices: 4380227--4380277 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4380217 GATGGAGATA
* *
4380227 GACGAATTTCC-CTGGAGATGTG
1 GACGGATTTCCTC-GGAGATGGG
*
4380249 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCCTCGGAGATGGG
4380271 GACGGAT
1 GACGGAT
4380278 GTCGCCGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.24
Consensus pattern (22 bp):
GACGGATTTCCTCGGAGATGGG
Found at i:4383763 original size:13 final size:13
Alignment explanation
Indices: 4383745--4383769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4383735 TAATGTCAAA
4383745 TAAAATTAAAATT
1 TAAAATTAAAATT
4383758 TAAAATTAAAAT
1 TAAAATTAAAAT
4383770 CAAAATCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATTAAAATT
Found at i:4385109 original size:17 final size:18
Alignment explanation
Indices: 4385087--4385128 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4385077 ATTATAATTA
*
4385087 AATTTT-AATAAATAGTT
1 AATTTTAAATAAATACTT
4385104 AATTTTAAATAAATACTT
1 AATTTTAAATAAATACTT
4385122 ATATTTT
1 A-ATTTT
4385129 TTTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTTTAAATAAATACTT
Found at i:4386751 original size:24 final size:23
Alignment explanation
Indices: 4386712--4386760 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
4386702 ATTTATTTAT
* *
4386712 TTATTTATTTATTATTACTATTA
1 TTATTAATTTATTATTACAATTA
4386735 TTATTAATTTATATATTACAATTA
1 TTATTAATTTAT-TATTACAATTA
4386759 TT
1 TT
4386761 TTGTAGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTAATTTATTATTACAATTA
Found at i:4388875 original size:19 final size:19
Alignment explanation
Indices: 4388851--4388888 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4388841 AAGTAATTTG
* *
4388851 AATTTAATTTTTAATTTTT
1 AATTTAAATTTCAATTTTT
4388870 AATTTAAATTTCAATTTTT
1 AATTTAAATTTCAATTTTT
4388889 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTAAATTTCAATTTTT
Found at i:4391138 original size:132 final size:132
Alignment explanation
Indices: 4390901--4391166 Score: 514
Period size: 132 Copynumber: 2.0 Consensus size: 132
4390891 CAAGAATCGG
*
4390901 ATCGACTTCAACAACTTAGGGGTATCCAAGTGGAGAAGATCATTTCATCATTTGAGGCATTCTGT
1 ATCGACTTCAACAACTTAGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGGCATTCTGT
4390966 TTGAATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTT
66 TTGAATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTT
4391031 TA
131 TA
*
4391033 ATCGACTTCAACAACTTGGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGGCATTCTGT
1 ATCGACTTCAACAACTTAGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGGCATTCTGT
4391098 TTGAATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTT
66 TTGAATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTT
4391163 TA
131 TA
4391165 AT
1 AT
4391167 GATGGCGAGC
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (132 bp):
ATCGACTTCAACAACTTAGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGGCATTCTGT
TTGAATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTT
TA
Found at i:4392870 original size:105 final size:104
Alignment explanation
Indices: 4392688--4393495 Score: 1235
Period size: 105 Copynumber: 7.9 Consensus size: 104
4392678 CTCGAGAGTA
*
4392688 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4392753 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAAATTTC-CAATTTCAGAGCC
4392793 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4392858 GACCGCTGGTTGTCAATAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAAATTTC-CAATTTCAGAGCC
*
4392898 AATTTCAACTTCACAACGAAGGATTTTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
4392963 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAA-AATTTCC-AATTTCAGAGCC
*
4393004 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
4393069 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAA-AATTTCC-AATTTCAGAGCC
* * *
4393110 AATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4393175 GACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-CAAAAATTTCCAATTTCAGAGCC
*
4393215 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4393280 GACCGCTGGTTGTC-A-ATAAA----CAATTTC----CC
66 GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
* *
4393309 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGT
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4393374 GACCGCTGGTTGTC--CATAAA---CC--TTTC----CC
66 GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
*
4393402 AATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4393467 GACCGCTGGTTGTCAATAAACAATTTCCA
66 GACCGCTGGTTGTCAACAAA-AATTTCCA
4393496 CGGTTTCAAC
Statistics
Matches: 667, Mismatches: 24, Indels: 29
0.93 0.03 0.04
Matches are distributed among these distances:
93 82 0.12
94 83 0.12
95 3 0.00
96 2 0.00
98 7 0.01
99 2 0.00
102 4 0.01
104 1 0.00
105 276 0.41
106 204 0.31
107 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (104 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
Found at i:4393075 original size:211 final size:209
Alignment explanation
Indices: 4392688--4393495 Score: 1248
Period size: 211 Copynumber: 3.9 Consensus size: 209
4392678 CTCGAGAGTA
*
4392688 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4392753 GACCGCTGGTTGTCAACAAACATTT-CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAAAATTTCCT-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
4392817 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATT
4392882 TCTCAATTTCAGAGCC
195 TC-CAATTTCAGAGCC
*
4392898 AATTTCAACTTCACAACGAAGGATTTTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
4392963 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAA-AATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * *
4393028 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-CAT
4393093 TTCCTAATTTCAGAGCC
194 TTCC-AATTTCAGAGCC
* * *
4393110 AATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
4393175 GACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
4393240 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT-AA-A---
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTT
4393300 -CAATTTC----CC
196 CCAATTTCAGAGCC
* *
4393309 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGT
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4393374 GACCGCTGGTTGTC--CATAAA---CC---TTTC----CCAATTTCAACTTCACAACGAAGAATA
66 GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
4393427 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATT
4393492 TCCA
195 TCCA
4393496 CGGTTTCAAC
Statistics
Matches: 564, Mismatches: 23, Indels: 38
0.90 0.04 0.06
Matches are distributed among these distances:
187 82 0.15
188 2 0.00
190 1 0.00
191 4 0.01
194 4 0.01
197 4 0.01
199 78 0.14
203 6 0.01
204 1 0.00
208 1 0.00
210 85 0.15
211 197 0.35
212 99 0.18
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (209 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTT
CCAATTTCAGAGCC
Found at i:4393262 original size:317 final size:305
Alignment explanation
Indices: 4392688--4393491 Score: 1242
Period size: 317 Copynumber: 2.6 Consensus size: 305
4392678 CTCGAGAGTA
*
4392688 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
4392753 GACCGCTGGTTGTCAACAAA-CATTT-CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
66 GACCGCTGGTTGTCAACAAATAATTTCCT-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
4392816 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAT
130 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
* *
4392881 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATTTTGGACTCCAGACAACGCAAGTT
195 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
4392946 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCC
260 CAACTTCACGACGAAGGGACCGCTGGTTGT---C-AATAA---AC-AATTTC----CC
*
4393004 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4393069 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGGT
66 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* *
4393134 ATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAT
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
*
4393199 TCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
196 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
4393264 AACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
261 AACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
4393309 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGT
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
4393374 GACCGCTGGTTGTC--C--ATAA--ACC---TTTC----CCAATTTCAACTTCACAACGAAGAAT
66 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
4393426 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
4393491 T
196 T
4393492 TCCACGGTTT
Statistics
Matches: 465, Mismatches: 21, Indels: 28
0.90 0.04 0.05
Matches are distributed among these distances:
292 87 0.19
296 4 0.01
299 2 0.00
301 4 0.01
303 1 0.00
305 78 0.17
309 6 0.01
310 1 0.00
313 5 0.01
314 1 0.00
316 83 0.18
317 191 0.41
318 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (305 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
Found at i:4393457 original size:93 final size:94
Alignment explanation
Indices: 4393108--4393518 Score: 599
Period size: 94 Copynumber: 4.3 Consensus size: 94
4393098 AATTTCAGAG
* * *
4393108 CCAATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
4393173 GGGACCGCTGGTTGTCAATAAAAAATTCCCAATTTC
66 GGGACCGCTGGTTGTCAAT---AAA----CAATTTC
*
4393209 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
4393274 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
62 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
*
4393307 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
4393372 GTGACCGCTGGTTGTCCATAAAC-CTTTC
66 GGGACCGCTGGTTGTCAATAAACAATTTC
*
4393400 CCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
4393465 GGGACCGCTGGTTGTCAATAAACAATTTC
66 GGGACCGCTGGTTGTCAATAAACAATTTC
** *
4393494 CACGGTTTCAACTTCACGACGAAGG
1 C-CAATTTCAACTTCACAACGAAGG
4393519 GAATCGTGCC
Statistics
Matches: 288, Mismatches: 16, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
93 88 0.31
94 89 0.31
95 19 0.07
98 7 0.02
102 3 0.01
105 82 0.28
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (94 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAATTTC
Found at i:4393700 original size:86 final size:84
Alignment explanation
Indices: 4393532--4393701 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 84
4393522 TCGTGCCAAC
* ** * * * *
4393532 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCAAGTTCGACTACAATCAGCTCCAAGGCAAACCATTTACAGCATAGCTTAAGTCA
4393597 AGAAGGGTTATCTGTCAAA
66 AGAAGGGTTATCTGTCAAA
*
4393616 CAAAGACCTTCAAGTTCGATTACAATCAGCT-CAGAGGCAAACCAGATTTACAGCATAGCTTAA-
1 CAAAGACCTTCAAGTTCGACTACAATCAGCTCCA-AGGCAAACC--ATTTACAGCATAGCTTAAG
*
4393679 TGCAAGAAGGGTTATTTGTCAAA
63 T-CAAGAAGGGTTATCTGTCAAA
4393702 AAAAAATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
83 2 0.03
84 34 0.47
85 1 0.01
86 36 0.49
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (84 bp):
CAAAGACCTTCAAGTTCGACTACAATCAGCTCCAAGGCAAACCATTTACAGCATAGCTTAAGTCA
AGAAGGGTTATCTGTCAAA
Found at i:4394239 original size:2 final size:2
Alignment explanation
Indices: 4394227--4394267 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
4394217 ATTTTTATTT
* *
4394227 TA TA CA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4394268 GTTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4394405 original size:24 final size:23
Alignment explanation
Indices: 4394366--4394414 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
4394356 ATTTATTTAT
* *
4394366 TTATTTATTTATTATTACTATTA
1 TTATTAATTTATTATTACAATTA
4394389 TTATTAATTTATATATTACAATTA
1 TTATTAATTTAT-TATTACAATTA
4394413 TT
1 TT
4394415 TTGTAGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTAATTTATTATTACAATTA
Found at i:4396600 original size:19 final size:19
Alignment explanation
Indices: 4396576--4396613 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4396566 AAGTAATTTG
* *
4396576 AATTTAATTTTTAATTTTT
1 AATTTAAATTTCAATTTTT
4396595 AATTTAAATTTCAATTTTT
1 AATTTAAATTTCAATTTTT
4396614 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTAAATTTCAATTTTT
Found at i:4397589 original size:22 final size:22
Alignment explanation
Indices: 4397550--4397591 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4397540 AAGATTTGAG
*
4397550 AAAAAATTTAGTTATTTTATAT
1 AAAAAATATAGTTATTTTATAT
* *
4397572 AAAAAATATATTTTTTTTAT
1 AAAAAATATAGTTATTTTAT
4397592 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAAAAATATAGTTATTTTATAT
Found at i:4398418 original size:21 final size:20
Alignment explanation
Indices: 4398372--4398420 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4398362 AACCTGTTAA
* * *
4398372 AATTTGACAAATCATGTTAC
1 AATTTGACAAAACAGGTAAC
4398392 AATTTGACAAAACAGGTAAC
1 AATTTGACAAAACAGGTAAC
4398412 GAATTTGAC
1 -AATTTGAC
4398421 TAACCCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
AATTTGACAAAACAGGTAAC
Found at i:4398458 original size:19 final size:19
Alignment explanation
Indices: 4398426--4398463 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4398416 TTGACTAACC
4398426 CGATTAAAAATTGACAAAA
1 CGATTAAAAATTGACAAAA
* *
4398445 CGATTGAAATTTGACAAAA
1 CGATTAAAAATTGACAAAA
4398464 GTGGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (19 bp):
CGATTAAAAATTGACAAAA
Found at i:4407121 original size:55 final size:56
Alignment explanation
Indices: 4407049--4407184 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 56
4407039 GTCGAGATAA
* ** *
4407049 ATAAGACTTGAAAAATCTTCAA-ATGACGAGCCTGCTCCCTATTCCTTCAG-GAAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAG-AGT
* * * * * *
4407104 ATAAGACTCGAACAATCTT-AATAAAATGTGTCTGCTCTCTATTCATTCATAGAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAGAGT
4407159 ATAAGACTTGAACAATCTTCAATAAA
1 ATAAGACTTGAACAATCTTCAATAAA
4407185 GCGGGTCCTG
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 2 0.03
55 58 0.87
56 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (56 bp):
ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAGAGT
Found at i:4407825 original size:31 final size:31
Alignment explanation
Indices: 4407787--4407971 Score: 336
Period size: 31 Copynumber: 6.0 Consensus size: 31
4407777 CCCGAAGGAC
* *
4407787 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
4407818 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4407849 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4407880 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4407911 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4407942 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
4407972 CCCTCGACCC
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4408677 original size:21 final size:21
Alignment explanation
Indices: 4408647--4408691 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4408637 ATTCTGTCGT
* *
4408647 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4408668 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4408689 TTG
1 TTG
4408692 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4409469 original size:55 final size:54
Alignment explanation
Indices: 4409385--4409653 Score: 295
Period size: 55 Copynumber: 5.0 Consensus size: 54
4409375 TTGGGATGTT
* *
4409385 ACAGGTCCACTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCAATAA
1 ACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC-GAAAATCTTCAACAA
* * * *
4409440 ACAGGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTC---AATCTTTAACAA
1 ACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAACAA
* * * *
4409491 A-AGTGTTCGCTCCCTATTCCTTCAGAGAGTATAGAACACGAGCAATCTTCATA-AA
1 ACAG-GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGA-AAATCTTCA-ACAA
*
4409546 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
1 ACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAA-AATCTTCAACAA
* * *
4409601 AC-GTGTCCGCTCTCTATTCTTTCAGAAAGTATAGGACTC---AATCTTCAACAA
1 ACAG-GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAACAA
4409652 AC
1 AC
4409654 GAGTTTGCTT
Statistics
Matches: 185, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
50 2 0.01
51 56 0.30
54 2 0.01
55 123 0.66
56 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (54 bp):
ACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAACAA
Found at i:4409654 original size:106 final size:101
Alignment explanation
Indices: 4409389--4409654 Score: 280
Period size: 106 Copynumber: 2.5 Consensus size: 101
4409379 GATGTTACAG
* *
4409389 GTCCACTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCAATAAACAGGTCCGCTCCC
1 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC----AATCTTCAA-AAACGGGTCCGCTCCC
* * *
4409454 TATTCTTTCAGAGAGTATAGGACTCAATCTTTAACAAAAGT
61 TATTCCTTCAGAGAGTATAGAACTCAATCTTCAACAAAAGT
* * * *
4409495 GTTCGCTCCCTATTCCTTCAGAGAGTATAGAACACGAGCAATCTTCATAAAACGGGTCCGCTCTC
1 GTCCGCTCTCTATTCCTTCAGAGAGTATAG-A-AC--TCAATCTTCA-AAAACGGGTCCGCTCCC
*
4409560 TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGT
61 TATTCCTTCAGAGAGTATAGAACT----CAATCTTCAACAAAAGT
* * *
4409605 GTCCGCTCTCTATTCTTTCAGAAAGTATAGGACTCAATCTTCAACAAACG
1 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAA-AAACG
4409655 AGTTTGCTTC
Statistics
Matches: 134, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
105 1 0.01
106 85 0.63
107 2 0.01
108 4 0.03
110 42 0.31
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (101 bp):
GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAAAAACGGGTCCGCTCCCTATTC
CTTCAGAGAGTATAGAACTCAATCTTCAACAAAAGT
Found at i:4409704 original size:36 final size:36
Alignment explanation
Indices: 4409657--4409763 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 36
4409647 AACAAACGAG
4409657 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
*
4409693 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAG-ATGA
* * * **
4409730 ATTGCTTCACTGCTCTTTCAAGAAGGCTTAAGAT
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
4409764 TGACCTGTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
36 33 0.52
37 30 0.48
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
Found at i:4409746 original size:37 final size:36
Alignment explanation
Indices: 4409658--4409766 Score: 146
Period size: 37 Copynumber: 3.0 Consensus size: 36
4409648 ACAAACGAGT
* *
4409658 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGAT
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
4409694 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGAA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGAA
* * **
4409731 TTGCTTCACTGCTCTTTCAAGAAGGCTTAAGATTGA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGA
4409767 CCTGTTTTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 31 0.48
37 34 0.52
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
Found at i:4411069 original size:16 final size:16
Alignment explanation
Indices: 4411036--4411161 Score: 66
Period size: 16 Copynumber: 7.8 Consensus size: 16
4411026 TGAACCCTCC
*
4411036 TTTT-ATTTATCT-TT
1 TTTTCATTTTTCTCTT
4411050 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCTCTT
4411066 TTTTCATTTTTC-CATT
1 TTTTCATTTTTCTC-TT
* * *
4411082 TTTTCTTCTTTTTTC-C
1 TTTTCAT-TTTTCTCTT
* *
4411098 TTTTCGTTTTTTCCATCAT
1 TTTTC-ATTTTT-C-TCTT
4411117 TTTTC-TTTTTCTCATT
1 TTTTCATTTTTCTC-TT
* * *
4411133 TTTTCCTTTTTTTCTC
1 TTTTCATTTTTCTCTT
4411149 TTTT-ATTTCTTCT
1 TTTTCATTT-TTCT
4411162 TCAAGCAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
14 4 0.04
15 13 0.15
16 46 0.52
17 18 0.20
18 3 0.03
19 5 0.06
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTCATTTTTCTCTT
Found at i:4411109 original size:41 final size:39
Alignment explanation
Indices: 4411064--4411142 Score: 90
Period size: 41 Copynumber: 1.9 Consensus size: 39
4411054 CATTTTTCTC
4411064 TTTTT-TCATTTTTCCATTTTTTCTTC-TTTTTTCCTTTTCGT
1 TTTTTCTCATTTTT-C--TTTTTC-TCATTTTTTCCTTTTCGT
4411105 TTTTTCCATCATTTTTCTTTTTCTCATTTTTTCCTTTT
1 TTTTT-C-TCATTTTTCTTTTTCTCATTTTTTCCTTTT
4411143 TTTCTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
40 2 0.06
41 23 0.68
43 1 0.03
44 8 0.24
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.72
Consensus pattern (39 bp):
TTTTTCTCATTTTTCTTTTTCTCATTTTTTCCTTTTCGT
Found at i:4411145 original size:25 final size:26
Alignment explanation
Indices: 4411045--4411152 Score: 102
Period size: 25 Copynumber: 4.3 Consensus size: 26
4411035 CTTTTATTTA
*
4411045 TCTTTTTTTCA-TTTTT-CTCTTTTT
1 TCTTTTTCTCATTTTTTCCTCTTTTT
*
4411069 TCATTTTTC-CATTTTTTCTTCTTTTT
1 TC-TTTTTCTCATTTTTTCCTCTTTTT
* * *
4411095 TC-CTTT-TCGTTTTTTCCATCATTTT
1 TCTTTTTCTCATTTTTTCC-TCTTTTT
4411120 TCTTTTTCTCATTTTTTCCT-TTTTT
1 TCTTTTTCTCATTTTTTCCTCTTTTT
4411145 TCTCTTTT
1 TCT-TTTT
4411153 ATTTCTTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
24 15 0.22
25 25 0.37
26 17 0.25
27 10 0.15
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (26 bp):
TCTTTTTCTCATTTTTTCCTCTTTTT
Found at i:4420831 original size:46 final size:47
Alignment explanation
Indices: 4420778--4420874 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 47
4420768 AAAGAAATCC
4420778 TAACCGCATGATATCTAATTCGCATGC-TTATTCAAAAAAAT-AAACA
1 TAACCGCATGATATCTAATTCGCATGCATTATTCAAAAAAATGAAA-A
* *
4420824 TAACCGCATGATATCTAGTTCGCATGCATTTATTCGAAAAAATGAAAA
1 TAACCGCATGATATCTAATTCGCATGCA-TTATTCAAAAAAATGAAAA
4420872 TAA
1 TAA
4420875 ATGACTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 26 0.57
48 17 0.37
49 3 0.07
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (47 bp):
TAACCGCATGATATCTAATTCGCATGCATTATTCAAAAAAATGAAAA
Found at i:4421453 original size:30 final size:30
Alignment explanation
Indices: 4421417--4421481 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
4421407 AAACTTATTA
4421417 AAAACCAAACAAGAGATCAAAAATCAAATT
1 AAAACCAAACAAGAGATCAAAAATCAAATT
*
4421447 AAAACCAAACAAGGGATCAAAAATCAAATT
1 AAAACCAAACAAGAGATCAAAAATCAAATT
4421477 AAAAC
1 AAAAC
4421482 GAAATTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.63, C:0.17, G:0.08, T:0.12
Consensus pattern (30 bp):
AAAACCAAACAAGAGATCAAAAATCAAATT
Found at i:4425290 original size:226 final size:226
Alignment explanation
Indices: 4424896--4425504 Score: 769
Period size: 226 Copynumber: 2.7 Consensus size: 226
4424886 ATGTACACGG
* * **
4424896 TAATATGTTGATAATATTAATAACAAATCAAATAATTAACTTATTTTGTTATTTTCGGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTCGGATTTCTA
* * * * *
4424961 AGGTCCCATCAACTTTAAACAGACACTACATATTACATTAAATAAGCGATATTTGTTATGTTATT
66 AGATCACATCAGCTTTAAACAGACACTACTTATTACATTAAATAAGCGATACTTGTTATGTTATT
** * * * *
4425026 ATGGTCGATAATGTTTCCAATAATTAACATACTTTGTTATCGTCGGATTTCTAATGCTCTATCAG
131 ATGGTTAATAATGTTTCTAGTAATTAACATACTTTGTTATCGTCAGATTTCTAAGGCTCTATCAG
**
4425091 CATAAACTTTGGTAACATTTTAGGCGCTACC
196 CATAAACTTTAATAACATTTTAGGCGCTACC
* *
4425122 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTATTATCGACGGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTCGGATTTCTA
* *
4425187 AGTTCACATCAGCTTTAAACATG-CGCTACTTATTACATTAAATAAGCGATACTTGTTATGTTAT
66 AGATCACATCAGCTTTAAACA-GACACTACTTATTACATTAAATAAGCGATACTTGTTATGTTAT
* * *
4425251 TATGGTTAATAATGTTTCTAGTAATTAATC-TATTTTGTTATCTTCATATTTCTAAGGCTCTATC
130 TATGGTTAATAATGTTTCTAGTAATTAA-CATACTTTGTTATCGTCAGATTTCTAAGGCTCTATC
* * **
4425315 AGCTTAAACTTTAATAACATTTTAGGCGTTGTC
194 AGCATAAACTTTAATAACATTTTAGGCGCTACC
* * *
4425348 TAATATGTTGATAATATTGATAACAAATCTAGTAATTAA-TCTATTTTGTTATCGTCAGATTTTT
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACT-TATTTTGTTATCGTCGGATTTCT
* * * * * * *
4425412 AAGATCTCATC-GTTTTAAAAAGACATTA-TCTATTACGTTACATAAGCGCTACTTGTTATGTTA
65 AAGATCACATCAGCTTTAAACAGACACTACT-TATTACATTAAATAAGCGATACTTGTTATGTTA
* * * *
4425475 TTATGATTAATAGTATTTTTAGTAATTAAC
129 TTATGGTTAATAATGTTTCTAGTAATTAAC
4425505 TGGTTATATT
Statistics
Matches: 333, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
224 3 0.01
225 67 0.20
226 261 0.78
227 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (226 bp):
TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATCGTCGGATTTCTA
AGATCACATCAGCTTTAAACAGACACTACTTATTACATTAAATAAGCGATACTTGTTATGTTATT
ATGGTTAATAATGTTTCTAGTAATTAACATACTTTGTTATCGTCAGATTTCTAAGGCTCTATCAG
CATAAACTTTAATAACATTTTAGGCGCTACC
Found at i:4425634 original size:22 final size:22
Alignment explanation
Indices: 4425591--4425651 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
4425581 ACCAACACAA
* *
4425591 ATAATATTTCTAATAAAAAATAT
1 ATAATATTTTTGAT-AAAAATAT
4425614 ATAATATTTTTGATAAAAATAT
1 ATAATATTTTTGATAAAAATAT
*
4425636 ATAATATTTTCGATAA
1 ATAATATTTTTGATAA
4425652 TACTTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 23 0.66
23 12 0.34
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
ATAATATTTTTGATAAAAATAT
Found at i:4426109 original size:29 final size:29
Alignment explanation
Indices: 4426071--4426126 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
4426061 TTATTTGAAA
*
4426071 TTTGATCCACTTTATGAAATAAAACAAAT
1 TTTGATCCACCTTATGAAATAAAACAAAT
4426100 TTTGATCCACCTTATGAAATAAAACAA
1 TTTGATCCACCTTATGAAATAAAACAA
4426127 GTAATTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (29 bp):
TTTGATCCACCTTATGAAATAAAACAAAT
Found at i:4428883 original size:30 final size:30
Alignment explanation
Indices: 4428849--4428913 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
4428839 ACACTGTTTA
*
4428849 GTTTGTTTAATATGAATGTAAAATTATAGT
1 GTTTGTTTAATAGGAATGTAAAATTATAGT
4428879 GTTTGTTTAATAGGAATGTAAAATTATAGT
1 GTTTGTTTAATAGGAATGTAAAATTATAGT
4428909 GTTTG
1 GTTTG
4428914 ATTTGAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (30 bp):
GTTTGTTTAATAGGAATGTAAAATTATAGT
Found at i:4428933 original size:29 final size:29
Alignment explanation
Indices: 4428862--4428934 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
4428852 TGTTTAATAT
*
4428862 GAATGTAAAATTATAGTGTTTGTTTAATAG
1 GAATGTAAAATTATAGTGTTTGTTT-AGAG
4428892 GAATGTAAAATTATAGTGTTTGATTT-GAG
1 GAATGTAAAATTATAGTGTTTG-TTTAGAG
* *
4428921 GAATATAAGATTAT
1 GAATGTAAAATTAT
4428935 CGGTATGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.36
30 22 0.56
31 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (29 bp):
GAATGTAAAATTATAGTGTTTGTTTAGAG
Found at i:4430515 original size:2 final size:2
Alignment explanation
Indices: 4430508--4430533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4430498 GACTAAACTC
4430508 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
4430534 GGCTAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4431557 original size:18 final size:18
Alignment explanation
Indices: 4431534--4431570 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4431524 AATTATTAAA
4431534 AATTATAAAATGATATTT
1 AATTATAAAATGATATTT
* *
4431552 AATTATAGAATGTTATTT
1 AATTATAAAATGATATTT
4431570 A
1 A
4431571 TTTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (18 bp):
AATTATAAAATGATATTT
Found at i:4431941 original size:18 final size:19
Alignment explanation
Indices: 4431918--4431955 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4431908 CAAATAACTA
4431918 AATAAAATAA-TATTTTAT
1 AATAAAATAATTATTTTAT
4431936 AATAAAATAATTATTTTAT
1 AATAAAATAATTATTTTAT
4431955 A
1 A
4431956 CTTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAAATAATTATTTTAT
Found at i:4436086 original size:21 final size:21
Alignment explanation
Indices: 4436060--4436100 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4436050 CCACGTAGAA
*
4436060 ATGTCCCGAATTACCACATAG
1 ATGTCCCGAATGACCACATAG
4436081 ATGTCCCGAATGACCACATA
1 ATGTCCCGAATGACCACATA
4436101 TAATACATAT
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:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (21 bp):
ATGTCCCGAATGACCACATAG
Found at i:4440543 original size:21 final size:21
Alignment explanation
Indices: 4440519--4440578 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
4440509 GAAGCTATGA
4440519 GCTTATATGAATATGTGATAT
1 GCTTATATGAATATGTGATAT
4440540 GCTTATATGAATATGTGATAT
1 GCTTATATGAATATGTGATAT
** *
4440561 ATTTATATGAGTATGTGA
1 GCTTATATGAATATGTGA
4440579 AATGATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.43
Consensus pattern (21 bp):
GCTTATATGAATATGTGATAT
Found at i:4440875 original size:24 final size:26
Alignment explanation
Indices: 4440846--4440894 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
4440836 ATACAATGTA
4440846 TGTAATAT-ATATA-TAT-ATATGATG
1 TGTAATATGA-ATAGTATGATATGATG
4440870 TGTAATATGAATAGTATGATATGAT
1 TGTAATATGAATAGTATGATATGAT
4440895 ATATGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (26 bp):
TGTAATATGAATAGTATGATATGATG
Found at i:4441112 original size:4 final size:4
Alignment explanation
Indices: 4441103--4441150 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
4441093 TGATGATAAG
4441103 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
4441151 ATGCTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:4445046 original size:64 final size:64
Alignment explanation
Indices: 4444966--4445124 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
4444956 TTGAAGGTGT
** *** *
4444966 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGTAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATGCAATTCATG
4445029 C
64 C
* * *
4445030 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
* * *
4445094 ACCGATGCATCAGTAGTACATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
4445125 TTTCATTGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 1 0.01
64 77 0.95
65 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:4445818 original size:31 final size:31
Alignment explanation
Indices: 4445779--4445903 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
4445769 AGGGTCGAGG
4445779 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
4445810 ATTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4445841 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4445872 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4445903 G
1 G
4445904 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4448873 original size:3 final size:3
Alignment explanation
Indices: 4448853--4448920 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
4448843 AGAGATATTC
* * *
4448853 TCT TCA TCT TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
4448901 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
4448921 ATGTACGAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:4449569 original size:64 final size:64
Alignment explanation
Indices: 4449458--4449616 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
4449448 TTGAAGGTGT
** ***
4449458 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAAAATAAAAACATCAAATGCAATTCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAATAAAATAAAAACATCAAATGCAATTCATAC
* * * * *
4449522 ATCGATGCATAAGTAGTGCATCGATGCATACCAATAATAAT-ACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAATAA-AATAAAAACATCAAATGCAATTCATAC
* * *
4449586 ACCGATGCATCAA-CAGTGCATCGACGCATAC
1 ATCGATGCAT-AAGTAGTGCATCGATGCATAC
4449617 TTTTATTGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 73 0.92
65 5 0.06
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAATAAAATAAAAACATCAAATGCAATTCATAC
Found at i:4450309 original size:31 final size:31
Alignment explanation
Indices: 4450271--4450395 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
4450261 AGGGTCGAGG
*
4450271 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
4450302 GTTTACCTATGTTCTTCGTAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4450333 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4450364 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4450395 G
1 G
4450396 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4453360 original size:3 final size:3
Alignment explanation
Indices: 4453346--4453380 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4453336 AGATATATTC
*
4453346 TCT TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4453381 ATGTACGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:4453986 original size:64 final size:64
Alignment explanation
Indices: 4453918--4454076 Score: 196
Period size: 64 Copynumber: 2.5 Consensus size: 64
4453908 TTGAAGGTGT
** ***
4453918 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATGCAATTCATG
4453981 C
64 C
* * *
4453982 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
* *
4454046 ACCGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
4454077 TTTCATTGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 1 0.01
64 79 0.95
65 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:4454769 original size:31 final size:31
Alignment explanation
Indices: 4454731--4454855 Score: 216
Period size: 31 Copynumber: 4.0 Consensus size: 31
4454721 AGGGTCGAGG
4454731 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4454762 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4454793 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4454824 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4454855 G
1 G
4454856 GTCATTCGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4456028 original size:21 final size:21
Alignment explanation
Indices: 4456002--4456061 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
4455992 GAAACTATGA
4456002 GCTTATATGAATATGTGATAT
1 GCTTATATGAATATGTGATAT
*
4456023 GCTTATATGAATATGTTATAT
1 GCTTATATGAATATGTGATAT
* *
4456044 GTTTATATGAGTATGTGA
1 GCTTATATGAATATGTGA
4456062 AATGATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (21 bp):
GCTTATATGAATATGTGATAT
Found at i:4456320 original size:2 final size:2
Alignment explanation
Indices: 4456313--4456361 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4456303 ATACAATGTA
4456313 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
4456355 AT AT AT A
1 AT AT AT A
4456362 GGATGTGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4456561 original size:16 final size:16
Alignment explanation
Indices: 4456540--4456573 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4456530 TGAAGAAGAT
4456540 ATAATAGATATAA-AGG
1 ATAATA-ATATAAGAGG
4456556 ATAATAATATAAGAGG
1 ATAATAATATAAGAGG
4456572 AT
1 AT
4456574 GGTAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (16 bp):
ATAATAATATAAGAGG
Found at i:4460668 original size:38 final size:40
Alignment explanation
Indices: 4460596--4460670 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 40
4460586 TTCTCATACT
4460596 TTAATATAATTTTCAAATAAAATATTTTAAAAATATAAAA
1 TTAATATAATTTTCAAATAAAATATTTTAAAAATATAAAA
* *
4460636 TTAATAATAA-TTT-AAATCAAAT-TTTTATAAATATA
1 TTAAT-ATAATTTTCAAATAAAATATTTTAAAAATATA
4460671 TTTTTAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 12 0.38
39 8 0.25
40 8 0.25
41 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (40 bp):
TTAATATAATTTTCAAATAAAATATTTTAAAAATATAAAA
Found at i:4461144 original size:16 final size:15
Alignment explanation
Indices: 4461120--4461155 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
4461110 ATTATATAAA
*
4461120 ATATAATGAATTATTT
1 ATATTATGAATTA-TT
4461136 ATATTATGAATTATT
1 ATATTATGAATTATT
4461151 ATATT
1 ATATT
4461156 TTGTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTATGAATTATT
Found at i:4461301 original size:15 final size:15
Alignment explanation
Indices: 4461281--4461332 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
4461271 AAAAACCGGG
4461281 TATCGGATACCCGAT
1 TATCGGATACCCGAT
*
4461296 TATCGGATACCCGTAA
1 TATCGGATACCCG-AT
* *
4461312 AATTCGGATATCCGAT
1 TA-TCGGATACCCGAT
4461328 TATCG
1 TATCG
4461333 AGTACTCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 16 0.53
16 4 0.13
17 10 0.33
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (15 bp):
TATCGGATACCCGAT
Found at i:4466288 original size:27 final size:27
Alignment explanation
Indices: 4466258--4466311 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4466248 CCCATGTAAT
4466258 TAACAAGGTACTTCATTTGTTATTTTA
1 TAACAAGGTACTTCATTTGTTATTTTA
4466285 TAACAAGGTACTTCATTTGTTATTTTA
1 TAACAAGGTACTTCATTTGTTATTTTA
4466312 CAGCACCGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (27 bp):
TAACAAGGTACTTCATTTGTTATTTTA
Found at i:4470281 original size:2 final size:2
Alignment explanation
Indices: 4470274--4470300 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4470264 ATATGATTCG
4470274 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 T
4470301 TATGTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4475312 original size:2 final size:2
Alignment explanation
Indices: 4475307--4475332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4475297 ATATATATAT
4475307 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
4475333 GCTGATCTTG
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4475745 original size:3 final size:3
Alignment explanation
Indices: 4475737--4475762 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4475727 ATTAGTACTC
4475737 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4475763 TTCACGAGGA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4478188 original size:19 final size:19
Alignment explanation
Indices: 4478161--4478218 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
4478151 AAAAATCGAT
4478161 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCGAAA
* *
4478180 AAACTGAACCGTTA---AAA
1 AAACCGAACCG-AACCGAAA
4478197 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCGAAA
4478216 AAA
1 AAA
4478219 TCGGTTTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 13 0.42
19 16 0.52
20 1 0.03
ACGTcount: A:0.55, C:0.26, G:0.14, T:0.05
Consensus pattern (19 bp):
AAACCGAACCGAACCGAAA
Found at i:4480456 original size:32 final size:33
Alignment explanation
Indices: 4480412--4480480 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
4480402 TTTTAAGACA
4480412 TTTTTAAATGTCCTAATCTTTAAACTTGACAAC
1 TTTTTAAATGTCCTAATCTTTAAACTTGACAAC
4480445 TTTTT-AATGTCCTAATCTTTAAACTTGACAAC
1 TTTTTAAATGTCCTAATCTTTAAACTTGACAAC
4480477 TTTT
1 TTTT
4480481 CTTGAACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.46
Consensus pattern (33 bp):
TTTTTAAATGTCCTAATCTTTAAACTTGACAAC
Found at i:4482700 original size:17 final size:17
Alignment explanation
Indices: 4482678--4482714 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4482668 TGGAATAAGA
4482678 AATGAATGAAAGAAATG
1 AATGAATGAAAGAAATG
4482695 AATGAATGAAAGAAATG
1 AATGAATGAAAGAAATG
4482712 AAT
1 AAT
4482715 TTAAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (17 bp):
AATGAATGAAAGAAATG
Found at i:4482714 original size:13 final size:13
Alignment explanation
Indices: 4482674--4482705 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4482664 TTAATGGAAT
4482674 AAGAAATGAATGA
1 AAGAAATGAATGA
4482687 AAGAAATGAATGA
1 AAGAAATGAATGA
*
4482700 ATGAAA
1 AAGAAA
4482706 GAAATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (13 bp):
AAGAAATGAATGA
Found at i:4482861 original size:47 final size:47
Alignment explanation
Indices: 4482802--4482903 Score: 186
Period size: 47 Copynumber: 2.2 Consensus size: 47
4482792 AATTGGCCTC
*
4482802 CAATGATGTTGATGGACGTTGCTTCAATGATGAGTGAATGACGGCTT
1 CAATGATGTTGATGGACGTTGCTTCAATGATGAGTGAAGGACGGCTT
*
4482849 CAATGATGTTGATGGACGTTGGTTCAATGATGAGTGAAGGACGGCTT
1 CAATGATGTTGATGGACGTTGCTTCAATGATGAGTGAAGGACGGCTT
4482896 CAATGATG
1 CAATGATG
4482904 ATGAAATGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (47 bp):
CAATGATGTTGATGGACGTTGCTTCAATGATGAGTGAAGGACGGCTT
Done.