Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008182.1 Hibiscus syriacus cultivar Beakdansim tig00110782_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: 1042344
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:878582 original size:85 final size:85
Alignment explanation
Indices: 878439--878608 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 85
878429 TCTTAAAAAG
** *
878439 AGGCCCTTAAATCTCAATTTTACCACTGATCCGTAATACTTTGTTTGCTTTTTTATTGTAACAAT
1 AGGCCCTTAAATCTCAATTTTACCACTGATCCACAATACTTTATTTGCTTTTTTATTGTAACAAT
878504 AGTAATAAATCTAATTTTTT
66 AGTAATAAATCTAATTTTTT
* *
878524 AGGCCCTTAAATCTCAATTTTACCATTGATCCACAATGCTTTATTTGCTTTTTTATTGTAACAAT
1 AGGCCCTTAAATCTCAATTTTACCACTGATCCACAATACTTTATTTGCTTTTTTATTGTAACAAT
878589 AGTAATAAATCTAATTTTTT
66 AGTAATAAATCTAATTTTTT
878609 GGGGCCTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (85 bp):
AGGCCCTTAAATCTCAATTTTACCACTGATCCACAATACTTTATTTGCTTTTTTATTGTAACAAT
AGTAATAAATCTAATTTTTT
Found at i:879407 original size:30 final size:30
Alignment explanation
Indices: 879349--879411 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
879339 AAAATTAGGG
** *
879349 TATTACAATTTAGTTTTTTATAGTTTAATT
1 TATTACAATTTAGTTTTACATAGATTAATT
879379 TATTA-AATTTAGTTTTACATTAGATTAATT
1 TATTACAATTTAGTTTTACA-TAGATTAATT
879409 TAT
1 TAT
879412 AAGAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (30 bp):
TATTACAATTTAGTTTTACATAGATTAATT
Found at i:884235 original size:21 final size:21
Alignment explanation
Indices: 884209--884292 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
884199 CAGAACCCCA
*
884209 GGGGGGCATCGATTCCCTTGT
1 GGGGGGAATCGATTCCCTTGT
* *
884230 GGGGGGAATCGGTTCCCCTTCAT
1 GGGGGGAATCGATT-CCCTT-GT
* * *
884253 AGGGGGAATCGGTTCCCTCATGA
1 GGGGGGAATCGATTCCCT--TGT
884276 GGGGGG-ATCGATTCCCT
1 GGGGGGAATCGATTCCCT
884293 CTGCACCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 12 0.24
22 19 0.37
23 19 0.37
24 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.37, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTGT
Found at i:884257 original size:23 final size:23
Alignment explanation
Indices: 884231--884291 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
884221 TTCCCTTGTG
884231 GGGGGAATCGGTTCCCCTTCAT-A
1 GGGGGAATCGGTTCCCC-TCATGA
884254 GGGGGAATCGGTT-CCCTCATGA
1 GGGGGAATCGGTTCCCCTCATGA
* *
884276 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
884292 TCTGCACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.12
22 15 0.44
23 15 0.44
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTCATGA
Found at i:884292 original size:22 final size:23
Alignment explanation
Indices: 884208--884293 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
884198 ACAGAACCCC
*
884208 AGGGGGGCATCGATTCCCT--TG
1 AGGGGGGAATCGATTCCCTCATG
* *
884229 TGGGGGGAATCGGTTCCCCTTCAT-
1 AGGGGGGAATCGATT-CCC-TCATG
*
884253 A-GGGGGAATCGGTTCCCTCATG
1 AGGGGGGAATCGATTCCCTCATG
884275 AGGGGGG-ATCGATTCCCTC
1 AGGGGGGAATCGATTCCCTC
884294 TGCACCAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 16 0.30
22 18 0.33
23 19 0.35
25 1 0.02
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.24
Consensus pattern (23 bp):
AGGGGGGAATCGATTCCCTCATG
Found at i:910492 original size:16 final size:16
Alignment explanation
Indices: 910446--910496 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
910436 TATTATCATT
910446 AATTATTTTAAAAT--
1 AATTATTTTAAAATAA
****
910460 AATTATTTTTTGTTAA
1 AATTATTTTAAAATAA
910476 AATTATTTTAAAATAA
1 AATTATTTTAAAATAA
910492 AATTA
1 AATTA
910497 ATCATTTATT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
16 17 0.63
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTATTTTAAAATAA
Found at i:913748 original size:19 final size:19
Alignment explanation
Indices: 913724--913760 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
913714 AGTCAACCTG
913724 AACCTGTTGACTTTGACCA
1 AACCTGTTGACTTTGACCA
913743 AACCTGTTGACTTTGACC
1 AACCTGTTGACTTTGACC
913761 TGACCCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (19 bp):
AACCTGTTGACTTTGACCA
Found at i:913771 original size:19 final size:19
Alignment explanation
Indices: 913730--913778 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
913720 CCTGAACCTG
**
913730 TTGACTTTGACCAAACCTG
1 TTGACTTTGACCAAACCCA
**
913749 TTGACTTTGACCTGACCCA
1 TTGACTTTGACCAAACCCA
*
913768 TTGACTGTGAC
1 TTGACTTTGAC
913779 TAGAGTTGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (19 bp):
TTGACTTTGACCAAACCCA
Found at i:917057 original size:15 final size:15
Alignment explanation
Indices: 917027--917068 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
917017 TAATTAAAAA
*
917027 AATATTTTTTTATTTT
1 AATATTTTTAT-TTTT
917043 AA-ATTTATTATTTTT
1 AATATTT-TTATTTTT
917058 AATATTTTTAT
1 AATATTTTTAT
917069 CTATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATATTTTTATTTTT
Found at i:918867 original size:3 final size:3
Alignment explanation
Indices: 918859--918895 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
918849 TAATATGTAT
918859 TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TA
918896 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:919044 original size:18 final size:20
Alignment explanation
Indices: 919008--919044 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
918998 TTTCTTTAGA
*
919008 TTAATATAAGTATTTTCATT
1 TTAATATAAGTATTGTCATT
919028 TTAATAT-A-TATTGTCAT
1 TTAATATAAGTATTGTCAT
919045 ATTATGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAATATAAGTATTGTCATT
Found at i:919414 original size:187 final size:189
Alignment explanation
Indices: 919097--919438 Score: 474
Period size: 187 Copynumber: 1.8 Consensus size: 189
919087 TTGTATAAGG
* * * * *
919097 TGACGTTATGCATAATCATCATTCAAAATACTATTACATAATATTATATTATGTCATTAAAAATT
1 TGACGTTATGCATAATCATCATTCAAAATACTATTACATAACATTATATTACGACACTAAAAATG
* *
919162 TGACAATATATATTTCGTAACATATAGGTTGATTTTATTATAGTATTCGTGACGATATAAATTAT
66 TGACAATATATATTTCGTAACATATAGATTGATTTTAATATAGTATTCGTGACGATATAAATTAT
919227 TAAT-A-AAAATATTATATAATTTAGTGACGTAACTGTCATGCAATATAAGTTATAAAA
131 TAATAACAAAATATTATATAATTTAGTGACGTAACTGTCATGCAATATAAGTTATAAAA
* * ** *
919284 TGACGTTATGCATAAGT-GTCATTCATAATACTATTAGGTAACGTTATATTACGACACTAAAAAT
1 TGACGTTATGCATAA-TCATCATTCAAAATACTATTACATAACATTATATTACGACACTAAAAAT
* * * * * * *
919348 GTGACAATATCTATTTCGTCACATATAGATTGATTTTAATGTATTATTTGTGACGATGTGAATTA
65 GTGACAATATATATTTCGTAACATATAGATTGATTTTAATATAGTATTCGTGACGATATAAATTA
*
919413 TTAATAACAAAATTTTATATAATTTA
130 TTAATAACAAAATATTATATAATTTA
919439 ATAACATAAC
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
187 113 0.86
188 2 0.02
189 17 0.13
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (189 bp):
TGACGTTATGCATAATCATCATTCAAAATACTATTACATAACATTATATTACGACACTAAAAATG
TGACAATATATATTTCGTAACATATAGATTGATTTTAATATAGTATTCGTGACGATATAAATTAT
TAATAACAAAATATTATATAATTTAGTGACGTAACTGTCATGCAATATAAGTTATAAAA
Found at i:921218 original size:21 final size:19
Alignment explanation
Indices: 921170--921219 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
921160 CCAAAATTTA
* *
921170 TTTAAAACTAATTATAGTT
1 TTTAAAACTAACTATAATT
921189 TTTACAAACTAAACTATAAATT
1 TTTA-AAACT-AACTAT-AATT
921211 TTTAAAACT
1 TTTAAAACT
921220 TCTGAGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 10 0.38
22 7 0.27
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTAAAACTAACTATAATT
Found at i:924629 original size:15 final size:15
Alignment explanation
Indices: 924598--924627 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
924588 TTTAGTAATA
924598 TAAATTTATACAATT
1 TAAATTTATACAATT
924613 TAAATTT-TACAATT
1 TAAATTTATACAATT
924627 T
1 T
924628 TATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTTATACAATT
Found at i:925305 original size:23 final size:23
Alignment explanation
Indices: 925279--925328 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
925269 AATTTATTTG
*
925279 TTTTCTTTTTAAAAAATATATAA
1 TTTTATTTTTAAAAAATATATAA
***
925302 TTTTATTTTTAAATTTTATATAA
1 TTTTATTTTTAAAAAATATATAA
925325 TTTT
1 TTTT
925329 TTAAATTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATTTTTAAAAAATATATAA
Found at i:927454 original size:19 final size:20
Alignment explanation
Indices: 927417--927459 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
927407 AGTGTTAATA
* *
927417 AATTTTAAGATTTTATATTG
1 AATTTTAAGATTATATATTC
927437 AATTTTAA-ATTATATATTC
1 AATTTTAAGATTATATATTC
927456 AATT
1 AATT
927460 AAATTATTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTTTAAGATTATATATTC
Found at i:927681 original size:19 final size:20
Alignment explanation
Indices: 927641--927681 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
927631 AACCAGATTG
927641 CCCAGGGGGAACAGATTCCC
1 CCCAGGGGGAACAGATTCCC
* *
927661 CCCAGGGGGTACTGATTCCC
1 CCCAGGGGGAACAGATTCCC
927681 C
1 C
927682 GGGAACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.15
Consensus pattern (20 bp):
CCCAGGGGGAACAGATTCCC
Found at i:927714 original size:36 final size:36
Alignment explanation
Indices: 927647--927752 Score: 144
Period size: 35 Copynumber: 3.0 Consensus size: 36
927637 ATTGCCCAGG
*
927647 GGGAACAGATTCCCCC-CAGGGGGTACTGATTCCCC
1 GGGAACAGATTCCCCCTCAGGGGGTACCGATTCCCC
* *
927682 GGGAACAGATTCCCCCTCAAGGGGTACCGATTCACC
1 GGGAACAGATTCCCCCTCAGGGGGTACCGATTCCCC
* * *
927718 GGGAATATATTCCCCCT-AGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTCAGGGGGTACCGATTCCCC
927753 CTAAGTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 31 0.50
36 31 0.50
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTCAGGGGGTACCGATTCCCC
Found at i:933246 original size:47 final size:47
Alignment explanation
Indices: 933195--933305 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 47
933185 ATATTTGGTA
* *
933195 AGTACTACCTTACAATGTATATTCGAGCAC-AACTGTGAATATATGGG
1 AGTACTACCTTACAATGAATATTCGAGCACTAA-GGTGAATATATGGG
* *
933242 AGTACTACCTTACAGTGAATATTCGAGCACTAAGGTGCATATATGGG
1 AGTACTACCTTACAATGAATATTCGAGCACTAAGGTGAATATATGGG
* * *
933289 AGCACTATCTTAAAATG
1 AGTACTACCTTACAATG
933306 CATACTACCT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 53 0.96
48 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (47 bp):
AGTACTACCTTACAATGAATATTCGAGCACTAAGGTGAATATATGGG
Found at i:943707 original size:15 final size:16
Alignment explanation
Indices: 943684--943714 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
943674 TTCATAATTA
943684 TCTTGTTTGTTTGTTT
1 TCTTGTTTGTTTGTTT
943700 TCTT-TTTGTTTGTTT
1 TCTTGTTTGTTTGTTT
943715 GTTTTTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.77
Consensus pattern (16 bp):
TCTTGTTTGTTTGTTT
Found at i:944066 original size:19 final size:19
Alignment explanation
Indices: 944042--944080 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
944032 ATATAGTTAT
944042 GAGGTGGTGTCCTGAAGAA
1 GAGGTGGTGTCCTGAAGAA
944061 GAGGTGGTGTCCTGAAGAA
1 GAGGTGGTGTCCTGAAGAA
944080 G
1 G
944081 TTTAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.44, T:0.21
Consensus pattern (19 bp):
GAGGTGGTGTCCTGAAGAA
Found at i:945750 original size:17 final size:17
Alignment explanation
Indices: 945728--945770 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
945718 AAGATGAGTG
945728 TTTGGTTTTCTTTTGCT
1 TTTGGTTTTCTTTTGCT
945745 TTTGGTTTTCTTTTGCT
1 TTTGGTTTTCTTTTGCT
*
945762 TTGGGTTTT
1 TTTGGTTTT
945771 TCGAGGTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.00, C:0.09, G:0.21, T:0.70
Consensus pattern (17 bp):
TTTGGTTTTCTTTTGCT
Found at i:946974 original size:14 final size:14
Alignment explanation
Indices: 946957--946992 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
946947 CTTTTATTTA
*
946957 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
946971 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
946985 TTTAATTT
1 TTTAATTT
946993 ACTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:947010 original size:17 final size:17
Alignment explanation
Indices: 946984--947026 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
946974 AATTTCATTA
*
946984 CTTTAATTTACTATTT-T
1 CTTTATTTTACT-TTTAT
947001 CTTTATTTTACTTTTAT
1 CTTTATTTTACTTTTAT
*
947018 CTTTCTTTT
1 CTTTATTTT
947027 TTTACTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTATTTTACTTTTAT
Found at i:949344 original size:20 final size:21
Alignment explanation
Indices: 949319--949359 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
949309 CCATTTTTGC
949319 ATCTTTGCA-TTTGCATGTGA
1 ATCTTTGCACTTTGCATGTGA
949339 ATCTTTGCATCTTTGCATGTG
1 ATCTTTGCA-CTTTGCATGTG
949360 CATATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (21 bp):
ATCTTTGCACTTTGCATGTGA
Found at i:950757 original size:12 final size:11
Alignment explanation
Indices: 950692--950777 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 11
950682 ACAGAAAATG
950692 AAAAAGAAGAGA
1 AAAAAGAA-AGA
950704 GATAAAA-AAAGCA
1 -A-AAAAGAAAG-A
*
950717 AAAAAGAACAAGG
1 AAAAAG-A-AAGA
*
950730 AAAAAGAGAGA
1 AAAAAGAAAGA
*
950741 GAAAAGAAAGCA
1 AAAAAGAAAG-A
950753 AAAAAGAAA-A
1 AAAAAGAAAGA
*
950763 AATAAGAAAAGA
1 AAAAAG-AAAGA
950775 AAA
1 AAA
950778 CATATTAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
10 6 0.11
11 17 0.30
12 16 0.28
13 11 0.19
14 7 0.12
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:953839 original size:36 final size:36
Alignment explanation
Indices: 953799--953875 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
953789 ACTGAATTAA
* *
953799 ACGGGGACGGGGAAAAACCGTTTATGCTAAATGGGG
1 ACGGGGACAGGGAAAAACCGTTTATGCTAAACGGGG
*
953835 ACGGGGACAGGGAAAAACCGTTTATGTTAAACGGGG
1 ACGGGGACAGGGAAAAACCGTTTATGCTAAACGGGG
953871 ACGGG
1 ACGGG
953876 TTTAGTAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.14, G:0.39, T:0.16
Consensus pattern (36 bp):
ACGGGGACAGGGAAAAACCGTTTATGCTAAACGGGG
Found at i:953941 original size:2 final size:2
Alignment explanation
Indices: 953934--953963 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
953924 TAAAAATAAT
953934 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
953964 TAATAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:955110 original size:135 final size:135
Alignment explanation
Indices: 954862--955574 Score: 894
Period size: 135 Copynumber: 5.3 Consensus size: 135
954852 AGATAAGCCA
* * * *
954862 ATTAAAATTTCCAATGGAGATTTCATAATTAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCG
1 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * * * *
954927 TAATGAGAAGAACTTGTTCAACCTTTGCTCGATTAACGGTATTTCAAATCAGTGACACCTTACTC
66 TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACTT
954992 GAGGG
131 GAGGG
* * * *
954997 ATTATCATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGTGAGAATAAGTTCA
1 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * * * *
955062 TAATGAGAATAACTTATTCAACCTTTGCTCTATTCAAGGTATTTCAAATTAGTGACGCCTCACTA
66 TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACT-
955127 T-AGGG
130 TGAGGG
* ** * * *
955132 ACTAACATTTCCAATATAGAGTTCATAATGAGAAGAACTCGTCCGATAGAGAGAGAAGAAGTTCG
1 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* ** *
955197 TAATGAGAAGAACTTGTTCAACCTTTGCTCAAATCACGGTATTTTTAATCAGTGATGCCTCACTT
66 TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACTT
955262 GAGGG
131 GAGGG
* * * * * *
955267 ATTAACATTTCTAATGGAGAGTTCATAATGAGAATAACTTATTCAATAGAGGGATAAGAAGTTCA
1 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * * ** *
955332 TAATGAGAAGAACTTGTTCAACCTTTTCTCGATTCACGGTATTTCGAATCAACGATGCCTCACTT
66 TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACTT
955397 GAGGG
131 GAGGG
* *
955402 ATTAACATTTCCAATGGAGAGGTCATAATGAGAAGAACTCATCCGATAGAGGGAGAATAAGTTCA
1 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * ** * * * *
955467 TAATGAGAATAACTTGTTCAACCTTTTCTCAATTCACGGTATTTTGAATCAGCGATGCTTCACTC
66 TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACTT
*
955532 GAGTG
131 GAGGG
* * *
955537 ATCAAAATTTCTAAT--AGAGTTCA-AGATGAGAAGAACTC
1 ATTAACATTTCCAATGGAGAGTTCATA-ATGAGAAGAACTC
955575 GCAGTTTGAT
Statistics
Matches: 502, Mismatches: 73, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
132 1 0.00
133 20 0.04
134 1 0.00
135 480 0.96
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (135 bp):
ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACGGTATTTCAAATCAGTGACGCCTCACTT
GAGGG
Found at i:957047 original size:105 final size:104
Alignment explanation
Indices: 956775--957047 Score: 318
Period size: 105 Copynumber: 2.6 Consensus size: 104
956765 ATCTTACGGT
* * * * * * *
956775 AACCCGATCCGGGGTATGA-CCGGCATTACTACGTTATGGACTTTACTAATTTCTAACTC-TAAC
1 AACCCGATCCGGGGTATGATCC-GCATTATTATGATATGGACTCTATTAACTCCTAACTCTTAA-
*
956838 TTTTTTATTAATTTGTTCGAATTATTATACGACCTTGTGGC
64 TTTTTAATTAATTTGTTCGAATTATTATACGACCTTGTGGC
* * * * *
956879 AACCCGATCCGGGGTATGATCCACGTTATTAT-AGTTTGGACCCTATTAACTCCTAACTATTAAT
1 AACCCGATCCGGGGTATGATCCGCATTATTATGA-TATGGACTCTATTAACTCCTAACTCTTAAT
* *
956943 TTTTAATTTAATTTGTTTGAATTATTATACGACCTTGTGGT
65 TTTTAA-TTAATTTGTTCGAATTATTATACGACCTTGTGGC
* * * *
956984 GACCCGATCCGGGGTATGATCCGTATTATTATGATATGGACTCTATTAACTGCTAACCCTTAAT
1 AACCCGATCCGGGGTATGATCCGCATTATTATGATATGGACTCTATTAACTCCTAACTCTTAAT
957048 CACTAATTAT
Statistics
Matches: 140, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
104 49 0.35
105 90 0.64
106 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (104 bp):
AACCCGATCCGGGGTATGATCCGCATTATTATGATATGGACTCTATTAACTCCTAACTCTTAATT
TTTAATTAATTTGTTCGAATTATTATACGACCTTGTGGC
Found at i:959045 original size:20 final size:20
Alignment explanation
Indices: 959020--959071 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
959010 CATTGGTATT
*
959020 TGCATTTGCATCATGCACTA
1 TGCATTTACATCATGCACTA
959040 TGCATTTACATCATGCACTA
1 TGCATTTACATCATGCACTA
959060 TGCATTTACATC
1 TGCATTTACATC
959072 CAACATTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (20 bp):
TGCATTTACATCATGCACTA
Found at i:963114 original size:40 final size:40
Alignment explanation
Indices: 963064--963234 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
963054 TTGCTCATAA
* ** * * *
963064 GGTATCAATATTATTTATTGGGTATCGATATCGAGGGTGT
1 GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
963104 GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
1 GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
*
963144 GGTATTAATATTGCTTATTGGGTACTGATACCGAAGGTGT
1 GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
* * *
963184 GATATTAATATTGTTTATTGGGTACCAATACCGAAGGTGT
1 GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
* *
963224 GATATCAATAT
1 GGTATTAATAT
963235 CATGTATATG
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (40 bp):
GGTATTAATATTGCTTATTGGGTACCGATACCGAAGGTGT
Found at i:964453 original size:31 final size:31
Alignment explanation
Indices: 964411--964469 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
964401 CTAAGAACAC
* * *
964411 ATCTTAGGGCCGTAGGGCCTACCCAAGAATG
1 ATCTCAGGGCCGCAGAGCCTACCCAAGAATG
*
964442 ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ATCTCAGGGCCGCAGAGCCTACCCAAGA
964470 GTCACATTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (31 bp):
ATCTCAGGGCCGCAGAGCCTACCCAAGAATG
Found at i:965891 original size:54 final size:54
Alignment explanation
Indices: 965809--965917 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
965799 AGATTTTCAG
*
965809 GTCAATAACCTTCTCAGAAATTACAAACAAGTTATCAGGAATTTTCTGTACAAA
1 GTCAATAACATTCTCAGAAATTACAAACAAGTTATCAGGAATTTTCTGTACAAA
*
965863 GTCAATAACATTCTCAGAAATTACAAACAAGTTATCCGGAATTTTCTGTACAAA
1 GTCAATAACATTCTCAGAAATTACAAACAAGTTATCAGGAATTTTCTGTACAAA
965917 G
1 G
965918 ATAGAATCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (54 bp):
GTCAATAACATTCTCAGAAATTACAAACAAGTTATCAGGAATTTTCTGTACAAA
Found at i:977869 original size:36 final size:36
Alignment explanation
Indices: 977829--977898 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
977819 AAAAGTGACC
977829 ATATCTACAAAAGTTAAGGAGTAACTT-TGTCATTAT
1 ATATCTACAAAAGTTAAGGAGTAA-TTGTGTCATTAT
977865 ATATCTACAAAAGTTAAGGAGTAATTGTGTCATT
1 ATATCTACAAAAGTTAAGGAGTAATTGTGTCATT
977899 GTATCTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
ATATCTACAAAAGTTAAGGAGTAATTGTGTCATTAT
Found at i:978254 original size:57 final size:55
Alignment explanation
Indices: 978192--978301 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 55
978182 TAGTCCCTCG
978192 ACTATAGG-GTGATGCTTTGTTGAGTCAT-TCGACTATTAAAAGTTACAAAATGGTTTA
1 ACTATAGGAGTGAT--TTTGTTGAGTC-TCT-GACTATTAAAAGTTACAAAATGGTTTA
* *
978249 ACTATAGGACGTTATTTTGTTGAGTCTCTGACTTTTAAAAGTTACAAAATGGT
1 ACTATAGGA-GTGATTTTGTTGAGTCTCTGACTATTAAAAGTTACAAAATGGT
978302 CTCCCGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
56 24 0.50
57 20 0.42
59 4 0.08
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (55 bp):
ACTATAGGAGTGATTTTGTTGAGTCTCTGACTATTAAAAGTTACAAAATGGTTTA
Found at i:979050 original size:19 final size:19
Alignment explanation
Indices: 979026--979064 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
979016 TATTAAATAA
979026 ATTTAT-TATTAATAATGAT
1 ATTTATGTA-TAATAATGAT
*
979045 ATTTATGTATAGTAATGAT
1 ATTTATGTATAATAATGAT
979064 A
1 A
979065 AAATATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTTATGTATAATAATGAT
Found at i:984193 original size:21 final size:21
Alignment explanation
Indices: 984164--984212 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
984154 ACCGTTCCCT
* * *
984164 GACCAAACTCATTCGGTGGCC
1 GACCGAACTAATTCGGTGGAC
*
984185 GACCGAACTAATTCGGTGGAT
1 GACCGAACTAATTCGGTGGAC
984206 GACCGAA
1 GACCGAA
984213 TTAACCGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
GACCGAACTAATTCGGTGGAC
Found at i:985408 original size:25 final size:21
Alignment explanation
Indices: 985361--985405 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
985351 ACCGTTCCCC
985361 GACCGAACTAATTCGGTGGCT
1 GACCGAACTAATTCGGTGGCT
985382 GACCGAACTAATTCGGTGGCT
1 GACCGAACTAATTCGGTGGCT
985403 GAC
1 GAC
985406 TGAATTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (21 bp):
GACCGAACTAATTCGGTGGCT
Found at i:988391 original size:21 final size:21
Alignment explanation
Indices: 988365--988404 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
988355 CCGTTCCCTG
988365 ACCGAACTAATTCGGTGGCCT
1 ACCGAACTAATTCGGTGGCCT
988386 ACCGAACTAATTCGGTGGC
1 ACCGAACTAATTCGGTGGC
988405 TGACCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (21 bp):
ACCGAACTAATTCGGTGGCCT
Found at i:994358 original size:15 final size:15
Alignment explanation
Indices: 994330--994422 Score: 145
Period size: 15 Copynumber: 6.3 Consensus size: 15
994320 AAATAATTTT
994330 AAATAATTTA--ATA
1 AAATAATTTATTATA
* * *
994343 AGATTATTTCTTATA
1 AAATAATTTATTATA
994358 AAATAATTTATTATA
1 AAATAATTTATTATA
994373 AAATAATTTATTATA
1 AAATAATTTATTATA
994388 AAATAATTTATTATA
1 AAATAATTTATTATA
994403 AAATAATTTATTATA
1 AAATAATTTATTATA
994418 AAATA
1 AAATA
994423 TAGATTGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
13 7 0.10
15 65 0.90
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
AAATAATTTATTATA
Found at i:994389 original size:30 final size:30
Alignment explanation
Indices: 994330--994466 Score: 145
Period size: 30 Copynumber: 4.4 Consensus size: 30
994320 AAATAATTTT
* * *
994330 AAATAATTTA--ATAAGATTATTTCTTATA
1 AAATAATTTATTATAAAATAATTTATTATA
994358 AAATAATTTATTATAAAATAATTTATTATA
1 AAATAATTTATTATAAAATAATTTATTATA
994388 AAATAATTTATTATAAAATAATTTATTATAA
1 AAATAATTTATTATAAAATAATTTATTAT-A
* *
994419 AATATAGATTGATTTATTTTAAAATAATTTATT-TT
1 AA-AT--A---ATTTATTATAAAATAATTTATTATA
994454 AAATAATTTATTA
1 AAATAATTTATTA
994467 GTATGGATTG
Statistics
Matches: 94, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
28 10 0.11
29 7 0.07
30 44 0.47
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 21 0.22
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (30 bp):
AAATAATTTATTATAAAATAATTTATTATA
Found at i:994450 original size:15 final size:14
Alignment explanation
Indices: 994430--994465 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
994420 ATATAGATTG
994430 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
994445 ATTTATTTTAAATA
1 ATTTATTTTAAATA
994459 ATTTATT
1 ATTTATT
994466 AGTATGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:994459 original size:14 final size:15
Alignment explanation
Indices: 994356--994465 Score: 114
Period size: 15 Copynumber: 6.9 Consensus size: 15
994346 TTATTTCTTA
*
994356 TAAAATAATTTATTA
1 TAAAATAATTTATTT
*
994371 TAAAATAATTTATTA
1 TAAAATAATTTATTT
*
994386 TAAAATAATTTATTA
1 TAAAATAATTTATTT
994401 TAAAATAATTTATTAT
1 TAAAATAATTTATT-T
*
994417 AAAATATAGATTGATTTATTT
1 TAAA-AT--A---ATTTATTT
994438 TAAAATAATTTATTT
1 TAAAATAATTTATTT
994453 T-AAATAATTTATT
1 TAAAATAATTTATT
994466 AGTATGGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 15
0.83 0.03 0.15
Matches are distributed among these distances:
14 12 0.14
15 53 0.62
16 3 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.05
22 7 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAAAATAATTTATTT
Found at i:994483 original size:32 final size:32
Alignment explanation
Indices: 994445--994762 Score: 197
Period size: 32 Copynumber: 10.4 Consensus size: 32
994435 TTTTAAAATA
994445 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994477 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994499 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994531 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994553 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
994585 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
994614 ATTGTAGTTGTATGGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * *
994647 ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-TA-AATAATTTA--TT--AGTATGGATTG
994687 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994719 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
994751 ATTTATTTTAAA
1 ATTTATTTTAAA
994763 ATATGAATTA
Statistics
Matches: 229, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
22 28 0.12
23 4 0.02
24 3 0.01
25 5 0.02
26 4 0.02
28 4 0.02
29 8 0.03
30 10 0.04
31 10 0.04
32 117 0.51
33 5 0.02
34 10 0.04
36 7 0.03
37 2 0.01
38 2 0.01
39 1 0.00
40 9 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:994484 original size:22 final size:22
Alignment explanation
Indices: 994472--994564 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
994462 TATTAGTATG
994472 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
994494 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
* *
994521 GTATGGATTGATTTATTTTAAAATATG
1 G-ATTGA-T---TTATTTTAAAATATA
994548 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
994565 TAATTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
22 24 0.41
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 5 0.09
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:994498 original size:69 final size:67
Alignment explanation
Indices: 994363--994520 Score: 221
Period size: 69 Copynumber: 2.3 Consensus size: 67
994353 TTATAAAATA
*
994363 ATTTATTATAAAATAATTTATTATAAAATAATTTATTATAAAATAATTTATTATAAAATATAGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATAATTTATTATAAAATATAGAT
994428 TG
66 TG
* * * * *
994430 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTA-TA--AAATAATTTATTATAAAATATA
994494 GATTG
63 GATTG
994499 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
994521 GTATGGATTG
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
66 14 0.17
67 23 0.28
68 12 0.15
69 32 0.40
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATAATTTATTATAAAATATAGAT
TG
Found at i:994675 original size:166 final size:162
Alignment explanation
Indices: 994425--995597 Score: 614
Period size: 166 Copynumber: 7.2 Consensus size: 162
994415 ATAAAATATA
* * *
994425 GATTGATTTATTTTAAAATA---ATTTATTT-TAAATAATTTATTAGTATGGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTAAT-ATGTATTAGTATGGATTGATTTATTTT
994486 -AAA-A--TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
65 AAAATATGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
994547 GGATTGATTTATTTTAAATAATTTATTAGTATG
130 GGATTGATTTATTTTAAATAATTTATTAGTATG
994580 GATTGATTTATTTTAAAATATGGATTGATTTATT-AT-TGTAGTT-GTATGGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-TTAGTATGGATTGATTTATTTT
** ** * ** *
994642 AAATAATTTATTAGTATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATT
65 -AA-AA--TA-T-GTATAGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTT
* *
994704 TATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
122 TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *
994746 GATTGATTTATTTTAAAATATGAATTAATTTATT-AT-TGTAGTT-GTATGGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-TTAGTATGGATTGATTTATTTT
* * * * *
994808 -AAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTT-AAA
65 AAAAT-ATGTA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * *
994865 TA---ATTTA-TTAGTATAGATTGATTTATTTTAAAATATG
127 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATG
*** * *
994902 GATTGATTTATTATTGTAGTTGTCTGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 GATTGATTTA-T-TT-TA-AAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATGGATTGAT
994967 TTATTTTAAAATATG---A-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
58 TTATTTTAAAATATGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
995028 AAATAATTTATTTGTATGTATTGATTTATTTT-AA-AA--TA-TA-TATT
123 -AA-AA--TA--TG---G-ATTGATTTATTTTAAATAATTTATTAGTATG
* * *** * *
995072 GATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA
1 GATTGATTTATTTTA-AAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATGGATTGATTTA
*
995136 TTTTAAAATATG---A-ATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAA
61 TTTTAAAATATGTATAGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT--
*
995190 ATAATTTATTAGTATGGACTGATTTATTTTAAATAATTTATTAGTATG
122 -TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATG
*
995238 GATTGATTTATTTTAAAATATGGATTGATTTATT-AT-TGTAGTT-GTATAGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-TTAGTATGGATTGATTTATTTT
*
995300 AAAATATG----GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATA-
65 AAAATATGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
* * * ** * * *
995359 --ATTTATTTGTGTGGATTGATTTATTTTAAAATATG
130 GGATTGATTTATTTTAAATAATTTA--TT--AGTATG
*** * *
995394 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 GATTGATTTA-T-TT-TA-AAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATGGATTGAT
* *
995459 TTATTTTAAATAATTTATTTGTAT-GTATTGATTTATTTT-AA-AA--TA-TA-TATTGATTTA-
58 TTATTTT-AA-AA--TA--TGTATAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *** *
995516 TTATTGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATG
116 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATG
995564 GATTGATTTATTTTAAAATATGGATTGATTTATT
1 GATTGATTTATTTTAAAATATGGATTGATTTATT
995598 TTAAATAATT
Statistics
Matches: 796, Mismatches: 105, Indels: 225
0.71 0.09 0.20
Matches are distributed among these distances:
151 6 0.01
152 26 0.03
154 4 0.01
155 25 0.03
156 53 0.07
157 14 0.02
158 18 0.02
159 8 0.01
160 101 0.13
161 22 0.03
162 23 0.03
163 6 0.01
164 21 0.03
165 28 0.04
166 313 0.39
167 17 0.02
168 6 0.01
169 12 0.02
170 32 0.04
171 7 0.01
172 6 0.01
173 1 0.00
174 18 0.02
175 3 0.00
176 15 0.02
178 1 0.00
179 1 0.00
180 4 0.01
181 5 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (162 bp):
GATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTATTAGTATGGATTGATTTATTTTA
AAATATGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:994798 original size:134 final size:133
Alignment explanation
Indices: 994445--995254 Score: 662
Period size: 134 Copynumber: 6.1 Consensus size: 133
994435 TTTTAAAATA
*
994445 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-AGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA-ATTAATTTA--TT-
*
994509 AATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
62 -AT--TGTAGTT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTAAATAATTTAT
994573 TAGTATGGATTG
122 TAGTATGGATTG
** ** * ** * *
994585 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTAGTTGTATGGAT-TGATTTATTTTAAA
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TA-TTTTA-AAATATGAATTAATTT--A
* * * *
994645 TAATT-TATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
60 TTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTAAATAATTTATTA
994709 GTATGGATTG
124 GTATGGATTG
994719 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
** ** * ** * * *
994784 TAGTTGTATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTA-AAATAT
66 TAGTTGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTAAATAATTTATTAGTAT
994847 GGATTG
128 GGATTG
* * *
994853 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
* ** ** * ** * * *
994918 TAGTTGTCTGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTA-AAATAT
66 TAGTTGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTAAATAATTTATTAGTAT
*
994981 GAATTG
128 GGATTG
994987 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT----TA--AA-TAATTTA-T-TTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
** *
995042 TA--TG--T--ATTGATTTATTTTAAAATATATATTGATTTA-TT--AT--TGTAGTT-GTATGG
66 TAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAATAATTTA-TTAGTATGG
995095 ATTG
130 ATTG
* *
995099 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
*
995164 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAATAATTT
66 TAGTTGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTA-TTTAAATAATTT
995229 ATTAGTATGGATTG
120 ATTAGTATGGATTG
995243 ATTTATTTTAAA
1 ATTTATTTTAAA
995255 ATATGGATTG
Statistics
Matches: 558, Mismatches: 59, Indels: 102
0.78 0.08 0.14
Matches are distributed among these distances:
111 3 0.01
112 44 0.08
113 4 0.01
115 1 0.00
116 3 0.01
117 3 0.01
118 19 0.03
119 6 0.01
120 7 0.01
121 1 0.00
122 7 0.01
124 7 0.01
125 1 0.00
126 7 0.01
127 1 0.00
128 9 0.02
129 5 0.01
132 3 0.01
133 12 0.02
134 285 0.51
135 28 0.05
136 10 0.02
137 9 0.02
138 18 0.03
139 13 0.02
140 22 0.04
141 1 0.00
142 2 0.00
143 2 0.00
144 25 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (133 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAATAATTTATTAGTATGGA
TTG
Found at i:994830 original size:32 final size:32
Alignment explanation
Indices: 994789--994896 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 32
994779 TATTGTAGTT
994789 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
994821 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
994844 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
994875 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
994897 ATATGGATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.54
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:994835 original size:300 final size:300
Alignment explanation
Indices: 994494--995584 Score: 1330
Period size: 300 Copynumber: 3.9 Consensus size: 300
994484 TTAAAATATA
994494 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
994559 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
*
994624 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
131 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
994689 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
196 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
994754 TATTTTAAAATATGA-ATTAATTTATTATTGTAGTTGTATG
261 TATTTTAAAATAT-ATATTAATTTATTATTGTAGTTGTATG
994794 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
994859 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* *
994924 TCTGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
131 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
994989 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGTATTGATT
196 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
*
995054 TATTTTAAAATATATATTGATTTATTATTGTAGTTGTATG
261 TATTTTAAAATATATATTAATTTATTATTGTAGTTGTATG
* *
995094 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
995158 -TT--AT--TGTAGTT-GTATGGATTGATTTATTTT--AA-AT--A---A--T-TTA-T-TA---
66 TTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT
*
995201 GTATGGACTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
130 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
* *
995266 TTTA--TT--AT--TGTAGTT-GTATAGATTGATTTA-TTT---TAA---A--A-TATGGATTGA
195 TTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
995314 TTTA-TTT----TA-A-A-TAATTTATTA--GTA--TG-A--
259 TTTATTTTAAAATATATATTAATTTATTATTGTAGTTGTATG
* *
995341 -ATTGATTTATTTTAAATAATTTATTTGTGTGGATTGATTTATTTTAAAATATGGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
995404 -TT--AT--TGTAGTT-GTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--GTA--T
66 TTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT
* * **
995451 G-A---ATTGATTTATTTTAAATAATTTATTTGTATGTATTGATTTATTTTAAAATATATATTGA
130 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
* *
995512 TTTA--TT--AT--TGTAGTT-GTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGA
195 TTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
995570 TTTATTTTAAAATAT
259 TTTATTTTAAAATAT
995585 GGATTGATTT
Statistics
Matches: 737, Mismatches: 30, Indels: 86
0.86 0.04 0.10
Matches are distributed among these distances:
246 177 0.24
247 3 0.00
248 1 0.00
249 7 0.01
250 6 0.01
252 3 0.00
253 1 0.00
254 9 0.01
255 2 0.00
256 15 0.02
257 5 0.01
261 5 0.01
262 13 0.02
265 1 0.00
268 3 0.00
271 3 0.00
272 17 0.02
273 2 0.00
274 2 0.00
276 2 0.00
278 66 0.09
281 2 0.00
282 1 0.00
283 3 0.00
284 1 0.00
286 1 0.00
289 1 0.00
291 2 0.00
292 2 0.00
294 21 0.03
295 2 0.00
296 2 0.00
298 2 0.00
299 1 0.00
300 353 0.48
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (300 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
TATTTTAAAATATATATTAATTTATTATTGTAGTTGTATG
Found at i:994844 original size:246 final size:242
Alignment explanation
Indices: 994544--995597 Score: 1190
Period size: 246 Copynumber: 4.3 Consensus size: 242
994534 TATTTTAAAA
994544 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * * *
994609 TTATT-AT-TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTAT
66 TTATTAATATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTAT
* ***
994671 TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAAT
123 TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAAT
994735 TTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTGTAGTTG
188 TTATTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTGTAGTTG
994790 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
994855 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTA--TT-AAT-ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
*
994920 GTTGTCTGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAAT
127 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-AT-AAT
* * ** * * * ** * * * *
994985 TGATTTA-TTTTAAATAATTTATTAGTATGGAT-TGATTTATTTTAAATAATT-TATTTG
188 TTA-TTAGTATGGATTGATTTATT-TTA-AAATATGAATTAATTT--ATTATTGTAGTTG
* * * * ***
995042 TATGTATTGATTTATTTT-AA-AA--TA-TA-TATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
* *
995100 TTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGT
65 TTTA--TT-AAT-ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
*
995165 AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAATAATTTA
126 AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
* *
995230 TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
191 TTAGTATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTGTAGTTG
* ** ** * ** * * * *
995282 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
* *
995344 GATTTATTTTAAATAATTTATTTGTGTGGATTGATTTATTTTAAAATATGGATTGATTTATTATT
63 GATTTA--TT-AAT-ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT
*
995409 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATT
124 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATT
* * *
995474 TATTTGTATGTATTGATTTATTTTAAAATAT-ATATTGATTTATTATTGTAGTTG
189 TATTAGTATGGATTGATTTATTTTAAAATATGA-ATTAATTTATTATTGTAGTTG
*
995528 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
995593 TTATT
66 TTATT
995598 TTAAATAATT
Statistics
Matches: 693, Mismatches: 82, Indels: 68
0.82 0.10 0.08
Matches are distributed among these distances:
239 5 0.01
240 23 0.03
241 15 0.02
242 17 0.02
243 2 0.00
244 9 0.01
245 19 0.03
246 484 0.70
247 14 0.02
248 11 0.02
249 2 0.00
250 22 0.03
251 20 0.03
252 45 0.06
253 5 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (242 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTAATATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
ATGGATTGATTTATTTTAAAATATGAATTAATTTATTATTGTAGTTG
Found at i:994847 original size:22 final size:22
Alignment explanation
Indices: 994822--994864 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
994812 AATTTATTAG
994822 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
994844 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
994865 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:994967 original size:32 final size:32
Alignment explanation
Indices: 994926--995388 Score: 255
Period size: 32 Copynumber: 14.6 Consensus size: 32
994916 TGTAGTTGTC
994926 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
994958 TGGATTGATTTATTTT-AA-AA--TA-T-G-A
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
994983 ---ATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
*
995012 TGGATTGATTTATTTTAAATAATTTATTTGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
* *
995044 TGTATTGATTTATTTTAAA-ATATATATT-G-A
1 TGGATTGATTTATTTTAAATA-ATTTATTAGTA
** * * *
995074 TTTATT-ATTGTAGTTGTATGGATTGATTTATT--T-
1 TGGATTGATT-TA-TT-T-T-AAATAATTTATTAGTA
* * * * * *
995107 T-AAATAATTTATTAGTATGAATTGATTTATTTTAAAATA
1 TGGATTGATTTATT--T-T-AAATAATTTA--TT--AGTA
* *
995146 TGAATTGATTTA--TT--AT--TGTAGTT-GTA
1 TGGATTGATTTATTTTAAATAATTTA-TTAGTA
995172 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
*
995204 TGGACTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
**
995236 TGGATTGATTTATTTTAAA-ATATGGATT-G-A
1 TGGATTGATTTATTTTAAATA-ATTTATTAGTA
** * * *
995266 TTTATT-ATTGTAGTTGTATAGATTGATTTATTTTAAAATA
1 TGGATTGATT-TA-TT-T-TA-AATAATTTA--TT--AGTA
995306 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
* * *
995338 TGAATTGATTTATTTTAAATAATTTATTTGTG
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
995370 TGGATTGATTTATTTTAAA
1 TGGATTGATTTATTTTAAA
995389 ATATGGATTG
Statistics
Matches: 343, Mismatches: 39, Indels: 98
0.71 0.08 0.20
Matches are distributed among these distances:
22 13 0.04
23 2 0.01
24 2 0.01
25 1 0.00
26 16 0.05
27 2 0.01
28 5 0.01
29 9 0.03
30 22 0.06
31 14 0.04
32 199 0.58
33 7 0.02
34 15 0.04
35 1 0.00
36 10 0.03
37 2 0.01
38 2 0.01
39 3 0.01
40 15 0.04
41 3 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
TGGATTGATTTATTTTAAATAATTTATTAGTA
Found at i:994981 original size:22 final size:22
Alignment explanation
Indices: 994956--994998 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
994946 AATTTATTAG
*
994956 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
994978 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
994999 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:995136 original size:18 final size:18
Alignment explanation
Indices: 995113--995160 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
995103 ATTTTAAATA
*
995113 ATTTATTAGTATGAATTG
1 ATTTATTAATATGAATTG
995131 ATTTATTTTAAAATATGAATTG
1 ATTTA--TT--AATATGAATTG
995153 ATTTATTA
1 ATTTATTA
995161 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGAATTG
Found at i:995181 original size:48 final size:48
Alignment explanation
Indices: 995121--995319 Score: 141
Period size: 48 Copynumber: 3.8 Consensus size: 48
995111 TAATTTATTA
*
995121 GTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTT
1 GTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTT
* * *
995169 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATT-TTAAATAATT
1 GTATGGATTGATTTATTTT-AA-AA--TA-T-G-A---ATTGATTTATTATT--GTAGTT
* * *
995228 -TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT
1 GTA-T-GGATTGATT----TATTTTAAAATATGAATTGATTTATTATTGTAGTT
* *
995281 GTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
1 GTATGGATTGATTTATTTTAAAATATGAATTGATTTATT
995320 TTAAATAATT
Statistics
Matches: 118, Mismatches: 13, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
48 44 0.37
49 2 0.02
50 2 0.02
52 8 0.07
53 6 0.05
54 13 0.11
55 3 0.03
57 2 0.02
58 13 0.11
59 6 0.05
60 9 0.08
62 2 0.02
63 2 0.02
64 6 0.05
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (48 bp):
GTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTT
Found at i:995248 original size:18 final size:18
Alignment explanation
Indices: 995225--995272 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
995215 ATTTTAAATA
*
995225 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
995243 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
995265 ATTTATTA
1 ATTTATTA
995273 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:995259 original size:22 final size:22
Alignment explanation
Indices: 995234--995324 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
995224 AATTTATTAG
995234 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
995256 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
*
995282 TATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
995304 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
995325 TAATTTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 34 0.60
23 3 0.05
24 4 0.07
25 3 0.05
26 13 0.23
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:995332 original size:14 final size:14
Alignment explanation
Indices: 995313--995366 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
995303 ATATGGATTG
995313 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
995327 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
995345 ATTTATTTTAAATA
1 ATTTATTTTAAATA
995359 ATTTATTT
1 ATTTATTT
995367 GTGTGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:995349 original size:134 final size:137
Alignment explanation
Indices: 994624--995612 Score: 460
Period size: 134 Copynumber: 6.8 Consensus size: 137
994614 ATTGTAGTTG
* **
994624 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATA-ATTTATTAG
** * ** * * *
994687 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
65 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTA-TTT-AAT-ATTTATTAGTATGGATTG
994751 ATTTATTTTAAAA
125 ATTTATTTTAAAA
* * *
994764 TATGAATTAATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAG
*
994822 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
65 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTATTAGTATGGATTGAT
994887 TTATTTTAAAA
127 TTATTTTAAAA
* *
994898 TATGGATTGATTTA--TT--AT--TGTAGTT-GTCTGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAG
*
994956 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
65 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTATTAGTATGGATTGAT
995021 TTATTTTAAATAA
127 TTATTTT-AA-AA
995034 TTTATTTGTATGTATTGATTTATTTTAAAATATATATTGATTTATTATTGTAGTTGTATGGATTG
1 --TA--TG---G-ATTGATTTATTTT---A-A-ATA---A--T-TTA-T-TA---GTATGGATTG
* *
995099 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTA-TT-AT
42 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAT
*
995162 -TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTA
107 ATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A
*
995201 GTATGGACTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
** * * * * * *
995256 TATGGATTGATTTATTATTGTAGT-TGTATAGATTGATTT-AT-TTTA-AAATATGGATTGATTT
65 TATGGATTGATTTATT-TTAAAATATGGATTGATTTATTTAATATTTATTAGTATGGATTGATTT
995317 ATTTTAAATAA
129 ATTTT-AA-AA
* *
995328 TTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGTGTGGATTGATTTATTTT-AA-AA-
1 --TA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAAT
* * * * ***
995390 -TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
58 TTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGATTTA-TTT-AAT-ATTTATTAGTAT
*
995451 GAATTGATTTATTTTAAATAA
119 GGATTGATTTATTTT-AA-AA
*
995472 TTTATTTGTATGTATTGATTTATTTTAAAATATATATTGATTTATTATTGTAGTTGTATGGATTA
1 --TA--TG---G-ATTGATTTATTTT---A-A-ATA---A--T-TTA-T-TA---GTATGGATTG
995537 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
42 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-A
995602 ATAATTTATTA
105 AT-ATTTATTA
995613 TTGTAGTTGT
Statistics
Matches: 691, Mismatches: 64, Indels: 162
0.75 0.07 0.18
Matches are distributed among these distances:
127 1 0.00
128 2 0.00
129 3 0.00
130 2 0.00
131 2 0.00
133 4 0.01
134 284 0.41
135 30 0.04
136 10 0.01
137 10 0.01
138 20 0.03
139 3 0.00
140 17 0.02
141 2 0.00
143 8 0.01
144 70 0.10
145 2 0.00
146 2 0.00
147 3 0.00
148 2 0.00
149 6 0.01
150 1 0.00
152 2 0.00
153 2 0.00
154 1 0.00
155 6 0.01
156 2 0.00
157 2 0.00
160 48 0.07
161 11 0.02
162 5 0.01
163 2 0.00
164 7 0.01
165 3 0.00
166 108 0.16
167 8 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (137 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATTTATTAGTATGGATTGATTTAT
TTTAAAA
Found at i:995421 original size:112 final size:112
Alignment explanation
Indices: 995304--995580 Score: 500
Period size: 112 Copynumber: 2.5 Consensus size: 112
995294 TATTTTAAAA
995304 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGT
* *
995369 GTGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
66 ATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTG
995416 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGT
* *
995481 ATGTATTGATTTATTTTAAAATATATATTGATTTATTATTGTAGTTG
66 ATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTG
* *
995528 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
995581 ATATGGATTG
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 159 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGT
ATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTG
Found at i:995444 original size:14 final size:14
Alignment explanation
Indices: 995425--995478 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
995415 GTATGGATTG
995425 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
995439 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
995457 ATTTATTTTAAATA
1 ATTTATTTTAAATA
995471 ATTTATTT
1 ATTTATTT
995479 GTATGTATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:995457 original size:32 final size:32
Alignment explanation
Indices: 995415--995500 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
995405 TATTGTAGTT
*
995415 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
995447 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
995479 GTATGTATTGATTTATTTTAAA
1 GTATGAATTGATTTATTTTAAA
995501 ATATATATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (32 bp):
GTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:995576 original size:22 final size:22
Alignment explanation
Indices: 995560--995602 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
995550 AATTTATTAG
995560 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
995582 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
995603 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:995661 original size:31 final size:31
Alignment explanation
Indices: 995626--995685 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
995616 TAGTTGTATG
* *
995626 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
995657 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
995686 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:997821 original size:48 final size:49
Alignment explanation
Indices: 997743--997856 Score: 133
Period size: 48 Copynumber: 2.3 Consensus size: 49
997733 CCCGTCCTTA
* * * *
997743 AAAATCTACAAAGGCTTCAAGCGCTCCCAAGCGTGCTCGCCCTCAAAC-
1 AAAATCTACAAAGGGTTCAAGCGCTCCCAAGCGAGCCCACCCTCAAACG
* *
997791 AAAATCTCCAAAGGGTTCGAA-CGCTTCCAAGCGAGCCCACCCTCAAACG
1 AAAATCTACAAAGGGTTC-AAGCGCTCCCAAGCGAGCCCACCCTCAAACG
* *
997840 AAAATATTCAAAGGGTT
1 AAAATCTACAAAGGGTT
997857 TGAGTGTTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 39 0.70
49 17 0.30
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.18
Consensus pattern (49 bp):
AAAATCTACAAAGGGTTCAAGCGCTCCCAAGCGAGCCCACCCTCAAACG
Found at i:1005123 original size:64 final size:65
Alignment explanation
Indices: 1005030--1005185 Score: 208
Period size: 65 Copynumber: 2.4 Consensus size: 65
1005020 ATAAGACTTA
* * * *
1005030 GTGCATCGGTACACTAATTACATTCGATGTTTC-AAAGAGCCAGGAGTGCATCGATGCATGG-TC
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCT-
1005093 T
65 T
* * **
1005094 GTGCATCGGTACACAAAATGCATTTGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
*
1005159 GTGCATCGGTATACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
1005186 AATGGGTGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 29 0.36
65 50 0.62
66 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:1006071 original size:6 final size:6
Alignment explanation
Indices: 1006060--1006105 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
1006050 AGGACGAAGA
1006060 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
1006106 GGCACTATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAC
Found at i:1009333 original size:17 final size:17
Alignment explanation
Indices: 1009311--1009344 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1009301 AATTTTTAAC
1009311 TGACACTTTTAATGGTT
1 TGACACTTTTAATGGTT
1009328 TGACACTTTTAATGGTT
1 TGACACTTTTAATGGTT
1009345 GATTAACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (17 bp):
TGACACTTTTAATGGTT
Found at i:1010030 original size:3 final size:3
Alignment explanation
Indices: 1010022--1010073 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
1010012 GATTTTTAAA
* * *
1010022 ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT AAGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
1010068 ATT ATT
1 ATT ATT
1010074 TACAAGCCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1010042 original size:15 final size:14
Alignment explanation
Indices: 1010018--1010047 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1010008 ATTTGATTTT
1010018 TAAAATTATTATTA
1 TAAAATTATTATTA
1010032 TAAATATTATTATTA
1 TAAA-ATTATTATTA
1010047 T
1 T
1010048 TATTATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAAATTATTATTA
Found at i:1011469 original size:4 final size:4
Alignment explanation
Indices: 1011460--1011485 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1011450 ATATAGTATT
1011460 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
1011486 ATGTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1019681 original size:20 final size:19
Alignment explanation
Indices: 1019656--1019698 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1019646 AGTTTCAAAT
1019656 AGAAAAAAGAAAAGAAAAAA
1 AGAAAAAAGAAAA-AAAAAA
*
1019676 AGAAAAAAAGGAAAAAAAAA
1 AG-AAAAAAGAAAAAAAAAA
1019696 AGA
1 AGA
1019699 GAGGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAAAAAAAAAA
Found at i:1019690 original size:16 final size:15
Alignment explanation
Indices: 1019658--1019696 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1019648 TTTCAAATAG
*
1019658 AAAAAAGAAAAGAAA
1 AAAAAAAAAAAGAAA
1019673 AAAAGAAAAAAAGGAAA
1 AAAA-AAAAAAA-GAAA
1019690 AAAAAAA
1 AAAAAAA
1019697 GAGAGGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:1022887 original size:54 final size:53
Alignment explanation
Indices: 1022789--1022938 Score: 192
Period size: 54 Copynumber: 2.8 Consensus size: 53
1022779 AAATCTATGC
* * * *
1022789 AGAAAACACAAGAAAAGATGAATGTGTTGTCAAATATTTTACGAACATTTGGGT
1 AGAAACCAC-AGAAAAGATGAATGTGTTGTCAAATATTTTACGAACATCTGAGA
* * *
1022843 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
1 AGAAACCACA-GAAAAGATGAATGTGTTGTCAAATATTTTACGAACATCTGAGA
* *
1022897 AGAAACCACATAAGATGATGAATGTGTTGTCAAATATTTTAC
1 AGAAACCACAGAA-AAGATGAATGTGTTGTCAAATATTTTAC
1022939 AAACCAGTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 80 0.96
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (53 bp):
AGAAACCACAGAAAAGATGAATGTGTTGTCAAATATTTTACGAACATCTGAGA
Found at i:1023757 original size:45 final size:45
Alignment explanation
Indices: 1023706--1024089 Score: 660
Period size: 45 Copynumber: 8.5 Consensus size: 45
1023696 GAGAGCTTTT
* *
1023706 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCTTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1023751 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTACA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1023796 TGATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1023841 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1023886 TGGTGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1023931 TGGTGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCATTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1023976 TGATGTTTTCAAAACCTTCGGGTCATTTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1024021 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1024066 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
1024090 AGCTTTTTGA
Statistics
Matches: 321, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 309 0.96
46 4 0.01
47 8 0.02
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1024201 original size:116 final size:116
Alignment explanation
Indices: 1024060--1024308 Score: 401
Period size: 116 Copynumber: 2.2 Consensus size: 116
1024050 TAAGCCCTTC
* * *
1024060 AGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGT
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTGT
1024125 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
66 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
*
1024176 AGTGCAGGATGTTTTCAAAACGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTGT
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTGT
* * * *
1024241 AAGACCTATAGTGCAAGATGATAAGACCTCAGGGTCATTCATAAGACCTCT
66 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
* *
1024292 -GGGCAGAATGTTTTCAA
1 AGTGCAGGATGTTTTCAA
1024309 CATTTCCATC
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
115 15 0.12
116 108 0.88
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (116 bp):
AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTGT
AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
Found at i:1024449 original size:3 final size:3
Alignment explanation
Indices: 1024441--1024498 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
1024431 TGATTTTTAA
* * *
1024441 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT ATT AAGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
1024487 ATT ATT ATT ATT
1 ATT ATT ATT ATT
1024499 TACAAGCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1025356 original size:8 final size:8
Alignment explanation
Indices: 1025341--1025391 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
1025331 CTAGAGAGAG
1025341 AATG-AGA
1 AATGAAGA
1025348 AATGAAGA
1 AATGAAGA
1025356 AATGAAGA
1 AATGAAGA
*
1025364 AATAAAGA
1 AATGAAGA
*
1025372 CATGAAGA
1 AATGAAGA
*
1025380 AATGAAAA
1 AATGAAGA
1025388 AATG
1 AATG
1025392 GCTTAGGGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
7 4 0.11
8 34 0.89
ACGTcount: A:0.63, C:0.02, G:0.22, T:0.14
Consensus pattern (8 bp):
AATGAAGA
Found at i:1032127 original size:15 final size:15
Alignment explanation
Indices: 1032107--1032138 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1032097 TGAAATGTTT
1032107 AGGTGATGAAGCTGC
1 AGGTGATGAAGCTGC
1032122 AGGTGATGAAGCTGC
1 AGGTGATGAAGCTGC
1032137 AG
1 AG
1032139 CTGCCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.19
Consensus pattern (15 bp):
AGGTGATGAAGCTGC
Found at i:1033088 original size:30 final size:30
Alignment explanation
Indices: 1033054--1033283 Score: 150
Period size: 30 Copynumber: 7.7 Consensus size: 30
1033044 TAAATACATT
* * *
1033054 TTTTTGAAGTTAAAATAATAATAAACTATA
1 TTTTTCAAGTTAAAATAAGAATAAAATATA
* *
1033084 TTTTTTAAGTTTGGAAA-AAG--TAAAATATA
1 TTTTTCAAG-TT-AAAATAAGAATAAAATATA
* * *
1033113 --TTTCAAGTTAAGACAAGAATAAAATATG
1 TTTTTCAAGTTAAAATAAGAATAAAATATA
* *
1033141 TTTTTAAAGTTAAAATAAGAACAAAATATA
1 TTTTTCAAGTTAAAATAAGAATAAAATATA
** * * *
1033171 TTTTAGAAGTTAAGATAAAAATAAAATACA
1 TTTTTCAAGTTAAAATAAGAATAAAATATA
* * *
1033201 TTGTTCAAGTTAAGATAAGAATAAAATCTA
1 TTTTTCAAGTTAAAATAAGAATAAAATATA
* * *
1033231 TTTAAT-AAGATAATATGAA-AATAAAATATA
1 TTT-TTCAAGTTAAAAT-AAGAATAAAATATA
* * *
1033261 TTTTTTAAAATTAAAATATGAAT
1 -TTTTTCAAGTTAAAATAAGAAT
1033284 TTAAATTAAG
Statistics
Matches: 153, Mismatches: 35, Indels: 23
0.73 0.17 0.11
Matches are distributed among these distances:
25 2 0.01
26 5 0.03
27 6 0.04
28 8 0.05
29 8 0.05
30 101 0.66
31 20 0.13
32 3 0.02
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTTCAAGTTAAAATAAGAATAAAATATA
Found at i:1033145 original size:87 final size:90
Alignment explanation
Indices: 1033054--1033227 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 90
1033044 TAAATACATT
* * * * ** ** * *
1033054 TTTTTGAAGTTAAAATAATAATAAACTATATTTTTTAAGTTTGGA-AAAAGTAAAATATA-T-TT
1 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
1033116 CAAGTTAAGACAAGAATAAAATATG
66 CAAGTTAAGACAAGAATAAAATATG
1033141 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
1 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
*
1033206 CAAGTTAAGATAAGAATAAAAT
66 CAAGTTAAGACAAGAATAAAAT
1033228 CTATTTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
87 37 0.51
88 12 0.16
89 1 0.01
90 23 0.32
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (90 bp):
TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
CAAGTTAAGACAAGAATAAAATATG
Found at i:1033194 original size:60 final size:60
Alignment explanation
Indices: 1033105--1033278 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 60
1033095 TGGAAAAAGT
* * *
1033105 AAAATATA-TTT-CAAGTTAAGACAAGAATAAAATATGTTTTTAAAGTTAAAATAAGAAC
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
* * * * * *
1033163 AAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTTCAAGTTAAGATAAGAAT
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
* * * * * * *
1033223 AAAATCTATTTAATAAGATAATATGAAAATAAAATATATTTTTTAAAATTAAAATA
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATA-TTTTTAAAGTTAAAATA
1033279 TGAATTTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
58 8 0.09
59 3 0.03
60 69 0.74
61 13 0.14
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (60 bp):
AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
Found at i:1033257 original size:90 final size:89
Alignment explanation
Indices: 1033098--1033264 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 89
1033088 TTAAGTTTGG
* * * *
1033098 AAAAAGTAAAATATATTTCAAGTTAAGACAAGAATAAAATATGTTTTTAAAGTTAAAATAAGAAC
1 AAAAAGTAAAATACATTTCAAGTTAAGACAAGAATAAAATATATTTATAAAGATAAAATAAGAAC
1033163 AAAATATATTTTAGAAGTTAAGAT
66 AAAATATATTTTAGAAGTTAAGAT
* * *
1033187 AAAAA-TAAAATACATTGTTCAAGTTAAGATAAGAATAAAATCTATTTA-ATAAGATAATATGAA
1 AAAAAGTAAAATACA-T-TTCAAGTTAAGACAAGAATAAAATATATTTATA-AAGATAAAAT-AA
*
1033250 -AATAAAATATATTTT
62 GAACAAAATATATTTT
1033265 TTAAAATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
88 8 0.12
89 7 0.11
90 49 0.74
91 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (89 bp):
AAAAAGTAAAATACATTTCAAGTTAAGACAAGAATAAAATATATTTATAAAGATAAAATAAGAAC
AAAATATATTTTAGAAGTTAAGAT
Found at i:1034350 original size:12 final size:12
Alignment explanation
Indices: 1034333--1034369 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1034323 TGCCTTAGTC
1034333 ATTTTAAAAATA
1 ATTTTAAAAATA
1034345 ATTTTAAAAATA
1 ATTTTAAAAATA
1034357 ATTTTAAAAATA
1 ATTTTAAAAATA
1034369 A
1 A
1034370 AATACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTTTAAAAATA
Found at i:1040204 original size:35 final size:34
Alignment explanation
Indices: 1040119--1040205 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
1040109 ATTTGATATT
* *
1040119 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAAAGG
* *
1040153 TAAATGATAACCAAATTACAATAATTGATATTAAAAGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAAAGG
1040191 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1040206 ACTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAAAGG
Found at i:1040443 original size:9 final size:9
Alignment explanation
Indices: 1040426--1040469 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
1040416 GCTGTCATCA
1040426 TCATCGTCG
1 TCATCGTCG
*
1040435 TCGTCGTCG
1 TCATCGTCG
* *
1040444 TCACCATCG
1 TCATCGTCG
1040453 TCATCGTCG
1 TCATCGTCG
1040462 TCATCGTC
1 TCATCGTC
1040470 CTCGTTGTCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.11, C:0.36, G:0.20, T:0.32
Consensus pattern (9 bp):
TCATCGTCG
Found at i:1040837 original size:18 final size:18
Alignment explanation
Indices: 1040814--1040850 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1040804 GGTGATGGCA
1040814 GCATCATATATGGCTGCG
1 GCATCATATATGGCTGCG
1040832 GCATCATATATGGCTGCG
1 GCATCATATATGGCTGCG
1040850 G
1 G
1040851 TGACTACTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
GCATCATATATGGCTGCG
Found at i:1042269 original size:12 final size:10
Alignment explanation
Indices: 1042255--1042296 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
1042245 TACCTTAAAA
*
1042255 GAGAGTATTT
1 GAGAGAATTT
1042265 GAGAGAAATTT
1 GAGAG-AATTT
1042276 -AGAGAATTT
1 GAGAGAATTT
1042285 GAGAGAATTT
1 GAGAGAATTT
1042295 GA
1 GA
1042297 TGTGATAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.17
10 20 0.69
11 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
GAGAGAATTT
Done.