Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 296 of 320
Found at i:94345861 original size:16 final size:16
Alignment explanation
Indices: 94345842--94345872 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
94345832 TGCTGTTTTG
94345842 GGTGTTGAGTGTTGGT
1 GGTGTTGAGTGTTGGT
94345858 GGTGTTGAGTGTTGG
1 GGTGTTGAGTGTTGG
94345873 CCCCAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.52, T:0.42
Consensus pattern (16 bp):
GGTGTTGAGTGTTGGT
Found at i:94347785 original size:39 final size:39
Alignment explanation
Indices: 94347666--94347786 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
94347656 ATGCAAGACA
94347666 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
94347705 CTAGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
94347744 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
94347783 CTGG
1 CTGG
94347787 TAATATAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:94350643 original size:20 final size:20
Alignment explanation
Indices: 94350618--94350659 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
94350608 AAAATAGACA
94350618 TATTTGAATCATACTGCATG
1 TATTTGAATCATACTGCATG
94350638 TATTTGAATCATACTGCATG
1 TATTTGAATCATACTGCATG
94350658 TA
1 TA
94350660 ATTTCCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTTGAATCATACTGCATG
Found at i:94351332 original size:34 final size:35
Alignment explanation
Indices: 94351263--94351332 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
94351253 AAAGATTTCA
*
94351263 AGAAATCAATAAATTTCATGTACACTTCCGCATTT
1 AGAAATCAATAAATTTCAGGTACACTTCCGCATTT
* *
94351298 AGAAATCAATAAA-TTCAGGTACACTTTCGTATTT
1 AGAAATCAATAAATTTCAGGTACACTTCCGCATTT
94351332 A
1 A
94351333 TATTTATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (35 bp):
AGAAATCAATAAATTTCAGGTACACTTCCGCATTT
Found at i:94352322 original size:14 final size:14
Alignment explanation
Indices: 94352303--94352329 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94352293 TTTGTGTGTT
94352303 CTTTATTTTATTTA
1 CTTTATTTTATTTA
94352317 CTTTATTTTATTT
1 CTTTATTTTATTT
94352330 TATTTTTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTATTTTATTTA
Found at i:94357265 original size:32 final size:30
Alignment explanation
Indices: 94357225--94357283 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
94357215 ATATTAATAT
*
94357225 AAAAATTTAAATTTTTATTATATTTTTTTTG
1 AAAAATTTAAATATTTA-TATATTTTTTTTG
**
94357256 AAAATATTTATGTATTTATATATTTTTT
1 AAAA-ATTTAAATATTTATATATTTTTT
94357284 AAATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
AAAAATTTAAATATTTATATATTTTTTTTG
Found at i:94361166 original size:55 final size:54
Alignment explanation
Indices: 94361079--94361186 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 54
94361069 TAGACATGTT
* * ** * *
94361079 ACATAACAATTAATTTAAATATATGAATAATCGATTCAAAAGAAGTAATATTTTA
1 ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAG-AATATTTTA
* *
94361134 ACATGACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGCATATTTT
1 ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGAATATTTT
94361187 TGAAAAATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
54 7 0.16
55 38 0.84
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (54 bp):
ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGAATATTTTA
Found at i:94363848 original size:6 final size:6
Alignment explanation
Indices: 94363837--94363861 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94363827 TCTCACTCTG
94363837 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
94363862 CACAACGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:94365123 original size:21 final size:21
Alignment explanation
Indices: 94365099--94365138 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94365089 TTATTCAGTT
*
94365099 TTAAAGTATATGATT-TTAGCC
1 TTAAAATATAT-ATTATTAGCC
94365120 TTAAAATATATATTATTAG
1 TTAAAATATATATTATTAG
94365139 ATAAGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (21 bp):
TTAAAATATATATTATTAGCC
Found at i:94366554 original size:26 final size:26
Alignment explanation
Indices: 94366518--94366567 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
94366508 AAGGGTGTGG
94366518 ATTTGGGTGTAATTGCTTGGAATTGA
1 ATTTGGGTGTAATTGCTTGGAATTGA
* *
94366544 ATTTGGGTGTAATTGTTTGTAATT
1 ATTTGGGTGTAATTGCTTGGAATT
94366568 ACACAAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (26 bp):
ATTTGGGTGTAATTGCTTGGAATTGA
Found at i:94369098 original size:38 final size:38
Alignment explanation
Indices: 94369050--94369157 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
94369040 GGCACGAAGG
* * *
94369050 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
* *
94369088 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
**
94369126 CCCGGATATTTTACCAGCA-TGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACT-AAGCCTGCGGG
94369158 TCTTTAAGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
Found at i:94371588 original size:3 final size:3
Alignment explanation
Indices: 94371574--94371923 Score: 75
Period size: 3 Copynumber: 115.0 Consensus size: 3
94371564 AATAGTACTT
* * *
94371574 TTA TTA TT- TTA TTA TTA TTT TTA CCTTT TTA TTA CTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A
* * * * * *
94371621 CTTA CTA TTA TTA GTT- TTA TTA ATA -TA GTA TTA TT- TTC TTT TTT
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
94371665 TTA -TA TTG TTA TTA TTA TTA GCA -CA TATA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A T-TA
* * * * *
94371711 TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
94371755 TGTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TTA TTT TCTA
1 T-TA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA T-TA
* * * * **
94371802 TTA TCA TTA ATA TGTCG TT- TGT- TTA TTA TTA TTA TTA TTT TTA ACA
1 TTA TTA TTA TTA T-T-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
94371848 CTG TTA TCA TCA TTA -TA TTTA CTT- TTC TTA ATA TTA TTA CCA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
94371893 -TA TT- TTA TTA TTA TTA CTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94371924 CCTGTCCTAT
Statistics
Matches: 254, Mismatches: 58, Indels: 70
0.66 0.15 0.18
Matches are distributed among these distances:
2 29 0.11
3 189 0.74
4 27 0.11
5 8 0.03
6 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:94371907 original size:22 final size:21
Alignment explanation
Indices: 94371879--94371923 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
94371869 CTTTTCTTAA
94371879 TATTATTACCATTATATTTTAT
1 TATTATTACCATTAT-TTTTAT
*
94371901 TATTATTACTATTATTTTTAT
1 TATTATTACCATTATTTTTAT
94371922 TA
1 TA
94371924 CCTGTCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTACCATTATTTTTAT
Found at i:94372274 original size:125 final size:127
Alignment explanation
Indices: 94372086--94372339 Score: 318
Period size: 125 Copynumber: 2.0 Consensus size: 127
94372076 ATTTTTCAAG
* * * * *
94372086 TAAAGGCAATATTCGGTACTTGGAAATTTGAGAAATCGTATCCTAACGTACTGGGTTTCGATTTT
1 TAAAGACAATATTCCGTACTTAGAAATTCGAGAAATCGTACCCTAACGTACTGGGTTTCGATTTT
*
94372151 -TCGTTTGATCTAAGTAAC-CAATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 CT-GTTTGATCTAAATAACTCAA-TATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * * * *
94372211 TAAAGACAATATTCCGTATTTAGAAATTCGAGTAGTCGTGCCCTGACGTACTGGGTTTTGATTTT
1 TAAAGACAATATTCCGTACTTAGAAATTCGAGAAATCGTACCCTAACGTACTGGGTTTCGATTTT
* * * *
94372276 CTGTTTGATCTAAATATCTGAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
66 CTGTTTGATCTAAATAACTCAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
94372338 TA
1 TA
94372340 GAAGGCAAGC
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
125 73 0.67
126 7 0.06
127 29 0.27
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (127 bp):
TAAAGACAATATTCCGTACTTAGAAATTCGAGAAATCGTACCCTAACGTACTGGGTTTCGATTTT
CTGTTTGATCTAAATAACTCAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:94373299 original size:18 final size:17
Alignment explanation
Indices: 94373264--94373307 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
94373254 TCTTAGAAAT
*
94373264 TATTTTTATCATACTAA
1 TATTTTTATAATACTAA
*
94373281 TATTTTTATAATATTTAA
1 TATTTTTATAATA-CTAA
94373299 TAGTTTTTA
1 TA-TTTTTA
94373308 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:94375370 original size:20 final size:20
Alignment explanation
Indices: 94375345--94375391 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
94375335 TTAAACACTA
94375345 AAAAATATTAATTATTTTAT
1 AAAAATATTAATTATTTTAT
*
94375365 AAAAATA--AATTATTTTCT
1 AAAAATATTAATTATTTTAT
*
94375383 AAAACTATT
1 AAAAATATT
94375392 TTCAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.70
20 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATATTAATTATTTTAT
Found at i:94381799 original size:69 final size:70
Alignment explanation
Indices: 94381719--94381852 Score: 191
Period size: 69 Copynumber: 1.9 Consensus size: 70
94381709 TTGTGATGTG
** *
94381719 TGAGCGATCATTAAAG-ATGTCTTTTATTACAATAAAA-AAATATTAACTAATAAAATTCGTTAA
1 TGAGCGATCATTAAAGAAAAT-TTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAA
94381782 TGACGT
65 TGACGT
* * *
94381788 TGAGCGGTCATTAAAGAAAATTTTTATTACACCAAAAGAAATATTAACTAATAAAATTTGTTAAT
1 TGAGCGATCATTAAAGAAAATTTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAAT
94381853 TCATTAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
69 29 0.51
70 28 0.49
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (70 bp):
TGAGCGATCATTAAAGAAAATTTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAAT
GACGT
Found at i:94382616 original size:22 final size:22
Alignment explanation
Indices: 94382586--94382635 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
94382576 AGAGAATATA
94382586 ACTGACGAAGTACACATATTCAG
1 ACTG-CGAAGTACACATATTCAG
*
94382609 ACTGCGAAGTATACATATTCAG
1 ACTGCGAAGTACACATATTCAG
94382631 ACTGC
1 ACTGC
94382636 ATTTGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (22 bp):
ACTGCGAAGTACACATATTCAG
Found at i:94386434 original size:156 final size:156
Alignment explanation
Indices: 94385964--94386707 Score: 987
Period size: 156 Copynumber: 4.8 Consensus size: 156
94385954 GATCGTTCAT
* ** *
94385964 ACGTCACTAAAG-AATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAATTTTTTT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTTCT
* *
94386028 TTAATGATCGCTTAACGTCAGTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
66 TTAATGATCGCTAAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
*
94386093 TAAAAGACATCTTTAATAATCACTCA
131 TAAAAAACATCTTTAATAATCACTCA
* *
94386119 ACGTCACTAACAAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTGTT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATT-TC
*
94386184 TTTAATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATA
65 TTTAATGATCGCTAAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATA
94386249 ATAAAAAACATCTTTAATAATCACTCA
130 ATAAAAAACATCTTTAATAATCACTCA
94386276 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTTCT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTTCT
* * * *
94386341 TTAATGATCGCTAAACATCACTAACGAAATTAACAAATTTTATTAGTAAATATTTTTTATTATAA
66 TTAATGATCGCTAAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
* *
94386406 TAAAAGACATCTTTAATGATCACTCA
131 TAAAAAACATCTTTAATAATCACTCA
* * * **
94386432 ACGTCACTAACGAAATTGACAAATTTTATTAGTTAATATTT-TTTTATTGTAATA-AAAGACATC
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAA-ATTTC
* * *
94386495 TTTAATGATCGCTCACACGTCACTAACGAAATTAACGAGTTTTATTAGTTAATATTCTCTTTATT
65 TTTAATGATCGCT-AAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA--CTTTTTATT
* * * *
94386560 GTAATAAAAAAAATTCTTTGATGATCACTCA
127 ATAATAAAAAACA-TCTTTAATAATCACTCA
* * * * * **
94386591 CACATCACTAACGAAATTAACGAATTTTATTGGTTATTGTTATC-TTTATTGTAATA-AAAAAAT
1 -ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTTGTTGTAATAGAAAATTT
* * * * * * *
94386654 ATTTGATGATCGCTCACATGTCACTAA-AAAATTAACGAATTTTATCAATTAATA
64 CTTTAATGATCGCT-AAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA
94386708 TTCTCCTTAT
Statistics
Matches: 533, Mismatches: 46, Indels: 16
0.90 0.08 0.03
Matches are distributed among these distances:
154 3 0.01
155 38 0.07
156 207 0.39
157 152 0.29
158 17 0.03
159 39 0.07
160 61 0.11
161 16 0.03
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (156 bp):
ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTTCT
TTAATGATCGCTAAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
TAAAAAACATCTTTAATAATCACTCA
Found at i:94386729 original size:79 final size:79
Alignment explanation
Indices: 94385952--94386754 Score: 874
Period size: 77 Copynumber: 10.2 Consensus size: 79
94385942 ACAATTTGTG
* * * *
94385952 ATGATCGTTCATACGTCACTAAAG-AATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTC-TTTATTGTAA
* **** *
94386016 TAGAATTTTTTTTTA
65 TAAAAAAAATCTTTA
* * * *
94386031 ATGATCGCTTA-ACGTCAGTAACGAAATTAACGAATTTTATTAGTTAATACTT-TTTATTATAAT
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAAT
* *
94386094 AAAAGACATCTTTA
66 AAAAAAAATCTTTA
* * * *
94386108 ATAATCACTCA-ACGTCACTAACAAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTC-TTTATTGTAA
*** *
94386172 TAGAAAATTGTTTTTA
65 TA-AAAAAAATCTTTA
* *
94386188 ATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTT-TTTATTATAAT
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAAT
*
94386251 AAAAAACATCTTTA
66 AAAAAAAATCTTTA
* * *
94386265 ATAATCACTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTC-TTTATTGTAA
* **
94386329 TAGAAAATTTCTTTA
65 TAAAAAAAATCTTTA
* * * * *
94386344 ATGATCGCT-AAACATCACTAACGAAATTAACAAATTTTATTAGTAAATATTT-TTTATTATAAT
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAAT
* *
94386407 AAAAGACATCTTTA
66 AAAAAAAATCTTTA
* * * *
94386421 ATGATCACTCA-ACGTCACTAACGAAATTGACAAATTTTATTAGTTAATATTTTTTTATTGTAAT
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAAT
* *
94386485 AAAAGACATCTTTA
66 AAAAAAAATCTTTA
*
94386499 ATGATCGCTCACACGTCACTAACGAAATTAACGAGTTTTATTAGTTAATATTCTCTTTATTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAA
*
94386564 TAAAAAAAATTCTTTG
65 TAAAAAAAA-TCTTTA
* * * * *
94386580 ATGATCACTCACACATCACTAACGAAATTAACGAATTTTATTGGTTATTGTTATCTTTATTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAA
* *
94386645 T-AAAAAAATATTTG
65 TAAAAAAAATCTTTA
* * * * *
94386659 ATGATCGCTCACATGTCACTAA-AAAATTAACGAATTTTATCAATTAATATTCTCCTTATTGTAA
1 ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAA
* * *
94386723 GAAAAAAATATATTTG
65 TAAAAAAA-ATCTTTA
94386739 ATGATCGCTCACACGT
1 ATGATCGCTCACACGT
94386755 GTTAATATTT
Statistics
Matches: 621, Mismatches: 89, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
77 186 0.30
78 90 0.14
79 178 0.29
80 103 0.17
81 64 0.10
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (79 bp):
ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAAT
AAAAAAAATCTTTA
Found at i:94386919 original size:18 final size:18
Alignment explanation
Indices: 94386884--94386932 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
94386874 GAAAATATAT
94386884 TTTTAATTTTTAATTAAACA
1 TTTT-ATTTTTAATTAAA-A
*
94386904 TTTTATTTTTTA-TAAAA
1 TTTTATTTTTAATTAAAA
94386921 TATTTATTTTTA
1 T-TTTATTTTTA
94386933 TCTAGAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 7 0.27
20 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTTTTAATTAAAA
Found at i:94388584 original size:20 final size:20
Alignment explanation
Indices: 94388559--94388596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94388549 TCCTGCTATC
94388559 TAATAA-AAACCTAAAATTAT
1 TAATAATAAA-CTAAAATTAT
94388579 TAATAATAAACTAAAATT
1 TAATAATAAACTAAAATT
94388597 GCCTATCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATAATAAACTAAAATTAT
Found at i:94392017 original size:27 final size:28
Alignment explanation
Indices: 94391987--94392041 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
94391977 TATTTAGGCA
*
94391987 AATAACAAAAAAATATA-TATATTATAT
1 AATAACAAAAAAATATATTATATAATAT
**
94392014 AATATTAAAAAAATATATTATATAATAT
1 AATAACAAAAAAATATATTATATAATAT
94392042 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
AATAACAAAAAAATATATTATATAATAT
Found at i:94392029 original size:25 final size:25
Alignment explanation
Indices: 94391994--94392046 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 25
94391984 GCAAATAACA
94391994 AAAAAATATATATATTATATAATATT
1 AAAAAATA-ATATATTATATAATATT
94392020 -AAAAA-AATATATTATATAATATT
1 AAAAAATAATATATTATATAATATT
94392043 AAAA
1 AAAA
94392047 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAAATAATATATTATATAATATT
Found at i:94392033 original size:23 final size:23
Alignment explanation
Indices: 94392003--94392046 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
94391993 AAAAAAATAT
94392003 ATATATTATATAATATTAAAAAA
1 ATATATTATATAATATTAAAAAA
94392026 ATATATTATATAATATTAAAA
1 ATATATTATATAATATTAAAA
94392047 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATATTATATAATATTAAAAAA
Found at i:94401537 original size:34 final size:35
Alignment explanation
Indices: 94401479--94401545 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
94401469 CAAACACCAG
*
94401479 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
94401514 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
94401546 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:94402996 original size:19 final size:19
Alignment explanation
Indices: 94402975--94403078 Score: 81
Period size: 18 Copynumber: 5.5 Consensus size: 19
94402965 TTTTAAGTTT
*
94402975 TTTTTATGA-TTTTTATAG
1 TTTTTATAACTTTTTATAG
* *
94402993 TTTTTATAATTTTTTATAA
1 TTTTTATAACTTTTTATAG
* * *
94403012 TTTTGAT-ACTTGTAATAG
1 TTTTTATAACTTTTTATAG
94403030 TTTTTATAA-TTTTTATGAG
1 TTTTTATAACTTTTTAT-AG
*
94403049 TTTTTATAGAATTTTGT-TATG
1 TTTTTATA-ACTTTT-TATA-G
94403070 TTTTTATAA
1 TTTTTATAA
94403079 AAAAATTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
18 26 0.38
19 25 0.36
20 3 0.04
21 14 0.20
22 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTTATAACTTTTTATAG
Found at i:94403015 original size:9 final size:9
Alignment explanation
Indices: 94402975--94403056 Score: 74
Period size: 9 Copynumber: 8.9 Consensus size: 9
94402965 TTTTAAGTTT
*
94402975 TTTTTATGA
1 TTTTTATAA
*
94402984 TTTTTATAG
1 TTTTTATAA
94402993 TTTTTATAA
1 TTTTTATAA
94403002 TTTTTTATAA
1 -TTTTTATAA
* *
94403012 TTTTGATAC
1 TTTTTATAA
* * *
94403021 TTGTAATAG
1 TTTTTATAA
94403030 TTTTTATAA
1 TTTTTATAA
*
94403039 TTTTTATGAG
1 TTTTTAT-AA
94403049 TTTTTATA
1 TTTTTATA
94403057 GAATTTTGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
9 42 0.71
10 17 0.29
ACGTcount: A:0.27, C:0.01, G:0.09, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:94403210 original size:18 final size:18
Alignment explanation
Indices: 94403167--94403210 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
94403157 ATTTTCATAT
*
94403167 TTTTTAAATATTTAATAA
1 TTTTTATATATTTAATAA
* *
94403185 GTTATATATATTTAATAA
1 TTTTTATATATTTAATAA
94403203 TTTTTATA
1 TTTTTATA
94403211 AAAAATAGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATATATTTAATAA
Found at i:94403390 original size:14 final size:14
Alignment explanation
Indices: 94403371--94403397 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94403361 ATTAATACAA
94403371 GAACTTAATTAAAT
1 GAACTTAATTAAAT
94403385 GAACTTAATTAAA
1 GAACTTAATTAAA
94403398 ATTTTAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
GAACTTAATTAAAT
Found at i:94403452 original size:10 final size:10
Alignment explanation
Indices: 94403437--94403461 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
94403427 TTTAATAAAC
94403437 AAAAAAAAAG
1 AAAAAAAAAG
94403447 AAAAAAAAAG
1 AAAAAAAAAG
94403457 AAAAA
1 AAAAA
94403462 GAGTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:94404476 original size:15 final size:17
Alignment explanation
Indices: 94404458--94404490 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
94404448 AAATTAAATA
94404458 TAAATTTA-A-AATACT
1 TAAATTTATATAATACT
94404473 TAAATTTATATAATACT
1 TAAATTTATATAATACT
94404490 T
1 T
94404491 TTATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTATATAATACT
Found at i:94410869 original size:13 final size:13
Alignment explanation
Indices: 94410851--94410883 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
94410841 AATGGGAGAA
94410851 AGAGAAAACTAAG
1 AGAGAAAACTAAG
94410864 AGAGAAAACTAAG
1 AGAGAAAACTAAG
94410877 AGAGAAA
1 AGAGAAA
94410884 GATTGGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.24, T:0.06
Consensus pattern (13 bp):
AGAGAAAACTAAG
Found at i:94413013 original size:21 final size:21
Alignment explanation
Indices: 94412987--94413027 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94412977 ATCTGCTCAA
* *
94412987 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
94413008 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
94413028 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:94417272 original size:59 final size:58
Alignment explanation
Indices: 94417184--94417296 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 58
94417174 AACAAATCCA
*
94417184 AAATAAATAATAAAATTTAAATTTGAATTTAAAATATATTTTAAAATAATTGATGAAT
1 AAATAAATAATAAAATTTAAATTTCAATTTAAAATATATTTTAAAATAATTGATGAAT
*
94417242 AAATAAATAATAAAAATTTCAATTTCAATTTAAAATATATTTTAAAATAATTGAT
1 AAATAAATAAT-AAAATTTAAATTTCAATTTAAAATATATTTTAAAATAATTGAT
94417297 ATTAGCTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 11 0.21
59 41 0.79
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (58 bp):
AAATAAATAATAAAATTTAAATTTCAATTTAAAATATATTTTAAAATAATTGATGAAT
Found at i:94422518 original size:40 final size:40
Alignment explanation
Indices: 94422442--94422661 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
94422432 AACCCAAGTA
* * *
94422442 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
94422481 CCTTCGGGACTTAGCCCGGATATAATTACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
94422521 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
94422561 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
94422601 CCTTCGGGAC--AGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
94422639 CCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGA-CTTAGCCCGGATAT
94422662 CATTCGAATA
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
37 3 0.02
38 32 0.20
39 13 0.08
40 113 0.70
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:94424077 original size:13 final size:13
Alignment explanation
Indices: 94424061--94424088 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94424051 TTTATTATTT
94424061 TTAACACAAAATA
1 TTAACACAAAATA
94424074 TTAACACAAAATA
1 TTAACACAAAATA
94424087 TT
1 TT
94424089 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:94427271 original size:24 final size:26
Alignment explanation
Indices: 94427225--94427274 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
94427215 GTACGACAAT
94427225 TTAAAATAGAGGATATATATATAATA
1 TTAAAATAGAGGATATATATATAATA
*
94427251 TTAAAATAG-GTA-ATATATATAATA
1 TTAAAATAGAGGATATATATATAATA
94427275 AATACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 2 0.09
26 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (26 bp):
TTAAAATAGAGGATATATATATAATA
Found at i:94427413 original size:24 final size:24
Alignment explanation
Indices: 94427381--94427479 Score: 80
Period size: 25 Copynumber: 4.1 Consensus size: 24
94427371 ATAAGACAAT
*
94427381 TTTAAAAT-AATATATATAAAGAAA
1 TTTAAAATAAATATGTA-AAAGAAA
* **
94427405 TTTAAAATAAATAT-T--AGGAGG
1 TTTAAAATAAATATGTAAAAGAAA
* *
94427426 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAAT-A-AATATGTAAAAGAAA
94427452 TTTAAAATAAATAATGTAAAAGAAA
1 TTTAAAATAAAT-ATGTAAAAGAAA
94427477 TTT
1 TTT
94427480 TAAAGTGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
21 9 0.16
22 1 0.02
23 5 0.09
24 13 0.22
25 21 0.36
26 9 0.16
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (24 bp):
TTTAAAATAAATATGTAAAAGAAA
Found at i:94427459 original size:26 final size:26
Alignment explanation
Indices: 94427429--94427509 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
94427419 TAGGAGGCTC
94427429 AAAATAATAATATGTAAAAGAAATTT
1 AAAATAATAATATGTAAAAGAAATTT
94427455 AAAAT-A-AATAATGTAAAAGAAATTTT
1 AAAATAATAAT-ATGTAAAAGAAA-TTT
* * *
94427481 AAAGTGAATAACATGTAAAA-CAATTT
1 AAAAT-AATAATATGTAAAAGAAATTT
94427507 AAA
1 AAA
94427510 CCAAGTAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 3 0.06
25 13 0.28
26 18 0.38
27 2 0.04
28 9 0.19
29 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAATAATAATATGTAAAAGAAATTT
Found at i:94427477 original size:14 final size:13
Alignment explanation
Indices: 94427437--94427477 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
94427427 TCAAAATAAT
94427437 AATATGTAAAAGA
1 AATATGTAAAAGA
*
94427450 AAT-T-TAAAATA
1 AATATGTAAAAGA
94427461 AATAATGTAAAAGA
1 AAT-ATGTAAAAGA
94427475 AAT
1 AAT
94427478 TTTAAAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (13 bp):
AATATGTAAAAGA
Found at i:94428098 original size:26 final size:25
Alignment explanation
Indices: 94428062--94428113 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
94428052 TAGATGGTAT
**
94428062 ATATACATAAAAGTGTAAAATAAATA
1 ATATACATAAAA-CCTAAAATAAATA
*
94428088 ATATATATAAAACCTAAAATAAATA
1 ATATACATAAAACCTAAAATAAATA
94428113 A
1 A
94428114 CAATAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
ATATACATAAAACCTAAAATAAATA
Found at i:94430285 original size:24 final size:24
Alignment explanation
Indices: 94430253--94430298 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
94430243 TACTCCACCG
94430253 TTAAAAGATATTAAAAAAAAAAAC
1 TTAAAAGATATTAAAAAAAAAAAC
94430277 TTAAAAGATATTAAAAAAAAAA
1 TTAAAAGATATTAAAAAAAAAA
94430299 TCATGTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
TTAAAAGATATTAAAAAAAAAAAC
Found at i:94433852 original size:23 final size:23
Alignment explanation
Indices: 94433825--94433869 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
94433815 TCCCTTGGAT
94433825 GTATCATAATTTAGTGTGTATAA
1 GTATCATAATTTAGTGTGTATAA
94433848 GTATCATAATTTAGTGTGTATA
1 GTATCATAATTTAGTGTGTATA
94433870 TATATACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
GTATCATAATTTAGTGTGTATAA
Found at i:94435698 original size:23 final size:21
Alignment explanation
Indices: 94435659--94435702 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
94435649 TTCATAAAAT
94435659 TTTAAAATAAAGATATAATTTA
1 TTTAAAATAAAGATAT-ATTTA
**
94435681 TTTAAAATCAAATTTATATTTA
1 TTTAAAAT-AAAGATATATTTA
94435703 ACATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTAAAATAAAGATATATTTA
Found at i:94438215 original size:6 final size:6
Alignment explanation
Indices: 94438204--94438270 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
94438194 TTTATACCAT
*
94438204 TATGTA TATGTA TATGTA TATATA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
94438252 TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA T
94438271 GTAACGTCCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:94439035 original size:13 final size:14
Alignment explanation
Indices: 94439019--94439054 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
94439009 CAATCTCATA
94439019 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
94439032 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
94439045 TCTC-ATTTCA
1 TCTCAATTTCA
94439055 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:94439044 original size:18 final size:19
Alignment explanation
Indices: 94439006--94439046 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
94438996 TGGTTCATGT
94439006 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
94439025 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
94439043 TTTC
1 TTTC
94439047 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:94440933 original size:4 final size:4
Alignment explanation
Indices: 94440924--94440954 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
94440914 CCTTTTCTCC
94440924 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
94440955 CCCCTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:94441538 original size:6 final size:6
Alignment explanation
Indices: 94441527--94441557 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
94441517 GGTCATTACA
94441527 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
94441558 CATGCATGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:94447885 original size:18 final size:18
Alignment explanation
Indices: 94447829--94447897 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
94447819 ACTCTTTAAT
*
94447829 GTCAGTTATTCAGTAAC-
1 GTCAATTATTCAGTAACA
* * *
94447846 GATAAATTATCCAGTAATA
1 G-TCAATTATTCAGTAACA
*
94447865 GTCAATTATTCAGTAGCA
1 GTCAATTATTCAGTAACA
*
94447883 GTCAGTTATTCAGTA
1 GTCAATTATTCAGTA
94447898 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
GTCAATTATTCAGTAACA
Found at i:94449180 original size:17 final size:15
Alignment explanation
Indices: 94449152--94449185 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
94449142 TCCCTATTTC
94449152 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
94449167 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
94449184 TC
1 TC
94449186 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:94449200 original size:25 final size:25
Alignment explanation
Indices: 94449157--94449205 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
94449147 ATTTCTCCCT
*
94449157 TTTCTTTCTTTCCCTTTTTCCTTTC
1 TTTCTTTCTTCCCCTTTTTCCTTTC
*
94449182 TTTCTTTC-TCCCCTGTTTTTCTTT
1 TTTCTTTCTTCCCCT-TTTTCCTTT
94449206 TCTATTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTCTTTCTTCCCCTTTTTCCTTTC
Found at i:94453895 original size:24 final size:23
Alignment explanation
Indices: 94453846--94453899 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
94453836 TACTTTAAGT
* *
94453846 AAATTTTGATAAAACTCAGCTGA
1 AAATTTTGATAAAAATCACCTGA
* *
94453869 AAATTTTGCTAAAAATCCCCTGTA
1 AAATTTTGATAAAAATCACCTG-A
94453893 AAATTTT
1 AAATTTT
94453900 TAACTCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (23 bp):
AAATTTTGATAAAAATCACCTGA
Found at i:94459671 original size:25 final size:25
Alignment explanation
Indices: 94459637--94459695 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
94459627 ATATCGGGAG
*
94459637 AAGAGCCATTAACAGGAATCTTACA
1 AAGAGCCATTAACAGGAATCTCACA
94459662 AAGAGCCATTAACAGGAATCTCACA
1 AAGAGCCATTAACAGGAATCTCACA
94459687 AAGAGCCAT
1 AAGAGCCAT
94459696 ATAAAGGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (25 bp):
AAGAGCCATTAACAGGAATCTCACA
Found at i:94462667 original size:15 final size:17
Alignment explanation
Indices: 94462647--94462686 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
94462637 AATCCTTTAA
94462647 AAATTATAAAAATA-T-
1 AAATTATAAAAATAGTG
*
94462662 AAATTATTAAAATAGTG
1 AAATTATAAAAATAGTG
94462679 AAATTATA
1 AAATTATA
94462687 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATAGTG
Found at i:94462730 original size:24 final size:23
Alignment explanation
Indices: 94462703--94462750 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
94462693 TCATCATAAA
94462703 AATTATAATTTAATTTCGACCCCT
1 AATTATAATTTAATTTC-ACCCCT
* **
94462727 AATTTTTTTTTAATTTCACCCCT
1 AATTATAATTTAATTTCACCCCT
94462750 A
1 A
94462751 TCAATCGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATAATTTAATTTCACCCCT
Found at i:94471863 original size:17 final size:16
Alignment explanation
Indices: 94471837--94471868 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
94471827 GAATACAATG
94471837 ATAATAAGATGATTAA
1 ATAATAAGATGATTAA
94471853 ATAAGTAAGATGATTA
1 ATAA-TAAGATGATTA
94471869 TTTTGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
ATAATAAGATGATTAA
Found at i:94474583 original size:21 final size:21
Alignment explanation
Indices: 94474519--94474584 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
94474509 TTTTTCTTAG
94474519 ATTATATATTATTATT-AATT-
1 ATTAT-TATTATTATTAAATTA
** *
94474539 ATTATTATGGTT-TTATATTAA
1 ATTATTATTATTATTAAATT-A
94474560 ATTATTATTATTATTAAATTA
1 ATTATTATTATTATTAAATTA
94474581 ATTA
1 ATTA
94474585 AGATAGTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 5 0.14
21 15 0.42
22 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTATTATTATTATTAAATTA
Found at i:94474842 original size:13 final size:12
Alignment explanation
Indices: 94474814--94474847 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
94474804 AAATAGATAT
94474814 TTATTATAATAA
1 TTATTATAATAA
*
94474826 TTATTATATTAAA
1 TTATTATAAT-AA
94474839 TTATTATAA
1 TTATTATAA
94474848 AACTAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTATTATAATAA
Found at i:94475245 original size:7 final size:7
Alignment explanation
Indices: 94475229--94475263 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
94475219 ATTTAATCCG
94475229 AATT-TT
1 AATTATT
94475235 AATTATT
1 AATTATT
94475242 AATTATT
1 AATTATT
94475249 AATTATT
1 AATTATT
94475256 AATTATT
1 AATTATT
94475263 A
1 A
94475264 TATTCTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTATT
Found at i:94475924 original size:20 final size:19
Alignment explanation
Indices: 94475883--94475929 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
94475873 TGTTACTGAA
* *
94475883 TGATATTG-ATAAATTGAT
1 TGATATTGAAAAAATTGAC
94475901 TGATATTGAAAAATATTGAC
1 TGATATTGAAAAA-ATTGAC
94475921 TGATATTGA
1 TGATATTGA
94475930 GCTTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (19 bp):
TGATATTGAAAAAATTGAC
Found at i:94476792 original size:19 final size:19
Alignment explanation
Indices: 94476770--94476832 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
94476760 AAGCACATGT
*
94476770 GCTAAGCGGAAGCCCGAAG
1 GCTAAGCAGAAGCCCGAAG
*
94476789 GCTAA-CTGAAGCACAC-AAG
1 GCTAAGCAGAAGC-C-CGAAG
94476808 TGCT-AGACAGAAGCCCGAAG
1 -GCTAAG-CAGAAGCCCGAAG
94476828 GCTAA
1 GCTAA
94476833 CTAAAGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 9 0.26
21 6 0.17
ACGTcount: A:0.37, C:0.25, G:0.29, T:0.10
Consensus pattern (19 bp):
GCTAAGCAGAAGCCCGAAG
Found at i:94476801 original size:37 final size:37
Alignment explanation
Indices: 94476741--94476839 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 37
94476731 ATCGTGATCT
* * * *
94476741 GAAGCCCGAAGTCTAGCTAAAGCACATGTGCTA-AGCG
1 GAAGCCCGAAGGCTAACTAAAGCACAAGTGCTAGA-CA
*
94476778 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAGACA
1 GAAGCCCGAAGGCTAACTAAAG--CACAAGTGCTAGACA
94476817 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
94476840 TCATCAGAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 20 0.38
39 32 0.60
40 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.26, T:0.12
Consensus pattern (37 bp):
GAAGCCCGAAGGCTAACTAAAGCACAAGTGCTAGACA
Found at i:94477278 original size:21 final size:22
Alignment explanation
Indices: 94477238--94477278 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
94477228 TTCCAAATAA
* *
94477238 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
94477260 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
94477279 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:94479649 original size:21 final size:21
Alignment explanation
Indices: 94479620--94479664 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94479610 CGGGCTCTCA
*
94479620 ACATGGCCGTGTGACCTAGCG
1 ACATCGCCGTGTGACCTAGCG
* * *
94479641 ACATCGCCGTTTGATCTAGTG
1 ACATCGCCGTGTGACCTAGCG
94479662 ACA
1 ACA
94479665 CAACCGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (21 bp):
ACATCGCCGTGTGACCTAGCG
Found at i:94481857 original size:86 final size:86
Alignment explanation
Indices: 94481766--94481948 Score: 215
Period size: 86 Copynumber: 2.1 Consensus size: 86
94481756 AAATTTAAAC
* * ** * * * *
94481766 TTAAAAATAATTATAT-TGTATATTTATATTAAGCTTTTAATCGAGTTGGTATTACAAGTTAATC
1 TTAAAAAAAATTATATATCTATACATATA-TAAGCTTCTAATCAAGTTGATATTACAAGTTAACC
* **
94481830 GGGCATTAATTTAGTTGAGAAA
65 GGGAACCAATTTAGTTGAGAAA
* *
94481852 TTAAAAAAAATTATATATCTATACATATATGAGCTTCTAATTAAGTTGATATTACAAGTTAACCG
1 TTAAAAAAAATTATATATCTATACATATATAAGCTTCTAATCAAGTTGATATTACAAGTTAACCG
*
94481917 GGAACCAATTTATTTGAGAAA
66 GGAACCAATTTAGTTGAGAAA
94481938 TTACAAAAAAA
1 TTA-AAAAAAA
94481949 ATGTCATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
86 65 0.80
87 16 0.20
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (86 bp):
TTAAAAAAAATTATATATCTATACATATATAAGCTTCTAATCAAGTTGATATTACAAGTTAACCG
GGAACCAATTTAGTTGAGAAA
Found at i:94482363 original size:24 final size:24
Alignment explanation
Indices: 94482336--94482383 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94482326 ATGAGATTAT
94482336 TCCTATATTAGGGAATCCTGACAA
1 TCCTATATTAGGGAATCCTGACAA
94482360 TCCTATATTAGGGAATCCTGACAA
1 TCCTATATTAGGGAATCCTGACAA
94482384 ACTCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
TCCTATATTAGGGAATCCTGACAA
Found at i:94484139 original size:20 final size:20
Alignment explanation
Indices: 94484062--94484143 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
94484052 TATTAAGGAT
*
94484062 TTTATTTAGATTTAATCTTATGA
1 TTTATTTATATTT-ATCTT-T-A
*
94484085 TTTATTT-TCATTTATATTTA
1 TTTATTTAT-ATTTATCTTTA
94484105 TTTATCCTTA-A-TTATCTTTA
1 TTTAT--TTATATTTATCTTTA
94484125 TTTATTTATATTTATCTTT
1 TTTATTTATATTTATCTTT
94484144 TAGAATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 27 0.54
21 2 0.04
22 6 0.12
23 11 0.22
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATTTATATTTATCTTTA
Found at i:94501109 original size:18 final size:18
Alignment explanation
Indices: 94501083--94501117 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94501073 TGTTTTTTAT
* *
94501083 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
94501101 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
94501118 TCATTGGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:94501441 original size:24 final size:25
Alignment explanation
Indices: 94501414--94501462 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
94501404 CTTTTTTTAT
*
94501414 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
94501438 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
94501463 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:94501455 original size:25 final size:23
Alignment explanation
Indices: 94501426--94501490 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
94501416 AATAAAAAAC
*
94501426 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
94501451 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
94501472 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
94501491 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:94501489 original size:19 final size:20
Alignment explanation
Indices: 94501452--94501490 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
94501442 TCAAATACAT
94501452 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
94501472 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
94501491 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:94502069 original size:16 final size:17
Alignment explanation
Indices: 94502048--94502080 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
94502038 ATTTAAATAC
94502048 ATTTTTAAACAT-TAAT
1 ATTTTTAAACATATAAT
*
94502064 ATTTTTATACATATAAT
1 ATTTTTAAACATATAAT
94502081 TTCTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTTAAACATATAAT
Found at i:94502404 original size:23 final size:24
Alignment explanation
Indices: 94502359--94502404 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
94502349 TTCACATGTA
94502359 TATGGTACATATTAAATTATTTTAC
1 TATGGTACATATT-AATTATTTTAC
*
94502384 TATGGTACATGTT-ATTATTTT
1 TATGGTACATATTAATTATTTT
94502405 CATATAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (24 bp):
TATGGTACATATTAATTATTTTAC
Found at i:94503032 original size:132 final size:130
Alignment explanation
Indices: 94502839--94503230 Score: 570
Period size: 132 Copynumber: 3.0 Consensus size: 130
94502829 TAGCTTTATA
* * * * *
94502839 ATCATTCATTCAAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGT
1 ATCAGTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
*
94502904 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTC
66 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
* * * *
94502969 ATTCAAGTCTTTTAAAAATTCTTTAAAATGAAGACGAAATTTGGTATTTGGCAATTCGCGGAATC
1 A-TC-AGTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATC
* * * * * * *
94503034 GTACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATCACTTCAAGATT
64 GTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATT
94503099 TC
129 TC
*
94503101 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 ATCAGTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * *
94503166 GCTCTAACGTGTTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTC-AAATTTC
66 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
94503230 A
1 A
94503231 CTCGTATCTT
Statistics
Matches: 228, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
129 7 0.03
130 106 0.46
131 4 0.02
132 111 0.49
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (130 bp):
ATCAGTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
Found at i:94503173 original size:130 final size:130
Alignment explanation
Indices: 94502840--94503346 Score: 581
Period size: 130 Copynumber: 3.9 Consensus size: 130
94502830 AGCTTTATAA
* * * *
94502840 TCATTCATTCAAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTG
1 TCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTG
*
94502905 CCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCA
66 CCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTCA
*
94502970 T
130 C
* * * * *
94502971 TCAAGTCTTTTAAAAATTCTTTAAAATGAAGACGAAATTTGGTATTTGGCAATTCGCGGAATCGT
1 TC-ATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * * * * *
94503036 ACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATCACTTCAAGATTTC
65 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAA-ATTTC
94503101 A-
129 AC
94503102 TCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTG
1 TCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTG
* * *
94503167 CTCTAACGTGTTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTCAAATTTCAC
66 CCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCAC
* * * * * * * * * *
94503232 TCGTATC-TTCTAAAAATCCCTTAAAACGAAGGC-AATACTCGGTGTTTGACGATTCG-GGAATC
1 TCAT-TCATTC-AAAAATTCTTTAAAACGAAGACGAA-ATTTGATATTTGGCAATTCGCGGAATC
* * * * ** * * *
94503294 ATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGGTCAAAACAATCGAATAT
63 GTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAT
94503347 TCCTTTAGGT
Statistics
Matches: 318, Mismatches: 52, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
129 6 0.02
130 162 0.51
131 41 0.13
132 109 0.34
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (130 bp):
TCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTG
CCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCAC
Found at i:94503625 original size:132 final size:128
Alignment explanation
Indices: 94502850--94503628 Score: 543
Period size: 132 Copynumber: 5.9 Consensus size: 128
94502840 TCATTCATTC
* * *
94502850 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAACTCTTTAAAACGAA-A-GAAATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * *
94502915 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCAAGTCTT
64 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTCACTCAA-TTTT
94502980 TT
127 TT
* * * * * *
94502982 AAAAATTCTTTAAAATGAAGACGAAATTTGGTATTTGGCAATTCGCGGAATCGTACCCTAACGTG
1 AAAAACTCTTTAAAACGAA-A-GAAATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * * *
94503047 CTGGGTTGCAA-TTCCGAGTTTGCTGAAAATAATCAAATATCACTTCAAGATTTCA-TC-ATTCA
64 CTGGGTTGCAATTTCC-CGTTTGCTCAAAATAATCGAATATCACTTCAA-ATTTCACTCAATT-T
*
94503109 TTC
126 TTT
* * * *
94503112 AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTGCTCTAACGTG
1 AAAAACTCTTTAAAACGAA-A-GAAATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * * * *
94503177 TTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTCAAATTTCACTCGTATCTTC
64 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCACTC-AATTTTT
94503242 T
128 T
* * * * * * * * *
94503243 AAAAA-TCCCTTAAAACGAAGGCAATACTCGGTGTTTGACGATTCG-GGAATCATGCCCTATCGC
1 AAAAACT-CTTTAAAACGAAAG-AA-ATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGT
** * * * * ** *
94503306 GCTGGGTTGTGATTTCTCGTTTGGTCAAAACAATCGAATATTC-CTTTAGGTTTTCACTCATTTT
63 GCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATA-TCACTTCA-AATTTCACTCAATTT
94503370 TTT
126 TTT
* ** * ** * * * *
94503373 AAGAAAACAT-TTTAAAACGAAGGTGATGTCCAATGTTTGGGGATTTG-AGAATCGTGACCTATC
1 -A-AAAAC-TCTTTAAAACGAAAGAAAT-T-CGATGTTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * * * * * *
94503436 GTGCTGGGTTGCGCATTT-TC-TTTGGTTCAAAACAATTGAAGATCCCTTCAGAGTTTCACTCAC
61 GTGCTGGGTTGC-AATTTCCCGTTT-GCTCAAAATAATCGAATATCACTTCA-AATTTCACTCA-
94503499 ATTTTTT
122 ATTTTTT
** * * * *
94503506 AAAAACTCTAAAAAATGAAAGAAACGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCTATCGTG
1 AAAAACTCTTTAAAACGAAAGAAA--TTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * **
94503571 CTGGGTTGCAATCTCCCGTTTGTTCAAAATAATCGAATATTTCTTCGAAATTTCACTC
64 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTCACTC
94503629 GTATTTTCTA
Statistics
Matches: 516, Mismatches: 102, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
129 8 0.02
130 162 0.31
131 89 0.17
132 241 0.47
133 15 0.03
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (128 bp):
AAAAACTCTTTAAAACGAAAGAAATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGCT
GGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCACTCAATTTTTT
Found at i:94510247 original size:11 final size:11
Alignment explanation
Indices: 94510233--94510263 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
94510223 AGGAGCTCGA
94510233 AAAGAAGAAAG
1 AAAGAAGAAAG
94510244 AAAGAAGAAAG
1 AAAGAAGAAAG
94510255 AAAGAAGAA
1 AAAGAAGAA
94510264 GAGCGCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAAG
Found at i:94512830 original size:18 final size:18
Alignment explanation
Indices: 94512804--94512838 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94512794 GTTTTTTTAT
* *
94512804 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
94512822 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
94512839 TCATTTGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:94514243 original size:130 final size:131
Alignment explanation
Indices: 94513910--94514416 Score: 560
Period size: 130 Copynumber: 3.9 Consensus size: 131
94513900 AGCTTTATAA
* * * * * *
94513910 TCAT-TCATTCAAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCACGAAATCGT
1 TCATATCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
*
94513974 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTC
66 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTC
*
94514039 AT
130 AC
* * * *
94514041 TCATGTCTTTTAAAAATTCTTTAAAATGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 TCATATCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * * * * *
94514106 ACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATC-CTTTCAAGATTT
66 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCAC-TTCAA-ATTT
94514170 CA-
129 CAC
94514172 TCAT-TCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 TCATATCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * *
94514236 GCTCTAACGTGTTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTCAAATTTCA
66 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCA
94514301 C
131 C
* * * * * * * * * *
94514302 TCGTATC-TTCTAAAAATCCCTTAAAACGAAGGC-AATACTCGGTGTTTGACGATTCG-GGAATC
1 TCATATCATTC-AAAAATTCTTTAAAACGAAGACGAA-ATTTGATATTTGGCAATTCGCGGAATC
* * * * ** * * *
94514364 ATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGGTCAAAACAATCGAATAT
64 GTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAT
94514417 TCCTTTAGGT
Statistics
Matches: 318, Mismatches: 50, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
129 6 0.02
130 160 0.50
131 47 0.15
132 105 0.33
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (131 bp):
TCATATCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCA
C
Found at i:94514563 original size:132 final size:132
Alignment explanation
Indices: 94514344--94514581 Score: 295
Period size: 132 Copynumber: 1.8 Consensus size: 132
94514334 CAATACTCGG
* * *
94514344 TGTTTGACGATTCGGGAATCATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGGTCAAAACAA
1 TGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCGATTTCTCGTTTGGTCAAAACAA
* * * *
94514409 TCGAATATTCCTTTAGGTTTTCACTCA-TTTTTTTAAGAAAACATTTTAAAACGAAGGTGATGTC
66 TCGAAGATTCCCTTAGGGTTTCACTCACATTTTTTAA-AAAACATTTTAAAACGAAGGTGATGTC
94514473 CAA
130 CAA
* * * *
94514476 TGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGAGTTGCGCATTT-TC-TTTGGTTCAAAAC
1 TGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCG-ATTTCTCGTTTGG-TCAAAAC
* *
94514539 AATTGAAGA-TCCCTTCGGAGTTTCACTCACATTTTTTAAAAAA
64 AATCGAAGATTCCCTTAGG-GTTTCACTCACATTTTTTAAAAAA
94514582 TCTAAAAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
131 12 0.13
132 65 0.73
133 12 0.13
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (132 bp):
TGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCGATTTCTCGTTTGGTCAAAACAA
TCGAAGATTCCCTTAGGGTTTCACTCACATTTTTTAAAAAACATTTTAAAACGAAGGTGATGTCC
AA
Found at i:94516802 original size:6 final size:6
Alignment explanation
Indices: 94516793--94516824 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
94516783 CACCGTAATG
*
94516793 GTAACA GTAACA GTAGCA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
94516825 CAGGTACAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:94521096 original size:21 final size:21
Alignment explanation
Indices: 94521070--94521126 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
94521060 TAATCAGAAT
94521070 ACGACACATAAAGTGCATAAA
1 ACGACACATAAAGTGCATAAA
* * *
94521091 ACGACACA-CAAGATGCCTAAT
1 ACGACACATAAAG-TGCATAAA
94521112 ACGACACATAAAGTG
1 ACGACACATAAAGTG
94521127 TCTGATCGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (21 bp):
ACGACACATAAAGTGCATAAA
Found at i:94527755 original size:30 final size:30
Alignment explanation
Indices: 94527695--94527755 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
94527685 TAGTTATGTT
* * *
94527695 TGTGAAAAGTTAATTGCTTAATAGATTAGC
1 TGTGAAAAGTTAATTACTTAACAGACTAGC
*
94527725 TGTGAAAAGCTT-ATTACTTAACAGCCTAGC
1 TGTGAAAAG-TTAATTACTTAACAGACTAGC
94527755 T
1 T
94527756 TTCAAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (30 bp):
TGTGAAAAGTTAATTACTTAACAGACTAGC
Found at i:94528245 original size:53 final size:57
Alignment explanation
Indices: 94528120--94528247 Score: 140
Period size: 53 Copynumber: 2.3 Consensus size: 57
94528110 TTCATATAAT
* ** * *
94528120 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
* *
94528178 AATAATTATGTTAAAATATGGTTAAAATATTTATT-TTTTATT-AATT-T-TTTAAC
1 AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
94528231 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
94528248 TTAATAACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 19 0.31
54 2 0.03
55 4 0.07
56 7 0.11
57 16 0.26
58 13 0.21
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
Found at i:94528443 original size:16 final size:16
Alignment explanation
Indices: 94528424--94528454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94528414 ATTACAGTTC
94528424 TATTCAATTACAGCCT
1 TATTCAATTACAGCCT
*
94528440 TATTCCATTACAGCC
1 TATTCAATTACAGCC
94528455 AACCAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (16 bp):
TATTCAATTACAGCCT
Found at i:94528802 original size:24 final size:25
Alignment explanation
Indices: 94528774--94528834 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
94528764 AGTAAATTAG
*
94528774 TTATTTTATTACAAGTGTA-C-ATA
1 TTATTTTATTACAAATGTACCAATA
94528797 TCTA-TTTATTACAAATGTACCAATA
1 T-TATTTTATTACAAATGTACCAATA
94528822 TT-TTTTATTACAA
1 TTATTTTATTACAA
94528835 TCGTCATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 15 0.45
24 14 0.42
25 4 0.12
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (25 bp):
TTATTTTATTACAAATGTACCAATA
Found at i:94529082 original size:3 final size:3
Alignment explanation
Indices: 94529074--94529144 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
94529064 ATATGAAACC
* **
94529074 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
94529119 CTA ATA ATTA ATA ATA ATA ATA ATA A
1 ATA ATA A-TA ATA ATA ATA ATA ATA A
94529145 AATCTTAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:94531408 original size:14 final size:14
Alignment explanation
Indices: 94531389--94531418 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94531379 TTATATCGAG
94531389 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
94531403 ACCAATCCAATTCA
1 ACCAATCCAAATCA
94531417 AC
1 AC
94531419 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:94543050 original size:19 final size:17
Alignment explanation
Indices: 94543018--94543060 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
94543008 CTACTTGTGC
*
94543018 ATTTATGTTTTGAACTTG
1 ATTTATGTTATGAA-TTG
94543036 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
94543054 AATTATG
1 ATTTATG
94543061 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:94547122 original size:34 final size:32
Alignment explanation
Indices: 94547073--94547150 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
94547063 ATAAACATGA
* *
94547073 TAAAAAAAATAAATTA-TTCGATACACTCATTTTT
1 TAAAATAAATAAATTATTTC-ATA-AAT-ATTTTT
94547107 T-AAATAAATATAATTATTTCATAAATATTTTT
1 TAAAATAAATA-AATTATTTCATAAATATTTTT
94547139 TAAAATAAATAA
1 TAAAATAAATAA
94547151 TATAACTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 8 0.21
33 19 0.49
34 9 0.23
35 3 0.08
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (32 bp):
TAAAATAAATAAATTATTTCATAAATATTTTT
Found at i:94551240 original size:49 final size:49
Alignment explanation
Indices: 94551182--94551283 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
94551172 AAATGAAGTC
94551182 ATAATGCTAAAATTCATCACCTTTATATCGTTAAAGAAATCAGCATCCA
1 ATAATGCTAAAATTCATCACCTTTATATCGTTAAAGAAATCAGCATCCA
94551231 ATAATGCTAAAATTCATCACCTTTATATCGTTAAAGAAATCAGCATCCA
1 ATAATGCTAAAATTCATCACCTTTATATCGTTAAAGAAATCAGCATCCA
94551280 ATAA
1 ATAA
94551284 AGTCAACCCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (49 bp):
ATAATGCTAAAATTCATCACCTTTATATCGTTAAAGAAATCAGCATCCA
Found at i:94552473 original size:45 final size:44
Alignment explanation
Indices: 94552424--94552516 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 44
94552414 TCTTAGGTTA
94552424 AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
1 AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
*
94552468 CAATTTGATATTTAATTTTAATTTTTATATTTTTATAATATTATT
1 -AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
94552513 AATT
1 AATT
94552517 AATCTAGATA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (44 bp):
AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
Found at i:94552615 original size:24 final size:22
Alignment explanation
Indices: 94552582--94552625 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
94552572 AATTTAAAAA
*
94552582 TAAAATTATAAATTATAAAAATCT
1 TAAAAATATAAA-TA-AAAAATCT
94552606 TAAAAATATAAATAAAAAAT
1 TAAAAATATAAATAAAAAAT
94552626 TAGATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAATATAAATAAAAAATCT
Found at i:94552618 original size:15 final size:14
Alignment explanation
Indices: 94552572--94552644 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 14
94552562 GATTAAATCT
94552572 AATTTAAAAATA-A
1 AATTTAAAAATATA
* *
94552585 AATTATAAATTATAAA
1 AATT-TAAA-AATATA
94552601 AATCTTAAAAATATA
1 AAT-TTAAAAATATA
*
94552616 AA-TAAAAAAT-TA
1 AATTTAAAAATATA
*
94552628 GATTTTAAAAATATA
1 -AATTTAAAAATATA
94552643 AA
1 AA
94552645 AATTAAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
12 2 0.04
13 12 0.26
14 12 0.26
15 11 0.24
16 8 0.17
17 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (14 bp):
AATTTAAAAATATA
Found at i:94553349 original size:20 final size:20
Alignment explanation
Indices: 94553326--94553367 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
94553316 TTTTTTTAAA
* *
94553326 TTAAAAATTATTAAAATTAT
1 TTAAAAAGTATGAAAATTAT
*
94553346 TTAAAAAGTATGAAATTTAT
1 TTAAAAAGTATGAAAATTAT
94553366 TT
1 TT
94553368 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAAAAAGTATGAAAATTAT
Found at i:94553648 original size:16 final size:16
Alignment explanation
Indices: 94553609--94553648 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
94553599 TATTTAGTTC
94553609 GCTGTAATAAAATAGA
1 GCTGTAATAAAATAGA
* * *
94553625 ACTATAATATAATAGA
1 GCTGTAATAAAATAGA
94553641 GCTGTAAT
1 GCTGTAAT
94553649 CATTAATTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (16 bp):
GCTGTAATAAAATAGA
Found at i:94572612 original size:86 final size:85
Alignment explanation
Indices: 94572512--94572680 Score: 232
Period size: 86 Copynumber: 2.0 Consensus size: 85
94572502 GTTTTTCTTA
* * * *
94572512 TTTTTTCATTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGGCCC-TCAAATTTCTTTA
1 TTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTTAAAATTT-TTCA
*
94572576 AAAAAAGCAATTAAGCCCCTAT
65 AAAAAA-CAATTAAACCCCTAT
* * *
94572598 TTTTTTCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAGAAAGACCCTTAAAATTTTTCAA
1 TTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTTAAAATTTTTCAA
*
94572663 ATAAACAATTAAACCCCT
66 AAAAACAATTAAACCCCT
94572681 GCTCATATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
85 12 0.16
86 54 0.74
87 7 0.10
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (85 bp):
TTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGACCCTTAAAATTTTTCAA
AAAAACAATTAAACCCCTAT
Found at i:94573130 original size:86 final size:88
Alignment explanation
Indices: 94573040--94573245 Score: 265
Period size: 88 Copynumber: 2.3 Consensus size: 88
94573030 TAAGAACAGG
* * **
94573040 GGCTTAATTGCTTTTTTAAAAAATTTTGA-GGT-TTTTTTATGTATTTTGAAAGTTTAAGTACCC
1 GGCTTAATTGCTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTTAAGTACCC
*
94573103 AATTGAGTG-AATAAAAAAGTAGA
66 AATTGAGTGAAAAAAAAAAG-AGA
* * * *
94573126 GGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTTAAGTGCTC
1 GGCTTAATTGCTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTTAAGTACCC
94573191 AATTGAGTGAAAAAAAAAAGAGA
66 AATTGAGTGAAAAAAAAAAGAGA
* *
94573214 GGCTTAATTACTTTTTAAAAAAAAAGTTTGAG
1 GGCTTAATTGCTTTTT--TAAAAAAGTTTGAG
94573246 AAATTTTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
86 26 0.25
87 3 0.03
88 52 0.51
89 9 0.09
90 12 0.12
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (88 bp):
GGCTTAATTGCTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTTAAGTACCC
AATTGAGTGAAAAAAAAAAGAGA
Found at i:94573760 original size:12 final size:13
Alignment explanation
Indices: 94573732--94573761 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
94573722 AAAATACAAA
94573732 TAAAAGAAAACAT
1 TAAAAGAAAACAT
94573745 TAAAAGAAAA-AT
1 TAAAAGAAAACAT
94573757 TAAAA
1 TAAAA
94573762 TGTAAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (13 bp):
TAAAAGAAAACAT
Found at i:94577840 original size:13 final size:13
Alignment explanation
Indices: 94577822--94577853 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
94577812 ATAGTTTAAT
94577822 AATAAAATAAAGA
1 AATAAAATAAAGA
94577835 AATAAAATAAAGA
1 AATAAAATAAAGA
94577848 AATAAA
1 AATAAA
94577854 TGAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:94579164 original size:15 final size:15
Alignment explanation
Indices: 94579141--94579188 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
94579131 TATCAAATTT
94579141 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
94579156 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
94579171 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
94579185 ATAT
1 ATAT
94579189 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:94579844 original size:18 final size:19
Alignment explanation
Indices: 94579823--94579863 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94579813 AATGAAATGA
94579823 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
94579841 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
94579860 GAAA
1 GAAA
94579864 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:94585633 original size:19 final size:18
Alignment explanation
Indices: 94585609--94585654 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
94585599 CTTTTTTAGT
*
94585609 TTTGCATTCATCTCATGCA
1 TTTGCATTCATCGCAT-CA
94585628 TTTGCATTTCATCGCATCA
1 TTTGCA-TTCATCGCATCA
*
94585647 TGTGCATT
1 TTTGCATT
94585655 AAATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATCGCATCA
Found at i:94594113 original size:134 final size:134
Alignment explanation
Indices: 94593872--94594130 Score: 383
Period size: 134 Copynumber: 1.9 Consensus size: 134
94593862 GATGGTGTAA
* * *
94593872 CAGACTGAAAATTGCAGATATTATCTCCCTAAGTAGTAGTAGAACAGATCGAAGACGGTGAATCT
1 CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
* **
94593937 TATCTCCATGTATAGGCAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
66 TATCTCCATGCATAGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
94594002 GGAG
131 GGAG
* * * * *
94594006 CAGACTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCGAATCT
1 CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
* * * *
94594071 TATCTCTATGCATCGAAAATGGAGCAGATTTAAGCCATTAGCCTTATCTCCCTGAAGTTG
66 TATCTCCATGCATAGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTG
94594131 TAGTGTAGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
134 110 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (134 bp):
CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
TATCTCCATGCATAGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
GGAG
Found at i:94594160 original size:88 final size:87
Alignment explanation
Indices: 94594068--94594519 Score: 271
Period size: 88 Copynumber: 5.1 Consensus size: 87
94594058 AGACTGCGAA
* * *
94594068 TCTTATCTCTATGCATCGAAAATGGAGCAGATTTAAGCCATTAGCCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCCATGAATCGACAATGGAGCAGA-TTAAGCCATTAGCCTTATCTCCCTGAAGTTGTA
*
94594133 GTGTAGTAGGCTCAAGATACAAG
65 GTGGAGTAGGCTCAAGATACAAG
* * ** * * * * *
94594156 TCTTATCTCCCTGAAGTTG-CAGCGGAGCAGACTGAA--AATTGCAGATCTTATCTTCCT-AAGC
1 TCTTATCTCCATGAA-TCGACAATGGAGCAGA-TTAAGCCATT--AG-CCTTATCTCCCTGAAGT
* * ** *
94594217 AGTAGTGGAGCAGG-TCGAAGACGGCAAA
61 TGTAGTGGAGTAGGCTC-AAGA-TACAAG
* * *
94594245 TCTTATCTCCATGTATC-ATCAATAGAGCAGATTATAGCCACTAGCCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCATGAATCGA-CAATGGAGCAGATTA-AGCCATTAGCCTTATCTCCCTGAAGTTGT
94594309 AGTGGAGTAGGCTCAAGATACAAG
64 AGTGGAGTAGGCTCAAGATACAAG
* * ** * ** * * **
94594333 TCTTATCTCCCTGAAGT-GGCAGCGGAGCAGACTAA-AAATTACAGATCTTATCTCCCT-CAGCA
1 TCTTATCTCCATGAA-TCGACAATGGAGCAGATTAAGCCATT--AG-CCTTATCTCCCTGAAGTT
* * * **
94594395 GTAGTGGAAT-TGATCGAAGATGGTGAA-
62 GTAGTGGAGTAGGCTC-AAGAT--ACAAG
* * *
94594422 TCTTATCTCCATGTATC-AGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCATGAATCGA-CAATGGAGCAGA-TTAAGCCATTAGCCTTATCTCCCTGAAGTTGT
* *
94594486 AGTGGAGCAGACTCAAGATACAAG
64 AGTGGAGTAGGCTCAAGATACAAG
94594510 TCTTATCTCC
1 TCTTATCTCC
94594520 TTGAGGTTGC
Statistics
Matches: 260, Mismatches: 76, Indels: 56
0.66 0.19 0.14
Matches are distributed among these distances:
86 5 0.02
87 8 0.03
88 124 0.48
89 110 0.42
90 9 0.03
91 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCATGAATCGACAATGGAGCAGATTAAGCCATTAGCCTTATCTCCCTGAAGTTGTAG
TGGAGTAGGCTCAAGATACAAG
Found at i:94594216 original size:177 final size:177
Alignment explanation
Indices: 94593979--94594539 Score: 822
Period size: 177 Copynumber: 3.2 Consensus size: 177
94593969 AGCCACTAGC
* *
94593979 CTTATCTCCCTGAAGTTGGCAGTGGAGCAGACTGAAAATTATAGATCTTATCTCCCTAAGCAGTA
1 CTTATCTCCCTGAAGTT-GCAGCGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * *
94594044 GTGGAGCAGATCGAAGACTGCGAATCTTATCTCTATGCATC-GAAAATGGAGCAGATTTAAGCCA
65 GTGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAG-CAATGGAGCAGATTTAAGCCA
* *
94594108 TTAGCCTTATCTCCCTGAAGTTGTAGTGTAGTAGGCTCAAGATACAAGT
129 CTAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
* *
94594157 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATTGCAGATCTTATCTTCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * * *
94594222 TGGAGCAGGTCGAAGACGGCAAATCTTATCTCCATGTATCATCAATAGAGCAGA-TTATAGCCAC
66 TGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTA-AGCCAC
94594286 TAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
130 TAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
* * *
94594334 CTTATCTCCCTGAAGTGGCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTCAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*** *
94594399 TGGAATTGATCGAAGA-TGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCAC
66 TGGAGCAGATCGAAGACT-GCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCAC
* * *
94594463 TAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACAAGT
130 TAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
* * *
94594511 CTTATCTCCTTGAGGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAG
94594540 GTTGAAGTTA
Statistics
Matches: 344, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
176 3 0.01
177 321 0.93
178 20 0.06
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (177 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACT
AGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
Found at i:94594492 original size:44 final size:44
Alignment explanation
Indices: 94594444--94594539 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
94594434 GTATCAGCAA
* * * *
94594444 TGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTGCAG
* * * *
94594488 TGGAGCAGACTCAAGATACAAGTCTTATCTCCTTGAGGTTGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTGCAG
94594532 TGGAGCAG
1 TGGAGCAG
94594540 GTTGAAGTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (44 bp):
TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTGCAG
Found at i:94594867 original size:29 final size:31
Alignment explanation
Indices: 94594834--94594892 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
94594824 CGAACGGCTT
*
94594834 TTCTCCACAC-C-AGCACACCTACGAATGGA
1 TTCTCCACACGCTAGCACACCCACGAATGGA
* *
94594863 TTCTCCCCACGCTAGCACACCCATGAATGG
1 TTCTCCACACGCTAGCACACCCACGAATGG
94594893 CTCCTCCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 1 0.04
31 15 0.60
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (31 bp):
TTCTCCACACGCTAGCACACCCACGAATGGA
Found at i:94604475 original size:11 final size:11
Alignment explanation
Indices: 94604459--94604493 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
94604449 CCGGATTCCC
94604459 CTCCCTTCTCT
1 CTCCCTTCTCT
94604470 CTCCCTTCTCT
1 CTCCCTTCTCT
94604481 CTTCCC-TCTCT
1 C-TCCCTTCTCT
94604492 CT
1 CT
94604494 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:94605021 original size:23 final size:23
Alignment explanation
Indices: 94604977--94605022 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
94604967 ATATTACCAT
*
94604977 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
94605000 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
94605023 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:94605289 original size:19 final size:19
Alignment explanation
Indices: 94605254--94605290 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
94605244 ATATATTACC
**
94605254 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
94605273 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
94605291 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:94610518 original size:38 final size:38
Alignment explanation
Indices: 94610453--94610550 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
94610443 ATTTGATGTG
* *
94610453 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAAGCTTCATGCTGGTAAAA
* **
94610493 TATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAAGCTTCATGCTGGTAAAA
* *
94610531 TATCCGGGATAAATCACGCA
1 TATCCGGGTTAAATCCCGCA
94610551 GACCTAGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 38 0.75
39 5 0.10
40 8 0.16
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAAGCTTCATGCTGGTAAAA
Found at i:94610561 original size:38 final size:38
Alignment explanation
Indices: 94610482--94610576 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
94610472 GCAGGCTTCA
** * * * *
94610482 TGCTGGTAAAATATCCGGGTTAAATCCCGCAAGCTTCG
1 TGCTGGTATTATATCCGGGATAAATCACGCAAGCCTAG
94610520 TGCTGGTATTATATCCGGGATAAATCACGC-AGACCTAG
1 TGCTGGTATTATATCCGGGATAAATCACGCAAG-CCTAG
*
94610558 TGCTGGTATTATATTCGGG
1 TGCTGGTATTATATCCGGG
94610577 CCTTCGTGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
37 2 0.04
38 47 0.96
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGATAAATCACGCAAGCCTAG
Found at i:94610682 original size:64 final size:64
Alignment explanation
Indices: 94610581--94610704 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
94610571 TTCGGGCCTT
*
94610581 CGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
1 CGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
* *
94610645 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTC
1 CGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
94610705 GTGCCGGTGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.30
Consensus pattern (64 bp):
CGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
Found at i:94610706 original size:43 final size:43
Alignment explanation
Indices: 94610645--94610837 Score: 289
Period size: 43 Copynumber: 4.5 Consensus size: 43
94610635 GGCTTCATAC
94610645 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* *
94610688 CGTGCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* * *
94610731 CGTGCCTAGCAGGCTTCATGCCGTTGATGTGTATTTGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* ** *
94610774 CGTGCCTAGCA-GATGTAATGCCGGTGATGTGTATTTGGGCCTT
1 CGTGCCTAGCAGGCT-TCGTGCCGGTGATGTGTATTCGGGCCTT
94610817 CGTGCCTAGCAGGCTTCGTGC
1 CGTGCCTAGCAGGCTTCGTGC
94610838 TTAGCAGACG
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
42 2 0.01
43 131 0.97
44 2 0.01
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
Found at i:94610835 original size:16 final size:16
Alignment explanation
Indices: 94610814--94610844 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94610804 GTATTTGGGC
94610814 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
*
94610830 CTTCGTGCTTAGCAG
1 CTTCGTGCCTAGCAG
94610845 ACGTAATGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.29, G:0.29, T:0.29
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:94611245 original size:45 final size:45
Alignment explanation
Indices: 94611178--94611289 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 45
94611168 TTGATTTGAT
* * *
94611178 TATTCGGGCCTTT-GAGCTTAGCAGACTATAATGTCGGT-AAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGACTATAAAGCCGGTGAA-ATGA
*
94611222 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAAAGCCGGTGAAATGA
94611268 TA-TCGGGC-TTCGAGCCTAGCAG
1 TATTCGGGCTTTCGAGCCTAGCAG
94611290 GCGAAATGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
43 14 0.23
44 10 0.17
45 33 0.55
46 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAAAGCCGGTGAAATGA
Found at i:94614384 original size:47 final size:45
Alignment explanation
Indices: 94614313--94614672 Score: 271
Period size: 47 Copynumber: 7.7 Consensus size: 45
94614303 TGATTTGTGC
*
94614313 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGA
* * *
94614359 GCTAGTGTAAGATCATGTCTGGGACATGGCATC-GGCATCCAGACT-AGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT--ATA-TGAGA
*
94614407 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGA
* * * *
94614453 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATATATGAGA
* * * * * *
94614501 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTTGGCAGA-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT---ATATGAGA
* * * * * * * * *
94614548 GCCAGTGTAAGACGTGTTTGGGACACGCATC-GGC-TAAAAGTTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATATG-AGA
* *
94614592 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCACGTATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-C--ATATATGAGA
*
94614640 GCCAGTGTAAGATCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
94614673 GACAATTTAT
Statistics
Matches: 248, Mismatches: 43, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 26 0.10
45 5 0.02
46 42 0.17
47 88 0.35
48 57 0.23
49 23 0.09
50 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGA
Done.