Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008694.1 Hibiscus syriacus cultivar Beakdansim tig00111723_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: 1352611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:655432 original size:2 final size:2
Alignment explanation
Indices: 655425--655459 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
655415 AGGGGGTTAC
655425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
655460 TATCATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:656101 original size:15 final size:15
Alignment explanation
Indices: 656075--656126 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
656065 GATTTTTAAC
656075 TAATTT-ATAA-TTA
1 TAATTTAATAATTTA
656088 TACATTTAATAATTTA
1 TA-ATTTAATAATTTA
*
656104 TAATTTAAT-TTTTA
1 TAATTTAATAATTTA
*
656118 TAAATTAAT
1 TAATTTAAT
656127 TTAATAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 2 0.06
14 16 0.47
15 11 0.32
16 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTTAATAATTTA
Found at i:656117 original size:22 final size:24
Alignment explanation
Indices: 656058--656117 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
656048 GTATTTTAAT
*
656058 TAATTTAGATTTTTAACTAATTTA
1 TAATTTACATTTTTAACTAATTTA
656082 TAATTATACA--TTTAA-TAATTTA
1 TAATT-TACATTTTTAACTAATTTA
656104 TAATTTA-ATTTTTA
1 TAATTTACATTTTTA
656118 TAAATTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 2 0.06
22 16 0.50
23 5 0.16
24 5 0.16
25 3 0.09
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (24 bp):
TAATTTACATTTTTAACTAATTTA
Found at i:656979 original size:115 final size:114
Alignment explanation
Indices: 656778--656986 Score: 283
Period size: 115 Copynumber: 1.8 Consensus size: 114
656768 TTTACTCAAA
* *
656778 TTGCATAGGTGAATCGGTTTTAAAATTGAAAAATTCAGTGCAAATTATATATCAAAACAAATATA
1 TTGCATAGGTGAATCGGTTTCAAAATTGAAAAATTCAGTGCAAATTATAAATCAAAACAAATATA
* *
656843 TTTAAATACTAATCGAACCAAATTTAATAAAAACTGAATTTAATAAAAT
66 TTTAAATAATAACCGAACCAAATTTAATAAAAACTGAATTTAATAAAAT
* ** * ** * * * *
656892 TTGCATAGGTGAGTCGGGTTTCGGAATTGAAAATTTCAGTGTGAATTGTAAATCATACCAAATCT
1 TTGCATAGGTGAATC-GGTTTCAAAATTGAAAAATTCAGTGCAAATTATAAATCAAAACAAATAT
656957 ATTTAAATAATAACCGAACCAAATTTAATA
65 ATTTAAATAATAACCGAACCAAATTTAATA
656987 GAAATCGAAG
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
114 14 0.17
115 66 0.82
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (114 bp):
TTGCATAGGTGAATCGGTTTCAAAATTGAAAAATTCAGTGCAAATTATAAATCAAAACAAATATA
TTTAAATAATAACCGAACCAAATTTAATAAAAACTGAATTTAATAAAAT
Found at i:657965 original size:17 final size:18
Alignment explanation
Indices: 657922--657972 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
657912 GGAATATTTC
657922 TGAAGGAATTGAAATCTG
1 TGAAGGAATTGAAATCTG
657940 TGAAGGAATTGAAATCTG
1 TGAAGGAATTGAAATCTG
* *
657958 T-CAGGAATTGGAATC
1 TGAAGGAATTGAAATC
657973 CAATTCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (18 bp):
TGAAGGAATTGAAATCTG
Found at i:658692 original size:267 final size:253
Alignment explanation
Indices: 658211--658753 Score: 699
Period size: 267 Copynumber: 2.1 Consensus size: 253
658201 TCAATAAATT
* *
658211 ATAAAAATTATTTTTATTCAATAAAAACATTGACTTATTGAAAAAATTATATATAGAGGGGTATT
1 ATAAAAATTATTTTTATTCAATAAAAACACTGACTTATTAAAAAAATTATATATAGAGGGGTATT
*
658276 ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTCGGGTCGGGTTCGATTTTTC
66 ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTC-ATTTTTC
* *
658341 TCACCCTAAACCCGAACCTGACCCGACCCGACCCGAATATCACACTTAAAAAACCCGAACCAAAC
130 TCACCCTAAACCCGAACCT---CCGACCCAACCCGAATACCACACTTAAAAAACCCGAACCAAAC
658406 AAAATAAAGTTTCACCCGACCCGAACCGAATATATGAATTAGAAATTCGACCCGACCCGACCCGA
192 AAAATAAAGTTTCACCCGA--C---CCGAATATATGAATTA-AAA----ACCCGACCCGACCCGA
658471 AATAATA
247 AATAATA
*
658478 ATAAAAATTATTTTTATTCAATTAAAACACTGACTTAATTAAAAAAATTATATATAGAGGGGTAT
1 ATAAAAATTATTTTTATTCAATAAAAACACTGACTT-ATTAAAAAAATTATATATAGAGGGGTAT
658543 TATTGTAATTATTCCTAAATATATAAGGT-AAATTATATATATTTTCGGGTCGGG-T-A-TTTT-
65 TATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTCATTTTTC
* * *
658603 TCACCCTAAACCCGAA-CT-CGACCCAACCCGAATACCACATTTAAAAAAATCGACCCGACCCGA
130 TCACCCTAAACCCGAACCTCCGACCCAACCCGAATACCACACTT--AAAAA---ACCCGAACCAA
* *
658666 CCAAAATAAAGTTTCACTCGACCCGACCCGAATATATGAATTATAAACCCGACCCGACCCGAAAT
190 ACAAAATAAAG-TT---TC-ACCCGACCCGAATATATGAATTAAAAACCCGACCCGACCCGAAAT
658731 AATA
250 AATA
658735 A-AAAAA-TATTTTTATTCAA
1 ATAAAAATTATTTTTATTCAA
658754 GAATAAGTTA
Statistics
Matches: 254, Mismatches: 11, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
255 13 0.05
256 5 0.02
257 45 0.18
259 5 0.02
261 4 0.02
262 51 0.20
263 6 0.02
264 1 0.00
265 1 0.00
266 3 0.01
267 64 0.25
268 56 0.22
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (253 bp):
ATAAAAATTATTTTTATTCAATAAAAACACTGACTTATTAAAAAAATTATATATAGAGGGGTATT
ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTCATTTTTCT
CACCCTAAACCCGAACCTCCGACCCAACCCGAATACCACACTTAAAAAACCCGAACCAAACAAAA
TAAAGTTTCACCCGACCCGAATATATGAATTAAAAACCCGACCCGACCCGAAATAATA
Found at i:658723 original size:262 final size:258
Alignment explanation
Indices: 658211--658753 Score: 771
Period size: 262 Copynumber: 2.1 Consensus size: 258
658201 TCAATAAATT
* *
658211 ATAAAAATTATTTTTATTCAATAAAAACATTGACTTATTGAAAAAATTATATATAGAGGGGTATT
1 ATAAAAATTATTTTTATTCAATAAAAACACTGACTTATTAAAAAAATTATATATAGAGGGGTATT
*
658276 ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTCGGGTCGGGTTCGATTTTTC
66 ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTC-ATTTTTC
* *
658341 TCACCCTAAACCCGAACCTGACCCGACCCGACCCGAATATCACACTTAAAAAACCCGAACCAAAC
130 TCACCCTAAACCCGAACCT---CCGACCCAACCCGAATACCACACTTAAAAAACCCGAACCAAAC
658406 AAAATAAAGTTTCACCCGACCCGAACCGAATATATGAATTAGAAATTCGACCCGACCCGACCCGA
192 AAAATAAAGTTTCACCCGACCCGAACCGAATATATGAATTAG-AA----ACCCGACCCGACCCGA
658471 AATAATA
252 AATAATA
*
658478 ATAAAAATTATTTTTATTCAATTAAAACACTGACTTAATTAAAAAAATTATATATAGAGGGGTAT
1 ATAAAAATTATTTTTATTCAATAAAAACACTGACTT-ATTAAAAAAATTATATATAGAGGGGTAT
658543 TATTGTAATTATTCCTAAATATATAAGGT-AAATTATATATATTTTCGGGTCGGG-T-A-TTTT-
65 TATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTCATTTTTC
* * *
658603 TCACCCTAAACCCGAA-CT-CGACCCAACCCGAATACCACATTTAAAAAAATCGACCCGACCCGA
130 TCACCCTAAACCCGAACCTCCGACCCAACCCGAATACCACACTT--AAAAA---ACCCGAACCAA
* * * *
658666 CCAAAATAAAGTTTCACTCGACCCGACCCGAATATATGAATTATAAACCCGACCCGACCCGAAAT
190 ACAAAATAAAGTTTCACCCGACCCGAACCGAATATATGAATTAGAAACCCGACCCGACCCGAAAT
658731 AATA
255 AATA
658735 A-AAAAA-TATTTTTATTCAA
1 ATAAAAATTATTTTTATTCAA
658754 GAATAAGTTA
Statistics
Matches: 257, Mismatches: 13, Indels: 24
0.87 0.04 0.08
Matches are distributed among these distances:
255 13 0.05
256 5 0.02
257 45 0.18
259 5 0.02
261 4 0.02
262 65 0.25
263 4 0.02
264 1 0.00
266 1 0.00
267 58 0.23
268 56 0.22
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (258 bp):
ATAAAAATTATTTTTATTCAATAAAAACACTGACTTATTAAAAAAATTATATATAGAGGGGTATT
ATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTTCATTTTTCT
CACCCTAAACCCGAACCTCCGACCCAACCCGAATACCACACTTAAAAAACCCGAACCAAACAAAA
TAAAGTTTCACCCGACCCGAACCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATA
Found at i:659785 original size:47 final size:47
Alignment explanation
Indices: 659728--659984 Score: 268
Period size: 47 Copynumber: 5.5 Consensus size: 47
659718 AGGTGCAGAG
659728 TATTCGATGGTAAAGTCCAATCA-CTAAATTATAGGTTGGTGCATCCT
1 TATTCGATGGTAAAGTCCAATCATC-AAATTATAGGTTGGTGCATCCT
* * * * *
659775 TATTCTATGGTAAAGTCCAATCATCAAATTACAAGATGGTACATCCT
1 TATTCGATGGTAAAGTCCAATCATCAAATTATAGGTTGGTGCATCCT
* * * * * **
659822 TATTGGATGATAAAGTCTAATCATAAAATTATAGATTACTGCATCCT
1 TATTCGATGGTAAAGTCCAATCATCAAATTATAGGTTGGTGCATCCT
* * * **
659869 T-GTCAGATTGTAAAGTCCAATCATCGAATTATAGGTTGGTAAATCCT
1 TATTC-GATGGTAAAGTCCAATCATCAAATTATAGGTTGGTGCATCCT
* * * *
659916 TATTGGATGGTAAAGTCTAATCATCGAATTATTGGTTGGTGCATCCT
1 TATTCGATGGTAAAGTCCAATCATCAAATTATAGGTTGGTGCATCCT
**
659963 TATAGGAT-GTAAAGTCCAATCA
1 TATTCGATGGTAAAGTCCAATCA
659985 CCAATTACAG
Statistics
Matches: 169, Mismatches: 38, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
46 14 0.08
47 153 0.91
48 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (47 bp):
TATTCGATGGTAAAGTCCAATCATCAAATTATAGGTTGGTGCATCCT
Found at i:661882 original size:24 final size:24
Alignment explanation
Indices: 661850--661897 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
661840 TTGAGATGGT
661850 AAAAGACTTAAATTTTCTAATTCC
1 AAAAGACTTAAATTTTCTAATTCC
661874 AAAAGACTTAAATTTTCTAATTCC
1 AAAAGACTTAAATTTTCTAATTCC
661898 TGAGCGAAAA
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:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAAGACTTAAATTTTCTAATTCC
Found at i:665163 original size:14 final size:15
Alignment explanation
Indices: 665144--665181 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
665134 TTTGACCCGA
665144 CTGAGTCAACTCAT-
1 CTGAGTCAACTCATC
*
665158 CTGAGTTAACTCATC
1 CTGAGTCAACTCATC
665173 CT-AGTCAAC
1 CTGAGTCAAC
665182 CCTTTGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (15 bp):
CTGAGTCAACTCATC
Found at i:669084 original size:29 final size:25
Alignment explanation
Indices: 669043--669099 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 25
669033 ACGAAGTTAG
669043 AAAATTTATTTTGGAATGTCAAATTCAT
1 AAAATTTATTTT-G--TGTCAAATTCAT
*
669071 AAAATTTTATTTTGTGTCAAATTTAT
1 AAAA-TTTATTTTGTGTCAAATTCAT
669097 AAA
1 AAA
669100 TTGTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
28 5 0.19
29 8 0.30
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (25 bp):
AAAATTTATTTTGTGTCAAATTCAT
Found at i:669222 original size:26 final size:27
Alignment explanation
Indices: 669174--669224 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
669164 GGTATCAATA
669174 TTATTTTAAGAATATATTAATATTATT
1 TTATTTTAAGAATATATTAATATTATT
* * *
669201 TTATTTTTAG-ATATTTTTATATTA
1 TTATTTTAAGAATATATTAATATTA
669225 AATTTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (27 bp):
TTATTTTAAGAATATATTAATATTATT
Found at i:669230 original size:27 final size:27
Alignment explanation
Indices: 669174--669231 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
669164 GGTATCAATA
*
669174 TTATTTTAAGAATATATTAATATTATT
1 TTATTTTAAGAATATATTAATATTAAT
* * *
669201 TTATTTTTAG-ATATTTTTATATTAAAT
1 TTATTTTAAGAATATATTAATATT-AAT
669228 TTAT
1 TTAT
669232 AAAAAATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
TTATTTTAAGAATATATTAATATTAAT
Found at i:676324 original size:10 final size:10
Alignment explanation
Indices: 676309--676341 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
676299 AATGCACATG
*
676309 CCATGCTGTA
1 CCATGCTGCA
676319 CCATGCTGCA
1 CCATGCTGCA
676329 CCATGCTGC-
1 CCATGCTGCA
676338 CCAT
1 CCAT
676342 ATTACAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.18, C:0.39, G:0.18, T:0.24
Consensus pattern (10 bp):
CCATGCTGCA
Found at i:676418 original size:18 final size:18
Alignment explanation
Indices: 676395--676429 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
676385 TTTCTAGATG
676395 CCCATGCT-AGACCACTGC
1 CCCATGCTGA-ACCACTGC
676413 CCCATGCTGAACCACTG
1 CCCATGCTGAACCACTG
676430 TCCAATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.23, C:0.43, G:0.17, T:0.17
Consensus pattern (18 bp):
CCCATGCTGAACCACTGC
Found at i:685002 original size:17 final size:17
Alignment explanation
Indices: 684972--685018 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
684962 CCATATGGCA
*
684972 ATGCTAGACCACTGCCC
1 ATGCTGGACCACTGCCC
*
684989 ATGCTGGACTACTGCCC
1 ATGCTGGACCACTGCCC
685006 ATGCTGGACCACT
1 ATGCTGGACCACT
685019 ACCGAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (17 bp):
ATGCTGGACCACTGCCC
Found at i:686184 original size:22 final size:20
Alignment explanation
Indices: 686143--686185 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
686133 ACACTACCAC
*
686143 CATTCCATTTTCACATCATT
1 CATTCCATTTTCACAACATT
686163 CATTCCATTTTGCCACAACATT
1 CATTCCATTTT--CACAACATT
686185 C
1 C
686186 TCATTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (20 bp):
CATTCCATTTTCACAACATT
Found at i:689733 original size:32 final size:31
Alignment explanation
Indices: 689670--689745 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 31
689660 TAAGGTGACC
* *
689670 CTTGGGTAGGCTCTGCGGCCCTGAGATTTTT
1 CTTGGGTAGGCTCTCCGGCCCTGAGAATTTT
689701 CTTGGGTAGGC-CTCCGTGTCCCTGAGAATTTT
1 CTTGGGTAGGCTCTCCG-G-CCCTGAGAATTTT
689733 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
689746 GCAGGCCCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 4 0.10
31 12 0.30
32 23 0.57
33 1 0.03
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.34
Consensus pattern (31 bp):
CTTGGGTAGGCTCTCCGGCCCTGAGAATTTT
Found at i:691210 original size:65 final size:65
Alignment explanation
Indices: 691079--691229 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 65
691069 ACCCCATTAT
* * * *
691079 GAATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAATATC
1 GAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTAAAACATC
** *
691144 GAATGCATTTTGTGTACCGATGCACATA-CCATGCATCGATGCACTCCTGGCTCTTTTAAAACAT
1 GAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCCTGAATATTTTAAAACAT
691208 C
65 C
* * *
691209 GAATGTAATTAGTGTACCGAT
1 GAATGCATTTTGTGTACCGAT
691230 ACACCCCTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
65 74 0.99
66 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (65 bp):
GAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTAAAACATC
Found at i:693256 original size:2 final size:2
Alignment explanation
Indices: 693249--693279 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
693239 CTTTTAATTG
693249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
693280 ATTCAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:700494 original size:64 final size:64
Alignment explanation
Indices: 700370--700496 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 64
700360 CCCATTACGA
* * *
700370 ATGCATTTTATGTACCGATGCACAAGCCATTCATCGATGCACTCTTGAATATTTTGAAACATCG
1 ATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTAAAACATCG
* ** *
700434 ATGCATTTTGTGTACCGATGCAC-AGACCATGCATCGATGCACTCCTGGCTCTTTTAAAACATC
1 ATGCATTTTATGTACCGATGCACAAG-CCATGCATCGATGCACTCCTGAATATTTTAAAACATC
700497 TAATGTAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 2 0.04
64 53 0.96
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTAAAACATCG
Found at i:702031 original size:319 final size:310
Alignment explanation
Indices: 701447--702083 Score: 1051
Period size: 319 Copynumber: 2.0 Consensus size: 310
701437 TTTTTTAAAA
* *
701447 CGAAAAACTAACTAAAAGAAACAAACTAATCTACATATAGCCGCTGGCCGTCAGTCCAAGTTTTT
1 CGAAAAACTAACTAAAAGAAACAAACTAATCTACATATAGCCGCTAGCCGTCAGTCCAAGTCTTT
701512 CCTCTCGAGCGTACCACCTCACGGGGTGTGTTGAAGCTTCTTCCAGTGAAGTCATCTTCAAATTA
66 CCTCTCGAGCGTACCACCTCACGGGGTGTGTTGAAGCTTCTTCCAGTGAAGTCATCTTCAAATTA
*
701577 TATATGTTTCGTAGTATCCCGGTGCTGCTAATCCTTGTTGCCTCCAGATTAACATCTTGAAAGCC
131 TATATGTTTCGTAGTATCCCGGTGCTGCTAATCCCTGTTGCCTCCAGATTAACATCTTGAAAGCC
*
701642 TCGTTACTATCAAGGTCGACCGCTACCTTCCTTGCTCCTATTCTTCTAGCATGCATAAGACCTTC
196 TCGTTACTATCAAGCTCGACCGCTACCTTCCTTGCTCCTATTCTTCTAGCATGCATAAGACCTTC
*
701707 GAACACTCCCATAACTCGGCTACTACTACTGAGCATATTCCGATGGCTTT
261 GAACACTCCCATAACTCGGCTACTACTACTGAGCATATTCCGAAGGCTTT
* *
701757 CGAAAAACTAACTAAAAAGAAACAAACTAATCTACATATAGCTGCTAGTCGTCAGTCCAAGTCTT
1 CGAAAAACTAACT-AAAAGAAACAAACTAATCTACATATAGCCGCTAGCCGTCAGTCCAAGTCTT
* *
701822 TCCTCTTGGCGGATCAAGCGTACC-CCTCAGGGGGTGTGTTGAAGCTTCTTTCAGTGAAGTCATC
65 TCCTC-T--C-G----AGCGTACCACCTCACGGGGTGTGTTGAAGCTTCTTCCAGTGAAGTCATC
* *
701886 TTCAAATTATATATGTTTTGTAGTATCCCCGGTGCTGCTAATCCCTGTTGCCTCCGGATTAACAT
122 TTCAAATTATATATGTTTCGTAGTAT-CCCGGTGCTGCTAATCCCTGTTGCCTCCAGATTAACAT
*
701951 CTTGGAAGCCTCGTTACTATCAAGCTCGACCGCTACCTTCCTTGCTCCTATTCTTCTAGCATGCA
186 CTTGAAAGCCTCGTTACTATCAAGCTCGACCGCTACCTTCCTTGCTCCTATTCTTCTAGCATGCA
* *
702016 TAAGACCTTCGAACACTCCCATAACTCGGCTTCTACTACTGAGCATATTCCGAAGGTTTT
251 TAAGACCTTCGAACACTCCCATAACTCGGCTACTACTACTGAGCATATTCCGAAGGCTTT
702076 CGAAAAAC
1 CGAAAAAC
702084 CAGCTATCCA
Statistics
Matches: 303, Mismatches: 14, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
310 13 0.04
311 52 0.17
312 1 0.00
314 1 0.00
315 1 0.00
318 63 0.21
319 172 0.57
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (310 bp):
CGAAAAACTAACTAAAAGAAACAAACTAATCTACATATAGCCGCTAGCCGTCAGTCCAAGTCTTT
CCTCTCGAGCGTACCACCTCACGGGGTGTGTTGAAGCTTCTTCCAGTGAAGTCATCTTCAAATTA
TATATGTTTCGTAGTATCCCGGTGCTGCTAATCCCTGTTGCCTCCAGATTAACATCTTGAAAGCC
TCGTTACTATCAAGCTCGACCGCTACCTTCCTTGCTCCTATTCTTCTAGCATGCATAAGACCTTC
GAACACTCCCATAACTCGGCTACTACTACTGAGCATATTCCGAAGGCTTT
Found at i:704059 original size:47 final size:47
Alignment explanation
Indices: 704002--704261 Score: 211
Period size: 47 Copynumber: 5.5 Consensus size: 47
703992 AGGTACTGAG
* *
704002 TATTCGATGGTAAAGTCCAATCACTAAATTGTAGGCTGGTGCATCCT
1 TATTCGATGGTAAAGTCCAATCACTGAATTATAGGCTGGTGCATCCT
* * * * *
704049 TATTCAATGGTAAAGTCCAATCATTGAATTAAAAAGATGGTGCATCCT
1 TATTCGATGGTAAAGTCCAATCACTGAATT-ATAGGCTGGTGCATCCT
* * * **
704097 TATTGGATGATAAAGTCTAATCA-TCGAATTATAGATTGGTGCATCCT
1 TATTCGATGGTAAAGTCCAATCACT-GAATTATAGGCTGGTGCATCCT
* * * * * **
704144 TATCTTG-TTGTAAAGTTCAATAACCGAATTATAGGCTGGTATATCCT
1 TAT-TCGATGGTAAAGTCCAATCACTGAATTATAGGCTGGTGCATCCT
* * * * ** *
704191 TATTGGATGGTAAAGTCCAATCA-TCGAAGTATTGGTTTATACATCCT
1 TATTCGATGGTAAAGTCCAATCACT-GAATTATAGGCTGGTGCATCCT
**
704238 TATAGGATGGTAAAGTCCAATCAC
1 TATTCGATGGTAAAGTCCAATCAC
704262 CAAATTACAG
Statistics
Matches: 168, Mismatches: 38, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
46 2 0.01
47 127 0.76
48 39 0.23
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (47 bp):
TATTCGATGGTAAAGTCCAATCACTGAATTATAGGCTGGTGCATCCT
Found at i:704281 original size:94 final size:94
Alignment explanation
Indices: 704092--704307 Score: 209
Period size: 94 Copynumber: 2.3 Consensus size: 94
704082 AAGATGGTGC
* * * * * ** *
704092 ATCCTTATTGGATGATAAAGTCTAATCATCGAATTATAGATTGGTGCATCCTTATCTTGTTGTAA
1 ATCCTTATTGGATGGTAAAGTCCAATCATCGAAGTATAGATTGATACATCCTTATCAGGTGGTAA
* * * * **
704157 AGTTCAATAACCGAATTATAGGCTGGTAT
66 AGTCCAATAACCAAATTACAGGATAATAT
* * *
704186 ATCCTTATTGGATGGTAAAGTCCAATCATCGAAGTATTGGTTTATACATCCTTAT-AGGATGGTA
1 ATCCTTATTGGATGGTAAAGTCCAATCATCGAAGTATAGATTGATACATCCTTATCAGG-TGGTA
*
704250 AAGTCCAATCACCAAATTACAGGATAATAT
65 AAGTCCAATAACCAAATTACAGGATAATAT
** * **
704280 ATCCTCGTAGGATGGTAATCTCCAATCA
1 ATCCTTATTGGATGGTAAAGTCCAATCA
704308 CCTAATAATC
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
93 1 0.01
94 97 0.99
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (94 bp):
ATCCTTATTGGATGGTAAAGTCCAATCATCGAAGTATAGATTGATACATCCTTATCAGGTGGTAA
AGTCCAATAACCAAATTACAGGATAATAT
Found at i:704284 original size:47 final size:47
Alignment explanation
Indices: 704183--704309 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 47
704173 TATAGGCTGG
* * * ** * *
704183 TATATCCTTATTGGATGGTAAAGTCCAATCATCGAAGTATTGGTTTA
1 TATATCCTTATAGGATGGTAAAGTCCAATCACCAAAGTACAGGATAA
* *
704230 TACATCCTTATAGGATGGTAAAGTCCAATCACCAAATTACAGGATAA
1 TATATCCTTATAGGATGGTAAAGTCCAATCACCAAAGTACAGGATAA
** **
704277 TATATCCTCGTAGGATGGTAATCTCCAATCACC
1 TATATCCTTATAGGATGGTAAAGTCCAATCACC
704310 TAATAATCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (47 bp):
TATATCCTTATAGGATGGTAAAGTCCAATCACCAAAGTACAGGATAA
Found at i:707194 original size:45 final size:45
Alignment explanation
Indices: 707130--707215 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
707120 TCTAATTTAT
707130 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
1 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
707175 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATT
1 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATT
707216 TATAAACCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (45 bp):
TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
Found at i:708210 original size:56 final size:56
Alignment explanation
Indices: 708131--708240 Score: 166
Period size: 56 Copynumber: 2.0 Consensus size: 56
708121 TAAAGGCAAC
* *
708131 TCTTCAAGTACATGCACCTACAATTAAGCAAGCTCGGTGCTAAAGGTATAAAGAGT
1 TCTTCAAGTACATGAACCAACAATTAAGCAAGCTCGGTGCTAAAGGTATAAAGAGT
* * **
708187 TCTTCAAGTACATGAACCAACAATTAAGCATGGTCGGTGCTAATTGTATAAAGA
1 TCTTCAAGTACATGAACCAACAATTAAGCAAGCTCGGTGCTAAAGGTATAAAGA
708241 CAAGAAAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (56 bp):
TCTTCAAGTACATGAACCAACAATTAAGCAAGCTCGGTGCTAAAGGTATAAAGAGT
Found at i:715623 original size:36 final size:36
Alignment explanation
Indices: 715568--715827 Score: 394
Period size: 36 Copynumber: 7.2 Consensus size: 36
715558 AAATGAACAC
* * * *
715568 TTGAATCAGAATTGTCGATGCTTCCTTCCATTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
*
715604 TTGAATCGGAAGAGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* * *
715640 TTGAATCGGAACTGCCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
715676 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
*
715712 TTGAATCGGAAGTGCCAATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* * *
715748 TTGAATCGGAAGTACCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* *
715784 TTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
715820 TTGAATCG
1 TTGAATCG
715828 ATGCAAACTT
Statistics
Matches: 206, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 206 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.32
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
Found at i:715755 original size:108 final size:108
Alignment explanation
Indices: 715566--715827 Score: 434
Period size: 108 Copynumber: 2.4 Consensus size: 108
715556 AAAAATGAAC
* * * * *
715566 ACTTGAATCAGAATTGTCGATGCTTCCTTCCATTCGATTTGAATCGGAAGAGCCGATGCTTCCTT
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGAGCCAATGCTTCCTT
*
715631 CCGTTCGATTTGAATCGGAACTGCCGATGCTTCCCTCCGTTCG
66 CCGTTCGATTTGAATCGGAACTACCGATGCTTCCCTCCGTTCG
*
715674 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGCCAATGCTTCCTT
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGAGCCAATGCTTCCTT
*
715739 CCGTTCGATTTGAATCGGAAGTACCGATGCTTCCCTCCGTTCG
66 CCGTTCGATTTGAATCGGAACTACCGATGCTTCCCTCCGTTCG
* *
715782 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATCG
715828 ATGCAAACTT
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 144 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (108 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGAGCCAATGCTTCCTT
CCGTTCGATTTGAATCGGAACTACCGATGCTTCCCTCCGTTCG
Found at i:718198 original size:47 final size:46
Alignment explanation
Indices: 718103--718216 Score: 111
Period size: 47 Copynumber: 2.4 Consensus size: 46
718093 ATCCTTACTC
* * * * * *
718103 GATGGTAAAGTCCAATCATCGAATTATTGGTTGATACATCCTTATAG
1 GATGGT-AAGTCCAATCACCAAATTATAGGATAATACATCCTCATAG
* *
718150 GATGGTGAAGTCCAATCACCAAATTATAGGATAATATATCCTCGTAG
1 GATGGT-AAGTCCAATCACCAAATTATAGGATAATACATCCTCATAG
* *
718197 GATAGTAATCTCCAATCACC
1 GATGGTAA-GTCCAATCACC
718217 TAATAATCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 2 0.04
47 53 0.96
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGGTAAGTCCAATCACCAAATTATAGGATAATACATCCTCATAG
Found at i:719711 original size:32 final size:32
Alignment explanation
Indices: 719641--719712 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
719631 TTAGGTTGAT
* *
719641 AGTGTTTTAACTTAAGTGCTTACGTGCTCTTT
1 AGTGTTTTAACTTAAGTGCTTACGTGCACTTC
* **
719673 AGTGTTTTACACTTAGGTGCTTTTGTGCACTTC
1 AGTGTTTTA-ACTTAAGTGCTTACGTGCACTTC
719706 A-TGTTTT
1 AGTGTTTT
719713 GTACACGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 15 0.44
33 19 0.56
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (32 bp):
AGTGTTTTAACTTAAGTGCTTACGTGCACTTC
Found at i:723287 original size:2 final size:2
Alignment explanation
Indices: 723280--723304 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
723270 GATCTAACCC
723280 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
723305 TAATGGCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:724512 original size:12 final size:12
Alignment explanation
Indices: 724495--724555 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
724485 GTCGAGATTT
724495 GGGGAAGAAGAA
1 GGGGAAGAAGAA
*
724507 GGGGAAG-GGAGA
1 GGGGAAGAAGA-A
*
724519 GGGGAAAAAGAA
1 GGGGAAGAAGAA
*
724531 GGGGAAG-GGAGA
1 GGGGAAGAAGA-A
724543 GGGGAAGAAGAA
1 GGGGAAGAAGAA
724555 G
1 G
724556 CTGTTTTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 4 0.10
12 31 0.79
13 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (12 bp):
GGGGAAGAAGAA
Found at i:724523 original size:24 final size:24
Alignment explanation
Indices: 724495--724555 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
724485 GTCGAGATTT
724495 GGGGAAGAAGAAGGGGAAGGGAGA
1 GGGGAAGAAGAAGGGGAAGGGAGA
*
724519 GGGGAAAAAGAAGGGGAAGGGAGA
1 GGGGAAGAAGAAGGGGAAGGGAGA
724543 GGGGAAGAAGAAG
1 GGGGAAGAAGAAG
724556 CTGTTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (24 bp):
GGGGAAGAAGAAGGGGAAGGGAGA
Found at i:724846 original size:21 final size:20
Alignment explanation
Indices: 724760--724917 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
724750 AAATGACCAA
**
724760 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
724779 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
724799 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
724819 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
724840 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
724861 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
724881 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
724902 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
724918 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:724910 original size:20 final size:20
Alignment explanation
Indices: 724885--725117 Score: 326
Period size: 20 Copynumber: 11.6 Consensus size: 20
724875 GATTTTCCAG
* ** *
724885 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
724905 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
724925 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
724945 AACCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
724965 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
724985 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
725005 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
725025 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
725045 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
725065 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
725086 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
725106 AATCGCAACGCG
1 AATCGCAACGCG
725118 ATTTTTAAAG
Statistics
Matches: 191, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
19 1 0.01
20 171 0.90
21 19 0.10
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:725515 original size:14 final size:14
Alignment explanation
Indices: 725496--725552 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
725486 TTTCATTTCG
725496 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
725510 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
725529 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
725543 CGTTGCGATT
1 CGTTGCGATT
725553 TTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:725525 original size:33 final size:33
Alignment explanation
Indices: 725486--725556 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
725476 TTCACTTAGA
725486 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
725519 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
725552 TTTCA
1 TTTCA
725557 AGTTAGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:725534 original size:19 final size:18
Alignment explanation
Indices: 725484--725534 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
725474 ATTTCACTTA
725484 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
*
725502 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
725516 GATTTTCATTTCGCGTTGC
1 GA-TTTCATTTCGCGTTGC
725535 TATTCTCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 10 0.38
16 3 0.12
17 3 0.12
18 2 0.08
19 8 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:725662 original size:21 final size:21
Alignment explanation
Indices: 725636--725712 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
725626 TGCAGAAGAG
725636 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
** **
725657 TCGCAACTCGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
725677 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
725699 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
725713 TCGCAACGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.20
21 28 0.61
22 9 0.20
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:725716 original size:14 final size:14
Alignment explanation
Indices: 725697--725753 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
725687 GAGAAATGAA
725697 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
725711 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
725730 AATCGCAACGAGAG
1 AATCGCAACGAGAG
725744 AATCGCAACG
1 AATCGCAACG
725754 TGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:725727 original size:33 final size:33
Alignment explanation
Indices: 725689--725769 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
725679 TGCAACGAGA
725689 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
725722 GAAATGAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
725755 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
725770 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:725787 original size:19 final size:18
Alignment explanation
Indices: 725765--725820 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
725755 GAAACCAAAA
725765 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
725784 TCGCGTTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
725800 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
725817 TCGC
1 TCGC
725821 GTCGATTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
14 6 0.20
16 7 0.23
17 7 0.23
19 10 0.33
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.45
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:725830 original size:27 final size:31
Alignment explanation
Indices: 725770--725836 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
725760 CAAAATCGCA
725770 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGA-T-TCTCG
725803 TTGCGATTTTCATTTCGCG-T-CGA-T-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCG
725830 TTGCGAT
1 TTGCGAT
725837 AGTTGCGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 10 0.29
28 1 0.03
31 3 0.09
32 1 0.03
33 19 0.56
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (31 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCG
Found at i:727838 original size:19 final size:19
Alignment explanation
Indices: 727798--727926 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
727788 TAGTTTACTT
* *
727798 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
727818 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
727837 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
727856 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
727870 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
727889 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
727903 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
727922 TCGCA
1 TCGCA
727927 TTGCAATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.22
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 47 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:727873 original size:14 final size:14
Alignment explanation
Indices: 727852--727910 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
727842 ACGCGAAATG
727852 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
727866 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
727885 AAAATCGCAACGAC
1 AAAATCGCAACGAC
727899 AAAATCGCAACG
1 AAAATCGCAACG
727911 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:727877 original size:33 final size:33
Alignment explanation
Indices: 727832--727926 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
727822 AACGCGAAAC
**
727832 CAAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
*
727865 CAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
727898 CAAAATCGCAACGCGAAACCAAAATCGCA
1 CAAAATCGCAACGCGAAACCAAAATCGCA
727927 TTGCAATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.07
Consensus pattern (33 bp):
CAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:727924 original size:52 final size:52
Alignment explanation
Indices: 727798--727926 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
727788 TAGTTTACTT
** *
727798 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* * *
727850 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
*
727903 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
727927 TTGCAATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 40 0.65
53 5 0.08
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:727944 original size:19 final size:19
Alignment explanation
Indices: 727922--728094 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
727912 GAAACCAAAA
* *
727922 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
727941 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
727955 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
727974 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
727990 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
728007 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
728026 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
728045 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
728064 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
728084 TCGTGTTGCGA
1 TCGCGTTGCGA
728095 AAGTAAACTA
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
14 17 0.14
16 8 0.06
17 8 0.06
19 80 0.64
20 12 0.10
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:727963 original size:14 final size:14
Alignment explanation
Indices: 727944--728000 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
727934 TTTCATTTCG
727944 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
727958 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
727975 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
727991 CGTTGCGATT
1 CGTTGCGATT
728001 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:728052 original size:38 final size:38
Alignment explanation
Indices: 727922--728094 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
727912 GAAACCAAAA
* *
727922 TCGCATTGCAATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
727957 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
727990 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
728026 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
728064 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
728095 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 51 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.39
39 11 0.10
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:728526 original size:21 final size:21
Alignment explanation
Indices: 728502--728542 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
728492 GTCATCCCTC
* *
728502 AAGAGTCCACTCCTATCATTG
1 AAGAGGCCACCCCTATCATTG
*
728523 AAGAGGCCCCCCCTATCATT
1 AAGAGGCCACCCCTATCATT
728543 CCTCGAGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGAGGCCACCCCTATCATTG
Found at i:730027 original size:14 final size:14
Alignment explanation
Indices: 730008--730043 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
729998 ATTGTTTAAT
730008 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
730022 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
730036 TGATTTGT
1 TGATTTGT
730044 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:730167 original size:20 final size:19
Alignment explanation
Indices: 730150--730248 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
730140 AAAAATGACT
730150 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
730170 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
730189 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
730203 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
730222 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
730242 ATCGCAA
1 ATCGCAA
730249 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:730280 original size:53 final size:53
Alignment explanation
Indices: 730150--730267 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
730140 AAAAATGACT
730150 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
730203 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
730256 ATCGCAATGCGA
1 ATCGCAATGCGA
730268 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:730339 original size:72 final size:70
Alignment explanation
Indices: 730257--730466 Score: 253
Period size: 72 Copynumber: 2.9 Consensus size: 70
730247 AACGAGAGAA
* * *
730257 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCA-TTGCAATTCTCTCGTTGCGA
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCG-ATTTGC-ATT-TCGCATTGCGA
730321 TTTTCATT
63 TTTTCATT
* * *
730329 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCCGATTTGCATTTCGCATTGCGA
730393 TTTTCATT
63 TTTTCATT
** *
730401 TCGCATTGCGATTTTCATTTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCA-TTTCGCATTGCGATTTTCAT-TTCCGATTTGCATTTCGCATTGCGAT
730466 T
64 T
730467 CTCTCGTTGC
Statistics
Matches: 123, Mismatches: 8, Indels: 14
0.85 0.06 0.10
Matches are distributed among these distances:
70 2 0.02
71 1 0.01
72 91 0.74
73 19 0.15
74 8 0.07
75 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (70 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGATTTGCATTTCGCATTGCGATTT
TCATT
Found at i:730488 original size:33 final size:33
Alignment explanation
Indices: 730334--730480 Score: 188
Period size: 33 Copynumber: 4.2 Consensus size: 33
730324 TCATTTCGCA
730334 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
730368 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
730404 CATTGCGATTTTCATTTTCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCA-TTTCGCATTGCGATTCTC-TCG
*
730440 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
730473 TTGCGATT
1 TTGCGATT
730481 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 35 0.35
34 26 0.26
35 3 0.03
36 6 0.06
37 3 0.03
38 12 0.12
39 13 0.13
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:730495 original size:53 final size:53
Alignment explanation
Indices: 730263--730488 Score: 284
Period size: 53 Copynumber: 4.3 Consensus size: 53
730253 AGAATCGCAA
* *
730263 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCAATTCTCTCGT
1 TGCGATTGTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
730316 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTGTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* *
730369 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATT
1 TGCGATTGTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTC-GT
* * *
730420 TTCGCATTG-CGATTT-TCATGTTGGGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCG-ATTGTC-ATTTCGCA--TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
730474 TGCGATTGTAATTTC
1 TGCGATTGTCATTTC
730489 CGTGTTGCGA
Statistics
Matches: 155, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
50 2 0.01
51 8 0.05
52 19 0.12
53 119 0.77
54 5 0.03
55 2 0.01
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTGTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:732780 original size:12 final size:12
Alignment explanation
Indices: 732763--732787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
732753 TCTTCAGGGA
732763 CTTTTTCTTCTT
1 CTTTTTCTTCTT
732775 CTTTTTCTTCTT
1 CTTTTTCTTCTT
732787 C
1 C
732788 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:732996 original size:24 final size:24
Alignment explanation
Indices: 732962--733008 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
732952 CTGAAACATC
732962 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
732986 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
733009 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:733728 original size:20 final size:20
Alignment explanation
Indices: 733700--733928 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
733690 AAATTTCAGT
* * *
733700 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
733720 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
733740 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
733760 GTTGCGATTTACAGATTATC
1 GTTGCGATTTACGGATTCGC
*
733780 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
733800 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
733820 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
733840 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
733860 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
733880 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
733900 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
733920 GTTGCGATT
1 GTTGCGATT
733929 ATGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:735725 original size:31 final size:30
Alignment explanation
Indices: 735690--735783 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 30
735680 AATATTCAAA
735690 AGTTTAAGGACTAATTTAGAATGATAGTCAT
1 AGTTTAAGGACTAATTTA-AATGATAGTCAT
** * * *
735721 AGTTTAAGGA-TAAAATAAAT-AT-TTAAA
1 AGTTTAAGGACTAATTTAAATGATAGTCAT
*
735748 AGTTTAGGGACTAATTTAAAATGATAGTCAT
1 AGTTTAAGGACTAATTT-AAATGATAGTCAT
735779 AGTTT
1 AGTTT
735784 GGGAACATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
27 11 0.23
28 6 0.12
29 7 0.15
30 7 0.15
31 17 0.35
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (30 bp):
AGTTTAAGGACTAATTTAAATGATAGTCAT
Found at i:735759 original size:58 final size:61
Alignment explanation
Indices: 735625--735784 Score: 193
Period size: 58 Copynumber: 2.7 Consensus size: 61
735615 TGGAATGTTC
* * * * ** *
735625 CAAAATTTTGGGGACCAATTTAGAATGA-AGGTAATAGTTTGGGGGATGAAATTAAAATATT
1 CAAAAGTTTAGGGACTAATTTAGAATGATA-GTCATAGTTTGAAGGATGAAAATAAAATATT
*
735686 CAAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGTTT-AAGGAT-AAAAT-AAATATT
1 CAAAAGTTTAGGGACTAATTTAGAATGATAGTCATAGTTTGAAGGATGAAAATAAAATATT
* *
735744 TAAAAGTTTAGGGACTAATTTAAAATGATAGTCATAGTTTG
1 CAAAAGTTTAGGGACTAATTTAGAATGATAGTCATAGTTTG
735785 GGAACATATG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 44 0.51
59 4 0.05
60 4 0.05
61 33 0.38
62 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (61 bp):
CAAAAGTTTAGGGACTAATTTAGAATGATAGTCATAGTTTGAAGGATGAAAATAAAATATT
Found at i:738515 original size:5 final size:5
Alignment explanation
Indices: 738507--738561 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
738497 TCCCATCCTT
* *
738507 ATTTC ATTTC ATTTT ATTTC ATTTC ATTTC ATTTC -TTATC TTTATC ATTTC
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATT-TC ATT-TC ATTTC
738558 ATTT
1 ATTT
738562 AATCTTTCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
4 2 0.04
5 36 0.80
6 7 0.16
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (5 bp):
ATTTC
Found at i:738841 original size:17 final size:17
Alignment explanation
Indices: 738813--738868 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
738803 AATTGGAGTG
738813 CAAAAAGAAAAGAAAAGA
1 CAAAAAGAAAAGAAAA-A
*
738831 CAAAAAG-AAAGAAAAT
1 CAAAAAGAAAAGAAAAA
738847 CATAAAAGAAAAGAAAAA
1 CA-AAAAGAAAAGAAAAA
738865 -AAAA
1 CAAAA
738869 TCAAAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.15
17 14 0.41
18 15 0.44
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.04
Consensus pattern (17 bp):
CAAAAAGAAAAGAAAAA
Found at i:738858 original size:22 final size:22
Alignment explanation
Indices: 738833--738882 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
738823 AGAAAAGACA
*
738833 AAAAG-AAAGAAAATCATAAAAG
1 AAAAGAAAAAAAAATCA-AAAAG
738855 AAAAGAAAAAAAAATCAAAAAG
1 AAAAGAAAAAAAAATCAAAAAG
738877 AGAAAG
1 A-AAAG
738883 TAAGCCAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.76, C:0.04, G:0.14, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAAAAAATCAAAAAG
Found at i:749555 original size:11 final size:11
Alignment explanation
Indices: 749539--749563 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
749529 TTTATTTTCT
749539 TTCACTTGCAC
1 TTCACTTGCAC
749550 TTCACTTGCAC
1 TTCACTTGCAC
749561 TTC
1 TTC
749564 TTTTTAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCACTTGCAC
Found at i:755723 original size:26 final size:25
Alignment explanation
Indices: 755694--755743 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
755684 AAGTTAATGT
*
755694 TAAGTTTCATTACTAGAATTATGTGA
1 TAAGTTT-AGTACTAGAATTATGTGA
* *
755720 TAAGTTTAGTATTGGAATTATGTG
1 TAAGTTTAGTACTAGAATTATGTG
755744 TTCATTTCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (25 bp):
TAAGTTTAGTACTAGAATTATGTGA
Found at i:755728 original size:76 final size:76
Alignment explanation
Indices: 755643--756203 Score: 482
Period size: 76 Copynumber: 7.5 Consensus size: 76
755633 TGGCAAAATC
* * * *
755643 ATAATTTTAGTGTCGGAATTATGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTACT
1 ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTGCT
*
755708 AGAATTATGTG
66 GGAATTATGTG
* * * ** *
755719 ATAAGTTTAGTATTGGAATTATGTGTTCATTTCACTAGTGTAGGCCAATGTTTAGTTTCATTGCT
1 ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTGCT
*
755784 GGAATTATGTC
66 GGAATTATGTG
* * * * * * *
755795 ATACA-TATT-GTGTTTGAATTACATGTTCATTTCACTGGTGTAAGTTAACGCTAAGTTTTACTG
1 ATA-AGT-TTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTG
*
755858 ATGGAATTATGTG
64 CTGGAATTATGTG
* * * * * * *
755871 ATAAGTTTAGTTTTGGAATTAC-TTTTCATAT--C-A-T-T-AG-TAATATTCAGTTTCGTTGTT
1 ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTGCT
*
755928 GAAATTATGTG
66 GGAATTATGTG
* * * * * *
755939 ATAAGTTTAGTGTTGGAATTACGTGTTTATTTCA-TTGATGTATGTCAATGTTAGGTTTCACTGC
1 ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAG-TGTAAGTTAATGTTAAGTTTCATTGC
*
756003 TTGAATTATGTG
65 TGGAATTATGTG
* * * ** * *
756015 ATAAGTTTAGTGTTGGACTTACGTGTTAATGTTCGCCGGTGTAA-AT-ATGTGTAAAGTTTCACT
1 ATAAGTTTAGTGTTGGAATTACGTGTTCAT-TTCACTAGTGTAAGTTAATGT-T-AAGTTTCATT
*
756078 GTTGGAATTATGTG
63 GCTGGAATTATGTG
* * * * * * *
756092 ATAAGTTTAGTGCTGAAATTACGTGTTCATTCCACTGGTGTAAGTCAATGTTATGTTTCACTGCT
1 ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTGCT
*
756157 AGAATTATGTG
66 GGAATTATGTG
* * *
756168 ATAAGTTCAGTGTTGGAATTACATGTTAATATTCAC
1 ATAAGTTTAGTGTTGGAATTACGTGTTCAT-TTCAC
756204 CGGTGTAAAT
Statistics
Matches: 382, Mismatches: 83, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
68 43 0.11
69 8 0.02
70 1 0.00
71 1 0.00
73 2 0.01
74 1 0.00
75 15 0.04
76 244 0.64
77 62 0.16
78 5 0.01
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (76 bp):
ATAAGTTTAGTGTTGGAATTACGTGTTCATTTCACTAGTGTAAGTTAATGTTAAGTTTCATTGCT
GGAATTATGTG
Found at i:756195 original size:153 final size:153
Alignment explanation
Indices: 755924--756216 Score: 451
Period size: 153 Copynumber: 1.9 Consensus size: 153
755914 TCAGTTTCGT
* * * * * *
755924 TGTTGAAATTATGTGATAAGTTTAGTGTTGGAATTACGTGTTTATTTCATTGATGTATGTCAATG
1 TGTTGAAATTATGTGATAAGTTTAGTGCTGAAATTACGTGTTCATTCCACTGATGTAAGTCAATG
* * * * * *
755989 TTAGGTTTCACTGCTTGAATTATGTGATAAGTTTAGTGTTGGACTTACGTGTTAATGTTCGCCGG
66 TTAGGTTTCACTGCTAGAATTATGTGATAAGTTCAGTGTTGGAATTACATGTTAATATTCACCGG
756054 TGTAAATATGTGTAAAGTTTCAC
131 TGTAAATATGTGTAAAGTTTCAC
* *
756077 TGTTGGAATTATGTGATAAGTTTAGTGCTGAAATTACGTGTTCATTCCACTGGTGTAAGTCAATG
1 TGTTGAAATTATGTGATAAGTTTAGTGCTGAAATTACGTGTTCATTCCACTGATGTAAGTCAATG
*
756142 TTATGTTTCACTGCTAGAATTATGTGATAAGTTCAGTGTTGGAATTACATGTTAATATTCACCGG
66 TTAGGTTTCACTGCTAGAATTATGTGATAAGTTCAGTGTTGGAATTACATGTTAATATTCACCGG
756207 TGTAAATATG
131 TGTAAATATG
756217 GGTTATGACA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (153 bp):
TGTTGAAATTATGTGATAAGTTTAGTGCTGAAATTACGTGTTCATTCCACTGATGTAAGTCAATG
TTAGGTTTCACTGCTAGAATTATGTGATAAGTTCAGTGTTGGAATTACATGTTAATATTCACCGG
TGTAAATATGTGTAAAGTTTCAC
Found at i:763441 original size:18 final size:18
Alignment explanation
Indices: 763401--763442 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
763391 TATGGTTGCG
*
763401 TTCC-CAACATTTTGAAT
1 TTCCTCAACATTCTGAAT
* *
763418 TGCCTCAACATTCTGATT
1 TTCCTCAACATTCTGAAT
763436 TTCCTCA
1 TTCCTCA
763443 TGATAAATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (18 bp):
TTCCTCAACATTCTGAAT
Found at i:765412 original size:20 final size:20
Alignment explanation
Indices: 765383--765421 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
765373 TTTTCACCAC
*
765383 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
765403 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
765422 TATTGACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:765815 original size:19 final size:19
Alignment explanation
Indices: 765793--765832 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
765783 GTTATTTATT
* *
765793 AACCAAAATGTTAACCCTA
1 AACCAAAATATTAACACTA
*
765812 AACCTAAATATTAACACTA
1 AACCAAAATATTAACACTA
765831 AA
1 AA
765833 ATCATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.23
Consensus pattern (19 bp):
AACCAAAATATTAACACTA
Found at i:765888 original size:19 final size:19
Alignment explanation
Indices: 765853--765907 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
765843 AACCTAAATA
*
765853 TCAAACACT-ATCTTTAATC
1 TCAAATACTAATC-TTAATC
* *
765872 TCAAATACTAATGTTAATG
1 TCAAATACTAATCTTAATC
*
765891 TCAAATATTAATCTTAA
1 TCAAATACTAATCTTAA
765908 AATTATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (19 bp):
TCAAATACTAATCTTAATC
Found at i:768042 original size:84 final size:84
Alignment explanation
Indices: 767729--768093 Score: 315
Period size: 84 Copynumber: 4.3 Consensus size: 84
767719 GTCAGCACTC
* * * * *
767729 ACTCTTCGCCTGAACTTGAGTCTCCTCGGAGTAAACTCCTTGACT-TCACCGTTCTCATTATCAC
1 ACTCTTTGCCTGAACTTGAGTCTCCTTGGCGTAAACTCCTTGACTCT-ACTGTTCTGATTATCAC
* *
767793 CATTTCGATTGTCAA-AGATC
65 CTTTTCGATTGTCAACA-ATT
* ** * * * * *
767813 ACTCTTTGCCTGAACTTGAATCTATTTGGTGTAAACTCCTGGACTCTATTGTTTTGGTTATCACC
1 ACTCTTTGCCTGAACTTGAGTCTCCTTGGCGTAAACTCCTTGACTCTACTGTTCTGATTATCACC
** * *
767878 TTTTCGATCATCAACGACT
66 TTTTCGATTGTCAACAATT
* * ** * * * *
767897 ACTCTTTGCCTGAGCTTCACCCTCTTTGGCGTAAACTCTTTGACTCTACTGTTCCGATTATCGCC
1 ACTCTTTGCCTGAACTTGAGTCTCCTTGGCGTAAACTCCTTGACTCTACTGTTCTGATTATCACC
*
767962 TTTTCGATTGTCAATAATT
66 TTTTCGATTGTCAACAATT
* * * * * * *
767981 ACCCTTTGCCTGAACTTGAGTCTCCTTGGCGTGAACTCCTCGAATCTACTGTTTTGGTTATCTCC
1 ACTCTTTGCCTGAACTTGAGTCTCCTTGGCGTAAACTCCTTGACTCTACTGTTCTGATTATCACC
* *
768046 ATTTAT-G-TTGTCAGCATTT
66 -TTT-TCGATTGTCAACAATT
* *
768065 ACTCTTTGCCTCAATTTGAGTCTCCTTGG
1 ACTCTTTGCCTGAACTTGAGTCTCCTTGG
768094 AGTACAATCC
Statistics
Matches: 221, Mismatches: 56, Indels: 8
0.78 0.20 0.03
Matches are distributed among these distances:
84 215 0.97
85 5 0.02
86 1 0.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (84 bp):
ACTCTTTGCCTGAACTTGAGTCTCCTTGGCGTAAACTCCTTGACTCTACTGTTCTGATTATCACC
TTTTCGATTGTCAACAATT
Found at i:768070 original size:168 final size:166
Alignment explanation
Indices: 767653--768075 Score: 390
Period size: 168 Copynumber: 2.5 Consensus size: 166
767643 TTATTTTTTT
* * * ** *
767653 CCTGAACTTGAGTGTCCATGTTG-GAAGCTCCTCGGTTCTACTCTTTTGGTTATCAT-CATTTCT
1 CCTGAACTTGAGTCTCCTTGGTGTGAA-CTCCTCGAATCTACTGTTTTGGTTATC-TCCATTT-T
* * * **
767716 GTTGTCAGCACTCACTCTTCGCCTGAACTTGAGTCTCCTCGGAGTAAACTCCTTGACTTCACCGT
63 GTTGTCAGCA-TTACTCTTTGCCTGAACTTCACCCTCCTCGGAGTAAACTCCTTGACTTCACCGT
*
767781 TCTCATTATCACCATTTCGATTGTCAAAGATCACTCTTTG
127 TCTCATTATCACCATTTCGATTGTCAAAGATCACCCTTTG
* ** * * * * *
767821 CCTGAACTTGAATCTATTTGGTGTAAACTCCTGGACTCTATTGTTTTGGTTATCACC-TTTTCGA
1 CCTGAACTTGAGTCTCCTTGGTGTGAACTCCTCGAATCTACTGTTTTGGTTATCTCCATTTT-G-
** * * * * * * * *
767885 TCATCAACGACTACTCTTTGCCTGAGCTTCACCCTCTTTGGCGTAAACTCTTTGAC-TCTACTGT
64 TTGTCAGC-ATTACTCTTTGCCTGAACTTCACCCTCCTCGGAGTAAACTCCTTGACTTC-ACCGT
* * *
767949 TC-CGATTATCGCCTTTTCGATTGTCAATA-ATTACCCTTTG
127 TCTC-ATTATCACCATTTCGATTGTCAA-AGATCACCCTTTG
*
767989 CCTGAACTTGAGTCTCCTTGGCGTGAACTCCTCGAATCTACTGTTTTGGTTATCTCCATTTATGT
1 CCTGAACTTGAGTCTCCTTGGTGTGAACTCCTCGAATCTACTGTTTTGGTTATCTCCATTT-TGT
768054 TGTCAGCATTTACTCTTTGCCT
65 TGTCAGCA-TTACTCTTTGCCT
768076 CAATTTGAGT
Statistics
Matches: 199, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
166 1 0.01
167 8 0.04
168 181 0.91
169 8 0.04
170 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (166 bp):
CCTGAACTTGAGTCTCCTTGGTGTGAACTCCTCGAATCTACTGTTTTGGTTATCTCCATTTTGTT
GTCAGCATTACTCTTTGCCTGAACTTCACCCTCCTCGGAGTAAACTCCTTGACTTCACCGTTCTC
ATTATCACCATTTCGATTGTCAAAGATCACCCTTTG
Found at i:771576 original size:3 final size:3
Alignment explanation
Indices: 771568--771594 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
771558 ATAGAAATCG
771568 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
771595 CGAAAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:771949 original size:38 final size:37
Alignment explanation
Indices: 771907--771991 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
771897 TTAATAAATT
*** *
771907 CAACTAAAAAAAGCTCAAAAACATAGTGAAAAATAGTA
1 CAACTAAAAAAAGAAAAAAAACATAGTG-AAAAGAGTA
*
771945 CAACT-AAAAAAGAAAAAAAACATAGTGATAAGAGTA
1 CAACTAAAAAAAGAAAAAAAACATAGTGAAAAGAGTA
771981 CACACTAAAAA
1 CA-ACTAAAAA
771992 CGAGAAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 9 0.22
37 22 0.55
38 9 0.22
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.14
Consensus pattern (37 bp):
CAACTAAAAAAAGAAAAAAAACATAGTGAAAAGAGTA
Found at i:777005 original size:2 final size:2
Alignment explanation
Indices: 776998--777040 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
776988 TCAATCTACA
776998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
777040 A
1 A
777041 ATTTATGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:777217 original size:13 final size:13
Alignment explanation
Indices: 777201--777301 Score: 130
Period size: 13 Copynumber: 7.8 Consensus size: 13
777191 GTGCAATGAG
777201 CGTCATAAATGCA
1 CGTCATAAATGCA
777214 CGTCATAAATGCA
1 CGTCATAAATGCA
777227 CGTCATAAATGCA
1 CGTCATAAATGCA
777240 CGTCATAAATGCA
1 CGTCATAAATGCA
***
777253 CGTCATAAATTTG
1 CGTCATAAATGCA
* *
777266 CGTTATAAATGCG
1 CGTCATAAATGCA
* *
777279 TGTCATAAATGCG
1 CGTCATAAATGCA
*
777292 CATCATAAAT
1 CGTCATAAAT
777302 TTATGACTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 78 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (13 bp):
CGTCATAAATGCA
Found at i:779715 original size:82 final size:81
Alignment explanation
Indices: 779463--779726 Score: 298
Period size: 82 Copynumber: 3.2 Consensus size: 81
779453 AACCTTGTAG
* * * *
779463 AGAATCTAAACTATT-ATCTTCCTTTGCTTTTCATTGACATATAACATCAAATCAAATCAAA-TA
1 AGAATCTAAACTATTCA-CATCATTTGCTTTTCATTGACATATCACATCAAATCAGAT-AAACTA
* ** * * *
779526 AATTAAAATAATTATTTAT
64 AAATAATTTGA-GAATTAT
* * *
779545 AGAATCTAAACTATTCACATCATTTACTTTTCATTGACATGTCACATCAAATCAGATAAACTGAA
1 AGAATCTAAACTATTCACATCATTTGCTTTTCATTGACATATCACATCAAATCAGATAAACTAAA
*
779610 ATAATTTAGAGAATTAG
66 ATAATTT-GAGAATTAT
* *
779627 ATAATCTAAACTATTCACATCATTTGCTTTTCGTTGACATATCACATCAAATCAGATAAACTAAA
1 AGAATCTAAACTATTCACATCATTTGCTTTTCATTGACATATCACATCAAATCAGATAAACTAAA
*
779692 ATAATTTCGAGAATCAT
66 ATAATTT-GAGAATTAT
**
779709 AGAATCTTCACTATTCAC
1 AGAATCTAAACTATTCAC
779727 GTCCTTATCT
Statistics
Matches: 154, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
81 3 0.02
82 149 0.97
83 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (81 bp):
AGAATCTAAACTATTCACATCATTTGCTTTTCATTGACATATCACATCAAATCAGATAAACTAAA
ATAATTTGAGAATTAT
Found at i:780459 original size:6 final size:6
Alignment explanation
Indices: 780448--780514 Score: 98
Period size: 6 Copynumber: 11.2 Consensus size: 6
780438 TGTTATTTTC
* *
780448 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATATG AATTTC
1 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG
* *
780496 AATTTC AATTTC AATTTG A
1 AATTTG AATTTG AATTTG A
780515 GCTCTAGTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (6 bp):
AATTTG
Found at i:781258 original size:21 final size:20
Alignment explanation
Indices: 781219--781256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
781209 ATTTCTTCTT
*
781219 TTAATTTTAATAATTTTTAA
1 TTAAATTTAATAATTTTTAA
*
781239 TTAAATTTAATTATTTTT
1 TTAAATTTAATAATTTTT
781257 TACTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAAATTTAATAATTTTTAA
Found at i:782157 original size:36 final size:36
Alignment explanation
Indices: 782110--782184 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
782100 AGATGAAATG
782110 TTGATGAAGATGATGATGGTGATTTATTGGCATATT
1 TTGATGAAGATGATGATGGTGATTTATTGGCATATT
782146 TTGATGAAGATGATGATGGTGATTTATTGGCATATT
1 TTGATGAAGATGATGATGGTGATTTATTGGCATATT
782182 TTG
1 TTG
782185 TCTTCACTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.27, C:0.03, G:0.28, T:0.43
Consensus pattern (36 bp):
TTGATGAAGATGATGATGGTGATTTATTGGCATATT
Found at i:783647 original size:21 final size:21
Alignment explanation
Indices: 783601--783648 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
783591 AAATTTAAGA
*
783601 TAAAATAAATAATAATATTAT
1 TAAAATAAATAATAATAATAT
* * *
783622 AAAAATAATTAATATTAATAT
1 TAAAATAAATAATAATAATAT
783643 TAAAAT
1 TAAAAT
783649 TTTTTCAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATAAATAATAATAATAT
Found at i:786174 original size:81 final size:82
Alignment explanation
Indices: 786033--786186 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 82
786023 AAGTCACATA
* * ** **
786033 AATAATATTATTAATGATTTTTTAAAGTTTAATAAAATATCATATCATCGGTTTTAATAAGATTT
1 AATAATAGTATTAATGA-TTTTTAAAGTGTAATAAAATATCATATCATCAATTTTAATAAGATAG
786098 AGTGAAAATTAGAGCCAC
65 AGTGAAAATTAGAGCCAC
* * * * *
786116 AATAATAGTATTACTGA-TTTTAAAGTGTAATAACATTTTATATCATCAATTTTTATAAGATAGA
1 AATAATAGTATTAATGATTTTTAAAGTGTAATAAAATATCATATCATCAATTTTAATAAGATAGA
786180 GTGAAAA
66 GTGAAAA
786187 ATATTGTCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 45 0.75
83 15 0.25
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (82 bp):
AATAATAGTATTAATGATTTTTAAAGTGTAATAAAATATCATATCATCAATTTTAATAAGATAGA
GTGAAAATTAGAGCCAC
Found at i:787835 original size:2 final size:2
Alignment explanation
Indices: 787828--787891 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
787818 ATCATTCTTT
787828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
787870 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
787892 ATTTTAAATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:797892 original size:19 final size:19
Alignment explanation
Indices: 797868--797914 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
797858 GTGGAGAAAG
797868 TTTTAAAATTCTTTTTAAA
1 TTTTAAAATTCTTTTTAAA
797887 TTTTAAAATTCTTTTTAAA
1 TTTTAAAATTCTTTTTAAA
797906 TTTTAAAAT
1 TTTTAAAAT
797915 AAGTTGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTCTTTTTAAA
Found at i:812404 original size:14 final size:14
Alignment explanation
Indices: 812385--812413 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
812375 CAATAACAAC
812385 TCTTTAAGTCGTGA
1 TCTTTAAGTCGTGA
812399 TCTTTAAGTCGTGA
1 TCTTTAAGTCGTGA
812413 T
1 T
812414 ACATCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (14 bp):
TCTTTAAGTCGTGA
Found at i:813078 original size:2 final size:2
Alignment explanation
Indices: 813067--813325 Score: 147
Period size: 2 Copynumber: 136.5 Consensus size: 2
813057 ACTGAAAATG
* *
813067 AT AT -T AT AT AT A- AT AT AT -T AT A- AA AT AT A- AT AC AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
813105 AT AT A- AT AT AT A- AT A- ACT AT AT A- AT AT AT AA ACT AT A- AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT
*
813144 AT AT ACT AT AT A- AT AT A- AT AT A- AT ACT AT AT A- AT AT AA AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
813184 AA AT AT AT ACT AT AT A- AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
813225 AT -T AT A- AT AT AT ACT AT AT A- AT AT CAT AC AT AT A- AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
813265 AT -T AT AT AT A- AT AGT AA AT ACT AT AT AGT AA AT A- AT AT A-
1 AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT AT AT
*
813304 AT AT CT -T ACT AT AT AT A- AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT A
813326 ATACCATAAT
Statistics
Matches: 203, Mismatches: 16, Indels: 76
0.69 0.05 0.26
Matches are distributed among these distances:
1 26 0.13
2 155 0.76
3 22 0.11
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:813082 original size:5 final size:5
Alignment explanation
Indices: 813074--813347 Score: 110
Period size: 5 Copynumber: 56.2 Consensus size: 5
813064 ATGATATTAT
* *
813074 ATATA ATATA TTATAAA ATATA ATA-C ATACT- ATATA ATAT- ATAATA
1 ATATA ATATA --ATATA ATATA ATATA ATA-TA ATATA ATATA AT-ATA
*
813120 A-CTA -TATA ATAT- ATA-A ACTATA ATAT- ATACT- ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA A-TATA ATATA ATA-TA ATATA ATATA ATATA
*
813166 ATACT- ATATA ATATA A-ATA A-AT- ATATA CTAT- ATA-A TATATA ATAT-
1 ATA-TA ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA
* * *
813211 ATAT- ATATA TATATA TTATA ATAT- ATACT- ATATA ATATC ATA-C ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATA-TA ATATA ATATA ATATA ATATA
*
813259 ATAT- ATATTA TATATA ATAGTA A-ATA CTAT- ATAGTA A-ATA ATATA
1 ATATA ATA-TA -ATATA ATA-TA ATATA ATATA ATA-TA ATATA ATATA
* * ** *
813304 ATATC TTACTA TATATA ATATA ATACC ATAATA CTATA ATATA A
1 ATATA ATA-TA -ATATA ATATA ATATA AT-ATA ATATA ATATA A
813348 AACACATTAC
Statistics
Matches: 209, Mismatches: 23, Indels: 74
0.68 0.08 0.24
Matches are distributed among these distances:
3 1 0.00
4 55 0.26
5 123 0.59
6 21 0.10
7 9 0.04
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:813082 original size:7 final size:7
Alignment explanation
Indices: 813067--813346 Score: 176
Period size: 7 Copynumber: 39.4 Consensus size: 7
813057 ACTGAAAATG
*
813067 ATATTAT
1 ATATAAT
813074 ATATAAT
1 ATATAAT
813081 ATAT--T
1 ATATAAT
813086 ATA-AA-
1 ATATAAT
813091 ATATAAT
1 ATATAAT
* *
813098 ACATACT
1 ATATAAT
813105 ATATAAT
1 ATATAAT
813112 ATAT-A-
1 ATATAAT
*
813117 ATA-ACT
1 ATATAAT
813123 ATATAAT
1 ATATAAT
813130 ATATAA-
1 ATATAAT
813136 ACTATAAT
1 A-TATAAT
*
813144 ATATACT
1 ATATAAT
813151 ATAT-A-
1 ATATAAT
813156 ATATAAT
1 ATATAAT
*
813163 ATAATACT
1 AT-ATAAT
813171 ATATAAT
1 ATATAAT
813178 ATAAATAAAT
1 AT--AT-AAT
*
813188 ATATACT
1 ATATAAT
813195 ATATAAT
1 ATATAAT
813202 ATATAAT
1 ATATAAT
813209 ATATATAT
1 ATATA-AT
813217 ATATATAT
1 ATATA-AT
813225 ATTATAAT
1 A-TATAAT
*
813233 ATATACT
1 ATATAAT
813240 ATATAAT
1 ATATAAT
813247 ATCATACAT
1 AT-ATA-AT
813256 ATA-ATAT
1 ATATA-AT
*
813263 ATATTAT
1 ATATAAT
813270 ATATAAT
1 ATATAAT
813277 AGTA-AAT
1 A-TATAAT
813284 ACTAT-AT
1 A-TATAAT
813291 AGTA-AAT
1 A-TATAAT
813298 AATATAAT
1 -ATATAAT
* *
813306 ATCTTACT
1 AT-ATAAT
813314 ATAT-AT
1 ATATAAT
813320 AATATAAT
1 -ATATAAT
*
813328 ACCATAAT
1 A-TATAAT
813336 ACTATAAT
1 A-TATAAT
813344 ATA
1 ATA
813347 AAACACATTA
Statistics
Matches: 218, Mismatches: 26, Indels: 58
0.72 0.09 0.19
Matches are distributed among these distances:
5 14 0.06
6 9 0.04
7 127 0.58
8 53 0.24
9 10 0.05
10 5 0.02
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:814444 original size:27 final size:27
Alignment explanation
Indices: 814413--814465 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
814403 CACAATGATA
814413 TTTCTTCAAGGAAAATAAATCATTTTC
1 TTTCTTCAAGGAAAATAAATCATTTTC
814440 TTTCTTCAAGGAAAATAAATCATTTT
1 TTTCTTCAAGGAAAATAAATCATTTT
814466 TATTTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTCTTCAAGGAAAATAAATCATTTTC
Found at i:818424 original size:2 final size:2
Alignment explanation
Indices: 818417--818446 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
818407 GTATAAACAA
818417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
818447 TAATGCATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:825980 original size:80 final size:79
Alignment explanation
Indices: 825890--826043 Score: 256
Period size: 80 Copynumber: 1.9 Consensus size: 79
825880 GTATTTTATT
*
825890 TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTTTTTTATTGAT-GATAATGCAC
1 TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTA-TG-TCGATAATGCAC
825954 CCACATGCATTTTAGC
64 CCACATGCATTTTAGC
*
825970 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
*
826035 ATATGCATT
66 ACATGCATT
826044 ATTTTTTCAT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
78 1 0.01
79 22 0.31
80 47 0.67
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
ACATGCATTTTAGC
Found at i:826028 original size:34 final size:35
Alignment explanation
Indices: 825980--826284 Score: 217
Period size: 34 Copynumber: 8.0 Consensus size: 35
825970 TATGGCATCC
825980 TTTCATGCCAATAATGCACCCATATGCATTATTCT
1 TTTCATGCCAATAATGCACCCATATGCATTATTCT
* *
826015 TTT-ATGTCGATAATGCACCCATATGCATTATT-T
1 TTTCATGCCAATAATGCACCCATATGCATTATTCT
*
826048 TTTCAT-CCTAATAATGCACCTATATGCATTTCAGCTATGGCAT
1 TTTCATGCC-AATAATGCACCCATATGCA-TT-A--T-T--C-T
826091 CCTTTCATGCCAATAATGCACCCATATGCATTATTCT
1 --TTTCATGCCAATAATGCACCCATATGCATTATTCT
*
826128 TTT-ATGCCGATAATGCACCCATATGCATTTTAGCTATGGCAT
1 TTTCATGCCAATAATGCACCCATATGCA--TTA--T-T--C-T
*
826170 CATTTCATGCCAATAATACACCCATATGCATTATTCT
1 --TTTCATGCCAATAATGCACCCATATGCATTATTCT
***
826207 TTT-ATGTTGATAATGCACCCATATGCATTTCAGCTATGGCAT
1 TTTCATGCCAATAATGCACCCATATGCA-TT-A--T-T--C-T
826249 CCTTTCATGCCAATAATGCACCCATATGCA-TATTCT
1 --TTTCATGCCAATAATGCACCCATATGCATTATTCT
826285 ATTATTCATT
Statistics
Matches: 218, Mismatches: 16, Indels: 71
0.71 0.05 0.23
Matches are distributed among these distances:
33 5 0.02
34 89 0.41
35 13 0.06
36 6 0.03
37 3 0.01
38 5 0.02
39 4 0.02
40 3 0.01
41 4 0.02
42 3 0.01
43 6 0.03
44 8 0.04
45 67 0.31
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (35 bp):
TTTCATGCCAATAATGCACCCATATGCATTATTCT
Found at i:826084 original size:113 final size:114
Alignment explanation
Indices: 825899--826156 Score: 410
Period size: 113 Copynumber: 2.3 Consensus size: 114
825889 TTATGGCATC
* * * * * *
825899 CTTTCATGCCAATAATACACCCATATGCATTATTTTTTTATTGATGATAATGCACCCACATGCAT
1 CTTTTATGCCGATAATGCACCCATATGCATTATTTTTTCATTCATAATAATGCACCCACATGCAT
*
825964 TTTAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
66 TTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
* * * *
826013 CTTTTATGTCGATAATGCACCCATATGCATTATTTTTTCA-TCCTAATAATGCACCTATATGCAT
1 CTTTTATGCCGATAATGCACCCATATGCATTATTTTTTCATTCATAATAATGCACCCACATGCAT
826077 TTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
66 TTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
826126 CTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTTATGCCGATAATGCACCCATATGCATT
826157 TTAGCTATGG
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
113 97 0.73
114 35 0.27
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (114 bp):
CTTTTATGCCGATAATGCACCCATATGCATTATTTTTTCATTCATAATAATGCACCCACATGCAT
TTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:826107 original size:79 final size:79
Alignment explanation
Indices: 826024--826289 Score: 421
Period size: 79 Copynumber: 3.4 Consensus size: 79
826014 TTTTATGTCG
* *
826024 ATAATGCACCCATATGCATTATT-TTTTCATCCTAATAATGCACCTATATGCATTTCAGCTATGG
1 ATAATGCACCCATATGCATTATTCTTTT-ATCCTGATAATGCACCCATATGCATTTCAGCTATGG
826088 CATCCTTTCATGCCA
65 CATCCTTTCATGCCA
*
826103 ATAATGCACCCATATGCATTATTCTTTTATGCC-GATAATGCACCCATATGCATTTTAGCTATGG
1 ATAATGCACCCATATGCATTATTCTTTTAT-CCTGATAATGCACCCATATGCATTTCAGCTATGG
*
826167 CATCATTTCATGCCA
65 CATCCTTTCATGCCA
* **
826182 ATAATACACCCATATGCATTATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTATGGC
1 ATAATGCACCCATATGCATTATTCTTTTATCCTGATAATGCACCCATATGCATTTCAGCTATGGC
826247 ATCCTTTCATGCCA
66 ATCCTTTCATGCCA
*
826261 ATAATGCACCCATATGCA-TATTCTATTAT
1 ATAATGCACCCATATGCATTATTCTTTTAT
826290 TCATTCATTC
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
78 10 0.06
79 157 0.91
80 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
ATAATGCACCCATATGCATTATTCTTTTATCCTGATAATGCACCCATATGCATTTCAGCTATGGC
ATCCTTTCATGCCA
Found at i:826744 original size:22 final size:22
Alignment explanation
Indices: 826713--826768 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
826703 ACTACTACCC
826713 TGGTAACGATACTTCTATACTA
1 TGGTAACGATACTTCTATACTA
*
826735 TGGTATCGATACTTCTATACTA
1 TGGTAACGATACTTCTATACTA
*
826757 TGGTACCGATAC
1 TGGTAACGATAC
826769 CCCTTCCAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (22 bp):
TGGTAACGATACTTCTATACTA
Found at i:826904 original size:30 final size:30
Alignment explanation
Indices: 826870--826928 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
826860 CTGATTGAAT
*
826870 CAGTATCGATACTACTCGACTAATTCATCA
1 CAGTATCGATACTACTCGAATAATTCATCA
826900 CAGTATCGATACTACTCGAATAATTCATC
1 CAGTATCGATACTACTCGAATAATTCATC
826929 CCATTTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (30 bp):
CAGTATCGATACTACTCGAATAATTCATCA
Found at i:830644 original size:7 final size:7
Alignment explanation
Indices: 830634--831281 Score: 388
Period size: 7 Copynumber: 92.9 Consensus size: 7
830624 ATAATAGCAC
*
830634 TATATAC
1 TATATAA
830641 TATATAA
1 TATATAA
*
830648 -ATATAC
1 TATATAA
*
830654 TATGTAA
1 TATATAA
*
830661 TATA-AG
1 TATATAA
*
830667 TATATAC
1 TATATAA
*
830674 TACATAA
1 TATATAA
830681 TATATAA
1 TATATAA
**
830688 TATACCA
1 TATATAA
830695 TACTATAA
1 TA-TATAA
*
830703 GTAATATTA
1 -T-ATATAA
*
830712 TACTATAT
1 TA-TATAA
830720 TATATAA
1 TATATAA
*
830727 TATATAC
1 TATATAA
*
830734 CATATAA
1 TATATAA
830741 TATAT-A
1 TATATAA
830747 -A-ATAA
1 TATATAA
830752 TATAATAA
1 TAT-ATAA
*
830760 CTATCTAA
1 -TATATAA
830768 TATATATTA
1 TATATA--A
830777 TATATAA
1 TATATAA
830784 TATAT-A
1 TATATAA
*
830790 T-TACAA
1 TATATAA
*
830796 AATATAA
1 TATATAA
** *
830803 TGCATAC
1 TATATAA
830810 TATATAA
1 TATATAA
*
830817 TATACAA
1 TATATAA
830824 TATAATAA
1 TAT-ATAA
830832 TAATTATAA
1 T-A-TATAA
830841 TATAT-A
1 TATATAA
830847 TATATATA
1 TATATA-A
830855 TATATACA
1 TATATA-A
*
830863 CACTATAA
1 TA-TATAA
*
830871 TATATAC
1 TATATAA
830878 TATAT-A
1 TATATAA
830884 -ATAT-A
1 TATATAA
*
830889 TATATAC
1 TATATAA
830896 TATATAA
1 TATATAA
830903 TATATAA
1 TATATAA
830910 TATA-AA
1 TATATAA
*
830916 TATATAC
1 TATATAA
* *
830923 TACACAA
1 TATATAA
830930 TATATAA
1 TATATAA
830937 TATAT--
1 TATATAA
830942 TATACT-A
1 TATA-TAA
830949 TATATAA
1 TATATAA
830956 TAT-T-A
1 TATATAA
* *
830961 TATTGTAT
1 TA-TATAA
830969 TATATAA
1 TATATAA
*
830976 TATATAC
1 TATATAA
*
830983 CATATAA
1 TATATAA
830990 TATATACTA
1 TATATA--A
830999 TATATAA
1 TATATAA
831006 TATAT-A
1 TATATAA
831012 T-TATAA
1 TATATAA
*
831018 AATATAA
1 TATATAA
* *
831025 TACATAT
1 TATATAA
831032 TATATAA
1 TATATAA
831039 TATATAA
1 TATATAA
831046 TATATAA
1 TATATAA
831053 TATATAA
1 TATATAA
*
831060 TATAATAT
1 TAT-ATAA
831068 TATA-AA
1 TATATAA
831074 TATATAA
1 TATATAA
831081 TATAT-A
1 TATATAA
831087 TATTATAA
1 TA-TATAA
*
831095 TATATAC
1 TATATAA
831102 TATAT-A
1 TATATAA
831108 T-TATAA
1 TATATAA
* *
831114 TACAATAC
1 TA-TATAA
831122 TATATAA
1 TATATAA
*
831129 TACATAA
1 TATATAA
*
831136 TATTTAA
1 TATATAA
831143 TATATAA
1 TATATAA
831150 TATCAT-A
1 TAT-ATAA
*
831157 CATATAA
1 TATATAA
831164 TATA-ATA
1 TATATA-A
831171 TATATGACA
1 TATAT-A-A
**
831180 TATATTG
1 TATATAA
831187 TATA-AA
1 TATATAA
831193 TACTAT-A
1 TA-TATAA
831200 TA-ATAA
1 TATATAA
*
831206 TATATTA
1 TATATAA
831213 TATAT-A
1 TATATAA
*
831219 TA-ATAG
1 TATATAA
* *
831225 TAAATAC
1 TATATAA
831232 TATATAA
1 TATATAA
*
831239 TAAAT-A
1 TATATAA
831245 -ATATAA
1 TATATAA
831251 TATCATACTA
1 TAT-ATA--A
831261 TATATAA
1 TATATAA
831268 TATAATAA
1 TAT-ATAA
831276 TATATA
1 TATATA
831282 GCACATTGCT
Statistics
Matches: 495, Mismatches: 88, Indels: 116
0.71 0.13 0.17
Matches are distributed among these distances:
4 2 0.00
5 29 0.06
6 64 0.13
7 292 0.59
8 60 0.12
9 42 0.08
10 6 0.01
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:830646 original size:2 final size:2
Alignment explanation
Indices: 830634--831281 Score: 263
Period size: 2 Copynumber: 347.0 Consensus size: 2
830624 ATAATAGCAC
* *
830634 TA TA TA CTA TA TA AA TA TA CTA TG TA -A TA TA -A GTA TA TA CTA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA
* *
830676 CA TA -A TA TA TA -A TA TA CCA TA CTA TA -A GTA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA
* *
830714 CTA TA T- TA TA TA -A TA TA TA CCA TA TA -A TA TA TA AA TA -A TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
830754 TA -A TA -A CTA TC TA -A TA TA TA T- TA TA TA TA -A TA TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
830791 TA CA -A AA TA TA -A TG CA TA CTA TA TA -A TA TA CA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
830829 TA -A TA -A T- TA TA -A TA TA TA TA TA TA TA TA TA TA CA CA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
830868 TA -A TA TA TA CTA TA TA -A TA TA TA TA TA CTA TA TA -A TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
830909 -A TA TA AA TA TA TA CTA CA CA -A TA TA TA -A TA TA T- TA TA CTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
830949 TA TA TA -A TA T- TA TA T- TG TA T- TA TA TA -A TA TA TA CCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
830987 TA -A TA TA TA CTA TA TA TA -A TA TA TA T- TA TA -A AA TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
831025 TA CA TA T- TA TA TA -A TA TA TA -A TA TA TA -A TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
831062 TA -A TA T- TA TA AA TA TA TA -A TA TA TA TA T- TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
831099 TA CTA TA TA T- TA TA -A TA CA -A TA CTA TA TA -A TA CA TA -A TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
831138 TT TA -A TA TA TA -A TA TCA TA CA TA TA -A TA TA -A TA TA TA TGA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T-A
* * *
831178 CA TA TA T- TG TA TA AA TA CTA TA TA -A TA -A TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
831217 TA TA -A TA GTA AA TA CTA TA TA -A TA AA TA -A TA TA -A TA TCA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A
831256 TA CTA TA TA TA -A TA TA -A TA -A TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
831282 GCACATTGCT
Statistics
Matches: 496, Mismatches: 50, Indels: 200
0.66 0.07 0.27
Matches are distributed among these distances:
1 73 0.15
2 377 0.76
3 46 0.09
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (2 bp):
TA
Found at i:838622 original size:2 final size:2
Alignment explanation
Indices: 838615--838656 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
838605 AATTGTATTT
838615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
838656 T
1 T
838657 CGATTATGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:843449 original size:31 final size:32
Alignment explanation
Indices: 843407--843468 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
843397 AATATAAGGT
*
843407 TGAAAACGACAGAAA-CGATTGTAACTGAAAC
1 TGAAAACGACAGAAAGCGATTGTAACCGAAAC
* *
843438 TGAAAATGACAGAAAGTGATTGTAACCGAAA
1 TGAAAACGACAGAAAGCGATTGTAACCGAAA
843469 AACTTACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (32 bp):
TGAAAACGACAGAAAGCGATTGTAACCGAAAC
Found at i:845722 original size:51 final size:50
Alignment explanation
Indices: 845622--845727 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 50
845612 GTCATTGTTA
* * *
845622 ATTTCTTATTTAGCTACTATTATTTTAATTTTTTGCATTTTGGTCACTATTT
1 ATTTCTTATTTAACTACTA-TATTTTAATTTTTTGCATTTTAGTAACTA-TT
*
845674 ATTTCTTATTTAACTACTA-ACTTTT-ATTTTCTTGTATTTTAGTAACTATT
1 ATTTCTTATTTAACTACTATA-TTTTAATTTT-TTGCATTTTAGTAACTATT
845724 ATTT
1 ATTT
845728 TATTTTATGC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 12 0.25
51 18 0.38
52 18 0.38
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (50 bp):
ATTTCTTATTTAACTACTATATTTTAATTTTTTGCATTTTAGTAACTATT
Found at i:845799 original size:16 final size:16
Alignment explanation
Indices: 845762--845809 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
845752 ACTTGTGTTC
845762 ATTTTATTTTTTATTTT
1 ATTTTA-TTTTTATTTT
*
845779 ATTTTGTTTTTATTGTT
1 ATTTTATTTTTATT-TT
845796 -TTTTATTCTTTATT
1 ATTTTATT-TTTATT
845810 ATTGTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:849175 original size:2 final size:2
Alignment explanation
Indices: 849168--849199 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
849158 TTATCCTTTC
849168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
849200 CCCTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:849564 original size:18 final size:20
Alignment explanation
Indices: 849529--849569 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
849519 AAAGAAGAGG
*
849529 AAAAAGAGAAAGCAAAAGAA
1 AAAAAAAGAAAGCAAAAGAA
849549 AAAAAAAGAAA-C-AAAGAA
1 AAAAAAAGAAAGCAAAAGAA
849567 AAA
1 AAA
849570 GTAGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAGCAAAAGAA
Found at i:850809 original size:57 final size:56
Alignment explanation
Indices: 850695--850867 Score: 196
Period size: 57 Copynumber: 3.1 Consensus size: 56
850685 CCCAAACAAC
* *
850695 ATGATATTTTCAAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
1 ATGATATTTT-TAAATGAATTTTTAAAG-AACTAAGCCTGATTTTCAGGGGTTTCTTG
* * *
850753 ATGATTATTTTT-AATGAATTTTTAAAAGAAGGTAAGCCTAATTTT-AGGGTTTTCTTG
1 ATGA-TATTTTTAAATGAATTTTT-AAAGAA-CTAAGCCTGATTTTCAGGGGTTTCTTG
* *
850810 A--A-ATTTTTAAATGAGTTTTTACA-AACTAAGCCTGATTTTCAGGGGTTTCTTG
1 ATGATATTTTTAAATGAATTTTTAAAGAACTAAGCCTGATTTTCAGGGGTTTCTTG
850862 ATGATA
1 ATGATA
850868 ATCTCCAAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
51 12 0.12
52 14 0.14
53 8 0.08
54 11 0.11
55 2 0.02
57 24 0.25
58 20 0.21
59 6 0.06
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (56 bp):
ATGATATTTTTAAATGAATTTTTAAAGAACTAAGCCTGATTTTCAGGGGTTTCTTG
Found at i:851378 original size:38 final size:38
Alignment explanation
Indices: 851232--851365 Score: 160
Period size: 38 Copynumber: 3.5 Consensus size: 38
851222 CAACATCAAA
*
851232 CTTGAGATAGTTTCACTCGAAATAGAAGATTTTATCTTG
1 CTTGAGATAGTTTCACTCGAAACAGAAGA-TTTATCTTG
* * * * **
851271 CTTGAGTTTGTTTTACTCGAAACATAAGATTTATCTCA
1 CTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTTG
* *
851309 CTTGAAACAGTTTCACTCGAAACAGAAGATTTATCTTG
1 CTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTTG
* *
851347 GTTGAGATAGTTTCGCTCG
1 CTTGAGATAGTTTCACTCG
851366 CAATAAAAGA
Statistics
Matches: 76, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
38 52 0.68
39 24 0.32
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (38 bp):
CTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTTG
Found at i:851650 original size:39 final size:40
Alignment explanation
Indices: 851607--851778 Score: 271
Period size: 40 Copynumber: 4.4 Consensus size: 40
851597 GAGTGATCGA
*
851607 TATCTCACTTGAGATAGTTTCACTCGAAACAGAAGA-TTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
851646 TATCTCGTTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
851686 TATCTCGCTTGAGATAGTTTCACTCGAAACA-ACAGATTTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGA-AGATTTT
*
851726 TATCTCGCTTGAGATAGTTTCACTCGAAACAGATGA--TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
851764 TATCTCACTTGAGAT
1 TATCTCGCTTGAGAT
851779 TATTTTCTTA
Statistics
Matches: 125, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
38 16 0.13
39 35 0.28
40 73 0.58
41 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (40 bp):
TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:852139 original size:92 final size:92
Alignment explanation
Indices: 851920--852144 Score: 279
Period size: 92 Copynumber: 2.4 Consensus size: 92
851910 TAAGCCACAC
* * * * * * *
851920 CTCACATGAGGGACCAATATTCCCAGTAGAGAATTCATGAGAATAACTTATTCAACCTTGGCTCG
1 CTCACTTGAGGGACCAACATTACCAGTAGAAAATTCATAAAAAGAACTTATTCAACCTTGGCTCG
* * *
851985 ATTCACGACATTTCAAATCAGTGACGT
66 ATTCACAAAATTTCAAATCAGCGACGT
* * * * *
852012 CTCACTTGAGGGATCAACATTACCGGTACATAATTCTTAAAAAGAACTTATTCAACCTTGGCTCG
1 CTCACTTGAGGGACCAACATTACCAGTAGAAAATTCATAAAAAGAACTTATTCAACCTTGGCTCG
**
852077 ATTCACAAAATTTTGAATCAGCGACGT
66 ATTCACAAAATTTCAAATCAGCGACGT
* *
852104 CTCACTTGAGGGACCAACATTTCTAGTAGAAAATTCATAAA
1 CTCACTTGAGGGACCAACATTACCAGTAGAAAATTCATAAA
852145 GTAAAGCTTG
Statistics
Matches: 110, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 110 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (92 bp):
CTCACTTGAGGGACCAACATTACCAGTAGAAAATTCATAAAAAGAACTTATTCAACCTTGGCTCG
ATTCACAAAATTTCAAATCAGCGACGT
Found at i:855519 original size:2 final size:2
Alignment explanation
Indices: 855512--855537 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
855502 ATCATTTCAA
855512 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
855538 CCCTGGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855860 original size:5 final size:5
Alignment explanation
Indices: 855836--855882 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
855826 AGAAAAATGT
* *
855836 AAAGA AGAGA AAA-A AGAGA AAAGA AAAGA AAAGA AAAGAA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AA
855883 TAAATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 28 0.78
6 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:856557 original size:28 final size:28
Alignment explanation
Indices: 856495--856558 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
856485 CGCAAGAAGC
*
856495 CAACCTGAAACACATTACCTCCCCAAAT
1 CAACCTAAAACACATTACCTCCCCAAAT
* * *
856523 TAACCTAAAACACATTACCTTCCCAAGT
1 CAACCTAAAACACATTACCTCCCCAAAT
*
856551 CAGCCTAA
1 CAACCTAA
856559 GCCTTATATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.36, G:0.05, T:0.20
Consensus pattern (28 bp):
CAACCTAAAACACATTACCTCCCCAAAT
Found at i:857375 original size:38 final size:38
Alignment explanation
Indices: 857291--857517 Score: 285
Period size: 38 Copynumber: 5.9 Consensus size: 38
857281 GATCAACATA
*
857291 TCGCTTGAGATAGTTTCACTCGAAATC-GAAGATTTTATC
1 TCGCTTGAGATAGTTTTACTCGAAA-CAGAAGA-TTTATC
** * *
857330 TTACTTGAGATAATTTTACTCGAAATAGAAGATTTATC
1 TCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATC
* *
857368 TCACTTGAGATAGTTTTACTCGAAACAGAATATTTATC
1 TCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATC
* * * *
857406 TCGCTTGAGATAATTTAACTCGAAACATAATATTTTATC
1 TCGCTTGAGATAGTTTTACTCGAAACAGAAGA-TTTATC
*
857445 TCGTTTGAGATAGTTTTACTCGAAACAGAAGATTTATC
1 TCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATC
** *
857483 TCGCTTGAGATAGTTTCGCTCGAAACAAAAGATTT
1 TCGCTTGAGATAGTTTTACTCGAAACAGAAGATTT
857518 TAAGAAACTA
Statistics
Matches: 164, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
38 105 0.64
39 59 0.36
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (38 bp):
TCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATC
Found at i:857444 original size:77 final size:77
Alignment explanation
Indices: 857294--857519 Score: 294
Period size: 77 Copynumber: 2.9 Consensus size: 77
857284 CAACATATCG
* ** * * *
857294 CTTGAGATAGTTTCACTCGAAATC-GAAGATTTTATCTTACTTGAGATAATTTTACTCGAAATAG
1 CTTGAGATAGTTTTACTCGAAA-CAGAAGA-TTTATCTCGCTTGAGATAATTTAACTCGAAACAA
857358 AAGA-TTTATCTCA
64 AAGATTTTATCTCA
* *
857371 CTTGAGATAGTTTTACTCGAAACAGAATATTTATCTCGCTTGAGATAATTTAACTCGAAACATAA
1 CTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCGCTTGAGATAATTTAACTCGAAACAAAA
* *
857436 TATTTTATCTCG
66 GATTTTATCTCA
* * **
857448 TTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCGCTCGAAACAAAA
1 CTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCGCTTGAGATAATTTAACTCGAAACAAAA
857513 GATTTTA
66 GATTTTA
857520 AGAAACTAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
76 33 0.25
77 98 0.75
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (77 bp):
CTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCGCTTGAGATAATTTAACTCGAAACAAAA
GATTTTATCTCA
Found at i:857461 original size:20 final size:20
Alignment explanation
Indices: 857438--857498 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
857428 AAACATAATA
*
857438 TTTTATCTCGTTTGAGATAG
1 TTTTATCTCGATTGAGATAG
***
857458 TTTTA-CTCGAAACAGA-AG
1 TTTTATCTCGATTGAGATAG
* *
857476 ATTTATCTCGCTTGAGATAG
1 TTTTATCTCGATTGAGATAG
857496 TTT
1 TTT
857499 CGCTCGAAAC
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
18 6 0.21
19 14 0.48
20 9 0.31
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTTATCTCGATTGAGATAG
Found at i:857493 original size:115 final size:115
Alignment explanation
Indices: 857291--857509 Score: 314
Period size: 115 Copynumber: 1.9 Consensus size: 115
857281 GATCAACATA
* * * *
857291 TCGCTTGAGATAGTTTCACTCGAAATCGAAGATTTTATCTTACTTGAGATAATTTTACTCGAAAT
1 TCGCTTGAGATAATTTAACTCGAAATCGAAGATTTTATCTCACTTGAGATAATTTTACTCGAAAC
*
857356 AGAAGATTTATCTCACTTGAGATAGTTTTACTCGAAACAGAATATTTATC
66 AGAAGATTTATCTCACTTGAGATAGTTTCACTCGAAACAGAATATTTATC
* * ** *
857406 TCGCTTGAGATAATTTAACTCGAAA-CATAATATTTTATCTCGTTTGAGATAGTTTTACTCGAAA
1 TCGCTTGAGATAATTTAACTCGAAATC-GAAGATTTTATCTCACTTGAGATAATTTTACTCGAAA
* *
857470 CAGAAGATTTATCTCGCTTGAGATAGTTTCGCTCGAAACA
65 CAGAAGATTTATCTCACTTGAGATAGTTTCACTCGAAACA
857510 AAAGATTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
114 1 0.01
115 90 0.99
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (115 bp):
TCGCTTGAGATAATTTAACTCGAAATCGAAGATTTTATCTCACTTGAGATAATTTTACTCGAAAC
AGAAGATTTATCTCACTTGAGATAGTTTCACTCGAAACAGAATATTTATC
Found at i:859107 original size:23 final size:21
Alignment explanation
Indices: 859081--859141 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
859071 CTTGTACTTG
*
859081 TGTTTATTTTATTTTGTTTTTA
1 TGTTTATTTTATTTT-TTATTA
859103 CTGTTTATTTTATTTTTTATTA
1 -TGTTTATTTTATTTTTTATTA
* *
859125 TTTTTACTTTATTTTTT
1 TGTTTATTTTATTTTTT
859142 TAAATTAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 15 0.43
22 5 0.14
23 15 0.43
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (21 bp):
TGTTTATTTTATTTTTTATTA
Done.