Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_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: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 18
Found at i:986062 original size:33 final size:33
Alignment explanation
Indices: 986025--986091 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
986015 CCATCTTAAA
986025 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
986058 TTCACCCCTTAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
986091 T
1 T
986092 CCATTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:986150 original size:21 final size:21
Alignment explanation
Indices: 986125--986168 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
986115 CCCCTTATGC
986125 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
986146 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
986167 CT
1 CT
986169 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:986582 original size:19 final size:22
Alignment explanation
Indices: 986554--986608 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
986544 GCAACCTGCA
986554 TTTATAATAAAATT-T-ATA-AT
1 TTTAT-ATAAAATTATAATACAT
986574 TTTATATAATAATTATAATATCAT
1 TTTATATAA-AATTATAATA-CAT
986598 TTTATATAAAA
1 TTTATATAAAA
986609 ACAAAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
21 1 0.03
22 3 0.10
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATAAAATTATAATACAT
Found at i:989100 original size:182 final size:182
Alignment explanation
Indices: 988567--989419 Score: 1262
Period size: 182 Copynumber: 4.7 Consensus size: 182
988557 TACGCGTACT
* * *
988567 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
*
988632 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
** *
988697 TTATAGGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * *
988749 TATTAAAGTATCGACACTTTCAATATATCCGGTCTCTCTATACTGGTTTTGTCTTTTAGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* ** *
988814 ATTTTGTCATATTTTTACCAATT-TATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
*
988878 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATAATTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* ** ** * * * * *
988930 TATTAAAATATCGACACTTTCAATATATTTGGTCGTTCTATATCGATTTTGTCCTTTGGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* * * *
988995 GTTTTGTCATATTTTTATCTGTTATATCGTTGTGGATCGATACATTGTTATAAAATATCCACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
*
989060 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
989112 TATTAAAGTATCGACACTTTCAATATATTCGATAGCGCTTTACCGGTTTTATCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* *
989177 ATTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
*
989242 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAATTGTCGATACTTA
131 TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
989294 TATTAAAGTATCGACACTTTCAATATATCCGGTAC-CACTTTACCGATTTTGTCTTTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGT-CGCGCTTTACCGGTTTTGTCTTTTCGAGACC
* * *
989358 GGTTTTTTCATATTTTTACCT-TTAATATTGATGTGGATCGATACATTTTTATAAAGTATCGA
65 GGTTTTGTCATATTTTTACCTGTT-ATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
989420 TATAAACCGA
Statistics
Matches: 600, Mismatches: 68, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
181 162 0.27
182 438 0.73
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTCGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:989566 original size:37 final size:37
Alignment explanation
Indices: 989519--989601 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
989509 TCCAGTAACA
989519 TTAAACCAAATTTATTAAATATCTTTTAAAATATCCG
1 TTAAACCAAATTTATTAAATATCTTTTAAAATATCCG
*
989556 TTAAATCAAATTTATTAAATATCTTTTAAAATATCCG
1 TTAAACCAAATTTATTAAATATCTTTTAAAATATCCG
*
989593 ATAACACCA
1 TTAA-ACCA
989602 TATATTAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 39 0.93
38 3 0.07
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (37 bp):
TTAAACCAAATTTATTAAATATCTTTTAAAATATCCG
Found at i:990242 original size:17 final size:19
Alignment explanation
Indices: 990222--990256 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
990212 TAAAGTAATT
990222 TTTTTTAT-TAT-ATTATA
1 TTTTTTATATATGATTATA
990239 TTTTTTATATATGATTAT
1 TTTTTTATATATGATTAT
990257 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTATATATGATTATA
Found at i:993987 original size:21 final size:21
Alignment explanation
Indices: 993961--994078 Score: 127
Period size: 21 Copynumber: 5.6 Consensus size: 21
993951 GATTTACATA
993961 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
993982 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
994005 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
994024 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
994047 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
994066 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
994079 TTATTCCAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 17 0.22
21 45 0.57
23 17 0.22
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:994016 original size:42 final size:42
Alignment explanation
Indices: 993965--994103 Score: 260
Period size: 42 Copynumber: 3.3 Consensus size: 42
993955 TACATATTCG
993965 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
*
994007 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
994049 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
*
994091 TGTTGCGATAGTC
1 CGTTGCGATAGTC
994104 CAAAATCGCA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
Found at i:994095 original size:21 final size:21
Alignment explanation
Indices: 993986--994099 Score: 110
Period size: 21 Copynumber: 5.4 Consensus size: 21
993976 TCGAAGTTCG
993986 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
994007 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
994026 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
* *
994049 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
994068 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAGTT
*
994091 TGTTGCGAT
1 CGTTGCGAT
994100 AGTCCAAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
19 17 0.23
21 40 0.54
23 17 0.23
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:994874 original size:21 final size:21
Alignment explanation
Indices: 994849--994962 Score: 110
Period size: 21 Copynumber: 5.4 Consensus size: 21
994839 ATTTTGGACT
*
994849 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
994870 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
994891 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
994912 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
994933 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
994954 ATCGCAACG
1 ATCGCAACG
994963 CGAACTTCGA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
19 19 0.26
21 37 0.50
23 18 0.24
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:994892 original size:42 final size:42
Alignment explanation
Indices: 994845--994983 Score: 260
Period size: 42 Copynumber: 3.3 Consensus size: 42
994835 TGCGATTTTG
*
994845 GACTATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
994887 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
994929 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
994971 GACTATCGCAACG
1 GACTATCGCAACG
994984 CGAATATGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:994978 original size:21 final size:21
Alignment explanation
Indices: 994870--994987 Score: 127
Period size: 21 Copynumber: 5.6 Consensus size: 21
994860 CTTGGAATAA
994870 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
994891 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
994910 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* *
994933 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
994952 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
994975 ATCGCAACGCGAA
1 ATCGCAACGCGAA
994988 TATGTAAATC
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 19 0.24
21 41 0.52
23 19 0.24
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:995773 original size:43 final size:43
Alignment explanation
Indices: 995725--995811 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
995715 ACAACTACTT
995725 AGCCATATTACTACAAGCGTCAGGTTCCCGCAAGTGATGTTAC
1 AGCCATATTACTACAAGCGTCAGGTTCCCGCAAGTGATGTTAC
*
995768 AGCCATATTACTACAAGCGTTAGGTTCCCGCAAGTGATGTTAC
1 AGCCATATTACTACAAGCGTCAGGTTCCCGCAAGTGATGTTAC
995811 A
1 A
995812 ATTGTTTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
AGCCATATTACTACAAGCGTCAGGTTCCCGCAAGTGATGTTAC
Found at i:998339 original size:23 final size:23
Alignment explanation
Indices: 998309--998371 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
998299 CATCTTATAT
*
998309 GGCACTTCGGTGCATTTCTAGGC
1 GGCACTTCGGTGCATTTCTACGC
** *
998332 GGCACTTCGGTGCAAATCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
998355 GGCACTTAGGTGCATTT
1 GGCACTTCGGTGCATTT
998372 ATGCGAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:1011406 original size:83 final size:83
Alignment explanation
Indices: 1011199--1011445 Score: 347
Period size: 83 Copynumber: 3.0 Consensus size: 83
1011189 AATGTATATT
* *
1011199 TGTTTAATATTTTAAAATTTAAATATATTATTATCT-ATTTAAATTTAGATATTAAAATATGTTT
1 TGTTTAATATTTTAAATTTTAAATATATTATTATCTGA-TTAAATTTAGATATTAAAAGATGTTT
1011263 AA-TGGAGTAAAACTCTCA
65 AATTGGAGTAAAACTCTCA
* * * *
1011281 GGTTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAAGATGTTTA
1 TGTTTAATATTTTAAATTTTAAATATATTATTATCTGATTAAATTTAGATATTAAAAGATGTTTA
*
1011346 ATTGGAGCAAAACTCTCA
66 ATTGGAGTAAAACTCTCA
* * * *
1011364 TGTTTACTATTTTAAATTTTAAATATATAATAATATGATTAAATTTAGATATTAAAAGA-GTTTT
1 TGTTTAATATTTTAAATTTTAAATATATTATTATCTGATTAAATTTAGATATTAAAAGATG-TTT
*
1011428 AGTTGGAGTAAAACTCTC
65 AATTGGAGTAAAACTCTC
1011446 TCAAAATTCC
Statistics
Matches: 145, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
82 60 0.41
83 85 0.59
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (83 bp):
TGTTTAATATTTTAAATTTTAAATATATTATTATCTGATTAAATTTAGATATTAAAAGATGTTTA
ATTGGAGTAAAACTCTCA
Found at i:1012204 original size:18 final size:19
Alignment explanation
Indices: 1012181--1012216 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1012171 TGAAAATGAT
*
1012181 AAAAAT-GTAAAGACAATG
1 AAAAATGGTAAAAACAATG
1012199 AAAAATGGTAAAAACAAT
1 AAAAATGGTAAAAACAAT
1012217 AAATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.06, G:0.14, T:0.17
Consensus pattern (19 bp):
AAAAATGGTAAAAACAATG
Found at i:1036852 original size:20 final size:21
Alignment explanation
Indices: 1036827--1036865 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1036817 CTATGTATAG
1036827 TAGTATCGATACCA-AAGGTA
1 TAGTATCGATACCACAAGGTA
1036847 TAGTATCGATACCACAAGG
1 TAGTATCGATACCACAAGG
1036866 CCCCAACGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (21 bp):
TAGTATCGATACCACAAGGTA
Found at i:1040263 original size:29 final size:30
Alignment explanation
Indices: 1040229--1040300 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
1040219 CCCGAAGGAC
1040229 CTATCCAGAGGTCACAAAG-ACCCCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* * *
1040258 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* *
1040288 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1040301 CCGGAGAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGACAA
Found at i:1041554 original size:20 final size:20
Alignment explanation
Indices: 1041525--1041577 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1041515 ACCCATGAAG
*
1041525 TGCATTGATGCATGCTACAA
1 TGCATCGATGCATGCTACAA
1041545 TGCATCGATGCATGCTACAA
1 TGCATCGATGCATGCTACAA
1041565 TGCATCGATGCAT
1 TGCATCGATGCAT
1041578 TCTTTAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCATGCTACAA
Found at i:1043521 original size:14 final size:14
Alignment explanation
Indices: 1043502--1043532 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1043492 TGACTTTGTC
*
1043502 AATTATAATAATAT
1 AATTATAACAATAT
1043516 AATTATAACAATAT
1 AATTATAACAATAT
1043530 AAT
1 AAT
1043533 ATTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTATAACAATAT
Found at i:1043530 original size:22 final size:22
Alignment explanation
Indices: 1043505--1043559 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
1043495 CTTTGTCAAT
*
1043505 TATAATAATATAATTA-TAACAA
1 TATAATAATAT-ATTATTAAAAA
*
1043527 TATAATATTATATTATTAAAAA
1 TATAATAATATATTATTAAAAA
1043549 TATCAA-AATAT
1 TAT-AATAATAT
1043560 TTTAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAATAATATATTATTAAAAA
Found at i:1054125 original size:16 final size:17
Alignment explanation
Indices: 1054104--1054146 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
1054094 ATGTAATAAT
1054104 AAATATTTAAA-TTAAA
1 AAATATTTAAATTTAAA
* **
1054120 AAATATATAAATTTATT
1 AAATATTTAAATTTAAA
1054137 AAATATTTAA
1 AAATATTTAA
1054147 TCAAGTAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:1056106 original size:64 final size:64
Alignment explanation
Indices: 1056046--1056166 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
1056036 TAAAATCGGA
*
1056046 TACAGGTCA-AGTCAGGTAAATTTGACACTAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
1 TACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
* * * ** **
1056109 TTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1 TACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1056167 TTTTCAGTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 6 0.12
64 43 0.88
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (64 bp):
TACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
Found at i:1056724 original size:215 final size:216
Alignment explanation
Indices: 1056485--1057301 Score: 1375
Period size: 215 Copynumber: 3.8 Consensus size: 216
1056475 ATTTAAGAAT
1056485 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1056550 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
1056615 CCATTTAAAAAGTTATGGGCCAA-TTAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCATA
131 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
1056679 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
* * *
1056700 TAAATTGAACAAATATGAAATTACAAATAGAAATTTAAATAAATCATACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
1056765 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
1056830 TCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
1056895 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
* * *
1056916 TAAATTGAA-TAATATGAAATTACAAATAAAAATTTAAATATATTAAACAATACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
1056980 GGATCAAATTGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
1057045 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGG
131 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
1057110 TGCAAAAAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
*
1057131 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
1057190 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
1057255 TCATTTAAAAAGTTATGGGCCAA-TTAATAAATA-AAAAAAGTAATAAG
131 CCATTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAG
1057302 AGAAAAAAAT
Statistics
Matches: 573, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
209 17 0.03
210 90 0.16
212 1 0.00
215 354 0.62
216 111 0.19
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
TGCAAATAAAATTTGGAGGAC
Found at i:1057401 original size:22 final size:22
Alignment explanation
Indices: 1057329--1057403 Score: 109
Period size: 22 Copynumber: 3.4 Consensus size: 22
1057319 CTAATATATA
1057329 TATATAATATAAACTATATAGTT
1 TATAT-ATATAAACTATATAGTT
*
1057352 T-TATATATAAAGTATAT-GTAT
1 TATATATATAAACTATATAGT-T
1057373 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
1057395 TATATATAT
1 TATATATAT
1057404 TATGTATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.04
21 14 0.30
22 28 0.60
23 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:1057426 original size:27 final size:28
Alignment explanation
Indices: 1057395--1057455 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
1057385 CTATATAGTT
** *
1057395 TATATATATTATGTATAAAGTATAA-AC
1 TATATATACCATGTATAAACTATAATAC
1057422 TATATATACCATGTATAAACTATAATAC
1 TATATATACCATGTATAAACTATAATAC
1057450 TATATA
1 TATATA
1057456 GTTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (28 bp):
TATATATACCATGTATAAACTATAATAC
Found at i:1057708 original size:29 final size:29
Alignment explanation
Indices: 1057644--1057712 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
1057634 GTTTAGGGTT
1057644 TATATTTATATTTATATAAACTACATATTA
1 TATATTTATATTTATAT-AACTACATATTA
* *
1057674 TA-ATTTATATTTATAT-ACTATATTTTA
1 TATATTTATATTTATATAACTACATATTA
1057701 TACTATTTATAT
1 TA-TATTTATAT
1057713 AAACTGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 11 0.31
29 22 0.63
30 2 0.06
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (29 bp):
TATATTTATATTTATATAACTACATATTA
Found at i:1057737 original size:31 final size:30
Alignment explanation
Indices: 1057694--1057781 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
1057684 TTATATACTA
* *
1057694 TATTTTATACTATTTATATAAACTGTAGTT
1 TATTTTATACTATATATATAAACTATAGTT
*
1057724 TATTTATATACTATATATATGAACTATAGTT
1 TATTT-TATACTATATATATAAACTATAGTT
**
1057755 TA-CATATGAACTATATATATAAA-TATA
1 TATTTTAT--ACTATATATATAAACTATA
1057782 TATATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.06
30 9 0.18
31 37 0.76
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (30 bp):
TATTTTATACTATATATATAAACTATAGTT
Found at i:1057805 original size:20 final size:20
Alignment explanation
Indices: 1057777--1057846 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
1057767 ATATATATAA
*
1057777 ATATATATATATTAAGGTTG
1 ATATTTATATATTAAGGTTG
* *
1057797 ATATTTATATATGAA--CT-
1 ATATTTATATATTAAGGTTG
* *
1057814 ACAGTTTATATACTAAGGTTG
1 ATA-TTTATATATTAAGGTTG
*
1057835 ATATTTACATAT
1 ATATTTATATAT
1057847 GAACTATATA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
20 21 0.58
21 2 0.06
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (20 bp):
ATATTTATATATTAAGGTTG
Found at i:1057858 original size:33 final size:32
Alignment explanation
Indices: 1057780--1057893 Score: 106
Period size: 33 Copynumber: 3.3 Consensus size: 32
1057770 TATATAAATA
*
1057780 TATATATATTAAGGTTGATATTTATATATGAAC
1 TATATATA-TAAGGTTGATATTTACATATGAAC
1057813 TACAGTTTATATACTAAGGTTGATATTTACATATGAAC
1 T--A---TATATA-TAAGGTTGATATTTACATATGAAC
*
1057851 TATATATATCAA-CTAT-ATAGTTTACATATGAAC
1 TATATATAT-AAGGT-TGATA-TTTACATATGAAC
1057884 TATATATATA
1 TATATATATA
1057894 GTTTATTAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
32 6 0.09
33 32 0.46
35 1 0.01
36 1 0.01
38 30 0.43
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (32 bp):
TATATATATAAGGTTGATATTTACATATGAAC
Found at i:1057922 original size:24 final size:25
Alignment explanation
Indices: 1057867--1057928 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
1057857 TATCAACTAT
* *
1057867 ATAGTTTACATA-TGAACTATATAT
1 ATAGTTTATATAGTGAACTATATAC
1057891 ATAGTTTAT-TAGTGAACTATATAC
1 ATAGTTTATATAGTGAACTATATAC
1057915 ACTA-TTTATATAGT
1 A-TAGTTTATATAGT
1057929 ATATAGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 25 0.76
25 6 0.18
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.44
Consensus pattern (25 bp):
ATAGTTTATATAGTGAACTATATAC
Found at i:1057926 original size:2 final size:2
Alignment explanation
Indices: 1057921--1058007 Score: 59
Period size: 2 Copynumber: 40.0 Consensus size: 2
1057911 ATACACTATT
* * *
1057921 TA TA TA GTA TA TA GTA TA TA TA TA AA CTA TA GTT TA TA TT TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
*
1057965 TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
1058008 ATTTACATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
1 1 0.01
2 54 0.79
3 13 0.19
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1057933 original size:7 final size:6
Alignment explanation
Indices: 1057921--1058007 Score: 59
Period size: 7 Copynumber: 13.3 Consensus size: 6
1057911 ATACACTATT
* * *
1057921 TATATA GTATATA GTATATA TATAAA CTATAGTT TATATT TATATA CTATATA
1 TATATA -TATATA -TATATA TATATA -TATA-TA TATATA TATATA -TATATA
*
1057974 T-TATA TATATA AACTATA TATACTA TATAGTA TA
1 TATATA TATATA TA-TATA TATA-TA TATA-TA TA
1058008 ATTTACATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.07
6 20 0.30
7 42 0.63
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (6 bp):
TATATA
Found at i:1057933 original size:9 final size:8
Alignment explanation
Indices: 1057921--1058007 Score: 59
Period size: 9 Copynumber: 10.0 Consensus size: 8
1057911 ATACACTATT
1057921 TATATAGTA
1 TATATA-TA
1057930 TATAGTATA
1 TATA-TATA
*
1057939 TATATAAA
1 TATATATA
*
1057947 CTATAGTTTA
1 -TATA-TATA
*
1057957 TATTTATA
1 TATATATA
1057965 TACTATATA
1 TA-TATATA
1057974 T-TATATA
1 TATATATA
*
1057981 TATAAACTA
1 TATATA-TA
1057990 TATATACTA
1 TATATA-TA
1057999 TATAGTATA
1 TATA-TATA
1058008 ATTTACATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
7 7 0.11
8 11 0.17
9 39 0.62
10 6 0.10
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (8 bp):
TATATATA
Found at i:1057944 original size:20 final size:20
Alignment explanation
Indices: 1057921--1058007 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
1057911 ATACACTATT
* *
1057921 TATATAGTATATAGTATATA
1 TATATACTATATATTATATA
* *
1057941 TATAAACTATAGT-TTATATT
1 TATATACTATA-TATTATATA
1057961 TATATACTATATATTATATA
1 TATATACTATATATTATATA
*
1057981 TATAAACTATATA-TACTATA
1 TATATACTATATATTA-TATA
1058001 TAGTATA
1 TA-TATA
1058008 ATTTACATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 3 0.05
20 48 0.87
21 4 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATACTATATATTATATA
Found at i:1057949 original size:40 final size:39
Alignment explanation
Indices: 1057884--1057999 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 39
1057874 ACATATGAAC
* * *
1057884 TATATATATAGTTTAT-TAGTGAACTATATACACTATTTA
1 TATATATATAGTATATATA-TAAACTATATATACTATTTA
*
1057923 TATAGTATATAGTATATATATAAACTATAGTTTA-TATTTA
1 TATA-TATATAGTATATATATAAACTATA-TATACTATTTA
*
1057963 TATACTATATATTATATATATAAACTATATATACTAT
1 TATA-TATATAGTATATATATAAACTATATATACTAT
1058000 ATAGTATAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 7 0.11
40 55 0.83
41 4 0.06
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (39 bp):
TATATATATAGTATATATATAAACTATATATACTATTTA
Found at i:1058024 original size:34 final size:36
Alignment explanation
Indices: 1057921--1058029 Score: 105
Period size: 40 Copynumber: 3.0 Consensus size: 36
1057911 ATACACTATT
* * * *
1057921 TATATAGTATATAGTATATATATAAACTATAGTTTATATT
1 TATATACTATATATTATACATATAAACTATA---TATA-C
*
1057961 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
1057997 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
1058030 AAAATACTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
34 17 0.27
35 3 0.05
36 10 0.16
37 4 0.06
40 29 0.46
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:1058107 original size:16 final size:15
Alignment explanation
Indices: 1058079--1058116 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
1058069 GTTTATTAAT
1058079 ATATATAACTATATG
1 ATATATAACTATATG
1058094 ATATATAGACTATATG
1 ATATATA-ACTATATG
*
1058110 GTATATA
1 ATATATA
1058117 TAAACTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (15 bp):
ATATATAACTATATG
Found at i:1058150 original size:33 final size:31
Alignment explanation
Indices: 1058051--1058204 Score: 93
Period size: 33 Copynumber: 4.6 Consensus size: 31
1058041 CCTTAAACCC
* *
1058051 TAAACTATACAT-TATATAGTTTATTAATATA
1 TAAACTATA-ATATATATAGTTCATTAGTATA
1058082 TATAACTAT-ATGATATATAGACTAT-ATGGTA-TATA
1 TA-AACTATAAT-ATATATAG--T-TCAT--TAGTATA
1058117 TAAACTATACATTATATATAGTTCATTAGTATATA
1 TAAACTATA-A-TATATATAGTTCATTAG--TATA
*
1058152 TAAACTAT-ATACTATATAGATCATTAGTATGTA
1 TAAACTATAATA-TATATAGTTCATTAGTA--TA
1058185 TAAACTATATAGTATATATA
1 TAAACTATA-A-TATATATA
1058205 AACTATATAT
Statistics
Matches: 101, Mismatches: 1, Indels: 38
0.72 0.01 0.27
Matches are distributed among these distances:
30 2 0.02
31 4 0.04
32 17 0.17
33 26 0.26
34 12 0.12
35 26 0.26
36 13 0.13
37 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
TAAACTATAATATATATAGTTCATTAGTATA
Found at i:1058161 original size:44 final size:42
Alignment explanation
Indices: 1058113--1058290 Score: 154
Period size: 44 Copynumber: 4.1 Consensus size: 42
1058103 CTATATGGTA
*
1058113 TATATAAACTATACATTATATATAGTTCATTAGTATATATAAAC
1 TATATAAACTATATA-T-TATATAGTTCATTAGTATATATAAAC
* *
1058157 TATAT--ACTATATA-GATCATTAG-T-ATGTA-TAAACTATATAGTA-
1 TATATAAACTATATATTAT-A-TAGTTCAT-TAGT--A-TATATA-AAC
***
1058199 TATATAAACTATATATTATATAGTTCATTAGTATATATATGG
1 TATATAAACTATATATTATATAGTTCATTAGTATATATAAAC
1058241 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC
1 TATAT--AAACTATATATTATATAGTTCATTAGTATATATAAAC
1058285 TATATA
1 TATATA
1058291 TTAATTTATT
Statistics
Matches: 110, Mismatches: 8, Indels: 34
0.72 0.05 0.22
Matches are distributed among these distances:
39 5 0.05
40 4 0.04
41 5 0.05
42 30 0.27
43 5 0.05
44 56 0.51
45 5 0.05
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (42 bp):
TATATAAACTATATATTATATAGTTCATTAGTATATATAAAC
Found at i:1058187 original size:68 final size:67
Alignment explanation
Indices: 1058051--1058204 Score: 190
Period size: 68 Copynumber: 2.3 Consensus size: 67
1058041 CCTTAAACCC
* *
1058051 TAAACTATACAT-TATATAGTTTATTAATATATATAACTATATGATATATAGACTATATGGTATA
1 TAAACTATACATATATATAGTTCATTAATATATATAACTATATGATATATAGACTATATAGTATA
1058115 TA
66 TA
*
1058117 TAAACTATACATTATATATAGTTCATTAGTATATATAAACTATAT-ACTATATAGA-TCAT-TAG
1 TAAACTATACA-TATATATAGTTCATTAATATATAT-AACTATATGA-TATATAGACT-ATATAG
*
1058179 TATGTA
62 TATATA
*
1058185 TAAACTATATAGTATATATA
1 TAAACTATACA-TATATATA
1058205 AACTATATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
66 11 0.14
67 1 0.01
68 47 0.61
69 18 0.23
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (67 bp):
TAAACTATACATATATATAGTTCATTAATATATATAACTATATGATATATAGACTATATAGTATA
TA
Found at i:1058198 original size:51 final size:51
Alignment explanation
Indices: 1058143--1058290 Score: 202
Period size: 51 Copynumber: 3.0 Consensus size: 51
1058133 TATAGTTCAT
* *
1058143 TAGTATATATAAACTATATACTATATAGATCATTAGTATGTATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATGTATAAACTATA
1058194 TAGTATATATAAACTATATATTATATAGTTCA-T--TA-GTAT--A-TATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATGTATAAACTATA
* * *
1058238 TGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATGTATAAACTATA
1058289 TA
1 TA
1058291 TTAATTTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
44 34 0.40
45 2 0.02
47 6 0.07
48 5 0.06
50 2 0.02
51 35 0.42
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATGTATAAACTATA
Found at i:1058213 original size:18 final size:18
Alignment explanation
Indices: 1058077--1058220 Score: 122
Period size: 18 Copynumber: 8.3 Consensus size: 18
1058067 TAGTTTATTA
1058077 ATATATATAACTATAT-G-
1 ATATATA-AACTATATAGT
* *
1058094 ATATATAGACTATATGGT
1 ATATATAAACTATATAGT
* *
1058112 ATATATAAACTATACATT
1 ATATATAAACTATATAGT
**
1058130 ATATAT-AGTTCAT-TAGT
1 ATATATAAACT-ATATAGT
*
1058147 ATATATAAACTATATACT
1 ATATATAAACTATATAGT
* *
1058165 ATATA-GATC-AT-TAGT
1 ATATATAAACTATATAGT
*
1058180 ATGTATAAACTATATAGT
1 ATATATAAACTATATAGT
*
1058198 ATATATAAACTATATATT
1 ATATATAAACTATATAGT
1058216 ATATA
1 ATATA
1058221 GTTCATTAGT
Statistics
Matches: 99, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.07
16 11 0.11
17 24 0.24
18 57 0.58
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
ATATATAAACTATATAGT
Found at i:1058233 original size:20 final size:20
Alignment explanation
Indices: 1058210--1058278 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
1058200 ATATAAACTA
1058210 TATATTATATAGTTCATTAG
1 TATATTATATAGTTCATTAG
* *
1058230 TATATATATGGTATA-TACAAACTA-
1 TATAT-TA---TATAGTTC--ATTAG
1058254 TATATTATATAGTTCATTAG
1 TATATTATATAGTTCATTAG
1058274 TATAT
1 TATAT
1058279 ATAAACTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 3 0.08
20 14 0.38
21 4 0.11
23 4 0.11
24 9 0.24
25 3 0.08
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (20 bp):
TATATTATATAGTTCATTAG
Found at i:1058236 original size:22 final size:22
Alignment explanation
Indices: 1058208--1058280 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
1058198 ATATATAAAC
1058208 TATATATTATATAGTTCATTAG
1 TATATATTATATAGTTCATTAG
* * * *
1058230 TATATATATGGTATA-TACA-AAC
1 TATATAT-T-ATATAGTTCATTAG
1058252 TATATATTATATAGTTCATTAG
1 TATATATTATATAGTTCATTAG
1058274 TATATAT
1 TATATAT
1058281 AAACTATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 4 0.10
21 4 0.10
22 23 0.59
23 4 0.10
24 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (22 bp):
TATATATTATATAGTTCATTAG
Found at i:1059572 original size:14 final size:15
Alignment explanation
Indices: 1059548--1059576 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1059538 CCATTAAAGT
1059548 GGAGTTTGGGAGTTG
1 GGAGTTTGGGAGTTG
1059563 GGAG-TTGGGAGTTG
1 GGAGTTTGGGAGTTG
1059577 TAAGTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.00, G:0.55, T:0.31
Consensus pattern (15 bp):
GGAGTTTGGGAGTTG
Found at i:1060889 original size:18 final size:16
Alignment explanation
Indices: 1060866--1060900 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
1060856 ATCAAATTTA
1060866 TAATATACAAATTATAAT
1 TAATATA-AAATTA-AAT
1060884 TAATATAAAATTAAAT
1 TAATATAAAATTAAAT
1060900 T
1 T
1060901 TGAAGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATAAAATTAAAT
Found at i:1068655 original size:91 final size:91
Alignment explanation
Indices: 1068526--1068741 Score: 260
Period size: 91 Copynumber: 2.4 Consensus size: 91
1068516 GTAACCATGC
* * * * *
1068526 AAATAAGCTTACGTGCTTACGGAATAAT-GTCAAGTATATTGGA-AAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTATGGAAAAATGGT-AAATATATT-GATAAAATAAGCTTACAAGCTTA
*
1068589 TGGTA-TTAAATGGTAAATATATTGGTAA
64 TGGAATTTAAATGGTAAATATATTGGT-A
1068617 AAATAAGCTTA-GAGCTTATGGAACAAATGGTAAATATATTGATAAAATAAGCTTACAAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAA-AAATGGTAAATATATTGATAAAATAAGCTTACAAGCTTAT
* *
1068681 GGAATTTAAATGGTAAGTATTTTGGTA
65 GGAATTTAAATGGTAAATATATTGGTA
* * *
1068708 AAATAAGCTTACAAGTTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTAT-GGAAAAATGGTAA
1068742 GAGATTTTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
90 12 0.11
91 57 0.53
92 36 0.33
93 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.32
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGGAAAAATGGTAAATATATTGATAAAATAAGCTTACAAGCTTATG
GAATTTAAATGGTAAATATATTGGTA
Found at i:1068663 original size:45 final size:45
Alignment explanation
Indices: 1068526--1068741 Score: 249
Period size: 47 Copynumber: 4.8 Consensus size: 45
1068516 GTAACCATGC
* * * *
1068526 AAATAAGCTTACGTGCTTACGGAAT-AAT-GTCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT-AAATATATTGGTA
*
1068570 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAATATATTGGTAA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAATATATTGGT-A
* *
1068617 AAATAAGCTTA-GAGCTTATGGAACAAATGGTAAATATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGTA
* * *
1068661 AAATAAGCTTACAAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATATTGGTA
* * *
1068708 AAATAAGCTTACAAGTTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
1068742 GAGATTTTAT
Statistics
Matches: 150, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
44 32 0.21
45 42 0.28
46 23 0.15
47 53 0.35
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGTA
Found at i:1070968 original size:22 final size:22
Alignment explanation
Indices: 1070931--1070973 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1070921 ATACTTAAAG
*
1070931 GAAGTATCGGTACCATAGTATA
1 GAAGTATCGATACCATAGTATA
* *
1070953 GAAGTATCGATCCCATGGTAT
1 GAAGTATCGATACCATAGTAT
1070974 GGGTACCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (22 bp):
GAAGTATCGATACCATAGTATA
Found at i:1071689 original size:81 final size:81
Alignment explanation
Indices: 1071529--1072082 Score: 699
Period size: 81 Copynumber: 6.9 Consensus size: 81
1071519 ACCCAAAGTC
* * * * * *
1071529 ATTTAGCCTTTCATCTAACTTG-CATGATTGACACCTTTTTG-CCAA-GCACAACTAGGCATTTA
1 ATTTAACCTTTCATCTAAC-TGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTA
*
1071591 ATATTTAACTCAAAGGT
65 ATCTTTAACTCAAAGGT
*
1071608 ATTTAACCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATGCACAACTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTAA
1071673 TCTTTTAA-TCAAAGGT
66 TC-TTTAACTCAAAGGT
* * * * * *
1071689 ATTTAGCCTTTGATCTAACT-AGCATAATTAACACATTTTTTTTCAAATGCACAGCTAGGCAATT
1 ATTTAACCTTTCATCTAACTGA-CATAATTGACACA-TTTCTGTCAAATGCACAACTAGGCAATT
*
1071753 AATCTTTTACTCAAAGGT
64 AATCTTTAACTCAAAGGT
* * * * *
1071771 ATTTAACCTTTCATCTAACCGGCATAATTGATATATTTCTATCAAATGCACAACTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTAA
1071836 TCTTTAACTCAAAGGT
66 TCTTTAACTCAAAGGT
* * * *
1071852 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTATCCAATGCACAACTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTAA
*
1071917 TCTTT-ACTCAGAGGT
66 TCTTTAACTCAAAGGT
* *
1071932 ATTTAACCTTTCATCTAACT-AGCATAATTGACACCTTTCTGTCAAATGCACATCTAGGCAATTA
1 ATTTAACCTTTCATCTAACTGA-CATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTA
*
1071996 ATCTTTAACACAAAGGT
65 ATCTTTAACTCAAAGGT
** * * * * *
1072013 ATTTAAGATTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGTATAGCTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTAA
1072078 TCTTT
66 TCTTT
1072083 TATTTAAAAT
Statistics
Matches: 417, Mismatches: 47, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.00
79 34 0.08
80 76 0.18
81 236 0.57
82 69 0.17
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGCACAACTAGGCAATTAA
TCTTTAACTCAAAGGT
Found at i:1071779 original size:163 final size:162
Alignment explanation
Indices: 1071529--1072084 Score: 755
Period size: 161 Copynumber: 3.4 Consensus size: 162
1071519 ACCCAAAGTC
* * * * *
1071529 ATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTT-TTGCCAA-GCACAACTAGGCATTTAA
1 ATTTAGCCTTTCATCTAACTGGCATGATTGACACATTTCTTTCAAATGCACAACTAGGCAATTAA
* * *
1071592 TATTTAACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATGC
66 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
1071657 ACAACTAGGCAATTAATCTTTTAA-TCAAAGGT
131 ACAACTAGGCAATTAATC-TTTAACTCAAAGGT
* * * * * *
1071689 ATTTAGCCTTTGATCTAACTAGCATAATTAACACATTTTTTTTCAAATGCACAGCTAGGCAATTA
1 ATTTAGCCTTTCATCTAACTGGCATGATTGACACA-TTTCTTTCAAATGCACAACTAGGCAATTA
* * * * *
1071754 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACCGGCATAATTGATATATTTCTATCAAATG
65 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATG
1071819 CACAACTAGGCAATTAATCTTTAACTCAAAGGT
130 CACAACTAGGCAATTAATCTTTAACTCAAAGGT
* * *
1071852 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTATCCAATGCACAACTAGGCAATTAA
1 ATTTAGCCTTTCATCTAACTGGCATGATTGACACATTTCTTTCAAATGCACAACTAGGCAATTAA
* *
1071917 TC-TTTACTCAGAGGTATTTAACCTTTCATCTAACT-AGCATAATTGACACCTTTCTGTCAAATG
66 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGA-CATAATTGACACATTTCTGTCAAATG
* *
1071980 CACATCTAGGCAATTAATCTTTAACACAAAGGT
130 CACAACTAGGCAATTAATCTTTAACTCAAAGGT
* * * * *
1072013 ATTTAAG-ATTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGTATAGCTAGGCAATTA
1 ATTT-AGCCTTTCATCTAACTGGCATGATTGACACATTTCTTTCAAATGCACAACTAGGCAATTA
1072077 ATCTTTTA
65 ATCTTTTA
1072085 TTTAAAATAG
Statistics
Matches: 347, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
160 30 0.09
161 145 0.42
162 43 0.12
163 129 0.37
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (162 bp):
ATTTAGCCTTTCATCTAACTGGCATGATTGACACATTTCTTTCAAATGCACAACTAGGCAATTAA
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
ACAACTAGGCAATTAATCTTTAACTCAAAGGT
Found at i:1074147 original size:21 final size:21
Alignment explanation
Indices: 1074121--1074187 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
1074111 GGTTTTACGC
1074121 GGTCCTTCGGGACATATATGT
1 GGTCCTTCGGGACATATATGT
* * * * **
1074142 GGTCCTTTGAGACAAATCTAC
1 GGTCCTTCGGGACATATATGT
*
1074163 GAGTCCTTCAGGACATATATGT
1 G-GTCCTTCGGGACATATATGT
1074185 GGT
1 GGT
1074188 GCTTTGAGAT
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:1077811 original size:16 final size:16
Alignment explanation
Indices: 1077790--1077823 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1077780 GATGTTTGAG
*
1077790 AAGAATAAAGCAAATA
1 AAGAATAAAGAAAATA
*
1077806 AAGAATGAAGAAAATA
1 AAGAATAAAGAAAATA
1077822 AA
1 AA
1077824 ATTTTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (16 bp):
AAGAATAAAGAAAATA
Found at i:1079569 original size:17 final size:19
Alignment explanation
Indices: 1079547--1079592 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1079537 GAGCATTAGG
*
1079547 AAAGAATATG-A-AAACTT
1 AAAGAATATGTAGAAACTA
1079564 AAAGAA-ATGTAGAAACTA
1 AAAGAATATGTAGAAACTA
1079582 AAAGAAT-TGTA
1 AAAGAATATGTA
1079593 ATTTGCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 7 0.28
18 15 0.60
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (19 bp):
AAAGAATATGTAGAAACTA
Found at i:1085089 original size:43 final size:46
Alignment explanation
Indices: 1085028--1085136 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 46
1085018 AGCTCGTAAT
* * * *
1085028 TTGCACCGAAGTTCCACATA-ATTTTC-TTGAAG-GACCACATA-GG
1 TTGCACCGAAGTGCCACATAGAGTTGCACTGAAGTG-CCACATAGGG
* *
1085071 TTGCACCGAAGTGCCACATAGGGTTGCACTGAAGTGCCATATAGGG
1 TTGCACCGAAGTGCCACATAGAGTTGCACTGAAGTGCCACATAGGG
1085117 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
1085137 TTTGTCCCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 19 0.34
44 3 0.05
45 11 0.20
46 23 0.41
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (46 bp):
TTGCACCGAAGTGCCACATAGAGTTGCACTGAAGTGCCACATAGGG
Found at i:1085099 original size:23 final size:23
Alignment explanation
Indices: 1085062--1085136 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
1085052 TCTTGAAGGA
1085062 CCACATA-GGTTGCACCGAAGTG
1 CCACATAGGGTTGCACCGAAGTG
*
1085084 CCACATAGGGTTGCACTGAAGTG
1 CCACATAGGGTTGCACCGAAGTG
*
1085107 CCATATAGGGTTGCACCGAAGTG
1 CCACATAGGGTTGCACCGAAGTG
1085130 CCACATA
1 CCACATA
1085137 TTTGTCCCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
22 7 0.15
23 41 0.85
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
CCACATAGGGTTGCACCGAAGTG
Found at i:1085156 original size:21 final size:21
Alignment explanation
Indices: 1085122--1085179 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1085112 TAGGGTTGCA
* *
1085122 CCGAAGTG-CCACATATTTGTC
1 CCGAA-TGACCACATAATTATC
1085143 CC-AGATGACCACATAATTATC
1 CCGA-ATGACCACATAATTATC
1085164 CCGAATGACCACATAA
1 CCGAATGACCACATAA
1085180 ACCCTCGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 3 0.09
21 28 0.88
22 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.22
Consensus pattern (21 bp):
CCGAATGACCACATAATTATC
Found at i:1085419 original size:2 final size:2
Alignment explanation
Indices: 1085412--1085448 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1085402 ATAAAACATA
1085412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1085449 GTTTTCGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1085911 original size:22 final size:23
Alignment explanation
Indices: 1085885--1085928 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1085875 ATGACCATTT
*
1085885 TCAACTCAAAAA-TCACTTAAAA
1 TCAACCCAAAAACTCACTTAAAA
*
1085907 TCAACCCAAAAACTCTCTTAAA
1 TCAACCCAAAAACTCACTTAAA
1085929 CATATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (23 bp):
TCAACCCAAAAACTCACTTAAAA
Found at i:1091953 original size:22 final size:23
Alignment explanation
Indices: 1091928--1091972 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1091918 TTCCAAAATG
*
1091928 ACCACATA-GGTTGCACCGAAGT
1 ACCACATAGGGTTGCACCAAAGT
1091950 ACCACATAGGGTTGCACCAAAGT
1 ACCACATAGGGTTGCACCAAAGT
1091973 GCCATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ACCACATAGGGTTGCACCAAAGT
Found at i:1100553 original size:16 final size:16
Alignment explanation
Indices: 1100528--1100558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1100518 AGAGGGTTGC
*
1100528 CAAAGCTAAAATTTGA
1 CAAAGATAAAATTTGA
1100544 CAAAGATAAAATTTG
1 CAAAGATAAAATTTG
1100559 TGATGCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAAGATAAAATTTGA
Found at i:1103482 original size:23 final size:22
Alignment explanation
Indices: 1103409--1103485 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
1103399 TTATATAGTT
1103409 CATCGATGCATCCCTTGAATGTG
1 CATCGATGCAT-CCTTGAATGTG
* * * *
1103432 CATCGATACA-CCATGAAGGTA
1 CATCGATGCATCCTTGAATGTG
* *
1103453 CACCGATGCATTCCTTGAATATG
1 CATCGATGCA-TCCTTGAATGTG
1103476 CATCGATGCA
1 CATCGATGCA
1103486 CGCTACTATG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 16 0.39
23 25 0.61
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (22 bp):
CATCGATGCATCCTTGAATGTG
Found at i:1105356 original size:8 final size:8
Alignment explanation
Indices: 1105343--1105373 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1105333 GGATTGTTTT
1105343 ATGTTTGG
1 ATGTTTGG
1105351 ATGTTTGG
1 ATGTTTGG
*
1105359 ATGTTTGA
1 ATGTTTGG
1105367 ATGTTTG
1 ATGTTTG
1105374 AATTTGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (8 bp):
ATGTTTGG
Found at i:1108214 original size:21 final size:21
Alignment explanation
Indices: 1108190--1108245 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1108180 AGACTATAGA
* *
1108190 AGTGCATCGGTACATTTTAGT
1 AGTGCATCGGTACATTGTAGC
1108211 AGTGCATCGGTACATTGTAGC
1 AGTGCATCGGTACATTGTAGC
*
1108232 AGTGCATCGATACA
1 AGTGCATCGGTACA
1108246 CAATTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (21 bp):
AGTGCATCGGTACATTGTAGC
Found at i:1111389 original size:143 final size:140
Alignment explanation
Indices: 1111121--1111755 Score: 679
Period size: 143 Copynumber: 4.4 Consensus size: 140
1111111 ATAGGTGCAC
* * ** *
1111121 AGGCCAAACAAATGCACCATGGCAGAAACTTTCTAGCGCACAATTAATCATCTTTAGCAACTTTT
1 AGGCCAAA-TAATG-ACTATGGCAGAAACTTTCTAGTACACAATTAATCATCTTCAGCAAC-TTT
* * **
1111186 TTGGGACATATCAACTCAAATCAGAAAACTTTTTAGTGGTGTGTTATCACTTCATATTAGAAAAA
63 TTGGGATATATCAACTCAAATCAG-AAAGTTTTTAGTGGTGCATTATCACTTCATATTAGAAAAA
* * * *
1111251 CGTTTATTTTTTTAT
127 CATGTA-TTTCTCAT
* * *
1111266 AGGCC-AATAATGCACTGTGGTAGAAACTTTCTAGTACACAATTAATCATCTTCAACAACTTTTG
1 AGGCCAAATAATG-ACTATGGCAGAAACTTTCTAGTACACAATTAATCATCTTCAGCAACTTTT-
* *
1111330 TGGGATATATCAACTCAAATCAGAAATGTTTTTAGTGGTGCATCATCACTTCATATTAGAAAAAT
64 TGGGATATATCAACTCAAATCAGAAA-GTTTTTAGTGGTGCATTATCACTTCATATTAGAAAAAC
*
1111395 GTGTATTTCTCAT
128 ATGTATTTCTCAT
* * **
1111408 AGGCCAAATAATGTAAC-ATGGAAGAAACTTT-TCAGTACATAATTAATCATCTTCATTAACTTT
1 AGGCCAAATAATG--ACTATGGCAGAAACTTTCT-AGTACACAATTAATCATCTTCAGCAACTTT
*** * * * * *
1111471 TCACTGATATATCAACTCAAATCAGAAAATATTCAATGGTGCATTATCACTTCATA-TATGAAAT
63 T-TGGGATATATCAACTCAAATCAGAAAGTTTTTAGTGGTGCATTATCACTTCATATTA-GAAAA
*
1111535 ACATGTATTTATCAT
126 ACATGTATTTCTCAT
* * * *
1111550 AGGCCAAATAACGAATCATGGCAGAAACTTTCCAGTACACAATTAATCATCTTCAGTAACTTTTT
1 AGGCCAAATAATGACT-ATGGCAGAAACTTTCTAGTACACAATTAATCATCTTCAGCAACTTTTT
* * *
1111615 AGTGATATATCAACTCAAATCAGAAAACG-TTTTAGTGGTGTATTATCACTTCATATCAGAAAAA
65 -GGGATATATCAACTCAAATCAG-AAA-GTTTTTAGTGGTGCATTATCACTTCATATTAGAAAAA
1111679 CATGTATTTCTCAT
127 CATGTATTTCTCAT
* * *
1111693 TGGCCAAATAATGGACCT-TGGCAGAAACTTTTTAGTACACAATTAAGCATCTTCAGCAACTTT
1 AGGCCAAATAAT-GA-CTATGGCAGAAACTTTCTAGTACACAATTAATCATCTTCAGCAACTTT
1111756 CTAGTCGAAA
Statistics
Matches: 416, Mismatches: 59, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
140 1 0.00
141 2 0.00
142 133 0.32
143 267 0.64
144 7 0.02
145 6 0.01
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (140 bp):
AGGCCAAATAATGACTATGGCAGAAACTTTCTAGTACACAATTAATCATCTTCAGCAACTTTTTG
GGATATATCAACTCAAATCAGAAAGTTTTTAGTGGTGCATTATCACTTCATATTAGAAAAACATG
TATTTCTCAT
Found at i:1111665 original size:285 final size:286
Alignment explanation
Indices: 1111193--1111747 Score: 735
Period size: 285 Copynumber: 1.9 Consensus size: 286
1111183 TTTTTGGGAC
* * * ** * *
1111193 ATATCAACTCAAATCAGAAAACTTTTTAGTGGTGTGTTATCACTTCATATTAGAAAAACGTTTAT
1 ATATCAACTCAAATCAGAAAACTATTCAATGGTGCATTATCACTTCATATTAGAAAAACATGTAT
* * * * * * *
1111258 TTTTTTATAGGCCAATAATGCACTGTGGTAGAAACTTTCTAGTACACAATTAATCATCTTCAACA
66 TTTATCATAGGCCAATAACGAACTATGGCAGAAACTTTCCAGTACACAATTAATCATCTTCAACA
* *
1111323 ACTTTTGTGGGATATATCAACTCAAATCAGAAATGTTTTTAGTGGTGCATCATCACTTCATATTA
131 ACTTTTGTGGGATATATCAACTCAAATCAGAAACGTTTTTAGTGGTGCATCATCACTTCATATCA
** * *
1111388 GAAAAATGTGTATTTCTCATAGGCCAAATAATGTAACATGGAAGAAACTTTTCAGTACATAATTA
196 GAAAAACATGTATTTCTCATAGGCCAAATAATGGAACATGGAAGAAACTTTTCAGTACACAATTA
*
1111453 ATCATCTTCATTAACTTTTCACTGAT
261 AGCATCTTCATTAACTTTTCACTGAT
*
1111479 ATATCAACTCAAATCAGAAAA-TATTCAATGGTGCATTATCACTTCATA-TATGAAATACATGTA
1 ATATCAACTCAAATCAGAAAACTATTCAATGGTGCATTATCACTTCATATTA-GAAAAACATGTA
1111542 -TTTATCATAGGCCAAATAACGAA-TCATGGCAGAAACTTTCCAGTACACAATTAATCATCTTCA
65 TTTTATCATAGGCC-AATAACGAACT-ATGGCAGAAACTTTCCAGTACACAATTAATCATCTTCA
** * * *
1111605 GTAACTTTT-TAGTGATATATCAACTCAAATCAGAAAACG-TTTTAGTGGTGTATTATCACTTCA
128 ACAACTTTTGT-GGGATATATCAACTCAAATCAG-AAACGTTTTTAGTGGTGCATCATCACTTCA
* * * * *
1111668 TATCAGAAAAACATGTATTTCTCATTGGCCAAATAATGGACCTTGGCAGAAACTTTTTAGTACAC
191 TATCAGAAAAACATGTATTTCTCATAGGCCAAATAATGGAACATGGAAGAAACTTTTCAGTACAC
1111733 AATTAAGCATCTTCA
256 AATTAAGCATCTTCA
1111748 GCAACTTTCT
Statistics
Matches: 232, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
284 15 0.06
285 192 0.83
286 25 0.11
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (286 bp):
ATATCAACTCAAATCAGAAAACTATTCAATGGTGCATTATCACTTCATATTAGAAAAACATGTAT
TTTATCATAGGCCAATAACGAACTATGGCAGAAACTTTCCAGTACACAATTAATCATCTTCAACA
ACTTTTGTGGGATATATCAACTCAAATCAGAAACGTTTTTAGTGGTGCATCATCACTTCATATCA
GAAAAACATGTATTTCTCATAGGCCAAATAATGGAACATGGAAGAAACTTTTCAGTACACAATTA
AGCATCTTCATTAACTTTTCACTGAT
Found at i:1116518 original size:81 final size:81
Alignment explanation
Indices: 1116383--1116544 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
1116373 GTTGATTGTA
1116383 CCACCTTATAGCAGCTTCGGTCAAACTATCTTGTAAGCAATGGATCAAGAGTTTGTCATCATTTA
1 CCACCTTATAGCAGCTTCGGTCAAACTATCTTGTAAGCAATGGATCAAGAGTTTGTCATCATTTA
1116448 CATGACTTGTCATCCT
66 CATGACTTGTCATCCT
1116464 CCACCTTATAGCAGCTTCGGTCAAACTATCTTGTAAGCAATGGATCAAGAGTTTGTCATCATTTA
1 CCACCTTATAGCAGCTTCGGTCAAACTATCTTGTAAGCAATGGATCAAGAGTTTGTCATCATTTA
1116529 CATGACTTGTCATCCT
66 CATGACTTGTCATCCT
1116545 TCAGAAAAAC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (81 bp):
CCACCTTATAGCAGCTTCGGTCAAACTATCTTGTAAGCAATGGATCAAGAGTTTGTCATCATTTA
CATGACTTGTCATCCT
Found at i:1120037 original size:16 final size:16
Alignment explanation
Indices: 1120016--1120048 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1120006 TAATAAATAA
1120016 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1120032 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1120048 A
1 A
1120049 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1120125 original size:14 final size:14
Alignment explanation
Indices: 1120106--1120145 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1120096 TTAAATAATA
*
1120106 AACGAACACGAACG
1 AACGAACACAAACG
*
1120120 AACGAACATAAACG
1 AACGAACACAAACG
1120134 AAC-AACACAAAC
1 AACGAACACAAAC
1120146 ACACAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.57, C:0.28, G:0.12, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:1120409 original size:24 final size:26
Alignment explanation
Indices: 1120378--1120433 Score: 98
Period size: 24 Copynumber: 2.2 Consensus size: 26
1120368 TGCCCTCTGT
1120378 TCGAACATAAATGAACGAACATA-AA
1 TCGAACATAAATGAACGAACATATAA
1120403 T-GAACATAAATGAACGAACATATAA
1 TCGAACATAAATGAACGAACATATAA
1120428 TCGAAC
1 TCGAAC
1120434 GTTCACGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 21 0.72
25 4 0.14
26 4 0.14
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (26 bp):
TCGAACATAAATGAACGAACATATAA
Found at i:1120433 original size:16 final size:14
Alignment explanation
Indices: 1120379--1120434 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
1120369 GCCCTCTGTT
1120379 CGAACATAAATGAA
1 CGAACATAAATGAA
1120393 CGAACATAAAT---
1 CGAACATAAATGAA
1120404 -GAACATAAATGAA
1 CGAACATAAATGAA
1120417 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
1120433 CG
1 CG
1120435 TTCACGAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.28
14 18 0.50
15 3 0.08
16 5 0.14
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:1133421 original size:43 final size:43
Alignment explanation
Indices: 1133333--1133600 Score: 267
Period size: 43 Copynumber: 6.2 Consensus size: 43
1133323 TAGAGGCTTT
* * * *
1133333 AATTATAAAGATAGAAATTGAGATCGAAAAAAAATTAGGGATCTC
1 AATTATAAAGGTAGAAAGTGAGATTG--AAAAAATTAGGGGTCTC
* *
1133378 AATTATAAAGGTA-TAATTGAGATTGAAAAAACTTAGGGGTCTC
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAAA-TTAGGGGTCTC
*
1133421 AATTATAAAGGTAGAAAGTGAGATTGAAAAATTTTA-GGGTCTC
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAA-ATTAGGGGTCTC
** * *
1133464 AATTATAAACTTAAAAAAGTGAGATT-AAAAAATTAGGGGCCTC
1 AATTATAAAGGT-AGAAAGTGAGATTGAAAAAATTAGGGGTCTC
* * * * *
1133507 AATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTC
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAAATTAGGGGTCTC
* * * *
1133550 AATTATAATGTTAAAAAGTGAGATT-AAAAAATTA-GAGTCCTC
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAAATTAGGGGT-CTC
1133592 AATTATAAA
1 AATTATAAA
1133601 AATTAAAAAT
Statistics
Matches: 190, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.02
42 39 0.21
43 96 0.51
44 40 0.21
45 12 0.06
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (43 bp):
AATTATAAAGGTAGAAAGTGAGATTGAAAAAATTAGGGGTCTC
Found at i:1133508 original size:86 final size:85
Alignment explanation
Indices: 1133315--1133600 Score: 331
Period size: 86 Copynumber: 3.3 Consensus size: 85
1133305 AAATGAAAAA
* * * * *
1133315 AAAAACATTAGAGGCTTTAATTATAAAGATAGAAATTGAGATCGAAAAAAAATTAGGGATCTCAA
1 AAAAA-ATTAGAGGCCTCAATTATAAAGGTAGAAATTGAGATTG-AAAAAATTTAGGG-TCTCAA
* * *
1133380 TTATAAAGGT-ATAATTGAGATT
63 TTATAAAGTTAAAAAGTGAGATT
* * * *
1133402 GAAAAAACTTAGGGGTCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAATTTTAGGGTCTCAAT
1 -AAAAAA-TTAGAGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAATTTAGGGTCTCAAT
*
1133467 TATAAACTTAAAAAAGTGAGATT
64 TATAAAGTT-AAAAAGTGAGATT
* * * * *
1133490 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTCAATTA
1 AAAAAATTAGAGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAATTTAGGGTCTCAATTA
*
1133555 TAATGTTAAAAAGTGAGATT
66 TAAAGTTAAAAAGTGAGATT
*
1133575 AAAAAATTAGAGTCCTCAATTATAAA
1 AAAAAATTAGAGGCCTCAATTATAAA
1133601 AATTAAAAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
85 37 0.22
86 72 0.42
87 18 0.10
88 45 0.26
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (85 bp):
AAAAAATTAGAGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAATTTAGGGTCTCAATTA
TAAAGTTAAAAAGTGAGATT
Found at i:1133508 original size:129 final size:129
Alignment explanation
Indices: 1133361--1133736 Score: 348
Period size: 129 Copynumber: 3.0 Consensus size: 129
1133351 TGAGATCGAA
* * * * *
1133361 AAAAAATTAGGGATCTCAATTATAAAGGTA-TAATTGAGATTGAAAAAACTTAGGGGTCTCAATT
1 AAAAAATTAGGGACCTCAATTATAAAGGTAGAAATTGAGATTG-AAAAACTTAAGAGCCTCAATT
* * * *
1133425 ATAAAGGTAGAAAGTGAGATTGAAAAATTTTAGGGT-CTCAATTAT-AAACTTAAAAAAGTGAGA
65 ATAAAGGTAAAAAGTGAGATT-AAAAA-ATTAGAGTCCTCAATTATAAAAATTAAAAAAGTGAGA
1133488 TT
128 TT
*
1133490 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTCAATTA
1 AAAAAATTAGGGACCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTCAATTA
* *
1133555 TAATGTTAAAAAGTGAGATTAAAAAATTAGAGTCCTCAATTATAAAAATT-AAAAA-T----TT
66 TAAAGGTAAAAAGTGAGATTAAAAAATTAGAGTCCTCAATTATAAAAATTAAAAAAGTGAGATT
* * * * * * * *
1133613 GAAAAATTAGAGA-CTGTAATTATAAAGATA-ACAAGTGAGATTGAATAAAATT-AGAACATCAA
1 AAAAAATTAGGGACCT-CAATTATAAAGGTAGA-AATTGAGATTGAA-AAACTTAAGAGCCTCAA
* * ** * * * *
1133675 TTATAAAGGTAAAAA-TAAGATTTAAAAATTA-AGAACTTAATTATAAAGATAAAAAAAATGAG
63 TTATAAAGGTAAAAAGTGAGATTAAAAAATTAGAGTCCTCAATTATAAAAATTAAAAAAGTGAG
1133737 GACCCTAATT
Statistics
Matches: 206, Mismatches: 30, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
121 15 0.07
122 22 0.11
123 58 0.28
124 5 0.02
127 7 0.03
128 19 0.09
129 69 0.33
130 11 0.05
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (129 bp):
AAAAAATTAGGGACCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTCAATTA
TAAAGGTAAAAAGTGAGATTAAAAAATTAGAGTCCTCAATTATAAAAATTAAAAAAGTGAGATT
Found at i:1133607 original size:43 final size:43
Alignment explanation
Indices: 1133333--1133702 Score: 250
Period size: 43 Copynumber: 8.7 Consensus size: 43
1133323 TAGAGGCTTT
* * * *
1133333 AATTATAAAGATAGAAATTGAGATCGAAAAAAAATTAGGGAT-CTC
1 AATTATAAAGTTAAAAAGTGAGATTG--AAAAAATTAGGG-TCCTC
* * *
1133378 AATTATAAAGGT-ATAATTGAGATTGAAAAAACTTAGGGGT-CTC
1 AATTATAAAGTTAAAAAGTGAGATTGAAAAAA-TTA-GGGTCCTC
* * *
1133421 AATTATAAAGGTAGAAAGTGAGATTGAAAAATTTTAGGGT-CTC
1 AATTATAAAGTTAAAAAGTGAGATTGAAAAA-ATTAGGGTCCTC
* *
1133464 AATTATAAACTTAAAAAAGTGAGATT-AAAAAATTAGGGGCCTC
1 AATTATAAAGTT-AAAAAGTGAGATTGAAAAAATTAGGGTCCTC
* * * * *
1133507 AATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAG-CCTC
1 AATTATAAAGTTAAAAAGTGAGATTGAAAAAATT-AGGGTCCTC
* *
1133550 AATTATAATGTTAAAAAGTGAGATT-AAAAAATTAGAGTCCTC
1 AATTATAAAGTTAAAAAGTGAGATTGAAAAAATTAGGGTCCTC
* * * *
1133592 AATTATAAAAATTAAAAA-T----TTG-AAAAATTAGAG-ACTGT
1 AATTAT-AAAGTTAAAAAGTGAGATTGAAAAAATTAGGGTCCT-C
* * ** *
1133630 AATTATAAAGATAACAAGTGAGATTGAATAAAATTA-GAACATC
1 AATTATAAAGTTAAAAAGTGAGATTGAA-AAAATTAGGGTCCTC
* * *
1133673 AATTATAAAGGTAAAAA-TAAGATTTAAAAA
1 AATTATAAAGTTAAAAAGTGAGATTGAAAAA
1133703 TTAAGAACTT
Statistics
Matches: 265, Mismatches: 40, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
37 10 0.04
38 20 0.08
41 7 0.03
42 52 0.20
43 111 0.42
44 54 0.20
45 11 0.04
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.28
Consensus pattern (43 bp):
AATTATAAAGTTAAAAAGTGAGATTGAAAAAATTAGGGTCCTC
Found at i:1133688 original size:80 final size:80
Alignment explanation
Indices: 1133477--1133729 Score: 219
Period size: 85 Copynumber: 3.1 Consensus size: 80
1133467 TATAAACTTA
* * * * *
1133477 AAAAAGTGAGATTAAAAAATTAGGGGCCTCAATTAT-AAAGGTAGAAATTGAGATTGAAAAACTT
1 AAAAAGTGAGATTAAAAAATTAGAGACATCAATTATAAAAAGTA-AAA---ATATTGAAAAA-TT
* * * *
1133541 AAGAGCCTCAATTATAATGTT
61 AAGA-ACTTAATTATAAAGAT
* * *
1133562 AAAAAGTGAGATTAAAAAATTAGAGTCCTCAATTATAAAAATTAAAAAT-TTGAAAAATT-AGAG
1 AAAAAGTGAGATTAAAAAATTAGAGACATCAATTATAAAAAGTAAAAATATTGAAAAATTAAGA-
1133625 ACTGTAATTATAAAGAT
65 ACT-TAATTATAAAGAT
* * *
1133642 AACAAGTGAGATTGAATAAAATTAGA-ACATCAATTAT-AAAGGTAAAAATAAGATTTAAAAATT
1 AAAAAGTGAGATT-AA-AAAATTAGAGACATCAATTATAAAAAGTAAAAAT---ATTGAAAAATT
1133705 AAGAACTTAATTATAAAGAT
61 AAGAACTTAATTATAAAGAT
1133725 AAAAA
1 AAAAA
1133730 AAATGAGGAC
Statistics
Matches: 143, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.04
80 34 0.24
81 19 0.13
82 10 0.07
83 17 0.12
84 12 0.08
85 40 0.28
86 5 0.03
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (80 bp):
AAAAAGTGAGATTAAAAAATTAGAGACATCAATTATAAAAAGTAAAAATATTGAAAAATTAAGAA
CTTAATTATAAAGAT
Found at i:1133717 original size:40 final size:39
Alignment explanation
Indices: 1133609--1133729 Score: 125
Period size: 40 Copynumber: 2.9 Consensus size: 39
1133599 AAAATTAAAA
* *
1133609 ATTTGAAAAATTAGAGACTGTAATTATAAAGATAACAAGTGAG
1 ATTT-AAAAATTAGA-ACT-TAATTATAAAGATAA-AAATAAG
* * *
1133652 ATTGAATAAAATTAGAACATCAATTATAAAGGTAAAAATAAG
1 ATT-TA-AAAATTAGAAC-TTAATTATAAAGATAAAAATAAG
1133694 ATTTAAAAATTAAGAACTTAATTATAAAGATAAAAA
1 ATTTAAAAATT-AGAACTTAATTATAAAGATAAAAA
1133730 AAATGAGGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
40 23 0.35
41 6 0.09
42 8 0.12
43 19 0.29
44 10 0.15
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.28
Consensus pattern (39 bp):
ATTTAAAAATTAGAACTTAATTATAAAGATAAAAATAAG
Found at i:1133732 original size:123 final size:123
Alignment explanation
Indices: 1133507--1133733 Score: 264
Period size: 123 Copynumber: 1.8 Consensus size: 123
1133497 TAGGGGCCTC
* * * * * * * *
1133507 AATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAGAGCCTCAATTATAATGTTAAAAAGTGAG
1 AATTATAAAGATAGAAAGTGAGATTGAAAAAATTAAGAACATCAATTATAAAGGTAAAAAGTAAG
** **
1133572 ATTAAAAAATTAGAGTCCTCAATTATAAAAATTAAAAATTTGAAAAATTAGAGACTGT
66 ATTAAAAAATTAGAGAACTCAATTATAAAAAAAAAAAATTTGAAAAATTAGAGACTGT
1133630 AATTATAAAGATA-ACAAGTGAGATTGAATAAAATT-AGAACATCAATTATAAAGGTAAAAA-TA
1 AATTATAAAGATAGA-AAGTGAGATTGAA-AAAATTAAGAACATCAATTATAAAGGTAAAAAGTA
* *
1133692 AGATTTAAAAATTA-AGAACTTAATTATAAAGATAAAAAAAAT
64 AGATTAAAAAATTAGAGAACTCAATTATAAA-A-AAAAAAAAT
1133734 GAGGACCCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
121 13 0.15
122 16 0.19
123 52 0.60
124 5 0.06
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (123 bp):
AATTATAAAGATAGAAAGTGAGATTGAAAAAATTAAGAACATCAATTATAAAGGTAAAAAGTAAG
ATTAAAAAATTAGAGAACTCAATTATAAAAAAAAAAAATTTGAAAAATTAGAGACTGT
Found at i:1137175 original size:30 final size:30
Alignment explanation
Indices: 1137139--1137219 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 30
1137129 TGCGTCAAAT
1137139 TGTTGGGGACCATATTGCAAACAGACTAAA
1 TGTTGGGGACCATATTGCAAACAGACTAAA
* **
1137169 TGTTGGGGGACCATTTTGCAAATGGACTAAA
1 TGTT-GGGGACCATATTGCAAACAGACTAAA
**
1137200 TGTTGGGGACTGTATTGCAA
1 TGTTGGGGACCATATTGCAA
1137220 GTTTTAAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (30 bp):
TGTTGGGGACCATATTGCAAACAGACTAAA
Found at i:1141422 original size:15 final size:15
Alignment explanation
Indices: 1141398--1141428 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1141388 GAATTGTTTT
*
1141398 TATTTTATTTATTAA
1 TATTTGATTTATTAA
1141413 TATTTGATTTATTAA
1 TATTTGATTTATTAA
1141428 T
1 T
1141429 CAATTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TATTTGATTTATTAA
Found at i:1145135 original size:183 final size:186
Alignment explanation
Indices: 1144827--1145199 Score: 707
Period size: 183 Copynumber: 2.0 Consensus size: 186
1144817 ATTGTTATGT
1144827 GAAATGCCTAGATATACATGACGGTAGTGTCGAGAATTCTCCTATTCTTCTAATGTTTACAAAAA
1 GAAATGCCTAGATATACATGACGGTAGTGTCGAGAATTCTCCTATTCTTCTAATGTTTACAAAAA
*
1144892 CATTTTTTTGTGCCTTCAAACTATAAGTTTGTCATCTAATGTACTAAACTTTCACTTAAAATCTT
66 CATTTTTTTGTGCCTTCAAACTATAAATTTGTCATCTAATGTACTAAACTTTCACTTAAAATCTT
1144957 GGCAG-GTTTCATGACATGTAAATT-TAGTGGAGTGTTCAGATTTTGAAGAATT-A
131 GGCAGTGTTTCATGACATGTAAATTATAGTGGAGTGTTCAGATTTTGAAGAATTAA
1145010 GAAATGCCTAGATATACATGACGGTAGTGTCGAGAATTCTCCTATTCTTCTAATGTTTACAAAAA
1 GAAATGCCTAGATATACATGACGGTAGTGTCGAGAATTCTCCTATTCTTCTAATGTTTACAAAAA
*
1145075 CATTTTTTTGTGCCTTCAAACTATAAATTTTTCATCTAATGTACTAAACTTTCACTTAAAATCTT
66 CATTTTTTTGTGCCTTCAAACTATAAATTTGTCATCTAATGTACTAAACTTTCACTTAAAATCTT
1145140 GGCAGTGTTTCATGACATGTAAATTATAGTGGAGTGTTCAGATTTTGAAGAATTAA
131 GGCAGTGTTTCATGACATGTAAATTATAGTGGAGTGTTCAGATTTTGAAGAATTAA
1145196 GAAA
1 GAAA
1145200 CACTAATGCT
Statistics
Matches: 185, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
183 133 0.72
184 19 0.10
185 28 0.15
186 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (186 bp):
GAAATGCCTAGATATACATGACGGTAGTGTCGAGAATTCTCCTATTCTTCTAATGTTTACAAAAA
CATTTTTTTGTGCCTTCAAACTATAAATTTGTCATCTAATGTACTAAACTTTCACTTAAAATCTT
GGCAGTGTTTCATGACATGTAAATTATAGTGGAGTGTTCAGATTTTGAAGAATTAA
Found at i:1147066 original size:23 final size:23
Alignment explanation
Indices: 1147030--1147076 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1147020 AAAAGAGGCC
*
1147030 ACTAACTATCCTAGATTCTAAAA
1 ACTAACCATCCTAGATTCTAAAA
*
1147053 ACTAACCATTCTAGATTCTAAAA
1 ACTAACCATCCTAGATTCTAAAA
1147076 A
1 A
1147077 ACAAATATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (23 bp):
ACTAACCATCCTAGATTCTAAAA
Found at i:1148249 original size:28 final size:28
Alignment explanation
Indices: 1148211--1148271 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
1148201 CGTATATAAT
1148211 ATATAGTTTTGAAAACATTTTTAAAAAC
1 ATATAGTTTTGAAAACATTTTTAAAAAC
* *
1148239 ATATGGTTTTGAAAACATTTTTGAAAAC
1 ATATAGTTTTGAAAACATTTTTAAAAAC
*
1148267 GTATA
1 ATATA
1148272 TTATATGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (28 bp):
ATATAGTTTTGAAAACATTTTTAAAAAC
Found at i:1148262 original size:12 final size:12
Alignment explanation
Indices: 1148217--1148266 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
1148207 TAATATATAG
1148217 TTTTGAAAACAT
1 TTTTGAAAACAT
*
1148229 TTTTAAAAACATAT
1 TTTTGAAAAC--AT
1148243 GGTTTTGAAAACAT
1 --TTTTGAAAACAT
1148257 TTTTGAAAAC
1 TTTTGAAAAC
1148267 GTATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 19 0.59
14 4 0.12
16 9 0.28
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:1148285 original size:35 final size:35
Alignment explanation
Indices: 1148239--1148426 Score: 234
Period size: 35 Copynumber: 5.3 Consensus size: 35
1148229 TTTTAAAAAC
1148239 ATATGGTTTTGAAAACATTTTTGAAAACGTATATT
1 ATATGGTTTTGAAAACATTTTTGAAAACGTATATT
* *
1148274 ATATGGTTTTGAAAACATGTTTGAAAACGTATAAT
1 ATATGGTTTTGAAAACATTTTTGAAAACGTATATT
*
1148309 ATATGGTTTTGAAAACATTTTTGAAAACATATATAAT
1 ATATGGTTTTGAAAACATTTTTGAAAACGTATAT--T
* * * *
1148346 ATATAGTTTTTAAAACCTTTTTGAAAACGTATATA
1 ATATGGTTTTGAAAACATTTTTGAAAACGTATATT
** * *
1148381 ATATAATTTTGAAAACGTATTTTGAAAACATATA-T
1 ATATGGTTTTGAAAACAT-TTTTGAAAACGTATATT
1148416 ATATGGATTTT
1 ATATGG-TTTT
1148427 TTTTAAAAAC
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
35 83 0.63
36 18 0.14
37 31 0.23
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (35 bp):
ATATGGTTTTGAAAACATTTTTGAAAACGTATATT
Found at i:1148391 original size:72 final size:71
Alignment explanation
Indices: 1148245--1148419 Score: 237
Period size: 72 Copynumber: 2.5 Consensus size: 71
1148235 AAACATATGG
* *
1148245 TTTTGAAAACATTTTTGAAAACGTATAT-TATATGGTTTTGAAAACATGTTTGAAAACGTATAAT
1 TTTTGAAAACATTTTTGAAAACATATATATATATAGTTTTGAAAACATGTTTGAAAACGTATAAT
**
1148309 ATATGG
66 ATATAA
* * *
1148315 TTTTGAAAACATTTTTGAAAACATATATAATATATAGTTTTTAAAACCTTTTTGAAAACGTAT-A
1 TTTTGAAAACATTTTTGAAAACATATAT-ATATATAGTTTTGAAAACATGTTTGAAAACGTATAA
1148379 TAATATAA
65 T-ATATAA
*
1148387 TTTTGAAAACGTATTTTGAAAACATATATATAT
1 TTTTGAAAACAT-TTTTGAAAACATATATATAT
1148420 GGATTTTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
70 27 0.29
71 2 0.02
72 48 0.52
73 16 0.17
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (71 bp):
TTTTGAAAACATTTTTGAAAACATATATATATATAGTTTTGAAAACATGTTTGAAAACGTATAAT
ATATAA
Found at i:1148474 original size:8 final size:8
Alignment explanation
Indices: 1148454--1148610 Score: 79
Period size: 8 Copynumber: 20.5 Consensus size: 8
1148444 TGAAAACACA
1148454 ATATATATT
1 ATATAT-TT
1148463 ATATATTT
1 ATATATTT
*
1148471 ATATAGTT
1 ATATATTT
*
1148479 ATATAGTT
1 ATATATTT
1148487 ATATA-TT
1 ATATATTT
* *
1148494 ATATGTTC
1 ATATATTT
1148502 ATATATTT
1 ATATATTT
*
1148510 -TCATTACCTT
1 AT-A-TA-TTT
1148520 ATATA-TT
1 ATATATTT
1148527 ATAT-TATT
1 ATATAT-TT
1148535 AT-TA-TT
1 ATATATTT
1148541 AT-TATATT
1 ATATAT-TT
1148549 AT-TA-TT
1 ATATATTT
1148555 AT-TA-TT
1 ATATATTT
1148561 AT-TA-TT
1 ATATATTT
*
1148567 ATATATAT
1 ATATATTT
*
1148575 ATATATAT
1 ATATATTT
*
1148583 ATATATAT
1 ATATATTT
*
1148591 ATATATAT
1 ATATATTT
*
1148599 ATATATAT
1 ATATATTT
1148607 ATAT
1 ATAT
1148611 TTTCAAGTCT
Statistics
Matches: 129, Mismatches: 7, Indels: 25
0.80 0.04 0.16
Matches are distributed among these distances:
6 22 0.17
7 16 0.12
8 77 0.60
9 10 0.08
10 3 0.02
11 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (8 bp):
ATATATTT
Found at i:1148533 original size:12 final size:12
Alignment explanation
Indices: 1148518--1148611 Score: 84
Period size: 14 Copynumber: 7.2 Consensus size: 12
1148508 TTTCATTACC
1148518 TTATATATTATA
1 TTATATATTATA
1148530 TTAT-TATTATTA
1 TTATATATTA-TA
1148542 TTATATTATTATTA
1 TTATA-TATTA-TA
1148556 TTAT-TATTATTA
1 TTATATATTA-TA
1148568 TATATATATATATA
1 T-TATATAT-TATA
1148582 TATATATATATATA
1 T-TATATAT-TATA
1148596 TATATATATATATA
1 T-TATATAT-TATA
1148610 TT
1 TT
1148612 TTCAAGTCTA
Statistics
Matches: 76, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.07
12 19 0.25
13 4 0.05
14 46 0.61
15 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATATATTATA
Found at i:1148536 original size:3 final size:3
Alignment explanation
Indices: 1148518--1148568 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
1148508 TTTCATTACC
1148518 TTA TATA TTA -TA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1148562 TTA TTA T
1 TTA TTA T
1148569 ATATATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1148542 original size:14 final size:17
Alignment explanation
Indices: 1148518--1148611 Score: 102
Period size: 16 Copynumber: 6.1 Consensus size: 17
1148508 TTTCATTACC
1148518 TTATATAT-TATAT-TA
1 TTATATATATATATATA
1148533 TTAT-TAT-TAT-TATA
1 TTATATATATATATATA
1148547 TTAT-TAT-TAT-TATTA
1 TTATATATATATATA-TA
1148562 TTAT-TATATATATATA
1 TTATATATATATATATA
1148578 -TATATATATATATATA
1 TTATATATATATATATA
1148594 -TATATATATATATATA
1 TTATATATATATATATA
1148610 TT
1 TT
1148612 TTCAAGTCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.01
14 20 0.27
15 16 0.22
16 33 0.45
17 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATATATATATATA
Found at i:1148543 original size:17 final size:17
Alignment explanation
Indices: 1148518--1148568 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
1148508 TTTCATTACC
1148518 TTATATATTATATTATTA
1 TTAT-TATTATATTATTA
1148536 TTATTATTATATTATTA
1 TTATTATTATATTATTA
1148553 TTATTATTATTATTAT
1 TTATTATTA-TATTAT
1148569 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:1148575 original size:6 final size:6
Alignment explanation
Indices: 1148519--1148610 Score: 93
Period size: 6 Copynumber: 17.5 Consensus size: 6
1148509 TTCATTACCT
1148519 TATATA T-TATA T-TAT- TAT-TA T-TAT- TATAT- TAT-TA T-TAT-
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
1148557 TAT-TA T-TAT- TATATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
1148602 TATATA TAT
1 TATATA TAT
1148611 TTTCAAGTCT
Statistics
Matches: 75, Mismatches: 0, Indels: 22
0.77 0.00 0.23
Matches are distributed among these distances:
4 10 0.13
5 25 0.33
6 40 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TATATA
Found at i:1148591 original size:20 final size:20
Alignment explanation
Indices: 1148519--1148610 Score: 93
Period size: 20 Copynumber: 5.2 Consensus size: 20
1148509 TTCATTACCT
1148519 TATATAT-TATAT-TAT-TA
1 TATATATATATATATATATA
1148536 T-TAT-TAT-TATAT-TAT-
1 TATATATATATATATATATA
1148551 TAT-TAT-TAT-TAT-TAT-
1 TATATATATATATATATATA
1148566 TATATATATATATATATATA
1 TATATATATATATATATATA
1148586 TATATATATATATATATATA
1 TATATATATATATATATATA
1148606 TATAT
1 TATAT
1148611 TTTCAAGTCT
Statistics
Matches: 64, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
15 17 0.27
16 12 0.19
17 4 0.06
18 3 0.05
19 3 0.05
20 25 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATATATATATATATA
Found at i:1150674 original size:20 final size:20
Alignment explanation
Indices: 1150651--1150716 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
1150641 AATATGTAAA
1150651 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
1150671 TCGCAACATAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1150691 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
1150711 TGGCAA
1 TCGCAA
1150717 AGCACGTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:1151253 original size:20 final size:20
Alignment explanation
Indices: 1151228--1151285 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
1151218 AAGAATAGTT
1151228 CAACACGAAAATGAAAATCG
1 CAACACGAAAATGAAAATCG
*
1151248 CAACAC------CAAAATCG
1 CAACACGAAAATGAAAATCG
*
1151262 CAACGCGAAAATGAAAATCG
1 CAACACGAAAATGAAAATCG
1151282 CAAC
1 CAAC
1151286 GCGATTTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
14 12 0.41
20 17 0.59
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.09
Consensus pattern (20 bp):
CAACACGAAAATGAAAATCG
Found at i:1151272 original size:14 final size:14
Alignment explanation
Indices: 1151240--1151273 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1151230 ACACGAAAAT
1151240 GAAAATCGCAACAC
1 GAAAATCGCAACAC
* *
1151254 CAAAATCGCAACGC
1 GAAAATCGCAACAC
1151268 GAAAAT
1 GAAAAT
1151274 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:1151313 original size:14 final size:14
Alignment explanation
Indices: 1151314--1151347 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1151304 TGCGATTTTC
*
1151314 ATTTTCGCGTTGTG
1 ATTTTCGCGTTGCG
*
1151328 ATTTTCTCGTTGCG
1 ATTTTCGCGTTGCG
1151342 ATTTTC
1 ATTTTC
1151348 ATTTTCGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.18, G:0.21, T:0.53
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:1151321 original size:20 final size:20
Alignment explanation
Indices: 1151286--1151362 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
1151276 AAATCGCAAC
*
1151286 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
1151305 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
1151325 GTGATTTTC----T--CGTT
1 GCGATTTTCATTTTCGCGTT
1151339 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
1151359 GCGA
1 GCGA
1151363 ATTTAAGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.25
16 1 0.02
18 1 0.02
19 8 0.17
20 26 0.54
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.48
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:1151373 original size:20 final size:20
Alignment explanation
Indices: 1151330--1151373 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1151320 GCGTTGTGAT
* * * *
1151330 TTTCTCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
1151350 TTTCGCGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
1151370 TTTC
1 TTTC
1151374 AGAAACTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:1153495 original size:21 final size:23
Alignment explanation
Indices: 1153467--1153543 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 23
1153457 GATTCACCTG
1153467 TCATCGTTCAAGAGGCGCCTC-C
1 TCATCGTTCAAGAGGCGCCTCTC
*
1153489 T-ATCGTTCAAGA-G-GCCTCTG
1 TCATCGTTCAAGAGGCGCCTCTC
1153509 TCATCGTTCAAGAGGC-CC-CTC
1 TCATCGTTCAAGAGGCGCCTCTC
1153530 TCATCGATT-AAGAG
1 TCATCG-TTCAAGAG
1153544 ACCGATTCAC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.10
20 2 0.04
21 35 0.73
22 6 0.12
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (23 bp):
TCATCGTTCAAGAGGCGCCTCTC
Found at i:1155031 original size:64 final size:65
Alignment explanation
Indices: 1154896--1155054 Score: 284
Period size: 64 Copynumber: 2.4 Consensus size: 65
1154886 TTAATTGAAT
1154896 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTTTTTGCTT
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTTTTTGCTT
1154961 G
65 G
* *
1154962 TTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTTTTTGCTTG
1155026 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
1155055 GTTTTAAATT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
64 59 0.65
65 28 0.31
66 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.51
Consensus pattern (65 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:1155172 original size:20 final size:20
Alignment explanation
Indices: 1155147--1155191 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1155137 CGTTGCGATT
*
1155147 TTCGCATCGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
1155167 TTCGCAACGTGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
1155187 TTCGC
1 TTCGC
1155192 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:1155195 original size:54 final size:54
Alignment explanation
Indices: 1155113--1155242 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
1155103 AAGGTACACT
* *
1155113 TTCGCAACGCGAAAGTTAAATTTGCGTTGCGATTTTCGCA-TCGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGCGTTGCGATTTTCG-AGTCGCGAAAGTCAAA
* * * *
1155167 TTCGCAACGTGAAAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGCGTTGCGATTTTCGAGTCGCGAAAGTCAAA
1155221 TTCGCAACGCGAAAGTCAAATT
1 TTCGCAACGCGAAAGTCAAATT
1155243 AGCAACGTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 67 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (54 bp):
TTCGCAACGCGAAAGTCAAATTCGCGTTGCGATTTTCGAGTCGCGAAAGTCAAA
Found at i:1155237 original size:20 final size:20
Alignment explanation
Indices: 1155209--1155282 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
1155199 TTTTTGAGTT
*
1155209 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
1155229 GCGAAAGTCAAATTAGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
1155249 GTGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
1155269 GTGAAAGTCAAATT
1 GCGAAAGTCAAATT
1155283 GGCATTGCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:1156470 original size:18 final size:18
Alignment explanation
Indices: 1156447--1156483 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1156437 ATTTATATAT
1156447 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1156465 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1156483 A
1 A
1156484 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1159238 original size:14 final size:15
Alignment explanation
Indices: 1159203--1159241 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
1159193 AAAATCATTG
1159203 AAAAAATTATATAGA
1 AAAAAATTATATAGA
*
1159218 AATAAAATTATGTA-A
1 AA-AAAATTATATAGA
1159233 AAAAAATTA
1 AAAAAATTA
1159242 GAGATGGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAAATTATATAGA
Found at i:1159421 original size:19 final size:18
Alignment explanation
Indices: 1159378--1159424 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1159368 CAAAACATTT
1159378 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
1159396 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
1159415 GTGTTGCGAA
1 GTGTTGCGAA
1159425 TTCGAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:1159461 original size:41 final size:40
Alignment explanation
Indices: 1159398--1159504 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 40
1159388 ACTAAAACCT
*
1159398 GTTGCGAAATT-AAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTCGTGTTGCGAATTCGAAAATCGA
* * * * *
1159437 GTTGTGAATTTGAAATTCAGTGTTGCAAATTTGGAAATCGC
1 GTTGCGAATTTGAAATTC-GTGTTGCGAATTCGAAAATCGA
*
1159478 GTTGCGAATTTG-ACTTCTGTGTTGCGA
1 GTTGCGAATTTGAAATTC-GTGTTGCGA
1159505 TTTGCAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
39 9 0.16
40 18 0.32
41 29 0.52
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (40 bp):
GTTGCGAATTTGAAATTCGTGTTGCGAATTCGAAAATCGA
Found at i:1159467 original size:21 final size:20
Alignment explanation
Indices: 1159397--1159508 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
1159387 AACTAAAACC
*
1159397 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAATTTGAAATTCG
* *
1159416 TGTTGCGAATTCGAAAATCG
1 TGTTGCGAATTTGAAATTCG
* *
1159436 AGTTGTGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAATTC-G
*
1159457 TGTTGCAAATTTGGAAA-TCG
1 TGTTGCGAATTT-GAAATTCG
* *
1159477 CGTTGCGAATTTG-ACTTCTG
1 TGTTGCGAATTTGAAATTC-G
1159497 TGTTGCG-ATTTG
1 TGTTGCGAATTTG
1159509 CAAAAATGAC
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.01
19 18 0.24
20 39 0.53
21 12 0.16
22 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.38
Consensus pattern (20 bp):
TGTTGCGAATTTGAAATTCG
Found at i:1159718 original size:60 final size:60
Alignment explanation
Indices: 1159588--1159711 Score: 185
Period size: 60 Copynumber: 2.1 Consensus size: 60
1159578 ATTTGGAAAA
* * *
1159588 TCGCAATGCGATTTACATATTCGCATTGCGAATTTGGAAATTGGGTTGCGAAATTGGAGT
1 TCGCAATGCGATTTACATATTCGCATTGCAAATTTGGAAACTGGGTTGCGAAATTAGAGT
* * * *
1159648 TCGCAATGCGATTTACATATTCTCGTTGCAAATTTGTAAACTGGGTTGTGAAATTAGAGT
1 TCGCAATGCGATTTACATATTCGCATTGCAAATTTGGAAACTGGGTTGCGAAATTAGAGT
1159708 TCGC
1 TCGC
1159712 GTTGCGAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (60 bp):
TCGCAATGCGATTTACATATTCGCATTGCAAATTTGGAAACTGGGTTGCGAAATTAGAGT
Found at i:1161009 original size:20 final size:19
Alignment explanation
Indices: 1160973--1161012 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1160963 TTTATTAGTA
1160973 TAATTTTAAGAAAATATAT
1 TAATTTTAAGAAAATATAT
* *
1160992 TAATTTTTATAAATATATAT
1 TAATTTTAAGAAA-ATATAT
1161012 T
1 T
1161013 TTTTATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATTTTAAGAAAATATAT
Found at i:1161017 original size:17 final size:18
Alignment explanation
Indices: 1160984--1161020 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1160974 AATTTTAAGA
1160984 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
1161002 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
1161019 AA
1 AA
1161021 TATTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:1161294 original size:15 final size:16
Alignment explanation
Indices: 1161276--1161306 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1161266 TTATTTTTCC
1161276 TAAAATT-AATTTATA
1 TAAAATTAAATTTATA
1161291 TAAAATTAAATTTATA
1 TAAAATTAAATTTATA
1161307 AATAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATTAAATTTATA
Found at i:1161308 original size:14 final size:15
Alignment explanation
Indices: 1161276--1161308 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1161266 TTATTTTTCC
*
1161276 TAAAATTAATTTATA
1 TAAAATTAAATTATA
1161291 TAAAATTAAATT-TA
1 TAAAATTAAATTATA
1161305 TAAA
1 TAAA
1161309 TAGGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTAAATTATA
Found at i:1161353 original size:32 final size:33
Alignment explanation
Indices: 1161286--1161356 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
1161276 TAAAATTAAT
* * *
1161286 TTATATAAAATTAAATTTATAAATAGGATTTTTA
1 TTATAAAAAATTAAATTTATAAATA-GAATATTA
1161320 TTATAAAAAATTAAATATT-TAAATA-AATATTA
1 TTATAAAAAATTAAAT-TTATAAATAGAATATTA
1161352 TTATA
1 TTATA
1161357 TATATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 10 0.30
34 21 0.64
35 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
TTATAAAAAATTAAATTTATAAATAGAATATTA
Found at i:1162788 original size:7 final size:7
Alignment explanation
Indices: 1162770--1162810 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
1162760 TTTTATTATT
1162770 AATAAT-
1 AATAATA
1162776 AATAATA
1 AATAATA
1162783 AATAATA
1 AATAATA
1162790 AATAAT-
1 AATAATA
1162796 -ATAATA
1 AATAATA
1162802 AATAATA
1 AATAATA
1162809 AA
1 AA
1162811 AAAAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 6 0.19
7 21 0.66
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:1162801 original size:19 final size:20
Alignment explanation
Indices: 1162770--1162810 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
1162760 TTTTATTATT
1162770 AATAATAATAATAAATAATA
1 AATAATAATAATAAATAATA
1162790 AATAAT-ATAATAAATAATA
1 AATAATAATAATAAATAATA
1162809 AA
1 AA
1162811 AAAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAATAATAATAAATAATA
Found at i:1163326 original size:123 final size:123
Alignment explanation
Indices: 1163099--1163711 Score: 921
Period size: 123 Copynumber: 5.0 Consensus size: 123
1163089 TTATTCTTAC
* * * * * *
1163099 TATGAACTCCTTCTTCTTCTTCAGATGGGTTTTTCTCATTATGAAC-ACTTCTGGAAATGTTGGT
1 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGAT
* * ** *
1163163 GCTGATCTATCT-CTATTTGTGATAGAGTC-ATGCAAAAGGTTGAACAAGCTCTTCTTAT
66 GCTGATCTATCTCCT-TCTGTGATAGAATCGA-GCAAAAGGTTGAACAAATTCTTCTCAT
*
1163221 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGTAAATGTTGAT
1 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGAT
*
1163286 GCTGATCTATCTCCTTCTTTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCAT
66 GCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCAT
* *
1163344 TATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAATGTTGAT
1 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGAT
*
1163409 GTTGATCTAAT-TCCTTCTGTGATAGAATCGA-CTAAAAGGTTGAACAAATTCTTCTCAT
66 GCTGATCT-ATCTCCTTCTGTGATAGAATCGAGC-AAAAGGTTGAACAAATTCTTCTCAT
* * *
1163467 TATGAATTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGTACTTCTTCTGGAAATGTTGAT
1 TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGAT
* *
1163532 GCTGATATATCTCCTTCTGTGATAGAATCGAGCAAAATGTTGAACAAATTCTTCTCAT
66 GCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCAT
* * * *
1163590 TATGAACTTCTTATTTCTTCTTCAGATGAGTTCTTCTCATTATGAGCTTCTTCTGTAAATGTTGA
1 TATGAACTTCTT-CTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGA
1163655 TGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTC
65 TGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTC
1163712 CCTTCTTTAG
Statistics
Matches: 450, Mismatches: 33, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
122 45 0.10
123 298 0.66
124 107 0.24
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (123 bp):
TATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGAT
GCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCAT
Found at i:1164184 original size:22 final size:22
Alignment explanation
Indices: 1164158--1164266 Score: 146
Period size: 22 Copynumber: 5.0 Consensus size: 22
1164148 GAAATCCAAT
* * *
1164158 AAATCTTTCTTCTTTGAAAAGA
1 AAATCTATCATCTTTGAAGAGA
* *
1164180 GAATCTATCATCTTTGAAGATA
1 AAATCTATCATCTTTGAAGAGA
1164202 AAATCTATCATCTTTGAAGAGA
1 AAATCTATCATCTTTGAAGAGA
*
1164224 TAATCTATCATCTTTGAAGAGA
1 AAATCTATCATCTTTGAAGAGA
* *
1164246 TAATATATCATCTTTGAAGAG
1 AAATCTATCATCTTTGAAGAG
1164267 TGTAGATGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 78 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
AAATCTATCATCTTTGAAGAGA
Done.