Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_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: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 23
Found at i:2117035 original size:21 final size:21
Alignment explanation
Indices: 2117005--2117128 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
2116995 ATTTTCATAT
*
2117005 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
2117026 TCGCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
2117046 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2117067 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2117088 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2117109 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2117129 CTGATTTGCG
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 16 0.21
21 59 0.77
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2117044 original size:41 final size:41
Alignment explanation
Indices: 2116991--2117102 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
2116981 GTGTTCGCGT
2116991 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
2117032 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
*
2117073 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
2117103 CAAGAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:2119204 original size:21 final size:22
Alignment explanation
Indices: 2119179--2119229 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
2119169 AGTTGTGGGG
2119179 ATGTTTTTAGT-TTTTTATTAA
1 ATGTTTTTAGTATTTTTATTAA
*
2119200 ATGTTTTTAGTATTTTTATTTA
1 ATGTTTTTAGTATTTTTATTAA
2119222 AT-TTTTTA
1 ATGTTTTTA
2119230 AATAATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
ATGTTTTTAGTATTTTTATTAA
Found at i:2130620 original size:44 final size:45
Alignment explanation
Indices: 2130497--2130622 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
2130487 TGTAAAATCC
2130497 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
2130542 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2130589 CTTGCCA-TTATTCCAAAAGCTCGTAAACTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
2130623 ATATGCTTAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.31
45 10 0.14
46 2 0.03
47 39 0.53
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:2130823 original size:59 final size:59
Alignment explanation
Indices: 2130731--2130859 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
2130721 CGTAGTGCTA
* * **
2130731 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
2130790 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
2130849 TCCCGAATATG
1 TCCCGAATATG
2130860 TAGCCTGCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:2133481 original size:5 final size:5
Alignment explanation
Indices: 2133460--2133492 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
2133450 ATGATATTTT
2133460 TTTAA TTTTAA -TTAA TTTAA TTTAA TTTAA TTT
1 TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA TTT
2133493 GTTCCCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:2133654 original size:12 final size:12
Alignment explanation
Indices: 2133637--2133673 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
2133627 TTTTGTCAAT
*
2133637 CTATATGCCTGA
1 CTATATGCCTAA
2133649 CTATATGCCTAA
1 CTATATGCCTAA
2133661 CTATATGCCTAA
1 CTATATGCCTAA
2133673 C
1 C
2133674 GTTACTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (12 bp):
CTATATGCCTAA
Found at i:2137824 original size:3 final size:3
Alignment explanation
Indices: 2137816--2137848 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2137806 AATAAATTAA
2137816 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2137849 TATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2137853 original size:3 final size:3
Alignment explanation
Indices: 2137847--2137871 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2137837 AATAATAATA
2137847 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
2137872 ATTAGAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2140211 original size:64 final size:64
Alignment explanation
Indices: 2140090--2140212 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
2140080 AGTGCCACTA
* * * *
2140090 ATGAAAGTTATCGATTGATTTTGATTAATGCATAACGGTGCATTTTTGGCATAAAAGGTCGTGT
1 ATGAAAGTTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGACATAAAAGGTCGTGT
*
2140154 ATGAAAGTTATCGATCGATTTTG-TTAAATGCATAACGGTGCATTATCGACATCAAAGGT
1 ATGAAAGTTATCGATCGATTTTGATT-AATGCATAACGGTGCATTATCGACATAAAAGGT
2140213 GCCACCCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (64 bp):
ATGAAAGTTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGACATAAAAGGTCGTGT
Found at i:2142191 original size:81 final size:81
Alignment explanation
Indices: 2142054--2142213 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
2142044 GCTCGGGGCT
* *
2142054 GTGGCTTCTTCCTCGGATTCTAGAGGGTTCAGTGTGGGTGGTTCTCACGTAGAGCCACCACGTGG
1 GTGGCTGCTCCCTCGGATTCTAGAGGGTTCAGTGTGGGTGGTTCTCACGTAGAGCCACCACGT-G
2142119 GGA-TATGTTGGATCAA
65 GGACTATGTTGGATCAA
* ** *
2142135 GTGGCTGCTCCCTCGGATAT-TGGAGGGTT-ACGTGTGGGTGGTTCTCACGTTTAGCCATCACGT
1 GTGGCTGCTCCCTCGGAT-TCTAGAGGGTTCA-GTGTGGGTGGTTCTCACGTAGAGCCACCACGT
*
2142198 TGGACTATGTTGGATC
64 GGGACTATGTTGGATC
2142214 CCATTTCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 4 0.06
81 64 0.93
82 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (81 bp):
GTGGCTGCTCCCTCGGATTCTAGAGGGTTCAGTGTGGGTGGTTCTCACGTAGAGCCACCACGTGG
GACTATGTTGGATCAA
Found at i:2144349 original size:52 final size:52
Alignment explanation
Indices: 2144285--2144387 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
2144275 CCAGTAGAAA
*
2144285 AAAATAATGTTTTAGGTAGCGTTTTTCCGGATATGTTAACAAAATCGATAAT
1 AAAATAATGTTTTAGGTAGCGTTTTTCCGAATATGTTAACAAAATCGATAAT
*
2144337 AAAATAATGTTTTAGGTAGCGTTTTTCCGAATATGTTAATAAAATCGATAA
1 AAAATAATGTTTTAGGTAGCGTTTTTCCGAATATGTTAACAAAATCGATAA
2144388 ATCGCCTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.37
Consensus pattern (52 bp):
AAAATAATGTTTTAGGTAGCGTTTTTCCGAATATGTTAACAAAATCGATAAT
Found at i:2156777 original size:6 final size:6
Alignment explanation
Indices: 2156768--2156805 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2156758 AGGGCAACGG
* *
2156768 CATCTC CATCTC CATCTT CATCTT CATCTT CATCTT CA
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CA
2156806 ATGCTATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (6 bp):
CATCTT
Found at i:2159540 original size:33 final size:33
Alignment explanation
Indices: 2159498--2159561 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2159488 CCACGTCATA
2159498 CATATTGTTTCGACGAACAAAG-TAATTCCACGT
1 CATATTGTTTCGACGAAC-AAGCTAATTCCACGT
* *
2159531 CATATTGTTTTGACGGACAAGCTAATTCCAC
1 CATATTGTTTCGACGAACAAGCTAATTCCAC
2159562 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (33 bp):
CATATTGTTTCGACGAACAAGCTAATTCCACGT
Found at i:2172996 original size:2 final size:2
Alignment explanation
Indices: 2172989--2173054 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
2172979 TAATAACTGA
2172989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2173031 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2173055 CAAACAAGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2180190 original size:23 final size:23
Alignment explanation
Indices: 2180164--2180208 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2180154 CACCACAGCT
*
2180164 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
2180187 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
2180209 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:2181868 original size:63 final size:63
Alignment explanation
Indices: 2181739--2181878 Score: 190
Period size: 63 Copynumber: 2.2 Consensus size: 63
2181729 TAATGGAGGC
* * * **
2181739 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCTGATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
* ** **
2181802 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTAAAATTA
1 ATGCATCGATGCACTCCTGATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
2181865 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2181879 CTTCAACAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTGATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
Found at i:2185936 original size:27 final size:27
Alignment explanation
Indices: 2185906--2185967 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
2185896 CATTATTTCC
*
2185906 CGATGGCTTTCCTTTGCTATTAACAGT
1 CGATGGCTTTCCTTGGCTATTAACAGT
*
2185933 CGATAGCTTTCCTTGGCTATTAACAGT
1 CGATGGCTTTCCTTGGCTATTAACAGT
2185960 CGATGGCT
1 CGATGGCT
2185968 CACATTGGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
CGATGGCTTTCCTTGGCTATTAACAGT
Found at i:2185975 original size:27 final size:27
Alignment explanation
Indices: 2185921--2185975 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2185911 GCTTTCCTTT
** *
2185921 GCTATTAACAGTCGATAGCTTTCCTTG
1 GCTATTAACAGTCGATAGCTCACATTG
*
2185948 GCTATTAACAGTCGATGGCTCACATTG
1 GCTATTAACAGTCGATAGCTCACATTG
2185975 G
1 G
2185976 ACATTCGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
GCTATTAACAGTCGATAGCTCACATTG
Found at i:2186377 original size:16 final size:16
Alignment explanation
Indices: 2186353--2186385 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2186343 TATCGCCGAC
*
2186353 CAAATTTCACTATTCA
1 CAAAATTCACTATTCA
2186369 CAAAATTCACTATTCA
1 CAAAATTCACTATTCA
2186385 C
1 C
2186386 GTGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
CAAAATTCACTATTCA
Found at i:2196295 original size:36 final size:36
Alignment explanation
Indices: 2196250--2196346 Score: 176
Period size: 36 Copynumber: 2.7 Consensus size: 36
2196240 ACTTTAGCTT
2196250 ATAAAAGCTTAAACGTAATATGAACTTTAGCTTTAG
1 ATAAAAGCTTAAACGTAATATGAACTTTAGCTTTAG
2196286 ATAAAAGCTTAAACGTAATATGAACTTTAGCTTTAG
1 ATAAAAGCTTAAACGTAATATGAACTTTAGCTTTAG
* *
2196322 GTAAAAGCTAAAACGTAATATGAAC
1 ATAAAAGCTTAAACGTAATATGAAC
2196347 GTAAAAGCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (36 bp):
ATAAAAGCTTAAACGTAATATGAACTTTAGCTTTAG
Found at i:2196350 original size:25 final size:25
Alignment explanation
Indices: 2196322--2196371 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2196312 TTAGCTTTAG
*
2196322 GTAAAAGCTAAAACGTAATATGAAC
1 GTAAAAGCTAAAACATAATATGAAC
2196347 GTAAAAGCTAAAACATAATATGAAC
1 GTAAAAGCTAAAACATAATATGAAC
2196372 TTTAGCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (25 bp):
GTAAAAGCTAAAACATAATATGAAC
Found at i:2196664 original size:58 final size:58
Alignment explanation
Indices: 2196574--2196691 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
2196564 AGACAATATC
2196574 TTTGTATTATTATGGTTGGATAATATCGTTATCTTAATGTTTGTAATCACAGTATGAT
1 TTTGTATTATTATGGTTGGATAATATCGTTATCTTAATGTTTGTAATCACAGTATGAT
2196632 TTTGTATTATTATGGTTGGATAATATCGTTATCTTAATGTTTGTAATCACAGTATGAT
1 TTTGTATTATTATGGTTGGATAATATCGTTATCTTAATGTTTGTAATCACAGTATGAT
2196690 TT
1 TT
2196692 GCATCTTTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (58 bp):
TTTGTATTATTATGGTTGGATAATATCGTTATCTTAATGTTTGTAATCACAGTATGAT
Found at i:2197918 original size:15 final size:14
Alignment explanation
Indices: 2197899--2197932 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2197889 TTTCATTTCA
2197899 AAATTTTATAAAAT
1 AAATTTTATAAAAT
*
2197913 ACAATTTTTTAAAAT
1 A-AATTTTATAAAAT
2197928 AAATT
1 AAATT
2197933 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTTTATAAAAT
Found at i:2198113 original size:34 final size:35
Alignment explanation
Indices: 2198058--2198128 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
2198048 CAATGCAGCA
* * *
2198058 TCCAAACAATGTAATTTGTTTTCT-GAAATTGGTTT
1 TCCAAACAATATAATTGGTTTTCTAG-AATTGATTT
2198093 TCCAAA-AATATAATTGGTTTTCTAGAATTGATTT
1 TCCAAACAATATAATTGGTTTTCTAGAATTGATTT
2198127 TC
1 TC
2198129 TAGAAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (35 bp):
TCCAAACAATATAATTGGTTTTCTAGAATTGATTT
Found at i:2198127 original size:14 final size:14
Alignment explanation
Indices: 2198104--2198133 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2198094 CCAAAAATAT
*
2198104 AATTGGTTTTCTAG
1 AATTGATTTTCTAG
2198118 AATTGATTTTCTAG
1 AATTGATTTTCTAG
2198132 AA
1 AA
2198134 AACAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (14 bp):
AATTGATTTTCTAG
Found at i:2198592 original size:22 final size:23
Alignment explanation
Indices: 2198567--2198613 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
2198557 TGGTTTTATC
**
2198567 TTCTTCTACACGGTTCTT-CTAT
1 TTCTTCTACACCATTCTTCCTAT
*
2198589 TTCTTCTGCACCATTCTTCCTAT
1 TTCTTCTACACCATTCTTCCTAT
2198612 TT
1 TT
2198614 TCTATTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.13, C:0.30, G:0.06, T:0.51
Consensus pattern (23 bp):
TTCTTCTACACCATTCTTCCTAT
Found at i:2202874 original size:13 final size:12
Alignment explanation
Indices: 2202854--2202941 Score: 59
Period size: 13 Copynumber: 6.7 Consensus size: 12
2202844 AAGGGAAAAT
2202854 AAAAAAAATAAA
1 AAAAAAAATAAA
2202866 AATAAAAAATAAA
1 AA-AAAAAATAAA
2202879 AAAAAACATATCAAA
1 AAAAAA-A-AT-AAA
*
2202894 AGAAAAAAATATTA
1 A-AAAAAAATA-AA
* * *
2202908 AATAAATATGAA
1 AAAAAAAATAAA
*
2202920 AACAAAAATAAA
1 AAAAAAAATAAA
2202932 TAAATAAAAA
1 -AAA-AAAAA
2202942 ATAGATCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
12 16 0.27
13 22 0.37
14 11 0.19
15 5 0.08
16 5 0.08
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:2202879 original size:27 final size:27
Alignment explanation
Indices: 2202849--2202940 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 27
2202839 AATCAAAGGG
2202849 AAAATAAAAAAAATAAAAATAAAAAAT
1 AAAATAAAAAAAATAAAAATAAAAAAT
*
2202876 AAAA-AAAAACATATCAAAAGA-AAAAAAT
1 AAAATAAAAA-AAAT-AAAA-ATAAAAAAT
*
2202904 ATTAAATAAATATGAAAACAAAAATAAATAAAT
1 A--AAATAAA-A--AAAATAAAAATAAA-AAAT
2202937 AAAA
1 AAAA
2202941 AATAGATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
26 5 0.10
27 7 0.14
28 12 0.24
29 1 0.02
30 3 0.06
31 7 0.14
32 8 0.16
33 7 0.14
34 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAAAATAAAAATAAAAAAT
Found at i:2202958 original size:26 final size:26
Alignment explanation
Indices: 2202871--2202958 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 26
2202861 ATAAAAATAA
* *
2202871 AAAATAAA-AAAAAACATATCAAAAG
1 AAAATAAATAAAAAATAGATCAAAAG
* *
2202896 AAAAAAATATTAAATAAATATGAAAACAAAA-
1 AAAATAA-A-TAAA-AAATA-G--ATCAAAAG
2202927 ATAAATAAATAAAAAATAGATCAAAAG
1 A-AAATAAATAAAAAATAGATCAAAAG
2202954 AAAAT
1 AAAAT
2202959 TTTTTTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
25 6 0.12
26 11 0.23
27 1 0.02
28 4 0.08
29 9 0.19
30 4 0.08
31 2 0.04
32 11 0.23
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (26 bp):
AAAATAAATAAAAAATAGATCAAAAG
Found at i:2205229 original size:84 final size:80
Alignment explanation
Indices: 2204983--2206002 Score: 1434
Period size: 80 Copynumber: 12.5 Consensus size: 80
2204973 GATGTAAATT
* * * * *
2204983 TGATGTGCCTTTGAGCTGAGTGCAATCAAACTTGAAGGTCTTGTTTGACAGATAACCCTTCTTGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---TTTGGCAGATAGCCCTTCTTGC
* * * *
2205048 CTTGAGTTATACTG-TAC
63 CTTGAGCTATGCTGCAAA
* * *
2205065 TGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
*
2205130 GAGCTATACTGCAAA
66 GAGCTATGCTGCAAA
* * *
2205145 TGATGTGCTTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTG
*
2205210 CCTTGAG-TCATGTTGCAAA
62 CCTTGAGCT-ATGCTGCAAA
* *
2205229 TGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTAGCAGATAGCTCTTCTTG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTG---GCAGATAGCCCTTCTTG
* *
2205294 CCTTGGGCCATGCTGCAAA
62 CCTTGAGCTATGCTGCAAA
* * *
2205313 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCATATATCCCTTCTTA
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTG
* *
2205378 CCTTGAGCTATGCTACAAT
62 CCTTGAGCTATGCTGCAAA
* *
2205397 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTTGTTGGCAGATAGTCCTTCTTG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTG
2205462 CCTTGAGCTATGCTGCAAA
62 CCTTGAGCTATGCTGCAAA
2205481 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
2205546 GAGCTATGCTGCAAA
66 GAGCTATGCTGCAAA
* *
2205561 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTCTTTCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
2205626 GAGCTATGCTGCAAA
66 GAGCTATGCTGCAAA
* * * *
2205641 TGATGTGCCTTTTAGCTGAGTGTAATCAAACTTGAAGGTCTTTGGCAGATAGCCATTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
2205706 GAGCTATGCTGC-AA
66 GAGCTATGCTGCAAA
* *
2205720 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
*
2205785 GAGCTATGCTTCAAA
66 GAGCTATGCTGCAAA
* * * *
2205800 TGATATGCCTTTAAGCTGAGTGCAATCGAACTCGAAGGTCTTTGGCAGATAGCCTTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
2205865 GAGCTATGCTGCAAA
66 GAGCTATGCTGCAAA
* *
2205880 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAGCCCTTCTTGACTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
*
2205945 GAGATATGCTGCAAA
66 GAGCTATGCTGCAAA
*
2205960 TTATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
2206003 TGTTAGAGGT
Statistics
Matches: 853, Mismatches: 71, Indels: 30
0.89 0.07 0.03
Matches are distributed among these distances:
79 105 0.12
80 415 0.49
81 4 0.00
82 38 0.04
83 2 0.00
84 284 0.33
86 2 0.00
87 3 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (80 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTT
GAGCTATGCTGCAAA
Found at i:2205891 original size:319 final size:320
Alignment explanation
Indices: 2204983--2206004 Score: 1463
Period size: 319 Copynumber: 3.1 Consensus size: 320
2204973 GATGTAAATT
* * *
2204983 TGATGTGCCTTTGAGCTGAGTGCAATCAAACTTGAAGGTCTTGTTTGACAGATAACCCTTCTTGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC-T-TTTGGCAGATAACCCTTCTTGC
* * * * * * *
2205048 CTTGAGTTATACTGTACTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGGCAG
64 CTTGAGCTATGCTGCAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
* * *
2205113 ATAGCCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCTTTTGAGCTGAGTGTAATCAAACTC
129 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
2205178 GAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAG-TCATGTTGCAAATGATGTGCCTTTG
194 GAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCT-ATGCTGCAAATGATGTGCCTTTG
* * * *
2205242 AGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTAGCAGATAGCTCTTCTTGCCTTGGGCCATGC
254 AGCTGAGTGTAATCGAACTCGAAGGTC-TTTG---GCAGATAGCCCTTCTTGCCTTGAGCTATGC
2205307 TGCAAA
315 TGCAAA
* * * *
2205313 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCATATATCCCTTCTTA
1 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC--TT-TTGGCAGATAACCCTTCTTG
* *
2205378 CCTTGAGCTATGCTACAATTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTTGT
63 CCTTGAGCTATGCTGCAA-TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-T
*
2205443 TGGCAGATAGTCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATC
123 TGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATC
2205508 GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTT
188 GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTT
* *
2205573 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTCTTTCCTTGAGCTATGCTGC
253 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
2205638 AAA
318 AAA
* * * *
2205641 TGATGTGCCTTTTAGCTGAGTGTAATCAAACTTGAAGGTC-TTTGGCAGATAGCCATTCTTGCCT
1 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGGCAGATAACCCTTCTTGCCT
*
2205705 TGAGCTATGCTGCAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGAT
66 TGAGCTATGCTGCAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGAT
* * * * *
2205770 AACCCTTCTTGCCTTGAGCTATGCTTCAAATGATATGCCTTTAAGCTGAGTGCAATCGAACTCGA
131 AGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
*
2205835 AGGTCTTTGGCAGATAGCCTTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAG
196 AGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAG
* * *
2205900 TGTAATCGAACTCGAAGGTCTTTGGAAGATAGCCCTTCTTGACTTGAGATATGCTGCAAA
261 TGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA
* *
2205960 TTATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTG
1 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTG
2206005 TTAGAGGTGC
Statistics
Matches: 629, Mismatches: 54, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
319 223 0.35
320 5 0.01
323 38 0.06
324 33 0.05
325 1 0.00
328 68 0.11
330 38 0.06
331 35 0.06
332 110 0.17
333 2 0.00
335 1 0.00
336 75 0.12
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (320 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGGCAGATAACCCTTCTTGCCT
TGAGCTATGCTGCAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGAT
AGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
AGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA
Found at i:2207019 original size:95 final size:95
Alignment explanation
Indices: 2206834--2207019 Score: 234
Period size: 95 Copynumber: 2.0 Consensus size: 95
2206824 CAGCTCAATA
* *
2206834 TATAGACACCTTTATCAGGTTAGCTGAATCTTATCCATAAGGCCGGGGCATTTAACCTATTGCCT
1 TATAGACACCTTTATCAGGCTACCTGAATCTTATCCATAAGGCCGGGGCATTTAACCTATTGCCT
*
2206899 TAGAGGGACAGCTCGAGCTTCATTGTATAG
66 TAGAGGGACAGCTCAAGCTTCATTGTATAG
* * * *
2206929 TATAGTCACCTTTATCAGGCTACCTGGATCTTATCCATATA-GTCGGGGCGTTTAA-CTAATTG-
1 TATAGACACCTTTATCAGGCTACCTGAATCTTATCCATA-AGGCCGGGGCATTTAACCT-ATTGC
* * *
2206991 CTCTAGAGGGACAGTTCAAGTTTTATTGT
64 CT-TAGAGGGACAGCTCAAGCTTCATTGT
2207020 GTATATATAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
94 4 0.05
95 73 0.94
96 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (95 bp):
TATAGACACCTTTATCAGGCTACCTGAATCTTATCCATAAGGCCGGGGCATTTAACCTATTGCCT
TAGAGGGACAGCTCAAGCTTCATTGTATAG
Found at i:2209415 original size:64 final size:63
Alignment explanation
Indices: 2209318--2209459 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 63
2209308 GCACATTGAA
* * *
2209318 AGTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-
1 AGTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAAATGGTGCATCGATGCAT-AGGT
* * * * * *
2209381 AGTGCATCGATGCATCCCTTTAAA-ATGAAAACATCAAAGGTAATTTGTGTATCGATGCATGGGT
1 AGTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCAAAGGCAAATGGTGCATCGATGCATAGGT
2209445 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
2209460 ATGTTAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
63 19 0.28
64 48 0.72
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (63 bp):
AGTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAAATGGTGCATCGATGCATAGGT
Found at i:2210737 original size:31 final size:31
Alignment explanation
Indices: 2210699--2210759 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2210689 GAGTCGAGGG
*
2210699 TTTACCTATGTCTTTC-GAGACATATGGACAA
1 TTTACCTAGGTCTTTCAG-GACATATGGACAA
* *
2210730 TTTACCTAGGTTTTTCAGGACCTATGGACA
1 TTTACCTAGGTCTTTCAGGACATATGGACA
2210760 GTTGCCGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (31 bp):
TTTACCTAGGTCTTTCAGGACATATGGACAA
Found at i:2210810 original size:29 final size:30
Alignment explanation
Indices: 2210748--2210818 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
2210738 GGTTTTTCAG
* * *
2210748 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
* *
2210778 GACCTCTGGATAGTTGTCG-GGGTCTTTGT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
2210807 GACCTCTGGATA
1 GACCTCTGGATA
2210819 TGTCATTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.34
Consensus pattern (30 bp):
GACCTCTGGATAGTTGCCGAGGGTCTTTAT
Found at i:2214002 original size:59 final size:56
Alignment explanation
Indices: 2213918--2214052 Score: 218
Period size: 57 Copynumber: 2.4 Consensus size: 56
2213908 GGACAAGGAA
*
2213918 AAAAATAATAAAAATAAAAATAGATCAAAAGAAAAAATATATTAAATAAATATGAAAAC
1 AAAAATAA-ATAAATAAAAATAGATCAAAAG-AAAAA-ATATTAAATAAATATGAAAAC
2213977 AAAAATAAATAAATAAATAATAGATCAAAAGAAAAAATATTAAATAAATATGAAAAC
1 AAAAATAAATAAATAAA-AATAGATCAAAAGAAAAAATATTAAATAAATATGAAAAC
2214034 -AAAATAAATAAATAAAAAT
1 AAAAATAAATAAATAAAAAT
2214053 TGTTAAATAT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
55 3 0.04
56 16 0.22
57 21 0.28
58 13 0.18
59 21 0.28
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (56 bp):
AAAAATAAATAAATAAAAATAGATCAAAAGAAAAAATATTAAATAAATATGAAAAC
Found at i:2214012 original size:31 final size:30
Alignment explanation
Indices: 2213929--2214026 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
2213919 AAAATAATAA
*
2213929 AAATAAA-AATAGATCAAAAGAAAAAATAT
1 AAATAAATAATAGATCAAAAGAAAAAAAAT
* * * *
2213958 -ATTAAATAA-ATATGAAAACAAAAATAAAT
1 AAATAAATAATAGATCAAAAGAAAAA-AAAT
*
2213987 AAATAAATAATAGATCAAAAGAAAAAATATT
1 AAATAAATAATAGATCAAAAGAAAAAA-AAT
2214018 AAATAAATA
1 AAATAAATA
2214027 TGAAAACAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 17 0.31
29 5 0.09
30 9 0.17
31 23 0.43
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (30 bp):
AAATAAATAATAGATCAAAAGAAAAAAAAT
Found at i:2214037 original size:31 final size:31
Alignment explanation
Indices: 2213943--2214047 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 31
2213933 AAAAATAGAT
2213943 CAAAAGAAAAAATATATTAAATAAATATGAAAA
1 CAAAAG-AAAAA-ATATTAAATAAATATGAAAA
*
2213976 CAAAA-ATAAATAA-A-TAAAT-AATA-G--AT
1 CAAAAGA-AAA-AATATTAAATAAATATGAAAA
2214002 CAAAAGAAAAAATATTAAATAAATATGAAAA
1 CAAAAGAAAAAATATTAAATAAATATGAAAA
*
2214033 CAAAATAAATAAATA
1 CAAAAGAAA-AAATA
2214048 AAAATTGTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 21
0.71 0.04 0.25
Matches are distributed among these distances:
25 2 0.03
26 10 0.17
27 6 0.10
28 5 0.08
29 5 0.08
30 5 0.08
31 11 0.19
32 9 0.15
33 6 0.10
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (31 bp):
CAAAAGAAAAAATATTAAATAAATATGAAAA
Found at i:2223025 original size:54 final size:54
Alignment explanation
Indices: 2222952--2223459 Score: 581
Period size: 54 Copynumber: 9.4 Consensus size: 54
2222942 TTCTTTGAGA
* * * ** * * * *
2222952 TGCATACTTAGGGTCTATACGGTTATTCATAAATATATTATGAATTATGT-GGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * * * * *
2223005 TCACACACATAGTGCATATACGGTCGTTCATTAACATATGATGAATTCCGTAGGT
1 T-GCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
*
2223060 TGCACACTTAGTGTCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGG-T
* * *
2223115 GTGCACA-TTGAGTGCTTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
1 -TGCACACTT-AGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * *
2223170 TGCACACTTAGTGCCTATAAGATCGTTCATCAATATATGATGAATTAC-GTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-CTGTGGGT
* * *
2223224 TACACACTTAGTGCCTATAAGGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * * *
2223278 TGCAGACTTAATGCCTATACGGTCGTTCATCAACATATGACGAAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATG-AATTCTGTGGGT
* *
2223333 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * * * * *
2223387 TGTACACTTAGTTCTTATACGGTTGTTTATCAACATATAATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * *
2223441 TACAGACTTAGTGTCTATA
1 TGCACACTTAGTGCCTATA
2223460 GTACACATAG
Statistics
Matches: 387, Mismatches: 59, Indels: 17
0.84 0.13 0.04
Matches are distributed among these distances:
53 2 0.01
54 280 0.72
55 59 0.15
56 46 0.12
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:2223254 original size:164 final size:163
Alignment explanation
Indices: 2222966--2223441 Score: 616
Period size: 164 Copynumber: 2.9 Consensus size: 163
2222956 TACTTAGGGT
* * * * * * *
2222966 CTATACGGTTATTCATAAATATATTATGAATTATGT-GGTTCACACACATAGTGCATATACGGTC
1 CTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTT-GCACACTTAGTGCCTATACGGTC
* * * *
2223030 GTTCATTAACATATGATGAATTCCGTAGGTTGCACACTTAGTGTCTATACGGTCGTTCATCAACA
65 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACA
*
2223095 TATGATGAATTCTGTGGGTTGTGCACA-TTGAGTGC
130 TATGATGAATTCTGTGGGTT-TGCACACTT-AATGC
* * * *
2223130 TTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGTTGCACACTTAGTGCCTATAAGATCG
1 CTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTGCCTATACGGTCG
* * * *
2223195 TTCATCAATATATGATGAATTACGTGGGTTACACACTTAGTGCCTATAAGGTTGTTCATCAACAT
66 TTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACAT
*
2223260 ATGATGAATTCTGTGGG-TTGCAGACTTAATGC
131 ATGATGAATTCTGTGGGTTTGCACACTTAATGC
* * **
2223292 CTATACGGTCGTTCATCAACATATGACGAAATTCCGTGGGTTGCACACTTAGTGCCTATACGGTC
1 CTATACGGTTGTTCATCAACATATGATG-AATTATGTGGGTTGCACACTTAGTGCCTATACGGTC
* * * * *
2223357 GTTCATCAACATATGATAAATTCCGTGGGTTGTACACTTAGTTCTTATACGGTTGTTTATCAACA
65 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACA
*
2223422 TATAATGAATTCTGTGGGTT
130 TATGATGAATTCTGTGGGTT
2223442 ACAGACTTAG
Statistics
Matches: 270, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
162 34 0.13
163 108 0.40
164 124 0.46
165 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (163 bp):
CTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTGCCTATACGGTCG
TTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACAT
ATGATGAATTCTGTGGGTTTGCACACTTAATGC
Found at i:2223386 original size:163 final size:162
Alignment explanation
Indices: 2223008--2223459 Score: 618
Period size: 163 Copynumber: 2.8 Consensus size: 162
2222998 ATGTGGTTCA
* * * *
2223008 CACACATAGTGCATATACGGTCGTTCATTAACATATGATGAATTCCGTAGGTTGCACACTTAGTG
1 CACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
* * * *
2223073 TCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTG-TGCACATTGAGTGCTTATACG
66 CCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCAG-AC-TT-AGTGCCTATACG
* * **
2223137 GTTGTTCATCAACATATGATGAATTTTGTGGGTTG
128 GTCGTTCATCAACATATGACGAATTCCGTGGGTTG
* * * * *
2223172 CACACTTAGTGCCTATAAGATCGTTCATCAATATATGATGAATTACGTGGGTTACACACTTAGTG
1 CACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
* *
2223237 CCTATAAGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCAGACTTAATGCCTATACGGTC
66 CCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCAGACTTAGTGCCTATACGGTC
2223302 GTTCATCAACATATGACGAAATTCCGTGGGTTG
131 GTTCATCAACATATGACG-AATTCCGTGGGTTG
* * *
2223335 CACACTTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTCCGTGGGTTGTACACTTAGTT
1 CACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
* * * * *
2223400 CTTATACGGTTGTTTATCAACATATAATGAATTCTGTGGGTTACAGACTTAGTGTCTATA
66 CCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCAGACTTAGTGCCTATA
2223460 GTACACATAG
Statistics
Matches: 252, Mismatches: 34, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
162 29 0.12
163 124 0.49
164 98 0.39
165 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (162 bp):
CACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
CCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCAGACTTAGTGCCTATACGGTC
GTTCATCAACATATGACGAATTCCGTGGGTTG
Found at i:2223899 original size:34 final size:34
Alignment explanation
Indices: 2223851--2223915 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
2223841 ACCCCCTTTC
*
2223851 AGTATCGATGCCATTT-TAACATTCTGGAATCCAT
1 AGTATCGATACCATTTCT-ACATTCTGGAATCCAT
*
2223885 AGTATCGATACCATTTCTGCATTCTGGAATC
1 AGTATCGATACCATTTCTACATTCTGGAATC
2223916 AATGGTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (34 bp):
AGTATCGATACCATTTCTACATTCTGGAATCCAT
Found at i:2230576 original size:19 final size:20
Alignment explanation
Indices: 2230542--2230588 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2230532 GGTTTTCTAG
2230542 GTTGTAGTATTGATATTATT
1 GTTGTAGTATTGATATTATT
*
2230562 GTTGTAGTA-TGATATTGTT
1 GTTGTAGTATTGATATTATT
*
2230581 ATTGTAGT
1 GTTGTAGT
2230589 GTCGATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (20 bp):
GTTGTAGTATTGATATTATT
Found at i:2230618 original size:32 final size:32
Alignment explanation
Indices: 2230573--2230730 Score: 181
Period size: 32 Copynumber: 4.9 Consensus size: 32
2230563 TTGTAGTATG
* * * *
2230573 ATATTGTTATTGTAGTGTCGATACTAGTATCA
1 ATATTATTCTTGTAGTATCGATACCAGTATCA
* *
2230605 ATATTATGCTTGTAGTATCGATACCATTATCA
1 ATATTATTCTTGTAGTATCGATACCAGTATCA
* * ** *
2230637 ATATTTTTCTTGTAGTTTCGATAATAATATCA
1 ATATTATTCTTGTAGTATCGATACCAGTATCA
*
2230669 ATATTATTCTTGTAGTATCGATACCAGTATCG
1 ATATTATTCTTGTAGTATCGATACCAGTATCA
* * *
2230701 ATATTGTTCTTGTAGTATCAATATCAGTAT
1 ATATTATTCTTGTAGTATCGATACCAGTAT
2230731 TAGTATCAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (32 bp):
ATATTATTCTTGTAGTATCGATACCAGTATCA
Found at i:2230674 original size:64 final size:64
Alignment explanation
Indices: 2230573--2230716 Score: 216
Period size: 64 Copynumber: 2.2 Consensus size: 64
2230563 TTGTAGTATG
* * * *
2230573 ATATTGTTATTGTAGTGTCGATACTAGTATCAATATTATGCTTGTAGTATCGATACCATTATCA
1 ATATTGTTCTTGTAGTGTCGATAATAATATCAATATTATGCTTGTAGTATCGATACCAGTATCA
* * * *
2230637 ATATTTTTCTTGTAGTTTCGATAATAATATCAATATTATTCTTGTAGTATCGATACCAGTATCG
1 ATATTGTTCTTGTAGTGTCGATAATAATATCAATATTATGCTTGTAGTATCGATACCAGTATCA
2230701 ATATTGTTCTTGTAGT
1 ATATTGTTCTTGTAGT
2230717 ATCAATATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (64 bp):
ATATTGTTCTTGTAGTGTCGATAATAATATCAATATTATGCTTGTAGTATCGATACCAGTATCA
Found at i:2234112 original size:127 final size:127
Alignment explanation
Indices: 2233886--2234149 Score: 510
Period size: 127 Copynumber: 2.1 Consensus size: 127
2233876 AATGATTAAT
2233886 TTGTCTAATTATGATTTTAAGGACTGATATGTAAGTAAAACATTATTTGAATTCATCATCATTAA
1 TTGTCTAATTATGATTTTAAGGACTGATATGTAAGTAAAACATTATTTGAATTCATCATCATTAA
2233951 TCCCATACAATTTCAGCTACATTGATGATCAAATCATAAATGATACAAAATTCAGTGACTAC
66 TCCCATACAATTTCAGCTACATTGATGATCAAATCATAAATGATACAAAATTCAGTGACTAC
2234013 TTGTCTAATTATGATTTTAAGGACTGATATGTAAGTAAAACATTATTTGAATTCATCATCATTAA
1 TTGTCTAATTATGATTTTAAGGACTGATATGTAAGTAAAACATTATTTGAATTCATCATCATTAA
*
2234078 TCCCATACAATTTCAGCTACATTGATGATCAAATCATAAATGATACAAAATTCTGTGACTAC
66 TCCCATACAATTTCAGCTACATTGATGATCAAATCATAAATGATACAAAATTCAGTGACTAC
*
2234140 TTGTATAATT
1 TTGTCTAATT
2234150 TAAACATCTT
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 135 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (127 bp):
TTGTCTAATTATGATTTTAAGGACTGATATGTAAGTAAAACATTATTTGAATTCATCATCATTAA
TCCCATACAATTTCAGCTACATTGATGATCAAATCATAAATGATACAAAATTCAGTGACTAC
Found at i:2235561 original size:21 final size:21
Alignment explanation
Indices: 2235535--2235578 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2235525 TTCCATAATT
2235535 TCCCACTGACCAAGCCAAGCA
1 TCCCACTGACCAAGCCAAGCA
2235556 TCCCACTGACCAAGCCAAGCA
1 TCCCACTGACCAAGCCAAGCA
2235577 TC
1 TC
2235579 TAAGCTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.43, G:0.14, T:0.11
Consensus pattern (21 bp):
TCCCACTGACCAAGCCAAGCA
Found at i:2238330 original size:5 final size:5
Alignment explanation
Indices: 2238320--2238353 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
2238310 CCAGTAGCAG
2238320 AACAA AACAA AACAA AACAA AACAA AACAA AACA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACA
2238354 TTGGCTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:2246992 original size:17 final size:17
Alignment explanation
Indices: 2246965--2246999 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
2246955 ATATAAAAAA
2246965 ATAAATG-TTTTTATTT
1 ATAAATGTTTTTTATTT
2246981 ATAAATTGTTTTTTATTT
1 ATAAA-TGTTTTTTATTT
2246999 A
1 A
2247000 ATTATGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 2 0.12
18 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
ATAAATGTTTTTTATTT
Found at i:2251392 original size:82 final size:82
Alignment explanation
Indices: 2251255--2251413 Score: 318
Period size: 82 Copynumber: 1.9 Consensus size: 82
2251245 AAATTTAAAA
2251255 GTTCAATTCTATAAAGTAATTATTTTACATAAACCTATTTAAAACCTTAACAGACTCTATCAGAG
1 GTTCAATTCTATAAAGTAATTATTTTACATAAACCTATTTAAAACCTTAACAGACTCTATCAGAG
2251320 CGTTCATATATAATAAC
66 CGTTCATATATAATAAC
2251337 GTTCAATTCTATAAAGTAATTATTTTACATAAACCTATTTAAAACCTTAACAGACTCTATCAGAG
1 GTTCAATTCTATAAAGTAATTATTTTACATAAACCTATTTAAAACCTTAACAGACTCTATCAGAG
2251402 CGTTCATATATA
66 CGTTCATATATA
2251414 TAATAACTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (82 bp):
GTTCAATTCTATAAAGTAATTATTTTACATAAACCTATTTAAAACCTTAACAGACTCTATCAGAG
CGTTCATATATAATAAC
Found at i:2254203 original size:2 final size:2
Alignment explanation
Indices: 2254191--2254243 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
2254181 TCAATACTCA
2254191 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2254232 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2254244 CTTTCTTACT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2257636 original size:45 final size:45
Alignment explanation
Indices: 2257586--2257684 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
2257576 GCACTACCCA
*
2257586 TGCATCGATACACAAATCACCTTCGATGTTTTC-ATTTTAAGGGGG
1 TGCATCGATACACAAATCACATTCGATGTTTTCTATTTTAA-GGGG
* * ** * *
2257631 TGCATCGATGCACTAATTGCATTCGATGTTTTCTTTTTTAATGGG
1 TGCATCGATACACAAATCACATTCGATGTTTTCTATTTTAAGGGG
2257676 TGCATCGAT
1 TGCATCGAT
2257685 GCACTTCCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 40 0.87
46 6 0.13
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (45 bp):
TGCATCGATACACAAATCACATTCGATGTTTTCTATTTTAAGGGG
Found at i:2264031 original size:18 final size:18
Alignment explanation
Indices: 2264008--2264059 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2263998 ATAAAACACA
2264008 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
2264026 TATGTCCCGAAGGACCAT
1 TATGTCCCGAAGGACCAC
2264044 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
2264060 GCGTAGACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:2264885 original size:63 final size:63
Alignment explanation
Indices: 2264755--2264890 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
2264745 TCCCTAACGT
* * **
2264755 GTGCATCGATGCACTACCTGTGCATCGGTACACAAATCACCTTCGATGTTTTAATATTAAGGG
1 GTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTTTAATATTAAGAA
* * ** *
2264818 GTGCATCGGTGCACTACTTGTGCATCGATACACTGATGACATTCGATGTTTGT-AT-TTAAAGAA
1 GTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTT-TAATATT-AAGAA
2264881 GTGCATCGAT
1 GTGCATCGAT
2264891 ACACCTTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
62 2 0.03
63 58 0.95
64 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTTTAATATTAAGAA
Found at i:2283328 original size:31 final size:30
Alignment explanation
Indices: 2283281--2283352 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
2283271 TTTGAAAAAT
* * * *
2283281 ATATTTAATATAGTATATATAATTT-TAAA
1 ATATCTAATATGGTGTATATAATTTACAAA
2283310 ATATCTAATATGGTGTATATAATTTAACAAA
1 ATATCTAATATGGTGTATATAATTT-ACAAA
2283341 ATATCTAATATG
1 ATATCTAATATG
2283353 ATACTTAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 22 0.59
31 15 0.41
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (30 bp):
ATATCTAATATGGTGTATATAATTTACAAA
Found at i:2285535 original size:27 final size:27
Alignment explanation
Indices: 2285504--2285561 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2285494 GAACAGAAAG
** *
2285504 AAATGACTGAAATACCATTGAATTGTA
1 AAATGACCAAAATACCATTGAAGTGTA
*
2285531 AAATGACCAAAATACCCTTGAAGTGTA
1 AAATGACCAAAATACCATTGAAGTGTA
2285558 AAAT
1 AAAT
2285562 ACCCCTTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (27 bp):
AAATGACCAAAATACCATTGAAGTGTA
Found at i:2285609 original size:26 final size:25
Alignment explanation
Indices: 2285580--2285651 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 25
2285570 CAAGCCATGG
* **
2285580 AATGACTAAATACCCTCAAGTTCTGA
1 AATGACTAAATACCCTCAA-TACCAA
* *
2285606 AATGAATAAATCAACCTCGAATACCAA
1 AATGACTAAAT-ACCCTC-AATACCAA
2285633 AATGACCTAAATACCCTCA
1 AATGA-CTAAATACCCTCA
2285652 TAACTTGGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
26 11 0.31
27 18 0.50
28 7 0.19
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.22
Consensus pattern (25 bp):
AATGACTAAATACCCTCAATACCAA
Found at i:2287442 original size:15 final size:17
Alignment explanation
Indices: 2287409--2287449 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
2287399 ATTCTTCAAA
2287409 AATAATTTATTACTTTT
1 AATAATTTATTACTTTT
2287426 AATAATTTA-TA-TTTT
1 AATAATTTATTACTTTT
*
2287441 AATTATTTA
1 AATAATTTA
2287450 AAAACAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 2 0.09
17 9 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATAATTTATTACTTTT
Found at i:2287682 original size:21 final size:20
Alignment explanation
Indices: 2287643--2287689 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
2287633 TAAGAGTAAA
*
2287643 TATAATTTAAATATTATATT
1 TATAATTTAAATATAATATT
*
2287663 TTTAATTTACAATATAATATT
1 TATAATTTA-AATATAATATT
2287684 TATAAT
1 TATAAT
2287690 AGATATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATTTAAATATAATATT
Found at i:2288016 original size:23 final size:23
Alignment explanation
Indices: 2287990--2288037 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2287980 ATAAAGTACA
*
2287990 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2288013 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2288036 AT
1 AT
2288038 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2288548 original size:23 final size:23
Alignment explanation
Indices: 2288513--2288585 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2288503 ATACTTTACA
* *
2288513 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
2288536 ATATAAACGCTACATATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2288559 ATATTAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2288582 ATAT
1 ATAT
2288586 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2288586 original size:23 final size:23
Alignment explanation
Indices: 2288522--2288586 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
2288512 AATATAAGCA
*
2288522 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATTAACG
*
2288545 CTACATATTACATTATATTAACG
1 CTACCTATTACATTATATTAACG
*
2288568 CTACCTATTACATCATATT
1 CTACCTATTACATTATATT
2288587 TTTACCTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATTAACG
Found at i:2289036 original size:23 final size:23
Alignment explanation
Indices: 2289001--2289073 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2288991 ATACTTTACA
* *
2289001 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
2289024 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2289047 ATATTAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2289070 ATAT
1 ATAT
2289074 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2289074 original size:23 final size:23
Alignment explanation
Indices: 2289010--2289074 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
2289000 AATATAAGCA
*
2289010 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATTAACG
2289033 CTACCTATTACATTATATTAACG
1 CTACCTATTACATTATATTAACG
*
2289056 CTACCTATTACATCATATT
1 CTACCTATTACATTATATT
2289075 TTTACCTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATTAACG
Found at i:2289525 original size:23 final size:23
Alignment explanation
Indices: 2289490--2289562 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2289480 ATACTTTACA
*
2289490 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2289513 ATATAAACGCTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2289536 ATATAAGCGCTATCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2289559 ATAT
1 ATAT
2289563 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2290010 original size:23 final size:23
Alignment explanation
Indices: 2289975--2290047 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2289965 ATACTTTACA
*
2289975 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2289998 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2290021 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2290044 ATAT
1 ATAT
2290048 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2290084 original size:485 final size:490
Alignment explanation
Indices: 2288111--2290204 Score: 3870
Period size: 488 Copynumber: 4.3 Consensus size: 490
2288101 TTATAATATG
* * *
2288111 TTGAAAGTGTCTACACTTTTTTATAAAAAAGATCGATACTTTTTTTTAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* *
2288176 TTCAA--TTTTTTAATAGTGTTTCATGTTTCCCACCTACAATATTAATTTAATAATTTCATTTGT
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
* *
2288239 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
* *
2288304 TTAACCAAAGATAATAATAAATATGCAATATATATGTTTATTGTTTTTGATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
2288369 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
2288434 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAACGTATGGACACTTTTATAAAAAAG
325 TCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
*
2288499 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACATATTACATTATATT
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATT
2288564 AACGCTACCTATTACATCATATTTTTACCTATTATA
455 AACGCTACCTATTACATCATATTTTTACCTATTATA
2288600 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
2288665 TCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
2288728 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGCATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
2288793 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
2288858 ACCGTAACGTAAAAAATAAATTATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
2288923 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
2288988 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTA
2289053 ACGCTACCTATTACATCATATTTTTACCTATTATA
456 ACGCTACCTATTACATCATATTTTTACCTATTATA
2289088 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2289153 TTAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2289218 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
2289283 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
2289348 ACCGTAACCTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
2289413 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
2289478 T-GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACTTATTACATTATA-TA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTA
*
2289541 AGCGCTATCTATTACATCATATTTTTACCTATTATA
456 A-CGCTACCTATTACATCATATTTTTACCTATTATA
*
2289577 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
2289642 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2289707 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
2289772 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
2289833 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
2289898 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
2289963 T-GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATA-TA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTA
2290026 AGCGCTACCTATTACATCATATTTTTACCTATTATA
456 A-CGCTACCTATTACATCATATTTTTACCTATTATA
*
2290062 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2290127 TCAATTTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2290192 CAAAAAATTATTT
131 CAAAAAATTATTT
2290205 AATAAAAAGG
Statistics
Matches: 1575, Mismatches: 27, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
485 372 0.24
486 1 0.00
487 30 0.02
488 530 0.34
489 325 0.21
490 317 0.20
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (490 bp):
TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTA
ACGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2290664 original size:198 final size:200
Alignment explanation
Indices: 2290221--2290784 Score: 1060
Period size: 199 Copynumber: 2.8 Consensus size: 200
2290211 AAGGATCGAT
* *
2290221 ACTAAAAAAGTGTCGACACATTATTTATACATATTCTCTCATAAAACTGGTATACTTGTACCGGT
1 ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGT
2290286 TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
66 TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
2290351 TATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGA
131 TATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGA
2290416 CACAA
196 CACAA
*
2290421 ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACTGGT
1 ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGT
* *
2290486 TAGATTG-AAAATTACATATTACATTATACTTTTGATTTTCGATGTTTTTGGGATCAACACTTTT
66 TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
2290550 TATATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGA
131 TATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGA
2290614 CACAA
196 CACAA
2290619 ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGT
1 ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGT
2290684 TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
66 TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
*
2290749 TATATATGGTTCGACACTTTATGGTTGCACCCTGTT
131 TATATATGGATCGACACTTTATGGTTGCACCCTGTT
2290785 GGCCATATTG
Statistics
Matches: 353, Mismatches: 9, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
198 111 0.31
199 167 0.47
200 75 0.21
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (200 bp):
ACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGT
TAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTT
TATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGA
CACAA
Found at i:2290914 original size:18 final size:18
Alignment explanation
Indices: 2290891--2290951 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2290881 TCTCATTCAT
*
2290891 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2290909 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2290928 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2290947 AATTA
1 AATTA
2290952 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2290927 original size:19 final size:19
Alignment explanation
Indices: 2290903--2290951 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2290893 TTATATTCAC
2290903 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2290922 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2290941 ATACAAAATTA
1 ATACAAAATTA
2290952 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2291545 original size:4 final size:4
Alignment explanation
Indices: 2291531--2291571 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
2291521 AATGTCCTTT
*
2291531 CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
2291572 CAATCTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:2292803 original size:33 final size:33
Alignment explanation
Indices: 2292766--2292831 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2292756 CATCTTAATA
*
2292766 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2292799 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2292832 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2292892 original size:21 final size:21
Alignment explanation
Indices: 2292865--2292929 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
2292855 CCCCTTATGC
* *
2292865 CTATCAAGTGTATCTTCGACT
1 CTATCAAGTTTCTCTTCGACT
*
2292886 CTCTCAAGTTTCTCTTCGACT
1 CTATCAAGTTTCTCTTCGACT
*
2292907 CTATCAAGTTTCTCTTTGACT
1 CTATCAAGTTTCTCTTCGACT
2292928 CT
1 CT
2292930 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (21 bp):
CTATCAAGTTTCTCTTCGACT
Found at i:2294989 original size:24 final size:24
Alignment explanation
Indices: 2294952--2295004 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2294942 CCGTTCTATC
2294952 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
2294976 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
2295000 TATTT
1 TATTT
2295005 AATCAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:2295166 original size:17 final size:18
Alignment explanation
Indices: 2295144--2295186 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2295134 ATATATCCGA
2295144 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2295161 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2295181 TATCAT
1 TATCAT
2295187 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2295204 original size:20 final size:19
Alignment explanation
Indices: 2295149--2295195 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2295139 TCCGATATCA
2295149 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2295168 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2295189 TTTTACC
1 TTTTACC
2295196 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2295420 original size:181 final size:182
Alignment explanation
Indices: 2295116--2295588 Score: 673
Period size: 181 Copynumber: 2.6 Consensus size: 182
2295106 TGTACTTACG
* * * *
2295116 AAAGTATCGACACTTTCAATATATCCGATATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
2295181 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
2295246 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2295297 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
2295362 TATCATATTTTTGCCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* * *
2295427 AGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTTGATCCTTATATT
131 AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * * *
2295479 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGATTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACCGGTT
* * * *
2295543 TTGTCATAGTTTTACCTGTTATATCATTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
2295589 AATTTGGATC
Statistics
Matches: 260, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 168 0.65
182 92 0.35
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2296318 original size:20 final size:20
Alignment explanation
Indices: 2296290--2296379 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
2296280 CCTAATTCGT
*
2296290 AATGCGAATACTTAAATCGC
1 AATGCGAATACGTAAATCGC
* ** *
2296310 AACGCGAATTTGGAAAATCGC
1 AATGCGAA-TACGTAAATCGC
*
2296331 AATGCGATTACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
2296351 ATTGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
2296371 AATACGAAT
1 AATGCGAAT
2296380 CTGACTATCG
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 41 0.75
21 14 0.25
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:2297027 original size:20 final size:20
Alignment explanation
Indices: 2297002--2297051 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2296992 TGCGATTCTT
2297002 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
2297022 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
2297042 GTGTTGCGAT
1 GCGTTGCGAT
2297052 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:2297057 original size:20 final size:20
Alignment explanation
Indices: 2297019--2297073 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2297009 GATAGTCAAA
* **
2297019 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2297039 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
2297059 TTCGTGTTACGATTT
1 TTCGTGTTGCGATTT
2297074 AAAGTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.22, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2297081 original size:20 final size:20
Alignment explanation
Indices: 2297038--2297081 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2297028 CGATAGTCAT
* ** *
2297038 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTACGATTTAAAG
2297058 TTTCGTGTTACGATTTAAAG
1 TTTCGTGTTACGATTTAAAG
2297078 TTTC
1 TTTC
2297082 AGAAACTATT
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:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTACGATTTAAAG
Found at i:2298975 original size:20 final size:20
Alignment explanation
Indices: 2298950--2299079 Score: 197
Period size: 20 Copynumber: 6.5 Consensus size: 20
2298940 AGAATAGTTT
*
2298950 ACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
2298970 ACTATCGTAACACGAAAATG
1 ACTATCGCAATGCGAAAATG
2298990 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
2299010 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
2299030 ACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
2299050 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
2299070 ACTATCGCAA
1 ACTATCGCAA
2299080 CGAGAGAATC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.22
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:2299145 original size:34 final size:34
Alignment explanation
Indices: 2299107--2299260 Score: 139
Period size: 34 Copynumber: 4.4 Consensus size: 34
2299097 GAAATGAAAA
2299107 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
*
2299141 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAAAT
1 TCGCATTGCGAT--TC--TCTCG--TTGCGATAGTCAAAT
* * * * ** *
2299181 TCGCGTTGCGATTTTGTTGTTGCGATTTTC-ATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
* **
2299214 TTGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
*
2299248 TCGCGTTGCGATT
1 TCGCATTGCGATT
2299261 TTAAGTTTCA
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
33 25 0.26
34 34 0.36
36 5 0.05
38 5 0.05
40 26 0.27
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (34 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
Found at i:2299151 original size:20 final size:20
Alignment explanation
Indices: 2299126--2299192 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
2299116 GATTCTCTCG
2299126 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
2299146 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
*
2299166 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCA
2299186 TTGCGAT
1 TTGCGAT
2299193 TTTGTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:2300136 original size:33 final size:33
Alignment explanation
Indices: 2300085--2300176 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 33
2300075 GTACCACAAC
*
2300085 GCGATTTTTATTTTCGCATTGCGATTCAATCGTT
1 GCGATTTTCA-TTTCGCATTGCGATTCAATCGTT
**
2300119 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCAATCGTT
** *
2300152 GCGATAGTCATTTCCGCGTTGCGAT
1 GCGATTTTCATTT-CGCATTGCGAT
2300177 AGTCAATTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 32 0.63
34 19 0.37
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (33 bp):
GCGATTTTCATTTCGCATTGCGATTCAATCGTT
Found at i:2300173 original size:20 final size:20
Alignment explanation
Indices: 2300148--2300241 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
2300138 GCGATTCTCT
2300148 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2300168 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
2300188 CGTTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2300208 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
2300228 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
2300242 AATGAATGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 65 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2302689 original size:24 final size:24
Alignment explanation
Indices: 2302655--2302708 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2302645 CTGAAAAATC
2302655 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2302679 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2302703 ATCAAA
1 ATCAAA
2302709 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2302722 original size:24 final size:24
Alignment explanation
Indices: 2302655--2302722 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2302645 CTGAAAAATC
* * *
2302655 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2302679 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2302703 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2302723 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2303583 original size:20 final size:20
Alignment explanation
Indices: 2303560--2303756 Score: 140
Period size: 20 Copynumber: 9.8 Consensus size: 20
2303550 TTGCGATAGT
* *
2303560 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
2303580 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
* *
2303600 -TGTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
2303620 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
2303640 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
2303660 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
2303680 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
* *
2303700 C-GTAATCGCATTGCAATTTTC
1 CAG-AATCGCATTGCGA-TTTA
*
2303721 CA-AATTCGCGTTGCGATTTA
1 CAGAA-TCGCATTGCGATTTA
*
2303741 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
2303757 ATTCGGAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
19 1 0.01
20 143 0.91
21 14 0.09
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:2303614 original size:40 final size:40
Alignment explanation
Indices: 2303570--2303756 Score: 286
Period size: 40 Copynumber: 4.7 Consensus size: 40
2303560 CAGAATCTCG
*
2303570 TTGCGATTTACAG-ATTCGCATTGCGATTTATGTATTCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGTATTCGCA
2303610 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
2303650 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
* * * ** *
2303690 TTGCGATTTACGTAATCGCATTGCAATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGA-TTTACGTATTCGCA
2303731 TTGCGATTTACGTATTCGCATTGCGA
1 TTGCGATTTACGTATTCGCATTGCGA
2303757 ATTCGGAAAA
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.74
41 34 0.25
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
Found at i:2303634 original size:60 final size:60
Alignment explanation
Indices: 2303570--2303756 Score: 279
Period size: 60 Copynumber: 3.1 Consensus size: 60
2303560 CAGAATCTCG
2303570 TTGCGATTTACAG-ATTCGCATTGCGATTTATGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTATGTATTCGCATTGCGATTTACGTATTCGCA
*
2303630 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTATGTATTCGCATTGCGATTTACGTATTCGCA
* * ** *
2303690 TTGCGATTTACGTAATCGCATTGCAATTT-TCCAAATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTAT--GTATTCGCATTGCGATTTACGTATTCGCA
2303751 TTGCGA
1 TTGCGA
2303757 ATTCGGAAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
59 1 0.01
60 84 0.72
61 32 0.27
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (60 bp):
TTGCGATTTACGTATTCGCATTGCGATTTATGTATTCGCATTGCGATTTACGTATTCGCA
Found at i:2303777 original size:21 final size:21
Alignment explanation
Indices: 2303753--2303798 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2303743 TATTCGCATT
2303753 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* * *
2303774 GCGAATTTGGGAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
2303795 GCGA
1 GCGA
2303799 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:2307785 original size:2 final size:2
Alignment explanation
Indices: 2307778--2307831 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2307768 TTTTCTTCCC
2307778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2307820 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2307832 CGTTCCATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2310761 original size:11 final size:11
Alignment explanation
Indices: 2310745--2310781 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
2310735 AATATATAGA
2310745 TAAAAAAATAT
1 TAAAAAAATAT
2310756 TAAAAAAATAT
1 TAAAAAAATAT
*
2310767 TATTAAAAATAT
1 TA-AAAAAATAT
2310779 TAA
1 TAA
2310782 TATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAAAATAT
Found at i:2310785 original size:18 final size:19
Alignment explanation
Indices: 2310762--2310800 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2310752 ATATTAAAAA
2310762 AATATTATTA-AAAATATT
1 AATATTATTATAAAATATT
*
2310780 AATATTTTTATTAAAATATT
1 AATATTATTA-TAAAATATT
2310800 A
1 A
2310801 TCTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTATTATAAAATATT
Found at i:2310801 original size:32 final size:31
Alignment explanation
Indices: 2310759--2310831 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 31
2310749 AAAATATTAA
2310759 AAAAATATTAT-TAAAAATATTAATATTTTTA-T
1 AAAAATATTATCT-AAAATATT-AT-TTTTTACT
*
2310791 TAAAATATTATCTAAAATATTATTTTTTACT
1 AAAAATATTATCTAAAATATTATTTTTTACT
2310822 AAAAATATTA
1 AAAAATATTA
2310832 ATATTAGACG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 6 0.16
31 12 0.32
32 18 0.49
33 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAAATATTATCTAAAATATTATTTTTTACT
Found at i:2310806 original size:12 final size:11
Alignment explanation
Indices: 2310749--2310814 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
2310739 TATAGATAAA
**
2310749 AAAATATTAAA
1 AAAATATTATT
2310760 AAAATATTATT
1 AAAATATTATT
2310771 AAAA-A-TATT
1 AAAATATTATT
* *
2310780 AATATTTTTATT
1 AA-AATATTATT
2310792 AAAATATTATCT
1 AAAATATTAT-T
2310804 AAAATATTATT
1 AAAATATTATT
2310815 TTTTACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 6 0.13
10 2 0.04
11 20 0.44
12 17 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATATTATT
Found at i:2313436 original size:60 final size:60
Alignment explanation
Indices: 2313354--2313520 Score: 187
Period size: 60 Copynumber: 2.8 Consensus size: 60
2313344 AACTATGACA
* * * *
2313354 CTCATT-TAAAATTAGTCTTTAAATTTTTAAACATTTCAATTTTAT-CTCCAAAATAGGACT
1 CTCATTCT-AAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCT-CAAAATAGGAAT
* * * **
2313414 TTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATCCTCAAACTATTAAT
1 CTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCTCAAAATAGGAAT
* *
2313474 CTCATTCTAAATTAGTCCCTAAACTTTTAGATC-TTTCAATTTCATCC
1 CTCATTCTAAATTAGTCCTTAAACTTTTA-AACATTTCAATTTCATCC
2313521 ATAAATTCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
60 86 0.95
61 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.43
Consensus pattern (60 bp):
CTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCTCAAAATAGGAAT
Found at i:2313498 original size:31 final size:31
Alignment explanation
Indices: 2313415--2313507 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 31
2313405 AATAGGACTT
*
2313415 TCATTCTAAATTAGTCCTTAAACTTTTAA--
1 TCATTCTAAATTAGTCCCTAAACTTTTAATC
* * * *
2313444 ACATTCCAATTTCA-T-CCTCAAACTATTAATC
1 TCATTCTAAATT-AGTCCCT-AAACTTTTAATC
2313475 TCATTCTAAATTAGTCCCTAAACTTTTAGATC
1 TCATTCTAAATTAGTCCCTAAACTTTTA-ATC
2313507 T
1 T
2313508 TTCAATTTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
28 2 0.04
29 19 0.40
30 2 0.04
31 18 0.38
32 7 0.15
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (31 bp):
TCATTCTAAATTAGTCCCTAAACTTTTAATC
Found at i:2317851 original size:2 final size:2
Alignment explanation
Indices: 2317844--2317907 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
2317834 ACTTGCCATA
* *
2317844 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2317886 AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2317908 GCTCATTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2319270 original size:16 final size:16
Alignment explanation
Indices: 2319220--2319284 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
2319210 ATCCAATTTG
2319220 ACCTGAACCGAAATTA
1 ACCTGAACCGAAATTA
* * **
2319236 ACCTAAATCGAAAGCA
1 ACCTGAACCGAAATTA
*
2319252 ACCTGAACCGAATTTA
1 ACCTGAACCGAAATTA
* * *
2319268 ACCCGATCCAAAATTA
1 ACCTGAACCGAAATTA
2319284 A
1 A
2319285 TCCGAATTGA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.18
Consensus pattern (16 bp):
ACCTGAACCGAAATTA
Found at i:2319516 original size:32 final size:32
Alignment explanation
Indices: 2319480--2319597 Score: 107
Period size: 32 Copynumber: 3.7 Consensus size: 32
2319470 GACCCAAATA
* *
2319480 GAAAATCAATCGATCCGATATTGACCCGATCC
1 GAAAATCAATCGATCCGATATTAACCTGATCC
* *
2319512 GAAAATCAA-CTGATCCAATATTAACTTGA-CC
1 GAAAATCAATC-GATCCGATATTAACCTGATCC
* * *
2319543 TG-AAATCTAACCTATCCGATATTAACCTAATCC
1 -GAAAATC-AATCGATCCGATATTAACCTGATCC
* *
2319576 AAAAATCAATTGATCCGATATT
1 GAAAATCAATCGATCCGATATT
2319598 GATCATAACC
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
31 8 0.12
32 52 0.76
33 8 0.12
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (32 bp):
GAAAATCAATCGATCCGATATTAACCTGATCC
Found at i:2319957 original size:23 final size:23
Alignment explanation
Indices: 2319909--2319957 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2319899 TTTAATGATT
* *
2319909 TATATTCAATTAAAATATGAATA
1 TATATTCAATTAAAATATAAACA
* *
2319932 TATATTCGATTGAAATATAAACA
1 TATATTCAATTAAAATATAAACA
2319955 TAT
1 TAT
2319958 TATTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (23 bp):
TATATTCAATTAAAATATAAACA
Found at i:2319995 original size:37 final size:38
Alignment explanation
Indices: 2319932--2320063 Score: 178
Period size: 37 Copynumber: 3.5 Consensus size: 38
2319922 AATATGAATA
*
2319932 TATATTCGATTGAAATATAAACATATTATTTATAAATT
1 TATATTCGATTGAAATACAAACATATTATTTATAAATT
* *
2319970 TATATTTGATT-AAATACAAATATATTATTTATAAATT
1 TATATTCGATTGAAATACAAACATATTATTTATAAATT
* * * *
2320007 TACATTCAATTAAAATACAAACAAATTA-TTATAAATT
1 TATATTCGATTGAAATACAAACATATTATTTATAAATT
*
2320044 TATATTCGATTGGAATACAA
1 TATATTCGATTGAAATACAA
2320064 TATTGTAGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
37 57 0.70
38 24 0.30
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (38 bp):
TATATTCGATTGAAATACAAACATATTATTTATAAATT
Found at i:2325326 original size:36 final size:34
Alignment explanation
Indices: 2325279--2325382 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 34
2325269 ATGCAATCCT
2325279 CAGATGCATGAGATATTTCGAAGAATAACTATATTC
1 CAGATGCATGAGATATTTCGAAGAATAACTATA--C
*
2325315 CAGATTCATGAGATATTTCGAAGAATAACTATAC
1 CAGATGCATGAGATATTTCGAAGAATAACTATAC
*
2325349 CATAGATGCATGAGATATTTAGAAGAATAACTAT
1 C--AGATGCATGAGATATTTCGAAGAATAACTAT
2325383 CTCCTGCAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 2 0.03
36 61 0.97
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (34 bp):
CAGATGCATGAGATATTTCGAAGAATAACTATAC
Found at i:2331179 original size:27 final size:27
Alignment explanation
Indices: 2331148--2331296 Score: 257
Period size: 27 Copynumber: 5.6 Consensus size: 27
2331138 TCTATTTACA
*
2331148 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
2331175 AAATCATACCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2331202 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2331229 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
2331256 AAATCATAACTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2331283 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
2331297 ATTCCTACAC
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 8 0.07
27 109 0.93
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:2335025 original size:27 final size:27
Alignment explanation
Indices: 2334994--2335142 Score: 257
Period size: 27 Copynumber: 5.6 Consensus size: 27
2334984 TCTATTTACA
*
2334994 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2335021 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
2335048 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2335075 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
2335102 AAATCATAACTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2335129 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
2335143 ATTCCTATAG
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 8 0.07
27 109 0.93
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:2343093 original size:16 final size:16
Alignment explanation
Indices: 2343068--2343103 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2343058 ATGATTGATA
2343068 TTTTTATGTTTATTAC
1 TTTTTATGTTTATTAC
* *
2343084 TTTTTTTGTTTATTGC
1 TTTTTATGTTTATTAC
2343100 TTTT
1 TTTT
2343104 GATTGCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTTTATGTTTATTAC
Found at i:2351631 original size:96 final size:96
Alignment explanation
Indices: 2351467--2351658 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
2351457 CTCGAAAATT
2351467 GTTGTATTTGTGCTTTAGGTCCCTTTAACTTAAGTTTATAATTATTAAGTCATTAGATCAATTCA
1 GTTGTATTTGTGCTTTAGGTCCCTTTAACTTAAGTTTATAATTATTAAGTCATTAGATCAATTCA
2351532 TTTGTGCTTGCAATAACAAGGATAAATATAA
66 TTTGTGCTTGCAATAACAAGGATAAATATAA
2351563 GTTGTATTTGTGCTTTAGGTCCCTTTAACTTAAGTTTATAATTATTAAGTCATTAGATCAATTCA
1 GTTGTATTTGTGCTTTAGGTCCCTTTAACTTAAGTTTATAATTATTAAGTCATTAGATCAATTCA
2351628 TTTGTGCTTGCAATAACAAGGATAAATATAA
66 TTTGTGCTTGCAATAACAAGGATAAATATAA
2351659 TGATGGCTCC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (96 bp):
GTTGTATTTGTGCTTTAGGTCCCTTTAACTTAAGTTTATAATTATTAAGTCATTAGATCAATTCA
TTTGTGCTTGCAATAACAAGGATAAATATAA
Found at i:2351726 original size:6 final size:6
Alignment explanation
Indices: 2351715--2351748 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2351705 TTACATTATG
* *
2351715 TGTATA TGTATA TGTATA TGTATG TGTATG TGTA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTA
2351749 CGTGTACGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:2351753 original size:6 final size:6
Alignment explanation
Indices: 2351733--2351814 Score: 128
Period size: 6 Copynumber: 13.7 Consensus size: 6
2351723 TATATGTATA
* * *
2351733 TGTATG TGTATG TGTACG TGTACG TGTATG TGTACG TGTACG TGTACG
1 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
*
2351781 TGTACG TGTACG TGTACG TGTATG TGTACG TGTA
1 TGTACG TGTACG TGTACG TGTACG TGTACG TGTA
2351815 TATGTATTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.17, C:0.11, G:0.33, T:0.39
Consensus pattern (6 bp):
TGTACG
Found at i:2351820 original size:12 final size:12
Alignment explanation
Indices: 2351727--2351820 Score: 116
Period size: 12 Copynumber: 7.8 Consensus size: 12
2351717 TATATGTATA
* *
2351727 TGTATATGTATG
1 TGTATGTGTACG
2351739 TGTATGTGTACG
1 TGTATGTGTACG
* *
2351751 TGTACGTGTATG
1 TGTATGTGTACG
*
2351763 TGTACGTGTACG
1 TGTATGTGTACG
*
2351775 TGTACGTGTACG
1 TGTATGTGTACG
*
2351787 TGTACGTGTACG
1 TGTATGTGTACG
2351799 TGTATGTGTACG
1 TGTATGTGTACG
*
2351811 TGTATATGTA
1 TGTATGTGTA
2351821 TTAAATTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 75 1.00
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (12 bp):
TGTATGTGTACG
Found at i:2351821 original size:18 final size:18
Alignment explanation
Indices: 2351711--2351821 Score: 123
Period size: 18 Copynumber: 6.2 Consensus size: 18
2351701 ATAGTTACAT
** *
2351711 TATGTGTATATGTATATG
1 TATGTGTACGTGTATGTG
* *
2351729 TATATGTATGTGTATGTG
1 TATGTGTACGTGTATGTG
*
2351747 TACGTGTACGTGTATGTG
1 TATGTGTACGTGTATGTG
* *
2351765 TACGTGTACGTGTACGTG
1 TATGTGTACGTGTATGTG
* *
2351783 TACGTGTACGTGTACGTG
1 TATGTGTACGTGTATGTG
*
2351801 TATGTGTACGTGTATATG
1 TATGTGTACGTGTATGTG
2351819 TAT
1 TAT
2351822 TAAATTTTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 83 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (18 bp):
TATGTGTACGTGTATGTG
Found at i:2352209 original size:4 final size:4
Alignment explanation
Indices: 2352202--2352239 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
2352192 TAGTATTTCG
2352202 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TATAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T
2352240 ATGTGGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:2356388 original size:20 final size:21
Alignment explanation
Indices: 2356356--2356404 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
2356346 TTGCGGATTT
* *
2356356 TGTTGTGGATGCGGTTACGG-
1 TGTTGCGGTTGCGGTTACGGA
*
2356376 TGTTGCGGTTGCGGTTGCGGA
1 TGTTGCGGTTGCGGTTACGGA
2356397 TGTTGCGG
1 TGTTGCGG
2356405 ACGTTACGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.06, C:0.12, G:0.47, T:0.35
Consensus pattern (21 bp):
TGTTGCGGTTGCGGTTACGGA
Found at i:2359408 original size:35 final size:35
Alignment explanation
Indices: 2359367--2359434 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
2359357 CTCGAGTCTC
2359367 AGTAATACTACCTCCCCCAGGTTCATAAACTGACT
1 AGTAATACTACCTCCCCCAGGTTCATAAACTGACT
2359402 AGTAATACTACCTCCCCCAGGTTCATAAACTGA
1 AGTAATACTACCTCCCCCAGGTTCATAAACTGA
2359435 ATCTTGACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (35 bp):
AGTAATACTACCTCCCCCAGGTTCATAAACTGACT
Found at i:2360721 original size:16 final size:16
Alignment explanation
Indices: 2360696--2360756 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
2360686 TAATAAATAA
*
2360696 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
2360712 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
2360728 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
2360744 ACGAACATAAACG
1 ACGAACATAAACG
2360757 TTGGAAACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2361844 original size:14 final size:14
Alignment explanation
Indices: 2361827--2361870 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
2361817 TGAACATAAG
2361827 CGAACATAACCGAA
1 CGAACATAACCGAA
2361841 CGAACATAACCGAA
1 CGAACATAACCGAA
*
2361855 TGAACATAACCGAA
1 CGAACATAACCGAA
2361869 CG
1 CG
2361871 TTCACAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:2362691 original size:308 final size:295
Alignment explanation
Indices: 2361970--2362824 Score: 1021
Period size: 308 Copynumber: 2.9 Consensus size: 295
2361960 TAATAAATAA
* * * *
2361970 ACACACATAAACGAACTTCCCGTCGCACGATTCATGAACGGTTCGCTGAACGTTTAGTTCATTTA
1 ACACACAGAAACGAACTTCCCGCCGCACGATTCATGAACGATTC-ATGAACGTTTAGTTCATTTA
* *
2362035 C-AGCCTAGTAATCATGCCTATCAATTATTTTA---T-TTTTTGCGCCTCTG-C-CTACACGCAC
65 CAAGACTAGTAACCATGCCTATCAATTATTTTATTTTATTTTTGCGCCTCTGCCTCTACACGCAC
2362093 ACACCATCAC-TTTTT-TTTTTTCAAGGAATATATTCCTTTTTATTTTATTTGT-A-A-TA-TTA
130 ACACCATCACTTTTTTATTTTTTCAAGGAATATATTCCTTTTTATTTTATTTGTAATATTATTTA
2362152 -TTATTTATTCTTTATA-T-TATATTAGATAAAATTTTATAATTTCATAATAAATAGATATAATA
195 TTTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTCATAATAAATAGATATAATA
2362214 CATAT--TATTATTACTTTTTTTTTGTCTCTTACAC
260 CATATACTATTATTACTTTTTTTTTGTCTCTTACAC
* * *
2362248 ACACACATAAACGAACTTCCCGCCGCACGATTCATGAACGGTTCGCTGAACGTTTAGTTCATTTA
1 ACACACAGAAACGAACTTCCCGCCGCACGATTCATGAACGATTC-ATGAACGTTTAGTTCATTTA
* *
2362313 CAAGCCTAGTAATCATGCCTATCAATTATTTTA---T-TTTTTGCGCCTCTGCCTCTACACGCAC
65 CAAGACTAGTAACCATGCCTATCAATTATTTTATTTTATTTTTGCGCCTCTGCCTCTACACGCAC
2362374 ACACCATCACTTTTTTATTTTTTCAAGGAATATATTCCTTTTTATTTTATTTGTAATATTATTTA
130 ACACCATCACTTTTTTATTTTTTCAAGGAATATATTCCTTTTTATTTTATTTGTAATATTATTTA
2362439 TTTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTCATAATAAATAGATATAATA
195 TTTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTCATAATAAATAGATATAATA
2362504 CATATACTATTATTAC-TTTTTTTTGTCTCTTACAC
260 CATATACTATTATTACTTTTTTTTTGTCTCTTACAC
* * ** ** ** * * ** ** *
2362539 ACACTATCGAGGAA-TATA-TTCCCTTTCTTATTTTATTTAT-AA-TATT-ATTTATTTATTAAT
1 ACAC-A-C-AGAAACGA-ACTTCCC-GCCGCA--CGATTCATGAACGATTCATGAACGT-TT-AG
* * *
2362599 TTGCATTGGTCTGATCCCAA-ATTATGTAACCATGCTTATCATTTATTTTATTTTATTTTATGCG
57 TT-CA-T--T-T-A---CAAGACTA-GTAACCATGCCTATCAATTATTTTATTTTATTTT-TGCG
*
2362663 CCTCTGCCTCTACACGCACACACCATCACTTTTTTATTTTGTCAAGGAATATATTCCTTTTTATT
111 CCTCTGCCTCTACACGCACACACCATCACTTTTTTATTTTTTCAAGGAATATATTCCTTTTTATT
*
2362728 TTATTTATAATATTATTTATTTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTC
176 TTATTTGTAATATTATTTATTTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTC
*
2362793 ATAGTAAATAGATATAATACATATACTATTAT
241 ATAATAAATAGATATAATACATATACTATTAT
2362825 AGTATTATAA
Statistics
Matches: 512, Mismatches: 27, Indels: 46
0.88 0.05 0.08
Matches are distributed among these distances:
278 65 0.13
279 46 0.09
280 1 0.00
281 20 0.04
282 5 0.01
283 37 0.07
284 1 0.00
285 1 0.00
286 2 0.00
287 3 0.01
288 16 0.03
289 1 0.00
290 50 0.10
291 23 0.04
292 13 0.03
293 9 0.02
294 11 0.02
295 4 0.01
296 6 0.01
298 1 0.00
299 1 0.00
300 1 0.00
302 2 0.00
303 25 0.05
306 1 0.00
307 4 0.01
308 163 0.32
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (295 bp):
ACACACAGAAACGAACTTCCCGCCGCACGATTCATGAACGATTCATGAACGTTTAGTTCATTTAC
AAGACTAGTAACCATGCCTATCAATTATTTTATTTTATTTTTGCGCCTCTGCCTCTACACGCACA
CACCATCACTTTTTTATTTTTTCAAGGAATATATTCCTTTTTATTTTATTTGTAATATTATTTAT
TTATTTATTCTTTATATTATATATTAGATAAAATTTTATAATTTCATAATAAATAGATATAATAC
ATATACTATTATTACTTTTTTTTTGTCTCTTACAC
Done.