Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006678.1 Hibiscus syriacus cultivar Beakdansim tig00016563_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: 1086949
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 4 of 5
Found at i:805395 original size:13 final size:13
Alignment explanation
Indices: 805379--805410 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
805369 GCCCCGATTA
805379 CCCGATTACCCGC
1 CCCGATTACCCGC
805392 CCCGATTACCCGC
1 CCCGATTACCCGC
805405 CCCGAT
1 CCCGAT
805411 ACTCGACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:805492 original size:2 final size:2
Alignment explanation
Indices: 805487--805534 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
805477 TAAATAAAAA
* * * *
805487 AT AT AT AT TT AT AT AT TT A- AT TT AA 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
805528 AT AT AT A
1 AT AT AT A
805535 CCCGACCCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:805564 original size:24 final size:24
Alignment explanation
Indices: 805532--805586 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
805522 ATATATATAT
* * *
805532 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
805556 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
805580 ATACCCG
1 ATACCCG
805587 TTTAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:805569 original size:12 final size:12
Alignment explanation
Indices: 805532--805586 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
805522 ATATATATAT
*
805532 ATACCCGACCCG
1 ATACCCGACCCA
* * *
805544 ATTCTCGGCCCA
1 ATACCCGACCCA
805556 ATACCCGACCCA
1 ATACCCGACCCA
*
805568 ATACCCGGCCCA
1 ATACCCGACCCA
805580 ATACCCG
1 ATACCCG
805587 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:806044 original size:34 final size:36
Alignment explanation
Indices: 806003--806093 Score: 159
Period size: 34 Copynumber: 2.6 Consensus size: 36
805993 CGATTATATA
*
806003 TATATATATATAATATTTTATATTTTTTATATTAA-
1 TATATATATATAATATTTTATATATTTTATATTAAT
806038 T-TATATATATAATATTTTATATATTTTATATTAAT
1 TATATATATATAATATTTTATATATTTTATATTAAT
806073 TATATATATATAATATTTTAT
1 TATATATATATAATATTTTAT
806094 GAAAACGGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
34 32 0.60
35 2 0.04
36 19 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (36 bp):
TATATATATATAATATTTTATATATTTTATATTAAT
Found at i:806065 original size:9 final size:9
Alignment explanation
Indices: 806001--806068 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
805991 TCCGATTATA
*
806001 TATATATATA
1 TATATAT-TT
806011 TATAATATTT
1 TAT-ATATTT
806021 TATAT-TTT
1 TATATATTT
806029 T-TATATTAAT
1 TATATATT--T
*
806039 TATATA-TA
1 TATATATTT
806047 TA-ATATTT
1 TATATATTT
806055 TATATATTT
1 TATATATTT
806064 TATAT
1 TATAT
806069 TAATTATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
7 6 0.12
8 11 0.23
9 13 0.27
10 10 0.21
11 8 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATATATTT
Found at i:808154 original size:17 final size:17
Alignment explanation
Indices: 808132--808167 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
808122 TTTAGTTTAC
808132 AAAATTAAAATTTGGTG
1 AAAATTAAAATTTGGTG
808149 AAAATTAAAATTTGGTG
1 AAAATTAAAATTTGGTG
808166 AA
1 AA
808168 CAACCGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (17 bp):
AAAATTAAAATTTGGTG
Found at i:819094 original size:14 final size:14
Alignment explanation
Indices: 819075--819106 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
819065 CGTTCGTGAA
819075 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
819089 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
819103 CGTT
1 CGTT
819107 TATGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:819103 original size:24 final size:25
Alignment explanation
Indices: 819076--819128 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
819066 GTTCGTGAAC
819076 GTTCAG-TTATGTTCGTTCAGTTAT
1 GTTCAGTTTATGTTCGTTCAGTTAT
* *
819100 GTTC-GTTTATGTTTGTTCGGTTAT
1 GTTCAGTTTATGTTCGTTCAGTTAT
*
819124 ATTCA
1 GTTCA
819129 TTCATTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.15, C:0.11, G:0.21, T:0.53
Consensus pattern (25 bp):
GTTCAGTTTATGTTCGTTCAGTTAT
Found at i:819116 original size:14 final size:15
Alignment explanation
Indices: 819081--819123 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
819071 TGAACGTTCA
*
819081 GTTATGTTCGTTCA-
1 GTTATGTTCGTTTAT
819095 GTTATGTTCGTTTAT
1 GTTATGTTCGTTTAT
*
819110 GTT-TGTTCGGTTAT
1 GTTATGTTCGTTTAT
819124 ATTCATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.12, C:0.09, G:0.23, T:0.56
Consensus pattern (15 bp):
GTTATGTTCGTTTAT
Found at i:819759 original size:27 final size:27
Alignment explanation
Indices: 819721--819789 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
819711 TTGAAAGTTT
*
819721 TCGAGTTCGAGTCGGGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
819748 TCGAGTTCGAGTCGAGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
* *
819775 TCGAGCTCGACTCGA
1 TCGAGTTCGAGTCGA
819790 CTCGTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.22
Consensus pattern (27 bp):
TCGAGTTCGAGTCGAGCTCAGCAATAC
Found at i:819851 original size:16 final size:16
Alignment explanation
Indices: 819826--819890 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
819816 CCAATATTTA
819826 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
819842 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
819858 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
819874 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
819890 T
1 T
819891 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:819983 original size:16 final size:16
Alignment explanation
Indices: 819962--819992 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
819952 AAACATTTTA
819962 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
819978 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
819993 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:820854 original size:23 final size:23
Alignment explanation
Indices: 820807--820854 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
820797 AATAGCATAT
**
820807 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
*
820830 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
820853 TA
1 TA
820855 AGCATTTAAC
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:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:821336 original size:200 final size:197
Alignment explanation
Indices: 820911--821433 Score: 622
Period size: 200 Copynumber: 2.6 Consensus size: 197
820901 CGCTTATATT
* * * * *
820911 GACATATTATCTAAGTAAACCGGTATATTTATACTGGTAACATTGCAAATTTACCTATTACATTA
1 GACATATTTTCTCA-TAAAACGGTATATTTATACAGGT-ACATTGTAAATTTACCTATTACATTA
* *
820976 TAATTATCGGTTTCGATGTTTTTTGGATTGATA-TAATTT--TAAATGTATCGACACTTTATGCA
64 TAATTATCGGTTTCGATGTTTTTGGGATAGATACT--TTTAATAAATGTATCGACACTTTATGCA
* * * *
821038 TGCATCTCGTTGGGCATTCATTCTAGAAAAAAATATCGACACAAACTTAAAAAGTGTCGATACAT
127 TGCACCCCGTTGGACATTCATTATAGAAAAAAATATCGACACAAACTTAAAAAGTGTCGATACAT
*
821103 AATTTA
192 AATCTA
* * * *
821109 GACATATTTTCTCATAAAACTGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTG
1 GACATATTTTCTCATAAAAC-GGTATATTTATA-CAGGTACATTGTAAATTTACCTATTACATTA
* * *
821174 TAATTATCGGTTTCAATGTTTTTGGGATAGATACTTTTAATAAATGTATCGACACATTATGCGTG
64 TAATTATCGGTTTCGATGTTTTTGGGATAGATACTTTTAATAAATGTATCGACACTTTATGCATG
* * * * ** * * *
821239 CACCCCGTTTGACATTCATTATGGACAAAAAGTATCGACACAAATTTAAATGGTGTTGATACTTT
129 CACCCCGTTGGACATTCATTATAGA-AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATA
821304 ATGCT-
193 AT-CTA
* * *
821309 GACCTATTTTCTCATAAAATCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTGCATTA
1 GACATATTTTCTCATAAAA-CGGTATATTTATA-CAGGTACATTGTAAATTTACCTATTACATTA
* **
821374 TAATTATCGGTTTCGATGTTATTGGGATCTATACTTTTAATAAATGTATCGACACTTTAT
64 TAATTATCGGTTTCGATGTTTTTGGGATAGATACTTTTAATAAATGTATCGACACTTTAT
821434 ATTCTGGACA
Statistics
Matches: 277, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
197 8 0.03
198 76 0.27
199 47 0.17
200 144 0.52
201 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (197 bp):
GACATATTTTCTCATAAAACGGTATATTTATACAGGTACATTGTAAATTTACCTATTACATTATA
ATTATCGGTTTCGATGTTTTTGGGATAGATACTTTTAATAAATGTATCGACACTTTATGCATGCA
CCCCGTTGGACATTCATTATAGAAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATAATC
TA
Found at i:825653 original size:182 final size:180
Alignment explanation
Indices: 825345--825786 Score: 521
Period size: 182 Copynumber: 2.4 Consensus size: 180
825335 TACATGTACT
* * * * * *
825345 TATTAAAGTATTGACACTTTTAATATATACGGTAGCTCTTTACCGATTTTATCATTTCTAGACCG
1 TATTAAAGTATTGACACTTTCAATATAT-CGGTAGCGCTTTACCGGTTTTGTCATTTCGAGA-CA
* * * *
825410 GTTGTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
64 GTTTTGTCATATTTTTACCTGTTATATCGTTATGAATCGATACAGTTTTATAAAATATCGACACT
* * * * *
825475 TTATAGGCGCTAAAACT-A-TTTCTCTTTCAAATT-CACAAAGTGTCGATAATTA
129 TTATAAGCGCGAAAAATGATTTTC-CTTT-AAATTAC-CAAAATGTCGATAATCA
* * * *
825527 TATTAAAGTATTAACACTTTCAATATATCTGGTAGCGCTTTGCGGGTTTTGTCTTTTCGAGACTA
1 TATTAAAGTATTGACACTTTCAATATATC-GGTAGCGCTTTACCGGTTTTGTCATTTCGAGAC-A
** * * *
825592 GTTTTGTCATATTTTTATTTGTTGTATCGTTATGAATTGATATAGTTTTATAAAATATCGACACT
64 GTTTTGTCATATTTTTACCTGTTATATCGTTATGAATCGATACAGTTTTATAAAATATCGACACT
*
825657 TTATAAGCGCGAAAAATGATTTTCCTTTAAATTACCAAAATGTCGATACTCA
129 TTATAAGCGCGAAAAATGATTTTCCTTTAAATTACCAAAATGTCGATAATCA
* * * *
825709 TGTTAAAGTATTGACATTTTCAATATATCCGGTAGCGTTTTACCAGTTTTGTCATTTCGAGACAG
1 TATTAAAGTATTGACACTTTCAATATAT-CGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACA-
825774 GTTTTGTCATATT
64 GTTTTGTCATATT
825787 AGTATATGTT
Statistics
Matches: 220, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
181 3 0.01
182 206 0.94
183 7 0.03
184 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (180 bp):
TATTAAAGTATTGACACTTTCAATATATCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACAGT
TTTGTCATATTTTTACCTGTTATATCGTTATGAATCGATACAGTTTTATAAAATATCGACACTTT
ATAAGCGCGAAAAATGATTTTCCTTTAAATTACCAAAATGTCGATAATCA
Found at i:826152 original size:65 final size:62
Alignment explanation
Indices: 826080--826239 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 62
826070 AATTAAATTG
*
826080 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTT-ATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TG-
826144 A
62 A
* * * * *
826145 AACATCGAATGCATTTGATGCATCGATACACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGA
826209 AACATCGAATGCACTTTATGCATCGATGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
826240 TAAGGGTCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 26 0.31
65 52 0.62
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (62 bp):
AACATCGAATGCATTTATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:827229 original size:21 final size:21
Alignment explanation
Indices: 827203--827243 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
827193 TTTCTCTTTT
* *
827203 AAATTCACAAAGTGTCGACAC
1 AAATTCAAAAAGTATCGACAC
827224 AAATTCAAAAAGTATCGACA
1 AAATTCAAAAAGTATCGACA
827244 ATTTTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATTCAAAAAGTATCGACAC
Found at i:827288 original size:182 final size:181
Alignment explanation
Indices: 826950--827309 Score: 411
Period size: 182 Copynumber: 2.0 Consensus size: 181
826940 ACAGTATATA
* *
826950 TTATATCGTTATGGATTGATACATTTTTATAAAGTATCAACACTTTATAAGCGCTAAAACTGATT
1 TTATATCGTTATGGATCGATACATTGTTATAAAGTATCAACACTTTATAAGCGCTAAAACTGATT
* * * * * * *
827015 CTTTTTTAAATTCGCAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATATGTTA
66 CTCTTTTAAATTCACAAAGTGTCGACAC-TAAATTAAAGTATCGACAATTTCAATATATACGGTA
* * * *
827080 GCTCTATACCGATTTTATCCTTTCGAGACC-GATTTTGTCATATTTTTAGCCG
130 ACGCTATACCGACTTTATCCTTTCGAGACCAGA-TTTATCATATTTTTAGCCG
* * * * ** *
827132 TTATATCGTTGTTGATCGATACATTGTTATAAAGTATCGACACTTTATAGGCGCTATTACT-TTT
1 TTATATCGTTATGGATCGATACATTGTTATAAAGTATCAACACTTTATAAGCGCTAAAACTGATT
* * *
827196 CTCTTTTAAATTCACAAAGTGTCGACAC-AAATTCAAAAAGTATCGACAATTTTAATGTATCCGG
66 CTCTTTTAAATTCACAAAGTGTCGACACTAAATT---AAAGTATCGACAATTTCAATATATACGG
* * * *
827260 TAACGCTTTACCGGCTTTGTCTTTTCGAGACCAGATTTATCATATTTTTA
128 TAACGCTATACCGACTTTATCCTTTCGAGACCAGATTTATCATATTTTTA
827310 CTTATTATAT
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
179 4 0.03
181 27 0.18
182 114 0.78
183 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (181 bp):
TTATATCGTTATGGATCGATACATTGTTATAAAGTATCAACACTTTATAAGCGCTAAAACTGATT
CTCTTTTAAATTCACAAAGTGTCGACACTAAATTAAAGTATCGACAATTTCAATATATACGGTAA
CGCTATACCGACTTTATCCTTTCGAGACCAGATTTATCATATTTTTAGCCG
Found at i:842913 original size:17 final size:17
Alignment explanation
Indices: 842891--842926 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
842881 TATTATTTTT
842891 ATTTAA-TAAAAATAATA
1 ATTTAATTAAAAA-AATA
842908 ATTTAATTAAAAAAATA
1 ATTTAATTAAAAAAATA
842925 AT
1 AT
842927 ATATAGAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAATTAAAAAAATA
Found at i:842923 original size:20 final size:21
Alignment explanation
Indices: 842867--842927 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
842857 CGATCTGACC
* * *
842867 TTAAATAATAAAAATATTATTT
1 TTAATTAATAAAAATAATA-AT
*
842889 TTATTTAATAAAAATAATAAT
1 TTAATTAATAAAAATAATAAT
842910 TTAATTAA-AAAAATAATA
1 TTAATTAATAAAAATAATA
842928 TATAGAGGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.29
21 8 0.24
22 16 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATTAATAAAAATAATAAT
Found at i:844535 original size:26 final size:26
Alignment explanation
Indices: 844489--844538 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
844479 TTAAGTCAAA
**
844489 TTAAATATATTTGTATGTGTTTATTT
1 TTAAATATATTTCAATGTGTTTATTT
844515 TTAAATATATTTACAAT-TGTTTAT
1 TTAAATATATTT-CAATGTGTTTAT
844539 AATATCATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (26 bp):
TTAAATATATTTCAATGTGTTTATTT
Found at i:847743 original size:16 final size:17
Alignment explanation
Indices: 847722--847761 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
847712 TTTGAGTTTT
847722 TTATTTATA-TTTAAAA
1 TTATTTATATTTTAAAA
847738 TTATTTGA-ATTTTAAAA
1 TTATTT-ATATTTTAAAA
847755 -TATTTAT
1 TTATTTAT
847762 GAGTATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTATTTATATTTTAAAA
Found at i:847850 original size:14 final size:14
Alignment explanation
Indices: 847838--847892 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
847828 AAATAAACGC
*
847838 ACATAAACGAACGA
1 ACATAAACGAACAA
*
847852 ACATAAACGAATAA
1 ACATAAACGAACAA
847866 ACATAAACGAACAA
1 ACATAAACGAACAA
*
847880 ACATAAATGAACA
1 ACATAAACGAACA
847893 TTACCGAACG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.11
Consensus pattern (14 bp):
ACATAAACGAACAA
Found at i:847858 original size:28 final size:28
Alignment explanation
Indices: 847826--847892 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
847816 TTGGATAAAT
** *
847826 ATAAATAAACGCACATAAACGAACGAAC
1 ATAAATAAACAAACATAAACGAACAAAC
** *
847854 ATAAACGAATAAACATAAACGAACAAAC
1 ATAAATAAACAAACATAAACGAACAAAC
*
847882 ATAAATGAACA
1 ATAAATAAACA
847893 TTACCGAACG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (28 bp):
ATAAATAAACAAACATAAACGAACAAAC
Found at i:849810 original size:50 final size:50
Alignment explanation
Indices: 849735--849836 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
849725 AAGAAAATTT
849735 AATGCCAAAGCAATATAAACTAGTTTTAGTGCTCCAATTGAACCAAGATA
1 AATGCCAAAGCAATATAAACTAGTTTTAGTGCTCCAATTGAACCAAGATA
849785 AATGCCAAAGCAATATAAACTAGTTTTAGTGCTCCAATTGAACCAAGATA
1 AATGCCAAAGCAATATAAACTAGTTTTAGTGCTCCAATTGAACCAAGATA
849835 AA
1 AA
849837 ACACCGGCGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (50 bp):
AATGCCAAAGCAATATAAACTAGTTTTAGTGCTCCAATTGAACCAAGATA
Found at i:851536 original size:3 final size:3
Alignment explanation
Indices: 851501--851556 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
851491 ACCCTGAAAA
* * * *
851501 AAG AAG AAT AAG AAC AAG AAC AAG AAC AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
851549 AAG AAG AA
1 AAG AAG AA
851557 AAGTAAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:858127 original size:3 final size:3
Alignment explanation
Indices: 858121--858210 Score: 139
Period size: 3 Copynumber: 30.7 Consensus size: 3
858111 TTTTTATCCA
858121 TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
858167 TTT TAC TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
858211 AATATATATA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 4 0.05
3 75 0.95
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:859541 original size:17 final size:18
Alignment explanation
Indices: 859516--859568 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
859506 GGATATTTTT
859516 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
859534 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
859550 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
859568 A
1 A
859569 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:872539 original size:31 final size:30
Alignment explanation
Indices: 872468--872542 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
872458 ATTGGAATGT
* *
872468 AAATTTTTAAAGTTTAGAGACTAAAGTATA
1 AAATTTTAAAAGTTTAGAGACTAAAATATA
* *
872498 AAGTTGTAAAAGTTTA-AGGACTAAAAATATA
1 AAATTTTAAAAGTTTAGA-GACT-AAAATATA
872529 AAATTTTAAAAGTT
1 AAATTTTAAAAGTT
872543 AAAATTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.03
30 17 0.46
31 19 0.51
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35
Consensus pattern (30 bp):
AAATTTTAAAAGTTTAGAGACTAAAATATA
Found at i:875126 original size:2 final size:2
Alignment explanation
Indices: 875119--875151 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
875109 AATGTATGTG
875119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
875152 GTTTTGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:879317 original size:2 final size:2
Alignment explanation
Indices: 879310--879357 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
879300 ATTGTATGTG
879310 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
879352 AT AT AT
1 AT AT AT
879358 GTTTTGTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:883555 original size:32 final size:34
Alignment explanation
Indices: 883480--883560 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 34
883470 ATGTATGTGA
* *
883480 TATATATATAT-ATATATGTTTTGTGATATGAAT
1 TATATGTATATGATATATGTTGTGTGATATGAAT
*
883513 TATATG-ATATGATATATG-TGTGTGTTAATG-AT
1 TATATGTATATGATATATGTTGTGTGAT-ATGAAT
*
883545 TAT-TGTATATGTTATA
1 TATATGTATATGATATA
883561 AGATATATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 2 0.05
32 24 0.59
33 15 0.37
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (34 bp):
TATATGTATATGATATATGTTGTGTGATATGAAT
Found at i:884920 original size:41 final size:41
Alignment explanation
Indices: 884875--884953 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
884865 AAGTGAGTTC
*
884875 TTATCAGTTCAGGTTTGGTACT-TTCATGTATCAATGTTCAG
1 TTATCAGTTCAGCTTTGGTA-TATTCATGTATCAATGTTCAG
*
884916 TTATCAGTTCAGCTTTGGTATATTCGTGTATCAATGTT
1 TTATCAGTTCAGCTTTGGTATATTCATGTATCAATGTT
884954 TAGCACCGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (41 bp):
TTATCAGTTCAGCTTTGGTATATTCATGTATCAATGTTCAG
Found at i:887632 original size:20 final size:20
Alignment explanation
Indices: 887607--887750 Score: 225
Period size: 20 Copynumber: 7.2 Consensus size: 20
887597 AGAGCTTGAT
**
887607 GAATACGTAAATCATAATGC
1 GAATACGTAAATCGCAATGC
887627 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
887647 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
* * *
887667 GAATACATAAATCGTAATAC
1 GAATACGTAAATCGCAATGC
887687 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
887707 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
* *
887727 GAATAAGTAAATCGCAATGT
1 GAATACGTAAATCGCAATGC
887747 GAAT
1 GAAT
887751 CTGACTATCG
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 114 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (20 bp):
GAATACGTAAATCGCAATGC
Found at i:887761 original size:40 final size:40
Alignment explanation
Indices: 887607--887768 Score: 197
Period size: 40 Copynumber: 4.0 Consensus size: 40
887597 AGAGCTTGAT
**
887607 GAATACGTAAATCATAATGCGAATAC-GTAAATCGCAATGC
1 GAATACGTAAATCGCAATGCGAATACTG-AAATCGCAATGC
* *
887647 GAATACGTAAATCGCAATGCGAATACAT-AAATCGTAATAC
1 GAATACGTAAATCGCAATGCGAATAC-TGAAATCGCAATGC
887687 GAATACGTAAATCGCAATGCGAATAC-GTAAATCGCAATGC
1 GAATACGTAAATCGCAATGCGAATACTG-AAATCGCAATGC
* * *
887727 GAATAAGTAAATCGCAATGTGAAT-CTGACTATCGCAATGC
1 GAATACGTAAATCGCAATGCGAATACTGA-AATCGCAATGC
887767 GA
1 GA
887769 TTTACATAGC
Statistics
Matches: 107, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 105 0.98
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (40 bp):
GAATACGTAAATCGCAATGCGAATACTGAAATCGCAATGC
Found at i:887985 original size:22 final size:22
Alignment explanation
Indices: 887960--888012 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
887950 CCCGTATCCA
887960 ACGAAATCAGTCCCCATCTCCG
1 ACGAAATCAGTCCCCATCTCCG
* *
887982 ACGATATCAGTCTCCATCTCCG
1 ACGAAATCAGTCCCCATCTCCG
*
888004 GCGAAATCA
1 ACGAAATCA
888013 TTCACAGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (22 bp):
ACGAAATCAGTCCCCATCTCCG
Found at i:888396 original size:20 final size:20
Alignment explanation
Indices: 888371--888459 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
888361 TGCGATTCTT
*
888371 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAATTTC
*
888391 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAATTTC
* **
888411 GTGTTGCGATTTTC-ATTTC
1 GCGTTGCGATAGTCAATTTC
** *
888430 GCGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCAATTTC
*
888450 GTGTTGCGAT
1 GCGTTGCGAT
888460 TTTAAGTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.29
20 42 0.71
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATAGTCAATTTC
Found at i:888434 original size:39 final size:39
Alignment explanation
Indices: 888388--888462 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
888378 GATAGTCAAA
888388 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
**
888427 TTCGCGTTGCGATTTTCATTTTCGTGTTGCGATTTT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTT
888463 AAGTTTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (39 bp):
TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
Found at i:888460 original size:20 final size:20
Alignment explanation
Indices: 888388--888462 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
888378 GATAGTCAAA
**
888388 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCATT
*
888408 TTCGTGTTGCGATTTTCA-T
1 TTCGCGTTGCGATTTTCATT
888427 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
888447 TTCGTGTTGCGATTTT
1 TTCGCGTTGCGATTTT
888463 AAGTTTCAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
19 18 0.37
20 31 0.63
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:890360 original size:20 final size:20
Alignment explanation
Indices: 890324--890362 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
890314 AGAATAGTTT
*
890324 ACTATCGCAATACGAAAATG
1 ACTATCGCAAGACGAAAATG
890344 ACTATCGCAACGA-GAAAAT
1 ACTATCGCAA-GACGAAAAT
890363 CGCAACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (20 bp):
ACTATCGCAAGACGAAAATG
Found at i:890366 original size:14 final size:14
Alignment explanation
Indices: 890347--890390 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
890337 GAAAATGACT
*
890347 ATCGCAACGAGAAA
1 ATCGCAACGACAAA
*
890361 ATCGCAACAACAAA
1 ATCGCAACGACAAA
*
890375 ATCGCAACGCCAAA
1 ATCGCAACGACAAA
890389 AT
1 AT
890391 GACTATCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.14, T:0.09
Consensus pattern (14 bp):
ATCGCAACGACAAA
Found at i:890400 original size:20 final size:20
Alignment explanation
Indices: 890375--890443 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
890365 CAACAACAAA
*
890375 ATCGCAACGCCAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
890395 ATCGCAATACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
890415 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
890435 ATCGCAACG
1 ATCGCAACG
890444 AAAGAATCGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:890536 original size:22 final size:20
Alignment explanation
Indices: 890486--890669 Score: 195
Period size: 20 Copynumber: 9.4 Consensus size: 20
890476 GCGATTCTCT
890486 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
890506 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
890526 CGCATTGCGAT--TC----TCT
1 CG--TTGCGATAGTCATTTTCG
* *
890542 CGTTGTGATAGTCAAATTT-G
1 CGTTGCGATAGTC-ATTTTCG
* * * *
890562 CATTACGATAGTCATTTCCT
1 CGTTGCGATAGTCATTTTCG
*
890582 TGTTGCGATAGTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
890601 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
890621 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
*
890641 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
890661 CGTTGCGAT
1 CGTTGCGAT
890670 TTTAAGTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 22
0.77 0.11 0.13
Matches are distributed among these distances:
14 6 0.04
16 6 0.04
19 19 0.14
20 95 0.71
21 1 0.01
22 7 0.05
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:890539 original size:56 final size:55
Alignment explanation
Indices: 890470--890637 Score: 187
Period size: 56 Copynumber: 3.0 Consensus size: 55
890460 AAATGAAAAT
890470 CGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTC
1 CGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTC
* * * *
890525 GCGCATTGCGATTCTCTCGTTGTGATAGTCAAATTT-GCATTACGATAGTCA-TTTC
1 -CGCATTGCGATTCTCTCGTTGCGATAGTC-ATTTTCGCGTTGCGATAGTCATTTTC
*** *
890580 CTTGTTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTT
1 CGCATTGCGAT--TC---TCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTT
890638 CCGTGTTGCG
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
54 8 0.09
55 4 0.04
56 43 0.47
57 4 0.04
58 4 0.04
59 27 0.29
60 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (55 bp):
CGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTC
Found at i:890613 original size:59 final size:60
Alignment explanation
Indices: 890542--890669 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 60
890532 GCGATTCTCT
* *
890542 CGTTGTGATAGTCAAATTT-GCATTACGATAGTCATTTCCTTGTTGCGATAGTCA-TTTCG
1 CGTTGCGATAGTC-AATTTCGCATTACGATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
* * *
890601 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCGCATTACGATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
890661 CGTTGCGAT
1 CGTTGCGAT
890670 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 4 0.06
59 44 0.71
60 14 0.23
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (60 bp):
CGTTGCGATAGTCAATTTCGCATTACGATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
Found at i:891250 original size:42 final size:42
Alignment explanation
Indices: 891180--891260 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
891170 TCCTTTATCA
*
891180 TTCAAGAGGCCCCTATCATCCCTCAAGAG-TCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGAT-CCCTCCCACCG
* ** *
891222 TTCAAGAGGCCACTGTCATCGTTGAAGAGATCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGATCCCTCCCA
891261 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGATCCCTCCCACCG
Found at i:892663 original size:14 final size:14
Alignment explanation
Indices: 892644--892679 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
892634 ATTGTTTAAT
892644 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
892658 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
892672 TGATTTGT
1 TGATTTGT
892680 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:892807 original size:33 final size:33
Alignment explanation
Indices: 892749--892917 Score: 194
Period size: 33 Copynumber: 4.8 Consensus size: 33
892739 TGAAATTTCA
*
892749 CGTTACGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
892783 CGTTGCGATTTTCATTTCGTATTGCGATTCTCTCTAT
1 CGTTGCGATTTTCATTTCGCATTGCGA-T-TCTC--T
* *
892820 CACATTGTGATTTTCATTTTCGCATTGCGATTCTCT
1 --CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
892856 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
892889 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
892918 AGTCATTTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
33 46 0.39
34 36 0.31
35 4 0.03
36 1 0.01
37 1 0.01
38 4 0.03
39 13 0.11
40 12 0.10
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:892863 original size:14 final size:14
Alignment explanation
Indices: 892844--892897 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
892834 CATTTTCGCA
892844 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
892858 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
892875 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
892891 TTGCGAT
1 TTGCGAT
892898 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:892914 original size:20 final size:20
Alignment explanation
Indices: 892889--892982 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
892879 GCGATTCTCT
892889 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
892909 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
892929 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
892949 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
892969 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
892983 AATGAATGTC
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
20 69 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:895430 original size:24 final size:24
Alignment explanation
Indices: 895396--895449 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
895386 CTGAAAAATC
895396 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
895420 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
895444 ATCAAA
1 ATCAAA
895450 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:896315 original size:20 final size:20
Alignment explanation
Indices: 896290--896336 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
896280 AAATTCAGTA
*
896290 TTGCGATAGTCAGAATCGCG
1 TTGCGATAATCAGAATCGCG
*
896310 TTGCGATAATCAGAATCTCG
1 TTGCGATAATCAGAATCGCG
896330 TTGCGAT
1 TTGCGAT
896337 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAATCAGAATCGCG
Found at i:896353 original size:20 final size:20
Alignment explanation
Indices: 896330--896415 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
896320 CAGAATCTCG
896330 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
896350 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
896370 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
896390 TTTCGATTTACGTATTCTCA
1 TTGCGATTTACGTATTCGCA
896410 TTGCGA
1 TTGCGA
896416 ATTAGGAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:896438 original size:21 final size:21
Alignment explanation
Indices: 896412--896457 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
896402 TATTCTCATT
896412 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTA-GAAAATCGCAAC
*
896433 GCGAATTTAGAAAATCGCAAT
1 GCGAATTTAGAAAATCGCAAC
896454 GCGA
1 GCGA
896458 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGAAAATCGCAAC
Found at i:897448 original size:36 final size:36
Alignment explanation
Indices: 897401--897473 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
897391 TAATATTTAT
897401 ATAAAATTAGATTTAAATCAAATTGAGTTTAAAATA
1 ATAAAATTAGATTTAAATCAAATTGAGTTTAAAATA
897437 ATAAAATTAGATTTAAATCAAATTGAGTTTAAAATA
1 ATAAAATTAGATTTAAATCAAATTGAGTTTAAAATA
897473 A
1 A
897474 ATATTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (36 bp):
ATAAAATTAGATTTAAATCAAATTGAGTTTAAAATA
Found at i:897451 original size:20 final size:19
Alignment explanation
Indices: 897401--897453 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
897391 TAATATTTAT
897401 ATAAAATTAGATTT---AA
1 ATAAAATTAGATTTAAAAA
*
897417 ATCAAATT-GAGTTTAAAATA
1 ATAAAATTAGA-TTTAAAA-A
897437 ATAAAATTAGATTTAAA
1 ATAAAATTAGATTTAAA
897454 TCAAATTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
19 1 0.03
20 14 0.48
21 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.36
Consensus pattern (19 bp):
ATAAAATTAGATTTAAAAA
Found at i:897475 original size:16 final size:17
Alignment explanation
Indices: 897415--897475 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 17
897405 AATTAGATTT
897415 AAATCAAATTGAGTTTAAA
1 AAATCAAATTGAGTTT--A
*
897434 ATAATAAAATT-AGATTT-
1 A-AATCAAATTGAG-TTTA
897451 AAATCAAATTGAGTTTA
1 AAATCAAATTGAGTTTA
897468 AAAT-AAAT
1 AAATCAAAT
897476 ATTATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
16 15 0.42
17 7 0.19
19 3 0.08
20 11 0.31
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (17 bp):
AAATCAAATTGAGTTTA
Found at i:899465 original size:21 final size:20
Alignment explanation
Indices: 899432--899470 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
899422 TAATGGATTA
*
899432 TTGTTTTTGTATGTTGTTAT
1 TTGTTTTTGTATGATGTTAT
899452 TTGTTTTGTGTATGATGTT
1 TTGTTTT-TGTATGATGTT
899471 TAATGCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:908120 original size:5 final size:5
Alignment explanation
Indices: 908110--908135 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
908100 TCCGTTTTGC
908110 TTGTT TTGTT TTGTT TTGTT TTGTT T
1 TTGTT TTGTT TTGTT TTGTT TTGTT T
908136 CTTTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTGTT
Found at i:913991 original size:21 final size:21
Alignment explanation
Indices: 913965--914014 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
913955 AGAAGGAAGC
913965 GAAAGAATCCTTACAGATCGG
1 GAAAGAATCCTTACAGATCGG
913986 GAAAGAATCCTTACAGATCGG
1 GAAAGAATCCTTACAGATCGG
914007 GAAAGAAT
1 GAAAGAAT
914015 TGGATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (21 bp):
GAAAGAATCCTTACAGATCGG
Found at i:922798 original size:43 final size:43
Alignment explanation
Indices: 922739--922823 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
922729 CGAAAGATCC
922739 TCCATTTAGAGTATTTCCACTTATCCTTCTCCTTAGAGACTGA
1 TCCATTTAGAGTATTTCCACTTATCCTTCTCCTTAGAGACTGA
922782 TCCATTTAGAGTATTTCCACTTATCCTTCTCCTTAGAGACTG
1 TCCATTTAGAGTATTTCCACTTATCCTTCTCCTTAGAGACTG
922824 GGAACAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (43 bp):
TCCATTTAGAGTATTTCCACTTATCCTTCTCCTTAGAGACTGA
Found at i:925386 original size:16 final size:14
Alignment explanation
Indices: 925365--925403 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
925355 AGCAATGACC
925365 CTCTCTCTCTCACCCA
1 CTCTCTCTCTCA--CA
*
925381 CTCTCTCTCTGACA
1 CTCTCTCTCTCACA
925395 CTCTCTCTC
1 CTCTCTCTC
925404 ATGACTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.10, C:0.51, G:0.03, T:0.36
Consensus pattern (14 bp):
CTCTCTCTCTCACA
Found at i:926691 original size:57 final size:57
Alignment explanation
Indices: 926603--926719 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
926593 ACGTATGGGA
926603 AATGCACATTCCTAAAGATGATTCAAGCTGGGTGAAAAAATCTTTAACAGGGTTATC
1 AATGCACATTCCTAAAGATGATTCAAGCTGGGTGAAAAAATCTTTAACAGGGTTATC
926660 AATGCACATTCCTAAAGATGATTCAAGCTGGGTGAAAAAATCTTTAACAGGGTTATC
1 AATGCACATTCCTAAAGATGATTCAAGCTGGGTGAAAAAATCTTTAACAGGGTTATC
926717 AAT
1 AAT
926720 ATTGTTGGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (57 bp):
AATGCACATTCCTAAAGATGATTCAAGCTGGGTGAAAAAATCTTTAACAGGGTTATC
Found at i:926937 original size:120 final size:119
Alignment explanation
Indices: 926719--926941 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 119
926709 GGGTTATCAA
926719 TATTGTTGGTAGAGTTGGTTGGGTTACCACTTCTTAGCTGGACGGTACCTTTTCTGGAGAAACTA
1 TATTGTTGGTAGAGTTGGTTGGGTTACCACTTCTTAGCTGGACGGTACCTTTTCTGGAGAAACTA
926784 GCAGGTAGTTGGGGAGAGTTCGTTAGTATCCTGGAGGAAGGAGTTCCATTGGCG
66 GCAGGTAGTTGGGGAGAGTTCGTTAGTATCCTGGAGGAAGGAGTTCCATTGGCG
926838 TATTGTTTGGTAGAGTTGGTTGGGTTACCACTTCTTAGCTGGACGGTACCTTTTCTGGAGAAACT
1 TATTG-TTGGTAGAGTTGGTTGGGTTACCACTTCTTAGCTGGACGGTACCTTTTCTGGAGAAACT
926903 AGCAGGTAGTTGGGGAGAGTTCGTTAGTATCCTGGAGGA
65 AGCAGGTAGTTGGGGAGAGTTCGTTAGTATCCTGGAGGA
926942 GACAAAGAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 5 0.05
120 98 0.95
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (119 bp):
TATTGTTGGTAGAGTTGGTTGGGTTACCACTTCTTAGCTGGACGGTACCTTTTCTGGAGAAACTA
GCAGGTAGTTGGGGAGAGTTCGTTAGTATCCTGGAGGAAGGAGTTCCATTGGCG
Found at i:933756 original size:15 final size:15
Alignment explanation
Indices: 933736--933764 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
933726 TCGTTAACAT
933736 ACTTCTTAGTATGTA
1 ACTTCTTAGTATGTA
933751 ACTTCTTAGTATGT
1 ACTTCTTAGTATGT
933765 GGACGAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (15 bp):
ACTTCTTAGTATGTA
Found at i:938260 original size:21 final size:21
Alignment explanation
Indices: 938207--938263 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
938197 TTTTACACTT
938207 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
* *
938228 AGGAAACTGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
*
938249 AGGGTACCGATTCCC
1 AGGGAACCGATTCCC
938264 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:938480 original size:13 final size:13
Alignment explanation
Indices: 938459--938513 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
938449 AAGTTCGATA
*
938459 AATTCAAATACTT
1 AATTGAAATACTT
938472 AATTGAAATACTT
1 AATTGAAATACTT
* *
938485 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
938499 AATTGAAATACTT
1 AATTGAAATACTT
938512 AA
1 AA
938514 ATACTTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:938595 original size:32 final size:33
Alignment explanation
Indices: 938499--938597 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
938489 AACTCAACAT
* * *
938499 AATTGAAATACTTAAATACTTACAAGTTTGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
*
938532 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
938565 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
938597 A
1 A
938598 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 12 0.19
33 50 0.81
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTACAAGTTCGATA
Found at i:938616 original size:21 final size:21
Alignment explanation
Indices: 938592--938631 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
938582 ACTTCAAGTT
938592 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
938613 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
938632 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:948309 original size:33 final size:33
Alignment explanation
Indices: 948267--948333 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
948257 ATCAAATCAT
*
948267 TTAATTTTAAAATTATATCTAACATTAAATTTC
1 TTAATTTTAAAATTATATCTAACATTAAACTTC
948300 TTAATTTTAAAATTATATCTAACATTAAACTTC
1 TTAATTTTAAAATTATATCTAACATTAAACTTC
948333 T
1 T
948334 ATTTATCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (33 bp):
TTAATTTTAAAATTATATCTAACATTAAACTTC
Found at i:971606 original size:2 final size:2
Alignment explanation
Indices: 971599--971662 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
971589 TACTAGTTTT
971599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
971641 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
971663 ATTTAATATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:971933 original size:18 final size:18
Alignment explanation
Indices: 971898--971945 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
971888 ATATATATAT
*
971898 ATTAAATTAAACATTAAA
1 ATTAAATTTAACATTAAA
971916 ATTAAATTTAA-ATCTAAA
1 ATTAAATTTAACAT-TAAA
*
971934 CTTAAATATTAA
1 ATTAAAT-TTAA
971946 TATGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAATTTAACATTAAA
Found at i:974659 original size:24 final size:24
Alignment explanation
Indices: 974632--974701 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
974622 ACGGAGATAT
*
974632 CAGAAATCAAAACATAATTCAGAA
1 CAGAAATCAAAACAAAATTCAGAA
* * * * * *
974656 CAGATATCAGAATAGAATCCAGAT
1 CAGAAATCAAAACAAAATTCAGAA
974680 CAGAAATCAAAACAAAATTCAG
1 CAGAAATCAAAACAAAATTCAG
974702 GTCATGTATC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (24 bp):
CAGAAATCAAAACAAAATTCAGAA
Found at i:974712 original size:48 final size:48
Alignment explanation
Indices: 974630--974721 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
974620 AAACGGAGAT
* *
974630 ATCAGAAATCAAAACATAATTCAGAACAGATATCAGAATAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAACAGATATCAGAACAGAATCCAG
**
974678 ATCAGAAATCAAAACAAAATTCAGGTCATG-TATCAGAACAGAAT
1 ATCAGAAATCAAAACAAAATTCAGAACA-GATATCAGAACAGAAT
974722 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGAACAGATATCAGAACAGAATCCAG
Found at i:974734 original size:48 final size:48
Alignment explanation
Indices: 974630--974736 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
974620 AAACGGAGAT
* * *
974630 ATCAGAAATCAAAACATAATTCAGAACAGATATCAGAATAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAACAGATATCAGAACAGAATCAAG
**
974678 ATCAGAAATCAAAACAAAATTCAGGTCATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAAAATTCAGAACA-GATATCAGAACAGAA-TCAAG
*
974727 -TCGGAAATCA
1 ATCAGAAATCA
974737 GATAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
48 46 0.90
49 5 0.10
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:977218 original size:185 final size:186
Alignment explanation
Indices: 976955--977326 Score: 737
Period size: 185 Copynumber: 2.0 Consensus size: 186
976945 AACGGACTTC
976955 GGATTCGGATTCAAGACGTCGAAATAATAAAATATGACTTTTTGAAAATTTGAAATTTTCGGTCA
1 GGATTCGGATTCAAGACGTCGAAATAATAAAATATGACTTTTTGAAAATTTGAAATTTTCGGTCA
977020 AAATCAAAGTTAACGGGTTTGACTGAAAATTTTGAGATCTTCGGGTTCGAATTTCGAAAAGCAGA
66 AAATCAAAGTTAACGGGTTTGACTGAAAATTTTGAGATCTTCGGGTTCGAATTTCGAAAAGCAGA
977085 CAGCGGAATCAGATTTGGAACGTCGAAAAATGTCA-GATAGGTATACTCAGTCAAA
131 CAGCGGAATCAGATTTGGAACGTCGAAAAATGTCAGGATAGGTATACTCAGTCAAA
977140 GGATTCGGATTCAAGACGTCGAAATAATAAAATATGACTTTTTGAAAATTTGAAATTTTCGGTCA
1 GGATTCGGATTCAAGACGTCGAAATAATAAAATATGACTTTTTGAAAATTTGAAATTTTCGGTCA
977205 AAATCAAAGTTAACGGGTTTGACTGAAAATTTTGAGATCTTCGGGTTCGAATTTCGAAAAGCAGA
66 AAATCAAAGTTAACGGGTTTGACTGAAAATTTTGAGATCTTCGGGTTCGAATTTCGAAAAGCAGA
977270 CAGCGGAATCAGATTTGGAACGTCGAAAAATGTCAGGATAGGTATACTCAGTCAAA
131 CAGCGGAATCAGATTTGGAACGTCGAAAAATGTCAGGATAGGTATACTCAGTCAAA
977326 G
1 G
977327 TCAAAGGTTG
Statistics
Matches: 186, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 165 0.89
186 21 0.11
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (186 bp):
GGATTCGGATTCAAGACGTCGAAATAATAAAATATGACTTTTTGAAAATTTGAAATTTTCGGTCA
AAATCAAAGTTAACGGGTTTGACTGAAAATTTTGAGATCTTCGGGTTCGAATTTCGAAAAGCAGA
CAGCGGAATCAGATTTGGAACGTCGAAAAATGTCAGGATAGGTATACTCAGTCAAA
Found at i:979507 original size:24 final size:24
Alignment explanation
Indices: 979477--979567 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 24
979467 AGATATCAGA
* *
979477 AATCAAAAT-AGAATTCAGAACAG
1 AATCCAAATCAGAAATCAGAACAG
*
979500 AATCCAAATCAGAAATCAGAATAG
1 AATCCAAATCAGAAATCAGAACAG
* ** * *
979524 AATTCAGGTCATG-TATCAGAACAT
1 AATCCAAATCA-GAAATCAGAACAG
* *
979548 AATTCAAGTCAGAAATCAGA
1 AATCCAAATCAGAAATCAGA
979568 TTAAATATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
23 9 0.17
24 44 0.81
25 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.21
Consensus pattern (24 bp):
AATCCAAATCAGAAATCAGAACAG
Found at i:986477 original size:13 final size:14
Alignment explanation
Indices: 986455--986484 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
986445 TTAATTAGCT
986455 AATAAAAAAAATTC
1 AATAAAAAAAATTC
986469 AATAAAAAAAATTC
1 AATAAAAAAAATTC
986483 AA
1 AA
986485 GGGACGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAAAAAAAATTC
Found at i:992192 original size:20 final size:20
Alignment explanation
Indices: 992147--992192 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
992137 GACCAACAAA
*
992147 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
992167 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
992186 ATCGCAA
1 ATCGCAA
992193 ATCAGTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:992278 original size:21 final size:21
Alignment explanation
Indices: 992227--992279 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
992217 ATTATGACTA
992227 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
992248 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
992269 TCGCAATGCGA
1 TCGCAATGCGA
992280 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:992340 original size:20 final size:20
Alignment explanation
Indices: 992311--992463 Score: 164
Period size: 20 Copynumber: 7.6 Consensus size: 20
992301 TTTGGAAAAC
* *
992311 CGCAATGCGATACTGACTAT
1 CGCAACGCGATACTGACTTT
* **
992331 CGCAACGCGATAAT-ACAAAAT
1 CGCAACGCGATACTGAC--TTT
992352 CGCAACGCGATACTGACTTT
1 CGCAACGCGATACTGACTTT
*
992372 CACAACGCGATACTGACTTT
1 CGCAACGCGATACTGACTTT
*
992392 CGCAACGCGATTCTGACTTT
1 CGCAACGCGATACTGACTTT
*
992412 CGCAACGCGATTCTGACTTT
1 CGCAACGCGATACTGACTTT
* * * *
992432 CTCAACGAGATTCTGACTAT
1 CGCAACGCGATACTGACTTT
*
992452 CGCAACGAGATA
1 CGCAACGCGATA
992464 ATACAGGATT
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
19 2 0.02
20 97 0.84
21 15 0.13
22 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (20 bp):
CGCAACGCGATACTGACTTT
Found at i:992356 original size:41 final size:42
Alignment explanation
Indices: 992306--992422 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 42
992296 GCGAATTTGG
* * *
992306 AAAACCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
* *
992347 AAAATCGCAACGCGATACTGACTTTCACAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
** *
992389 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGAT
992423 TCTGACTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 30 0.45
41 34 0.52
42 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
Found at i:992636 original size:12 final size:12
Alignment explanation
Indices: 992617--992650 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
992607 CTCTCTGGCG
992617 ACATCCGTTCCT
1 ACATCCGTTCCT
*
992629 ATATCCGTTCCT
1 ACATCCGTTCCT
992641 ACATCC-TTCC
1 ACATCCGTTCC
992651 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:993256 original size:24 final size:24
Alignment explanation
Indices: 993205--993258 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
993195 GTATTCAAAA
*
993205 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
993229 TTTGATTTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
993253 TTTGAT
1 TTTGAT
993259 GATGTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:993450 original size:12 final size:12
Alignment explanation
Indices: 993433--993457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
993423 ATATAATCCT
993433 GAAGAAGAAAAA
1 GAAGAAGAAAAA
993445 GAAGAAGAAAAA
1 GAAGAAGAAAAA
993457 G
1 G
993458 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:995787 original size:20 final size:20
Alignment explanation
Indices: 995720--995792 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
995710 GGCAATCATT
995720 TGACTATCGCAACACGAAAA
1 TGACTATCGCAACACGAAAA
**
995740 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-CA-CGAAAA
* *
995761 TGTCTATCGCAACACGGAAA
1 TGACTATCGCAACACGAAAA
995781 TGACTATCGCAA
1 TGACTATCGCAA
995793 TGCGAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 1 0.02
20 26 0.62
21 14 0.33
22 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACACGAAAA
Found at i:995874 original size:33 final size:33
Alignment explanation
Indices: 995786--995877 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
995776 GGAAATGACT
*
995786 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
995819 ATTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
995852 ATCGCAAAGCAAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
995878 TGCGAATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:995900 original size:19 final size:19
Alignment explanation
Indices: 995878--995953 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 19
995868 AAAATCGCAA
995878 TGCGAATTT-AGTTTCGCGT
1 TGCGAATTTCA-TTTCGCGT
*
995897 TGCG-ATTT--TGTC--GT
1 TGCGAATTTCATTTCGCGT
*
995911 TGCGATTTTCATTTCGCGT
1 TGCGAATTTCATTTCGCGT
*
995930 TGCGATTTTCATTTCGCGT
1 TGCGAATTTCATTTCGCGT
995949 TGCGA
1 TGCGA
995954 TTCTCTTGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 3 0.06
17 3 0.06
18 4 0.08
19 30 0.61
ACGTcount: A:0.12, C:0.18, G:0.25, T:0.45
Consensus pattern (19 bp):
TGCGAATTTCATTTCGCGT
Found at i:995954 original size:19 final size:19
Alignment explanation
Indices: 995908--995987 Score: 107
Period size: 19 Copynumber: 4.5 Consensus size: 19
995898 GCGATTTTGT
995908 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
995927 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
995946 CGTTGCGATTCTC--TT--
1 CGTTGCGATTTTCATTTCG
995961 -GTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
995979 CATTGCGAT
1 CGTTGCGAT
995988 AGTCATTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
14 11 0.21
16 2 0.04
17 2 0.04
19 38 0.72
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:995965 original size:52 final size:52
Alignment explanation
Indices: 995872--995987 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
995862 AAAATGAAAA
* * * *
995872 TCGCAATGCGAATTT-AGTTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCA-TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
* *
995924 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTTGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
995976 TCGCATTGCGAT
1 TCGCATTGCGAT
995988 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 55 0.98
53 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:996113 original size:14 final size:14
Alignment explanation
Indices: 996094--996130 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
996084 CATCAATTAA
996094 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
996108 ACAAATCATCTTTT
1 ACAAATCAACTTTT
996122 ACAAATCAA
1 ACAAATCAA
996131 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:998054 original size:12 final size:12
Alignment explanation
Indices: 998037--998062 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
998027 AACGCGAAAC
998037 CAAAAGACAAAA
1 CAAAAGACAAAA
998049 CAAAAGACAAAA
1 CAAAAGACAAAA
998061 CA
1 CA
998063 GTGTTACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.19, G:0.08, T:0.00
Consensus pattern (12 bp):
CAAAAGACAAAA
Found at i:998245 original size:94 final size:93
Alignment explanation
Indices: 998134--998435 Score: 532
Period size: 94 Copynumber: 3.2 Consensus size: 93
998124 ATGGATTGCA
* * * *
998134 TTACTTCGACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAATAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
998199 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
998227 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
998292 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
998321 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
998386 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
998415 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
998436 TACTAACTTC
Statistics
Matches: 202, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 21 0.10
94 181 0.90
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:998488 original size:78 final size:79
Alignment explanation
Indices: 998345--998497 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 79
998335 AAGACAAAAC
*
998345 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
998410 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
998427 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
998491 ATTTACT
66 ATTTACT
998498 AAGCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 42 0.61
82 27 0.39
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:1000249 original size:19 final size:19
Alignment explanation
Indices: 1000184--1000263 Score: 106
Period size: 20 Copynumber: 4.1 Consensus size: 19
1000174 TCTTTTGGTT
*
1000184 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
1000203 GATAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1000223 GTAAATGACTATCGCAACGC
1 G-AAATGAAAATCGCAACGC
*
1000243 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1000262 GA
1 GA
1000264 TTTTGGTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 19 0.36
20 33 0.62
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1000651 original size:25 final size:26
Alignment explanation
Indices: 1000593--1000644 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
1000583 TTTCCATTTC
*
1000593 TGAATGATTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTC-GACCG
1000620 TGAATGGTTGTGAGGGATTTC-ACCG
1 TGAATGGTTGTGAGGGATTTCGACCG
1000645 GCGATGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.17
27 20 0.83
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.33
Consensus pattern (26 bp):
TGAATGGTTGTGAGGGATTTCGACCG
Found at i:1000890 original size:20 final size:20
Alignment explanation
Indices: 1000867--1000960 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
1000857 CGATAGTCAG
1000867 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
1000887 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
1000907 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
1000928 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1000948 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1000961 ATTATGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 46 0.72
21 18 0.28
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1000919 original size:41 final size:40
Alignment explanation
Indices: 1000867--1000960 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
1000857 CGATAGTCAG
* *
1000867 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
1000907 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
1000948 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1000961 ATTATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:1000973 original size:41 final size:41
Alignment explanation
Indices: 1000841--1001094 Score: 123
Period size: 41 Copynumber: 6.2 Consensus size: 41
1000831 CGAATGGCGC
* * *
1000841 TATGTAAATCGCATTGCGATAGT-CAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * * * * *
1000882 TACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
1000923 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
** * * *
1000963 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * * *
1001004 TAGGAAAATTGCGTTGCGA-TAATCAGTA-TCGCATTGCG-AT
1 TATGAAAATCGCATTGCGATTTA-C-GTATTCGCATTGCGAAT
* * * * * *
1001044 TTTCCAAATTCGCATTGTGATTTACTTATTCGCATTGCAAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
1001086 TGA-GAAAAT
1 T-ATGAAAAT
1001095 TGCAACGCGT
Statistics
Matches: 160, Mismatches: 39, Indels: 28
0.70 0.17 0.12
Matches are distributed among these distances:
39 2 0.01
40 40 0.25
41 109 0.68
42 7 0.04
43 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:1000981 original size:21 final size:21
Alignment explanation
Indices: 1000957--1001012 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1000947 TATTCGCATT
*
1000957 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
1000978 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
1000998 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
1001013 TGCGTTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:1000993 original size:61 final size:61
Alignment explanation
Indices: 1000869--1001001 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
1000859 ATAGTCAGAT
* * * ** * *
1000869 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
* *
1000930 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAA
*
1000991 TCGCAATGCGA
1 TCGCATTGCGA
1001002 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 3 0.05
61 52 0.88
62 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
Found at i:1006447 original size:113 final size:112
Alignment explanation
Indices: 1006250--1006459 Score: 366
Period size: 113 Copynumber: 1.9 Consensus size: 112
1006240 GTTCAAACAC
* *
1006250 TTTAAAAAATGCAGAATTTTTAGTTTCTATGGAGGATGTCCATTACATTGGCTTATAATGTGTCG
1 TTTAAAAAATGCAGAATATTTAGTTTCTATGGAGGATGTCCATTACATTGGCATATAATGTGTCG
*
1006315 AGGTTCTAATATTATGCATATTTGAACCTTCTAAGGTTTCCGCGTGT
66 AGCTTCTAATATTATGCATATTTGAACCTTCTAAGGTTTCCGCGTGT
*
1006362 TTTAAAATATGCAGAATAATTTAGTTTCTATGGAGGATGTCCATTACATTGGCATATAATGTGTC
1 TTTAAAAAATGCAGAAT-ATTTAGTTTCTATGGAGGATGTCCATTACATTGGCATATAATGTGTC
*
1006427 GAGCTTCTAGTATTATGCATATTTGAACCTTCT
65 GAGCTTCTAATATTATGCATATTTGAACCTTCT
1006460 GAGATTGCTG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
112 16 0.17
113 76 0.83
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (112 bp):
TTTAAAAAATGCAGAATATTTAGTTTCTATGGAGGATGTCCATTACATTGGCATATAATGTGTCG
AGCTTCTAATATTATGCATATTTGAACCTTCTAAGGTTTCCGCGTGT
Found at i:1008032 original size:23 final size:21
Alignment explanation
Indices: 1007988--1008033 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
1007978 CCTCTAAAGT
*
1007988 TTTGAATAACTCGTTAATAAC
1 TTTGAATAACTCGTTAAGAAC
*
1008009 TTTGAATAACCATGGTTAAGAAC
1 TTTGAATAA-C-TCGTTAAGAAC
1008032 TT
1 TT
1008034 GTTATCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 1 0.05
23 11 0.52
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (21 bp):
TTTGAATAACTCGTTAAGAAC
Found at i:1012931 original size:21 final size:21
Alignment explanation
Indices: 1012907--1012948 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1012897 AGTTTATTTT
1012907 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
1012928 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
1012949 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:1012996 original size:33 final size:33
Alignment explanation
Indices: 1012943--1013036 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
1012933 TTTGTTTCAA
1012943 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1012975 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
1013008 TTATCAAACTTGGAAGTATTTAAGTATTT
1 TTATCGAACTTGGAAGTTTTTAAGTATTT
1013037 AAGTATTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 11 0.19
33 48 0.81
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:1018867 original size:21 final size:20
Alignment explanation
Indices: 1018829--1018867 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1018819 TAATAAGAAA
*
1018829 AATATATTTTAAAGTTATAT
1 AATATATTTTAAAATTATAT
*
1018849 AATATGTTTATAAAATTAT
1 AATATATTT-TAAAATTAT
1018868 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AATATATTTTAAAATTATAT
Found at i:1021246 original size:20 final size:20
Alignment explanation
Indices: 1021209--1021246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1021199 AACTGAATAA
*
1021209 AACTATAAAAATTACAAATT
1 AACTATAAAAAATACAAATT
1021229 AACTACTAAAAAAT-CAAA
1 AACTA-TAAAAAATACAAA
1021247 GCAATTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AACTATAAAAAATACAAATT
Found at i:1023399 original size:158 final size:157
Alignment explanation
Indices: 1023111--1023428 Score: 399
Period size: 158 Copynumber: 2.0 Consensus size: 157
1023101 CCTGATATCA
* * *
1023111 TTATTTCTTCAATTTCACCTTTATTTTAAGTCCATTTTTTACCAAATTTGAACTAAATTCTCCTA
1 TTATTTCTTCAATTTCA-CTTTATTTTAAGTCCATTTTTTACCAAATTTGAACCAAATACCCCTA
* * ** *
1023176 AACCATAGTACAATACATGTGTACTTTCAATTTTTCTTTTTTGATAACATTTTTTTATTTTTCAA
65 AACAATAGTACAATACATGTGTACTTTCAAATCCTCTTTTTTGATAAAATTTTTTTATTTTTCAA
1023241 TTCAATCATTCAATTTTTCATAATCTCC
130 TTCAATCATTCAATTTTTCATAATCTCC
* * * *
1023269 TTATTTCTTCAATTCGTCA-TTTATTTTAAGT-CTTGTTTTTACCCAATTTGAGCCACATACCCC
1 TTATTTCTTCAATT--TCACTTTATTTTAAGTCCAT-TTTTTACCAAATTTGAACCAAATACCCC
* *
1023332 TAAACAATAGTAGAATACATGTGTATTTTCAAATCCTC-TTTTTGATAATAATTTTTTTATTTTT
63 TAAACAATAGTACAATACATGTGTACTTTCAAATCCTCTTTTTTGATAA-AATTTTTTTATTTTT
* * * * *
1023396 CAATTTAGTCCTTCTATTTTTCATAATGTCC
127 CAATTCAATCATTCAATTTTTCATAATCTCC
1023427 TT
1 TT
1023429 CAATTTTTCA
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
157 12 0.09
158 122 0.89
160 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (157 bp):
TTATTTCTTCAATTTCACTTTATTTTAAGTCCATTTTTTACCAAATTTGAACCAAATACCCCTAA
ACAATAGTACAATACATGTGTACTTTCAAATCCTCTTTTTTGATAAAATTTTTTTATTTTTCAAT
TCAATCATTCAATTTTTCATAATCTCC
Found at i:1023426 original size:20 final size:20
Alignment explanation
Indices: 1023403--1023448 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1023393 TTTCAATTTA
*
1023403 GTCCTTCTATTTTTCATAAT
1 GTCCTTCAATTTTTCATAAT
1023423 GTCCTTCAATTTTTCATAAT
1 GTCCTTCAATTTTTCATAAT
1023443 GTCCTT
1 GTCCTT
1023449 ATTCCTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.52
Consensus pattern (20 bp):
GTCCTTCAATTTTTCATAAT
Found at i:1029191 original size:24 final size:24
Alignment explanation
Indices: 1029164--1029212 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1029154 TGAACGTCGG
*
1029164 TTATGTTCGTTTGGTTATGTTCAT
1 TTATGTTCGTTCGGTTATGTTCAT
*
1029188 TTATGTTCGTTCGTTTATGTTCAT
1 TTATGTTCGTTCGGTTATGTTCAT
1029212 T
1 T
1029213 CATTTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGGTTATGTTCAT
Found at i:1029199 original size:14 final size:14
Alignment explanation
Indices: 1029182--1029222 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
1029172 GTTTGGTTAT
1029182 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
1029196 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
*
1029210 ATTCATTTATGTT
1 GTTCATTTATGTT
1029223 TAACACAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:1029988 original size:10 final size:10
Alignment explanation
Indices: 1029975--1030017 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1029965 TTTATGTTCG
1029975 TGTTCGTTTA
1 TGTTCGTTTA
*
1029985 TGTTCGTGTTCG
1 TGTTCGT-TT-A
*
1029997 TGCTCGTTTA
1 TGTTCGTTTA
1030007 TGTTCGTTTA
1 TGTTCGTTTA
1030017 T
1 T
1030018 TTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 17 0.63
11 4 0.15
12 6 0.22
ACGTcount: A:0.07, C:0.14, G:0.23, T:0.56
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:1029994 original size:22 final size:22
Alignment explanation
Indices: 1029969--1030013 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1029959 TGTTCATTTA
*
1029969 TGTTCGTGTTCGTTTATGTTCG
1 TGTTCGTGCTCGTTTATGTTCG
1029991 TGTTCGTGCTCGTTTATGTTCG
1 TGTTCGTGCTCGTTTATGTTCG
1030013 T
1 T
1030014 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.16, G:0.27, T:0.53
Consensus pattern (22 bp):
TGTTCGTGCTCGTTTATGTTCG
Found at i:1030013 original size:16 final size:16
Alignment explanation
Indices: 1029947--1029997 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
1029937 GGGTCTCAAA
*
1029947 CGTTTATGTTCATGTT
1 CGTTTATGTTCGTGTT
*
1029963 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
1029979 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
1029995 CGT
1 CGT
1029998 GCTCGTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.10, C:0.14, G:0.22, T:0.55
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:1030107 original size:16 final size:16
Alignment explanation
Indices: 1030083--1030115 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1030073 AAAAAAATTT
1030083 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1030099 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1030115 T
1 T
1030116 TTATTTATTA
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:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1036106 original size:23 final size:23
Alignment explanation
Indices: 1036039--1036125 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
1036029 TCATATAAAT
*
1036039 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
1036062 TTTTGTC-CCGAAG-GACCGCGTAGAA
1 --TTG-CACCGAAGTG-CCACGTAGAA
*
1036087 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
1036110 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
1036126 TATAATGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 2 0.04
25 17 0.33
26 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:1041156 original size:3 final size:3
Alignment explanation
Indices: 1041148--1041272 Score: 241
Period size: 3 Copynumber: 41.7 Consensus size: 3
1041138 TTTTTATCCA
1041148 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1041196 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1041244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1041273 ATTTATATTA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 120 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1043379 original size:18 final size:18
Alignment explanation
Indices: 1043365--1043399 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1043355 AATTTTTTTT
1043365 ATATTTATTATTTTTATA
1 ATATTTATTATTTTTATA
1043383 ATATTTA-TATGTTTTAT
1 ATATTTATTAT-TTTTAT
1043400 TTGCAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATATTTATTATTTTTATA
Found at i:1053991 original size:1 final size:1
Alignment explanation
Indices: 1053985--1054042 Score: 71
Period size: 1 Copynumber: 58.0 Consensus size: 1
1053975 ATGCTTGAAG
* * * * *
1053985 AAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1054043 GGGGTCAAGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Done.