Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 26
Found at i:847731 original size:3 final size:3
Alignment explanation
Indices: 847725--847777 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
847715 TTATTTATAG
* * *
847725 TAA TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA -AA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
847772 TAA TAA
1 TAA TAA
847778 AATGAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:847785 original size:26 final size:26
Alignment explanation
Indices: 847726--847785 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
847716 TATTTATAGT
*
847726 AATAATAATAATAATAATAATAATTAT
1 AATAA-AATAATAATAATAATAATTAA
* *
847753 TATAAAATAATTATAATAATAA-TAA
1 AATAAAATAATAATAATAATAATTAA
847778 AATGAAAA
1 AAT-AAAA
847786 ATTATTGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AATAAAATAATAATAATAATAATTAA
Found at i:850423 original size:30 final size:30
Alignment explanation
Indices: 850389--850453 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
850379 CACAAAATAT
* *
850389 AACTTTTTA-AAATTTATATTTTAGTCCCTA
1 AACTTTTTACAAATTTACACTTTAGTCCC-A
*
850419 AAC-TTTTACAACTTTACACTTTAGTCCCA
1 AACTTTTTACAAATTTACACTTTAGTCCCA
850448 AACTTT
1 AACTTT
850454 CAAATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (30 bp):
AACTTTTTACAAATTTACACTTTAGTCCCA
Found at i:850425 original size:29 final size:29
Alignment explanation
Indices: 850393--850460 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
850383 AAATATAACT
* *
850393 TTTTA-AAATTTATATTTTAGTCCCTAAAC
1 TTTTACAAATTTACACTTTAGTCCC-AAAC
*
850422 TTTTACAACTTTACACTTTAGTCCCAAAC
1 TTTTACAAATTTACACTTTAGTCCCAAAC
850451 -TTT-CAAATTT
1 TTTTACAAATTT
850461 TTACATTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
29 9 0.26
30 16 0.47
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTACAAATTTACACTTTAGTCCCAAAC
Found at i:850985 original size:16 final size:16
Alignment explanation
Indices: 850960--851008 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
850950 TTTTATCTCA
850960 TAAAATTATAAAATAAT
1 TAAAA-TATAAAATAAT
**
850977 TAGTATATAAAAT-AT
1 TAAAATATAAAATAAT
850992 TAAAATATAAAATAAT
1 TAAAATATAAAATAAT
851008 T
1 T
851009 TTAAATACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATATAAAATAAT
Found at i:851866 original size:41 final size:41
Alignment explanation
Indices: 851806--851893 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
851796 TGCATAAATA
* *
851806 AATAAATTTATGTTCGATATACAAATGCAATTACAAAACAG
1 AATATATTTATGTTCGATATAAAAATGCAATTACAAAACAG
* * *
851847 ATTATATTTCTGTTTGATATAAAAATGCAATTACAAAACAG
1 AATATATTTATGTTCGATATAAAAATGCAATTACAAAACAG
851888 AATATA
1 AATATA
851894 AGCATTCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (41 bp):
AATATATTTATGTTCGATATAAAAATGCAATTACAAAACAG
Found at i:854535 original size:21 final size:20
Alignment explanation
Indices: 854474--854536 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
854464 TGTAATATTA
854474 AATAA-TATATATTAAT-AAT
1 AATAATTAT-TATTAATAAAT
*
854493 AATAATTATTATAAATATAAT
1 AATAATTATTATTAATA-AAT
854514 AATAATTATTATTATATAAAT
1 AATAATTATTATTA-ATAAAT
854535 AA
1 AA
854537 CATTAAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.29
20 3 0.08
21 21 0.55
22 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATTATTATTAATAAAT
Found at i:854983 original size:112 final size:112
Alignment explanation
Indices: 854760--855541 Score: 1232
Period size: 112 Copynumber: 7.0 Consensus size: 112
854750 AGAGTCATTT
* * *
854760 AAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
* *
854821 TATGAACTTTCTCTGGAAAAGCTGATCAATCGAGTGATGGATTTGAGC
66 TATGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
854869 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
* *
854934 TATGAACTTCTATGGAAAAGCTGATCCATCGAGTGATGGATTTGAGC
66 TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
854981 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
*
855046 TATGAACTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
855093 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
*
855158 TATGAATTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
855205 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
855270 TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
855317 AAAAGGTTGAACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTCTTCAGGTAATGAGTTCTTCT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-G--ATGAGTTCTTCT
** * * ** *
855382 TATTATGAACTTCTCTGGAAAATTTTAATCCATCACA-TGATGAATTCAAAC
63 TATTATGAACTTCTCTGGAAAA-GCTGATCCATCA-AGTGATGGATTTGAGC
* ** * * *
855433 AAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
*
855498 TATGAACTTTCTCTGGAAAATCTGATCCATCAAGTGATGGATTT
66 TATGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT
855542 AAATCTTTGC
Statistics
Matches: 628, Mismatches: 34, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
109 30 0.05
110 1 0.00
111 3 0.00
112 414 0.66
113 69 0.11
114 12 0.02
115 35 0.06
116 63 0.10
117 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (112 bp):
AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
TATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
Found at i:855914 original size:52 final size:52
Alignment explanation
Indices: 855836--855992 Score: 289
Period size: 52 Copynumber: 3.0 Consensus size: 52
855826 CAACATGTTG
*
855836 ATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTTC-AGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATC-TTTCAAGATGATTTCAC
855888 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
855940 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
855992 A
1 A
855993 GATATCGATA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
51 4 0.04
52 99 0.96
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (52 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
Found at i:856632 original size:83 final size:83
Alignment explanation
Indices: 856484--856960 Score: 891
Period size: 83 Copynumber: 5.7 Consensus size: 83
856474 GGTTTCATAT
* * *
856484 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
*
856549 TTCAATAATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
856567 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
856632 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
856650 CAAACCATATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
856715 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
856733 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
856798 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
856816 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
856881 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
856899 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
856961 CAGCTAATGT
Statistics
Matches: 384, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 384 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:858113 original size:11 final size:11
Alignment explanation
Indices: 858093--858131 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
858083 CACCTTGACC
858093 CTTTTT-TTTT
1 CTTTTTCTTTT
858103 CTTTTTCTTTT
1 CTTTTTCTTTT
858114 CTTTTTCTCTTT
1 CTTTTTCT-TTT
858126 -TTTTTC
1 CTTTTTC
858132 AAGCATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.22
11 18 0.67
12 3 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:858118 original size:17 final size:18
Alignment explanation
Indices: 858093--858131 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
858083 CACCTTGACC
858093 CTTTT-TTTTTCT-TTTT
1 CTTTTCTTTTTCTCTTTT
858109 CTTTTCTTTTTCTCTTTT
1 CTTTTCTTTTTCTCTTTT
858127 -TTTTC
1 CTTTTC
858132 AAGCATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
CTTTTCTTTTTCTCTTTT
Found at i:871052 original size:22 final size:22
Alignment explanation
Indices: 871024--871068 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
871014 ATGTATATAG
*
871024 CCTTACCTAAATTAGGTTTAAT
1 CCTTACCTAAATTAGGCTTAAT
*
871046 CCTTACCTAGATTAGGCTTAAT
1 CCTTACCTAAATTAGGCTTAAT
871068 C
1 C
871069 ATAAGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (22 bp):
CCTTACCTAAATTAGGCTTAAT
Found at i:882746 original size:8 final size:8
Alignment explanation
Indices: 882733--882773 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
882723 CTCATTTTCA
882733 GAGAATTT
1 GAGAATTT
882741 GAGAATTT
1 GAGAATTT
*
882749 -AGAGTTT
1 GAGAATTT
*
882756 GGGAATTT
1 GAGAATTT
882764 GAGAATTT
1 GAGAATTT
882772 GA
1 GA
882774 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:883074 original size:128 final size:128
Alignment explanation
Indices: 882846--883141 Score: 538
Period size: 128 Copynumber: 2.3 Consensus size: 128
882836 ATCGGAGTAT
*
882846 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
*
882911 TTGCCCTATTATATCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATATCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCAC
* * *
882974 TATTCACATAAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCATCAGATAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
*
883039 TTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATATCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCAC
883102 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCAT
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCAT
883142 ATGTTATCAT
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 160 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (128 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
TTGCCCTATTATATCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCAC
Found at i:883225 original size:112 final size:112
Alignment explanation
Indices: 883028--883253 Score: 382
Period size: 112 Copynumber: 2.0 Consensus size: 112
883018 TCATCAGATA
*
883028 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCAGGGACACTAGATATATCAGTACCTA
**
883093 TTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
66 TTATTTCACTAGGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
*
883140 ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCAGGGACACTAGATATATCAGTACCTA
* *
883205 TTATTTCTC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
66 TTATTTCACTA-GGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
883252 AT
1 AT
883254 TATTTTGTCA
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 1 0.01
112 106 0.99
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (112 bp):
ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCAGGGACACTAGATATATCAGTACCTA
TTATTTCACTAGGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
Found at i:883323 original size:240 final size:240
Alignment explanation
Indices: 882900--883381 Score: 779
Period size: 240 Copynumber: 2.0 Consensus size: 240
882890 TCGTCAGAGA
*
882900 ATATGTTATCATTGCCCTATTATATCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATATCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
** * *
882965 TTATTTCACTATTCACATAAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCATCAGATAAT
66 TTATTTCACTAGGCACATAAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAAT
883030 ATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATT
131 ATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATT
**
883095 ATTTCACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
196 ATTTCAC-AGGGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
*
883140 ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATATCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
* * * ** *
883205 TTATTTCTC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAA
66 TTATTTCACTA-GGCACATAAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAA
*
883269 TATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTAT
130 TATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTAT
* *
883334 TATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
195 TATTTCACAGGGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
883380 AT
1 AT
883382 TATTTTGTCA
Statistics
Matches: 223, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
239 2 0.01
240 221 0.99
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (240 bp):
ATATGTTATCATTGCCCTATTATATCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
TTATTTCACTAGGCACATAAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAAT
ATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATT
ATTTCACAGGGCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC
Found at i:883368 original size:128 final size:128
Alignment explanation
Indices: 883140--883456 Score: 625
Period size: 128 Copynumber: 2.5 Consensus size: 128
883130 CGCGCCTTCC
*
883140 ATATGTTATCATTGCCCTATTATGTCACCCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
883205 TTATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGA
66 TTATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGA
883268 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
1 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
883333 TTATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGA
66 TTATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGA
883396 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
1 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
883457 AATCAGGTAA
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 188 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (128 bp):
ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA
TTATTTCTCAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGA
Found at i:883918 original size:33 final size:34
Alignment explanation
Indices: 883857--883956 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
883847 AAATTTAATG
*
883857 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
883891 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
883924 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
883957 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:884506 original size:21 final size:20
Alignment explanation
Indices: 884479--884548 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
884469 GGTATAAAAC
*
884479 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
884499 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
884520 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
884541 CCCTGCGG
1 -CCTGCGG
884549 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:884578 original size:21 final size:21
Alignment explanation
Indices: 884552--884599 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
884542 CCTGCGGAGA
*
884552 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
884573 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
884594 GGGCAT
1 TGGCAT
884600 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:886364 original size:17 final size:19
Alignment explanation
Indices: 886342--886387 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
886332 ATAATTATAT
*
886342 AAATATTAT-TTTA-ATAA
1 AAATATAATATTTACATAA
886359 AAATATAATATTTACATAA
1 AAATATAATATTTACATAA
*
886378 ATAT-TAATAT
1 AAATATAATAT
886388 AAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATAATATTTACATAA
Found at i:886377 original size:19 final size:18
Alignment explanation
Indices: 886329--886387 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
886319 TTCTAAATAA
* *
886329 ATAATAATT-ATATAAAT
1 ATAATATTTAATAAAAAT
*
886346 ATTAT-TTTAATAAAAAT
1 ATAATATTTAATAAAAAT
*
886363 ATAATATTTACATAAATAT
1 ATAATATTTA-ATAAAAAT
886382 -TAATAT
1 ATAATAT
886388 AAATAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 15 0.44
18 10 0.29
19 7 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATATTTAATAAAAAT
Found at i:887666 original size:2 final size:2
Alignment explanation
Indices: 887659--887700 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
887649 AAAAATGAAG
887659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
887700 T
1 T
887701 TTATTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:889217 original size:3 final size:3
Alignment explanation
Indices: 889209--889264 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
889199 AATATTTATT
*
889209 TAA TAA TAA TAA TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
889257 TAA -AA TAA
1 TAA TAA TAA
889265 ATGGGCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:908232 original size:2 final size:2
Alignment explanation
Indices: 908188--908217 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
908178 AAATAAATTT
908188 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
908218 AATTTTAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:908343 original size:17 final size:18
Alignment explanation
Indices: 908308--908343 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
908298 AAATAATTAT
*
908308 ATATGAATTATATTTAAA
1 ATATGAATTATATTAAAA
908326 ATAT-AATTATATTAAAA
1 ATATGAATTATATTAAAA
908343 A
1 A
908344 ATTTATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATGAATTATATTAAAA
Found at i:919089 original size:20 final size:22
Alignment explanation
Indices: 919064--919118 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
919054 AGGGTTCATA
919064 GGTCATTCGGGACA-T-ACAGT
1 GGTCATTCGGGACATTCACAGT
*
919084 GGTCATTCGGGACATTTCATAGT
1 GGTCATTCGGGACA-TTCACAGT
919107 GGTCATTCGGGA
1 GGTCATTCGGGA
919119 TAAATTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 14 0.45
22 1 0.03
23 16 0.52
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (22 bp):
GGTCATTCGGGACATTCACAGT
Found at i:919413 original size:23 final size:23
Alignment explanation
Indices: 919370--919413 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
919360 TAATTATTTT
*
919370 ATAGATGAATATATTAAATGTGC
1 ATAGATGAATATAGTAAATGTGC
*
919393 ATAGTATGAAT-TAGTATATGT
1 ATAG-ATGAATATAGTAAATGT
919414 ATATGTGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (23 bp):
ATAGATGAATATAGTAAATGTGC
Found at i:925558 original size:28 final size:25
Alignment explanation
Indices: 925527--925584 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
925517 GAATGAGTTT
*
925527 TGAAATGTGAAAGTATGAATTATGAAAA
1 TGAAAAGTGAAAG--TG-ATTATGAAAA
*
925555 TGAAAAGTGAAAGTGATTATGAAAG
1 TGAAAAGTGAAAGTGATTATGAAAA
925580 TGAAA
1 TGAAA
925585 GATGAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.50
26 2 0.07
28 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (25 bp):
TGAAAAGTGAAAGTGATTATGAAAA
Found at i:928599 original size:29 final size:28
Alignment explanation
Indices: 928567--928720 Score: 150
Period size: 29 Copynumber: 5.3 Consensus size: 28
928557 AAATTTTCAA
928567 AATGTCAACTTTTTCAAAATAATTCCCAG
1 AATGTC-ACTTTTTCAAAATAATTCCCAG
* *
928596 AATGTCACCTTTTTCAAAATATTTCCTAG
1 AATGTCA-CTTTTTCAAAATAATTCCCAG
928625 AATGTCACTTTTTCAAAA-ATATTCCCCA-
1 AATGTCACTTTTTCAAAATA-ATT-CCCAG
* *
928653 AAGTTTCACATTTTTCAAAATATTTCCCAG
1 AA-TGTCAC-TTTTTCAAAATAATTCCCAG
* * * *
928683 AATATCACATTGTTCACAAAAAATTTCCAG
1 AATGTCAC-TTTTTCA-AAATAATTCCCAG
928713 AATGTCAC
1 AATGTCAC
928721 CGGGTCGGGT
Statistics
Matches: 105, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.01
28 16 0.15
29 56 0.53
30 31 0.30
31 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (28 bp):
AATGTCACTTTTTCAAAATAATTCCCAG
Found at i:928644 original size:58 final size:58
Alignment explanation
Indices: 928567--928721 Score: 183
Period size: 58 Copynumber: 2.7 Consensus size: 58
928557 AAATTTTCAA
*
928567 AATGTCAACTTTTTC-AAAATAATTCCCAGAATGTCACCTTTTTCAAAATATTTCCTAG
1 AATGTC-ACTTTTTCAAAAATAATTCCCAGAATGTCACCTTTTTCAAAATATTTCCCAG
* *
928625 AATGTCACTTTTTCAAAAAT-ATTCCCCA-AAGTTTCACATTTTTCAAAATATTTCCCAG
1 AATGTCACTTTTTCAAAAATAATT-CCCAGAA-TGTCACCTTTTTCAAAATATTTCCCAG
* * *
928683 AATATCACATTGTTCACAAAA-AATTTCCAGAATGTCACC
1 AATGTCAC-TTTTTCA-AAAATAATTCCCAGAATGTCACC
928722 GGGTCGGGTC
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
57 13 0.16
58 46 0.56
59 14 0.17
60 9 0.11
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (58 bp):
AATGTCACTTTTTCAAAAATAATTCCCAGAATGTCACCTTTTTCAAAATATTTCCCAG
Found at i:928743 original size:12 final size:12
Alignment explanation
Indices: 928726--928762 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
928716 GTCACCGGGT
928726 CGGGTCGGGTCA
1 CGGGTCGGGTCA
928738 CGGGTCGGGTCAA
1 CGGGTCGGGTC-A
928751 CGGGTCGGGTCA
1 CGGGTCGGGTCA
928763 GGTCAGACCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (12 bp):
CGGGTCGGGTCA
Found at i:928755 original size:13 final size:13
Alignment explanation
Indices: 928726--928762 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
928716 GTCACCGGGT
928726 CGGGTCGGGTC-A
1 CGGGTCGGGTCAA
928738 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
928751 CGGGTCGGGTCA
1 CGGGTCGGGTCA
928763 GGTCAGACCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:928790 original size:19 final size:19
Alignment explanation
Indices: 928768--928821 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
928758 GGTCAGGTCA
*
928768 GACCGGTCAACCCGGTTCG
1 GACCGGTCAAACCGGTTCG
*
928787 GACCGGTCAAACCGGTTTG
1 GACCGGTCAAACCGGTTCG
*
928806 GACCGGTCAAGCCGGT
1 GACCGGTCAAACCGGT
928822 CAACCAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (19 bp):
GACCGGTCAAACCGGTTCG
Found at i:936678 original size:54 final size:52
Alignment explanation
Indices: 936523--936680 Score: 151
Period size: 54 Copynumber: 2.9 Consensus size: 52
936513 GTCCACATTC
936523 GAAA-ATTTCCAAAATGTCAACTTTTTCAAAATAATTCCCAGAATGTCACCTTTTTT
1 GAAATATTTCC-AAATGTC-ACTTTTTCAAAA-AATTCCCAGAATGTCACC--TTTT
* * * * * *
936579 AAAATATTTCCTATATGTCAC-TTTTCAAAACATTTCCTGAGTGTCACC-TTT
1 GAAATATTTCC-AAATGTCACTTTTTCAAAAAATTCCCAGAATGTCACCTTTT
*
936630 GAAATATTTCCAGAATATCACCTTTTTCACAAAAATTCCCAGAATGTCACC
1 GAAATATTTCCA-AATGTCA-CTTTTTCA-AAAAATTCCCAGAATGTCACC
936681 GGGTCAGGTC
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
50 1 0.01
51 18 0.22
52 1 0.01
53 6 0.07
54 31 0.37
55 9 0.11
56 5 0.06
57 12 0.14
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (52 bp):
GAAATATTTCCAAATGTCACTTTTTCAAAAAATTCCCAGAATGTCACCTTTT
Found at i:936679 original size:29 final size:28
Alignment explanation
Indices: 936524--936680 Score: 110
Period size: 29 Copynumber: 5.7 Consensus size: 28
936514 TCCACATTCG
* * *
936524 AAAATTTCCAAAATGTCAACTTTTTCAA
1 AAAATTCCCAGAATGTCACCTTTTTCAA
*
936552 AATAATTCCCAGAATGTCACCTTTTTTAA
1 AA-AATTCCCAGAATGTCACCTTTTTCAA
* * *
936581 AATATTTCCTA-TATGTCA-C-TTTTCAA
1 AA-AATTCCCAGAATGTCACCTTTTTCAA
* * * * *
936607 AACATTTCCTGAGTGTCACC--TTT-GA
1 AAAATTCCCAGAATGTCACCTTTTTCAA
* * *
936632 AATATTTCCAGAATATCACCTTTTTCACA
1 AAAATTCCCAGAATGTCACCTTTTTCA-A
936661 AAAATTCCCAGAATGTCACC
1 AAAATTCCCAGAATGTCACC
936681 GGGTCAGGTC
Statistics
Matches: 98, Mismatches: 24, Indels: 13
0.73 0.18 0.10
Matches are distributed among these distances:
25 20 0.20
26 16 0.16
27 5 0.05
28 8 0.08
29 49 0.50
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (28 bp):
AAAATTCCCAGAATGTCACCTTTTTCAA
Found at i:936706 original size:16 final size:16
Alignment explanation
Indices: 936682--936712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
936672 AATGTCACCG
936682 GGTCAGGTCGGGTCAC
1 GGTCAGGTCGGGTCAC
*
936698 GGTCGGGTCGGGTCA
1 GGTCAGGTCGGGTCA
936713 GACCGATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.19
Consensus pattern (16 bp):
GGTCAGGTCGGGTCAC
Found at i:947813 original size:2 final size:2
Alignment explanation
Indices: 947806--947836 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
947796 GAATAAATAA
947806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
947837 ACAATGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:948301 original size:3 final size:3
Alignment explanation
Indices: 948288--948346 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
948278 GTGTGGGCCT
*
948288 ATA AAA ATA ATA AT- ATA ATA ATA ATA AT- ATA ATAA ATAA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A AT-A
948335 ATA AT- ATA ATA A
1 ATA ATA ATA ATA A
948347 AATGTTTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 6 0.12
3 29 0.58
4 15 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:948307 original size:8 final size:7
Alignment explanation
Indices: 948288--948347 Score: 61
Period size: 8 Copynumber: 8.1 Consensus size: 7
948278 GTGTGGGCCT
948288 ATAA-AA
1 ATAATAA
948294 ATAATAA
1 ATAATAA
948301 TATAAT-A
1 -ATAATAA
948308 ATAATAA
1 ATAATAA
948315 TATAATAA
1 -ATAATAA
948323 ATAAATAA
1 AT-AATAA
948331 ATAAATAA
1 AT-AATAA
948339 TATAATAA
1 -ATAATAA
948347 A
1 A
948348 ATGTTTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
6 9 0.19
7 7 0.15
8 30 0.62
9 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAATAA
Found at i:948333 original size:12 final size:12
Alignment explanation
Indices: 948296--948347 Score: 70
Period size: 12 Copynumber: 4.2 Consensus size: 12
948286 CTATAAAAAT
948296 AATAATATAATAA
1 AATAATATAAT-A
948309 TAATAATATAATA
1 -AATAATATAATA
948322 AATAA-ATAAATA
1 AATAATAT-AATA
948334 AATAATATAATA
1 AATAATATAATA
948346 AA
1 AA
948348 ATGTTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.06
12 20 0.56
13 3 0.08
14 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAATATAATA
Found at i:948978 original size:84 final size:84
Alignment explanation
Indices: 948691--949462 Score: 732
Period size: 84 Copynumber: 9.3 Consensus size: 84
948681 CTGAATGGAA
* * * * *
948691 TCGAACTCGAAGGTCTTTGG-T---AGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-G
* *
948752 TGCCTTTGAGCTGAGTGGAG
65 TGCCTTGGAGCTGAGTGTAG
* * * * * *
948772 TCGAACTCGAAGGTCTTT-GTTGACA-ATAACCCTTCTAGCCTTGAGTTATGCCGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*** *
948835 GCCCTCAAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGTGTAG
* *
948855 TCGAACTC-AAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAGGTTATGCTGCAAATGATG
1 TCGAACTCGAA-GGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* *
948915 TGCCTTGGAACTGAGAGTAG
65 TGCCTTGGAGCTGAGTGTAG
* *
948935 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
949000 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGTGTAG
* * * * ** * * * * * *
949019 TCAAATTCAAAGGCCTTTTGG-TCACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * *
949083 TGCCCTCGAAGCTGAATGTAA
65 TG-CCTTGGAGCTGAGTGTAG
* * *
949104 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
949165 GCATTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGTGTAG
* * * *
949184 TCAAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
949249 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGTGTAG
** * * * * * * *
949268 TCGAACTCGAAGGTCTTTTGG-TCACTGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATAATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * *
949332 TGCCCTCGAAGCTGAGTGTAA
65 TG-CCTTGGAGCTGAGTGTAG
* ** * * *
949353 TCGAACTCGAGGGTCTTCAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGTTACAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
949418 GCCTTGGAGCTGAGTGTAG
66 GCCTTGGAGCTGAGTGTAG
* *
949437 TCGAACTCGAAGGCCTTTGGTGGGCA
1 TCGAACTCGAAGGTCTTTGGTTGGCA
949463 CGATTCCCTT
Statistics
Matches: 554, Mismatches: 115, Indels: 41
0.78 0.16 0.06
Matches are distributed among these distances:
80 55 0.10
81 89 0.16
82 8 0.01
83 56 0.10
84 249 0.45
85 97 0.18
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGTGTAG
Found at i:949217 original size:165 final size:167
Alignment explanation
Indices: 948689--949456 Score: 683
Period size: 165 Copynumber: 4.6 Consensus size: 167
948679 AGCTGAATGG
* * * * * *
948689 AATCGAACTCGAAGGTCTTTGG-T---AGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
1 AATCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* * *
948750 GGTGCCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGACA-ATAACCCTTCTAGCCT
66 -GTGCCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG--GACAGATAACCCTTCTAGACT
* * * * *
948813 TGAGTTATGCCGTAAATGATGTGCCCTCAAAGCTGAGTGT
128 TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGT
* * *
948853 AATCGAACTC-AAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAGGTTATGCTGCAAATGA
1 AATCAAACTCGAA-GGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * *
948913 TGTG-CCTTGGAA-CTGAGAGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATCGA
65 TGTGCCCTT-GAAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-G--GACAGATAACCCTTCTAGA
* * *
948976 CTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGT
126 CTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGT
* * * * ** * * * * * *
949017 AGTCAAATTCAAAGGCCTTTTGG-TCACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGA
1 AATCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * * * *
949081 TGTGCCCTCGAAGCTGAATGTAATCGAACTCGAGGGTCTTTGG-CAGATAGCCCTTCTCGACTTA
65 TGTGCCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTA
* * * *
949145 AGCTATGCTGCAAATGATGTG-CATTGGAGCTGAGCGT
130 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGT
* * *
949182 AGTCAAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGAT
1 AATCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* * * * *
949247 ATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACTGATAACCCTTCTAGCCT
66 GTGCCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGG--ACAGATAACCCTTCTAGACT
* * * * *
949311 TGAGTTATGTTGTAAATAATGTGCCCTCGAAGCTGAGTGT
128 TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGT
* * ** * * *
949351 AATCGAACTCGAGGGTCTTCAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGTTACAAATGAT
1 AATCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* *
949416 GTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGCCTTTGG
66 GTGCCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG
949457 TGGGCACGAT
Statistics
Matches: 491, Mismatches: 90, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
161 1 0.00
162 4 0.01
163 32 0.07
164 108 0.22
165 140 0.29
166 1 0.00
167 1 0.00
168 77 0.16
169 127 0.26
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (167 bp):
AATCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
GTGCCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTAA
GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGT
Found at i:949234 original size:249 final size:248
Alignment explanation
Indices: 948691--949457 Score: 1103
Period size: 249 Copynumber: 3.1 Consensus size: 248
948681 CTGAATGGAA
* * * * * *
948691 TCGAACTCGAAGGTC--T--TTGGTAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGG
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-A
* * * * *
948752 TGCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTC-TTTGTTGACAATAACCCTTCTAGCCTTGA
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAATAACCCTTCTAGCCTTGA
** * *
948816 GTTATGCCGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATA
130 GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
* *
948881 GCCCTTCTCGACTTAGGTTATGCTGCAAATGATGTGCCTTGGAACTGAGAGTAG
195 GCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGAGTAG
* *
948935 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
* * * *
949000 GCCTTGGAGCTGAGCGTAGTCAAATTCAAAGGCCTTTTGGTCACAAATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCAC-AATAACCCTTCTAGCCTTGA
*
949065 GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAATGTAATCGAACTCGAGGGTCTTTGGCAGATA
130 GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
* * *
949130 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAG
195 GCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGAGTAG
* *
949184 TCAAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
*
949249 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACTGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCAC-AATAACCCTTCTAGCCTTGA
*
949314 GTTATGTTGTAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCAGTTGGCA
130 GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCA
* * * * *
949379 GATAACCCTTCTTGACTTAAGTTATGTTACAAATGATGTGCCTTGGAGCTGAGTGTAG
191 GATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGAGTAG
*
949437 TCGAACTCGAAGGCCTTTGGT
1 TCGAACTCGAAGGTCTTTGGT
949458 GGGCACGATT
Statistics
Matches: 465, Mismatches: 48, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
244 15 0.03
246 1 0.00
247 28 0.06
248 43 0.09
249 301 0.65
250 1 0.00
253 76 0.16
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (248 bp):
TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAATAACCCTTCTAGCCTTGAG
TTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAG
CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGAGTAG
Found at i:953747 original size:14 final size:15
Alignment explanation
Indices: 953726--953763 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
953716 ATAAGAAAAG
953726 AATAATAAAAATATT
1 AATAATAAAAATATT
*
953741 AAT-ATAATAATATT
1 AATAATAAAAATATT
953755 AATAATAAA
1 AATAATAAA
953764 TAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATAAAAATATT
Found at i:954173 original size:34 final size:34
Alignment explanation
Indices: 954135--954219 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 34
954125 TCCTACTTGG
*
954135 ACTCAAAATGC-TTCGGTTTTAGTGTTTCAATAGA
1 ACTCAAAATACGTT-GGTTTTAGTGTTTCAATAGA
954169 ACTC-AAATACGTTGGTTTTAGTGTTTCAATAGA
1 ACTCAAAATACGTTGGTTTTAGTGTTTCAATAGA
954202 ACTC-AAATACGTTGGTTT
1 ACTCAAAATACGTTGGTTT
954220 ATTTTCTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 43 0.88
34 6 0.12
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (34 bp):
ACTCAAAATACGTTGGTTTTAGTGTTTCAATAGA
Found at i:954190 original size:33 final size:33
Alignment explanation
Indices: 954149--954219 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
954139 AAAATGCTTC
954149 GGTTTTAGTGTTTCAATAGAACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGAACTCAAATACGTT
954182 GGTTTTAGTGTTTCAATAGAACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGAACTCAAATACGTT
954215 GGTTT
1 GGTTT
954220 ATTTTCTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAATAGAACTCAAATACGTT
Found at i:954282 original size:3 final size:3
Alignment explanation
Indices: 954268--954339 Score: 87
Period size: 3 Copynumber: 23.7 Consensus size: 3
954258 GGCCTGCAAA
954268 AAT AAT AA- AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
954314 AAAT AAAT AAAT ATAT AAT -AT AAT AA
1 -AAT -AAT -AAT A-AT AAT AAT AAT AA
954340 AATGTTTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.09
3 44 0.69
4 14 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:954648 original size:21 final size:21
Alignment explanation
Indices: 954597--954649 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
954587 ATTATGACTA
954597 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
954618 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
954639 TCGCAATGCGA
1 TCGCAATGCGA
954650 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:954682 original size:21 final size:20
Alignment explanation
Indices: 954639--954685 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
954629 TTTTCCCAAT
*
954639 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
954659 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
954680 TCGCAA
1 TCGCAA
954686 CGCGGTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:954702 original size:41 final size:41
Alignment explanation
Indices: 954676--954807 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
954666 GCGAATTTGG
*
954676 AAAATCGCAACGCGGTACTGACAATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACAATCGCAACGCGATAATAC
** * * *
954717 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACAATCGCAACGCGATAATAC
** * * ** *
954757 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACAATCGCAACGCGATAATAC
*
954798 ATAATCGCAA
1 AAAATCGCAA
954808 TGTGATTTTC
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
40 32 0.44
41 41 0.56
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACAATCGCAACGCGATAATAC
Found at i:954703 original size:20 final size:21
Alignment explanation
Indices: 954677--954755 Score: 83
Period size: 20 Copynumber: 3.9 Consensus size: 21
954667 CGAATTTGGA
*
954677 AAATCGCAACGCGGTACTGAC
1 AAATCGCAACGCGATACTGAC
*
954698 -AATCGCAACGCGATAAT-AC
1 AAATCGCAACGCGATACTGAC
954717 AAAATCGCAACGCGATACTGAC
1 -AAATCGCAACGCGATACTGAC
** *
954739 -TTTCGCAACTCGATACT
1 AAATCGCAACGCGATACT
954756 TAATTTCGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 2 0.04
20 29 0.59
21 16 0.33
22 2 0.04
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGATACTGAC
Found at i:954724 original size:21 final size:22
Alignment explanation
Indices: 954676--954738 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
954666 GCGAATTTGG
* *
954676 AAAATCGCAACGCGGTACTGAC
1 AAAATCGCAACGCGATAATGAC
954698 --AATCGCAACGCGATAAT-AC
1 AAAATCGCAACGCGATAATGAC
*
954717 AAAATCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATAATGAC
954739 TTTCGCAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 15 0.43
21 16 0.46
22 2 0.06
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAATCGCAACGCGATAATGAC
Found at i:954762 original size:20 final size:20
Alignment explanation
Indices: 954721--954787 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
954711 TAATACAAAA
*
954721 TCGCAACGCGATACTGACTT
1 TCGCAACTCGATACTGACTT
* *
954741 TCGCAACTCGATACTTAATT
1 TCGCAACTCGATACTGACTT
*
954761 TCGCAACTCAATACTGACTT
1 TCGCAACTCGATACTGACTT
954781 TCGCAAC
1 TCGCAAC
954788 GAGATAATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (20 bp):
TCGCAACTCGATACTGACTT
Found at i:955335 original size:20 final size:20
Alignment explanation
Indices: 955286--955344 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
955276 TTTATTCTCT
* **
955286 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
955306 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
955326 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
955345 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:955535 original size:25 final size:24
Alignment explanation
Indices: 955481--955535 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
955471 TGTTTATTAT
* *
955481 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
955505 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
955531 TGTTT
1 TGTTT
955536 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:956685 original size:18 final size:18
Alignment explanation
Indices: 956664--956711 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
956654 TCCACTTCGG
956664 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
956682 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
956700 GAGCCATCACCT
1 GAGCCATCACCT
956712 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:957304 original size:19 final size:20
Alignment explanation
Indices: 957250--957316 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
957240 TAGTTTACTT
* *
957250 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
957270 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
957290 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
957309 TCGCAACG
1 TCGCAACG
957317 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:957443 original size:20 final size:20
Alignment explanation
Indices: 957397--957483 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
957387 GCGATTTTGT
**
957397 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
* *
957416 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCCG
957436 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
957456 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
957476 CGTTGCGA
1 CGTTGCGA
957484 AAGTAAGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 13 0.22
20 47 0.78
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:957494 original size:20 final size:19
Alignment explanation
Indices: 957410--957509 Score: 83
Period size: 20 Copynumber: 5.1 Consensus size: 19
957400 TGCGATTTTC
* * **
957410 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGAAAGTA
* *
957429 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
957449 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
957470 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
*
957489 AGTTTCGTGTTGCGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
957509 A
1 A
957510 ACTATTCTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
19 5 0.07
20 63 0.89
21 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:957501 original size:40 final size:40
Alignment explanation
Indices: 957410--957503 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
957400 TGCGATTTTC
* * *
957410 ATTT-CGCATTGCGATAGCCATTTCCGCGTTGCGATAGTC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* *
957449 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
*
957489 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
957504 AAGTAAACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.09
40 40 0.85
41 3 0.06
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:957883 original size:21 final size:20
Alignment explanation
Indices: 957857--957924 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
957847 CTGTCATTCC
957857 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
957878 TCAAGAGCCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
*
957899 TCAAGAGTCCCC-CCACCGT
1 TCAAGAGTCCCCTCCATCGT
957918 TCAAGAG
1 TCAAGAG
957925 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.15, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:957936 original size:40 final size:42
Alignment explanation
Indices: 957847--957936 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 42
957837 CCCGACTCAC
* * *
957847 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGCCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGCCCA
* *
957889 CTATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGCCCA
957929 CTGTCATC
1 CTGTCATC
957937 GTTAAAGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 20 0.48
41 2 0.05
42 20 0.48
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGCCCA
Found at i:957945 original size:40 final size:40
Alignment explanation
Indices: 957850--957967 Score: 101
Period size: 42 Copynumber: 2.9 Consensus size: 40
957840 GACTCACCTG
* * * *
957850 TCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGCCCCCTA
1 TCATCCCTAAAGAGTCCCC-CC-ACCGTTCAAGAGCCCACTA
* * *
957892 TCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTAAAGAGTCCCCCCACCGTTCAAGAGCCCACTA
** * *
957932 TCATCGTTAAAGAGGTCCCTCCCACCATTCCAGAGC
1 TCATCCCTAAAGA-GTCCC-CCCACCGTTCAAGAGC
957968 TCGATTCACA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 25 0.40
41 7 0.11
42 31 0.49
ACGTcount: A:0.24, C:0.40, G:0.15, T:0.21
Consensus pattern (40 bp):
TCATCCCTAAAGAGTCCCCCCACCGTTCAAGAGCCCACTA
Found at i:959381 original size:14 final size:14
Alignment explanation
Indices: 959347--959385 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
959337 TTGATTGTTT
959347 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
959361 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
959375 TGTTGATTTGT
1 AATTGATTTGT
959386 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:959523 original size:14 final size:14
Alignment explanation
Indices: 959504--959557 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
959494 GAAACTGACT
959504 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
959518 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
959537 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
959551 ATCGCAA
1 ATCGCAA
959558 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:959670 original size:20 final size:20
Alignment explanation
Indices: 959589--959676 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 20
959579 CGATTTTCTA
*
959589 GTTGCGATAGCCATTTTCAC
1 GTTGCGATAGCCATTTTCGC
*** *
959609 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
959629 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*
959649 GTTGCGATAGCCATTTTTGC
1 GTTGCGATAGCCATTTTCGC
*
959669 GTTACGAT
1 GTTGCGAT
959677 TTTTCCCGTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:959916 original size:20 final size:20
Alignment explanation
Indices: 959891--959940 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
959881 TTGAAGATGA
959891 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
959911 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
959931 TTGCGATTTT
1 TTGCGATTTT
959941 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:960172 original size:12 final size:12
Alignment explanation
Indices: 960153--960186 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
960143 CTCTCTGGCG
960153 ACATCCGTTCCT
1 ACATCCGTTCCT
*
960165 ATATCCGTTCCT
1 ACATCCGTTCCT
960177 ACATCC-TTCC
1 ACATCCGTTCC
960187 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:961691 original size:19 final size:19
Alignment explanation
Indices: 961669--961799 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
961659 GGAAATTACT
961669 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
961688 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
961702 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
961721 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
961735 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
961754 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
961768 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
961787 ATCGCAACGCGAA
1 ATCGCAATGCGAA
961800 TTTAGTTTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 28 0.33
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 40 0.47
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:961711 original size:33 final size:33
Alignment explanation
Indices: 961669--961795 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
961659 GGAAATTACT
961669 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
961702 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
961734 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
961768 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
961796 CGAATTTAGT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:961776 original size:66 final size:66
Alignment explanation
Indices: 961670--961802 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
961660 GAAATTACTA
961670 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
961735 T
66 T
*
961736 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
961801 T
66 T
961802 T
1 T
961803 AGTTTCGCGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:961847 original size:33 final size:33
Alignment explanation
Indices: 961805--961884 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
961795 GCGAATTTAG
* * *
961805 TTTCGCGTTGCGATTTTGTCGTTGCTATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
961838 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
961871 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
961885 AGTACTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:961883 original size:19 final size:18
Alignment explanation
Indices: 961826--961884 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
961816 GATTTTGTCG
*
961826 TTGCTATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
961844 GTTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
961859 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
961877 ATTGCGAT
1 -TTGCGAT
961885 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
16 7 0.22
17 7 0.22
19 12 0.38
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:962010 original size:14 final size:14
Alignment explanation
Indices: 961991--962027 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
961981 CATCAATTAA
961991 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
962005 ACAAATCACCTTTT
1 ACAAATCAACTTTT
962019 ACAAATCAA
1 ACAAATCAA
962028 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:963442 original size:21 final size:21
Alignment explanation
Indices: 963376--963442 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
963366 GTGAATCGGG
*
963376 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
963396 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
963418 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
963439 CTCT
1 CTCT
963443 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:963892 original size:91 final size:90
Alignment explanation
Indices: 963716--963896 Score: 274
Period size: 91 Copynumber: 2.0 Consensus size: 90
963706 ATTTCAAACT
* *
963716 TTCAACCAAAAGGCAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
963781 AGAATTGGCAACAACCGAATAAATTCAC
63 AGAATTGGCAACAACCGAATAAATTCAC
963809 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
* *
963873 GTATTGGCAGCAACCGAATAAATT
64 GAATTGGCAACAACCGAATAAATT
963897 TACTAAGCAA
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
91 37 0.45
93 18 0.22
95 27 0.33
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAACAACCGAATAAATTCAC
Found at i:965671 original size:19 final size:19
Alignment explanation
Indices: 965585--965697 Score: 110
Period size: 19 Copynumber: 6.1 Consensus size: 19
965575 TCTTTTGGTT
*
965585 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
965604 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
965624 GGAAATGACTATCGCAA--T
1 -GAAATGAAAATCGCAACGC
*
965642 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
965658 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
965677 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
965696 GA
1 GA
965698 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 35 0.45
20 27 0.35
21 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:965671 original size:33 final size:34
Alignment explanation
Indices: 965610--965673 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
965600 ACGAGATAAT
**
965610 GAGAATCGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGCGGAAATGAAAATCGCAATGA
965644 GAGAATCGCAACGC-GAAATGAAAATCGCAA
1 GAGAATCGCAACGCGGAAATGAAAATCGCAA
965674 CGCGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGAAAATCGCAATGA
Found at i:966289 original size:20 final size:20
Alignment explanation
Indices: 966264--966314 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
966254 GCTATGTAAA
966264 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
966284 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
966304 TCGCATTGCGA
1 TCGCATTGCGA
966315 CGCGAATACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:966414 original size:20 final size:21
Alignment explanation
Indices: 966370--966421 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
966360 ATAGTCAGTA
*
966370 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
966391 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
966411 TCGCATTGCGA
1 TCGCATTGCGA
966422 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:966436 original size:41 final size:41
Alignment explanation
Indices: 966328--966436 Score: 96
Period size: 41 Copynumber: 2.7 Consensus size: 41
966318 GAATACGTAA
* * *
966328 ATCGCAATGCGAATTAGGAAAATTGCATTGCGATAGTCAGT
1 ATCGCATTGCGAATTAGGAAAATCGCATTGCGATACTCAGT
* *** * *
966369 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTA-T
1 ATCGCATTGCGAATTAGGAAAATCGCATTGCGA--TACTCAGT
*
966411 -TCGCATTGCGAATTGGGAAAATCGCA
1 ATCGCATTGCGAATTAGGAAAATCGCA
966437 ACGCGAAATT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
41 47 0.90
42 1 0.02
43 4 0.08
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
ATCGCATTGCGAATTAGGAAAATCGCATTGCGATACTCAGT
Found at i:966463 original size:21 final size:22
Alignment explanation
Indices: 966411--966463 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
966401 ATTTACTTAT
966411 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
966432 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
966453 TCGCATTGCGA
1 TCGCATTGCGA
966464 TAGTCATAAT
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:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:966465 original size:103 final size:104
Alignment explanation
Indices: 966282--966483 Score: 266
Period size: 103 Copynumber: 1.9 Consensus size: 104
966272 CGATAGTAAG
* *
966282 ATTCGCATTGCGATTTACGTATTCGCATTGCGACGCGAATACGTAAATCGCAATGCGAATTAGGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA--C-AATACGAAAATCGCAACGCGAATTAGGA
*
966347 AAATTGCATTGCGATAGTCAGT-ATCGCATTGCGATTTTCCAA
63 AAATCGCATTGCGATAGTCA-TAATCGCATTGCGATTTTCCAA
* * **
966389 ATTCGCATTGCGATTTACTTATTCGCATTGCGA-ATTGGGAAAATCGCAACGCGAAATT-GGAAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGACAATACGAAAATCGCAACGCG-AATTAGGAAA
*
966452 ATCGCATTGCGATAGTCATAATCGCGTTGCGA
65 ATCGCATTGCGATAGTCATAATCGCATTGCGA
966484 ATCTGGAAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
102 1 0.01
103 48 0.56
104 4 0.05
107 32 0.38
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (104 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGACAATACGAAAATCGCAACGCGAATTAGGAAAA
TCGCATTGCGATAGTCATAATCGCATTGCGATTTTCCAA
Found at i:968126 original size:25 final size:25
Alignment explanation
Indices: 968083--968149 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
968073 TTTGTTTTAG
* * * * *
968083 TAAAATATTAATAAATTTTAGTAGT
1 TAAAATATTATTTATTTTTAATAAT
968108 TAAAATTATT-TTTATTTTTAATAAT
1 TAAAA-TATTATTTATTTTTAATAAT
*
968133 TAATATATTATTTATTT
1 TAAAATATTATTTATTT
968150 GTATAAAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 4 0.12
25 26 0.76
26 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
TAAAATATTATTTATTTTTAATAAT
Found at i:968626 original size:9 final size:9
Alignment explanation
Indices: 968604--968787 Score: 72
Period size: 9 Copynumber: 19.4 Consensus size: 9
968594 AAAAAAAAGG
*
968604 ATAAAATAA
1 ATAAAAAAA
*
968613 GTAAAAAAA
1 ATAAAAAAA
968622 ATAAAAATAA
1 ATAAAAA-AA
*
968632 ACAAAAAAA
1 ATAAAAAAA
968641 TGATAACAAAAA
1 --ATAA-AAAAA
968653 A-AACAAAAA
1 ATAA-AAAAA
*
968662 AT--AATAA
1 ATAAAAAAA
*
968669 ATAAATAAA
1 ATAAAAAAA
968678 ATAAAACAAA
1 ATAAAA-AAA
*
968688 TATGAAACGAAA
1 -AT-AAA-AAAA
968700 ATAAAACAAA
1 ATAAAA-AAA
**
968710 ATAAATGGAA
1 ATAAA-AAAA
* *
968720 TTAAATAAA
1 ATAAAAAAA
* *
968729 A-AACACAA
1 ATAAAAAAA
*
968737 AT-AAGAAA
1 ATAAAAAAA
*
968745 ATAAGAAAA
1 ATAAAAAAA
968754 ATAAAAAAAA
1 AT-AAAAAAA
*
968764 ATAAAAAGA
1 ATAAAAAAA
968773 ATAAAGTAAAA
1 ATAAA--AAAA
968784 ATAA
1 ATAA
968788 GTACAAAAAT
Statistics
Matches: 129, Mismatches: 28, Indels: 34
0.68 0.15 0.18
Matches are distributed among these distances:
7 6 0.05
8 10 0.08
9 51 0.40
10 37 0.29
11 14 0.11
12 11 0.09
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:968668 original size:37 final size:35
Alignment explanation
Indices: 968615--968687 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 35
968605 TAAAATAAGT
* *
968615 AAAAAAAATAAAAATAAACAAA-AAAATGATAACAA
1 AAAAAAAAAAAAAATAAACAAATAAAAT-AAAACAA
*
968650 AAAAAACAAAAAATAATAAATAAATAAAATAAAACAA
1 AAAAAA-AAAAAA-AATAAACAAATAAAATAAAACAA
968687 A
1 A
968688 TATGAAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.19
36 5 0.16
37 16 0.50
38 5 0.16
ACGTcount: A:0.81, C:0.05, G:0.01, T:0.12
Consensus pattern (35 bp):
AAAAAAAAAAAAAATAAACAAATAAAATAAAACAA
Found at i:968678 original size:23 final size:22
Alignment explanation
Indices: 968620--968683 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
968610 TAAGTAAAAA
*
968620 AAATAAAAATAAACAAAAAAATGAT
1 AAAT-AAAA-AAAC-AAAAAATAAT
968645 AACA-AAAAAAACAAAAAATAAT
1 AA-ATAAAAAAACAAAAAATAAT
*
968667 AAATAAATAAAATAAAA
1 AAATAAA-AAAACAAAA
968684 CAAATATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.41
23 12 0.35
24 4 0.12
25 2 0.06
26 1 0.03
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (22 bp):
AAATAAAAAAACAAAAAATAAT
Found at i:968708 original size:50 final size:49
Alignment explanation
Indices: 968652--968783 Score: 103
Period size: 50 Copynumber: 2.7 Consensus size: 49
968642 GATAACAAAA
968652 AAAACAAAAAATAAT-AAATAAATAAAATAAAACAAATATGAAACGAAAA
1 AAAACAAAAAATAATGAAATAAATAAAATAAAACAAATATGAAAC-AAAA
* * * *
968701 TAAAACAAAATA-AATGGAATTAAATAAAA-AACACAAATAAGAAA-ATAAGA
1 -AAAACAAAAAATAAT-GAAATAAATAAAATAAAACAAATATGAAACA-AA-A
* * * *
968751 AAAATAAAAAAAAAT-AAAAAGAATAAAGTAAAA
1 AAAACAAAAAATAATGAAATA-AATAAAATAAAA
968784 ATAAGTACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
48 4 0.06
49 20 0.31
50 30 0.46
51 11 0.17
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.14
Consensus pattern (49 bp):
AAAACAAAAAATAATGAAATAAATAAAATAAAACAAATATGAAACAAAA
Found at i:968766 original size:19 final size:21
Alignment explanation
Indices: 968742--968788 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
968732 CACAAATAAG
968742 AAAATAAGAAA-AATAAA-AA
1 AAAATAAGAAAGAATAAAGAA
*
968761 AAAATAA-AAAGAATAAAGTA
1 AAAATAAGAAAGAATAAAGAA
968781 AAAATAAG
1 AAAATAAG
968789 TACAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAATAAGAAAGAATAAAGAA
Found at i:968773 original size:30 final size:30
Alignment explanation
Indices: 968722--968787 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
968712 AAATGGAATT
* *
968722 AAATAAAAAACACAAATAAGAAAATAAG-AA
1 AAATAAAAAACAAAAAAAAGAAAA-AAGTAA
*
968752 AAATAAAAAA-AAATAAAAAGAATAAAGTAA
1 AAATAAAAAACAAA-AAAAAGAAAAAAGTAA
968782 AAATAA
1 AAATAA
968788 GTACAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (30 bp):
AAATAAAAAACAAAAAAAAGAAAAAAGTAA
Found at i:968891 original size:14 final size:14
Alignment explanation
Indices: 968869--968910 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
968859 ATATATATAT
*
968869 ATAAGTAAATAAAA
1 ATAAATAAATAAAA
*
968883 ATAAATAAATAAAT
1 ATAAATAAATAAAA
*
968897 ATTAAT-AATAAAA
1 ATAAATAAATAAAA
968910 A
1 A
968911 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
ATAAATAAATAAAA
Found at i:968914 original size:16 final size:17
Alignment explanation
Indices: 968886--968917 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
968876 AATAAAAATA
968886 AATAAATAAATATTAAT
1 AATAAATAAATATTAAT
968903 AATAAA-AAATATTAA
1 AATAAATAAATATTAA
968918 AAAAACAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAATAAATATTAAT
Found at i:970876 original size:86 final size:84
Alignment explanation
Indices: 970776--971072 Score: 249
Period size: 84 Copynumber: 3.5 Consensus size: 84
970766 ACATATAGCC
* * * *
970776 CTTTCTTGCCTTGAGTTATGCTGTAAATTTGATTAGCCTCTGAGTTGAATATAATCGAACTCAAA
1 CTTTCTTGCCTTGAGCTATGCTGCAAA--TGATGAGCCTCTGAGCTGAATATAATCGAACTCAAA
*
970841 GGTCTTTTGTTGGCAGATAGA
64 GGTATTTTGTTGGCAGATAGA
* * * * * *
970862 CTTTCTTGCCTTGAGCTATGCTGCAAATGATGCGTCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 CTTTCTTGCCTTGAGCTATGCTGCAAATGATGAGCCTCTGAGCTGAATATAATCGAACTCAAAGG
970927 TATTTTGTTGGCAGATA-A
66 TATTTTGTTGGCAGATAGA
* *** * * * * * * * *
970945 CCCCTTCTCAACTTAAGTTATGCTGCAAATGGTGCA-CCTTTGAGCTGAGTGTAATCAAACTCGA
1 --CTTTCTTGCCTTGAGCTATGCTGCAAATGATG-AGCCTCTGAGCTGAATATAATCGAACTCAA
* *
971009 AGGTCTTTGGTTGGCAGATAG-
63 AGGTATTTTGTTGGCAGATAGA
* * * * *
971030 CTCTTCTTGACTTAAGCTATACTGCAAATGATGCGCCTTTGAG
1 CT-TTCTTGCCTTGAGCTATGCTGCAAATGATGAGCCTCTGAG
971073 TTGAGTGTAA
Statistics
Matches: 175, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
83 2 0.01
84 79 0.45
85 69 0.39
86 25 0.14
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (84 bp):
CTTTCTTGCCTTGAGCTATGCTGCAAATGATGAGCCTCTGAGCTGAATATAATCGAACTCAAAGG
TATTTTGTTGGCAGATAGA
Found at i:970922 original size:169 final size:167
Alignment explanation
Indices: 970732--971083 Score: 386
Period size: 169 Copynumber: 2.1 Consensus size: 167
970722 AGGTGTTATC
* * * * * *** *
970732 GAGCTGAATGGAATCGAACTCGACA-ATTTTATTGACATATAGCCCTTTCTTGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGA-AGATTTTATTGACAGATAACCCCTTCTCAACTTAAGTTATG
* * * * *
970796 CTGTAAATTTGAT-TAGCCTCTGAGTTGAATATAATCGAACTCAAAGGTCTTTTGTTGGCAGATA
65 CTGCAAA--TGATGCA-CCTCTGAGCTGAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGATA
* * * *
970860 GACT-TTCTTGCCTTGAGCTATGCTGCAAATGATGCGTCTTT
127 G-CTCTTCTTGACTTAAGCTATACTGCAAATGATGCGCCTTT
* *
970901 GAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAGATAACCCCTTCTCAACTTAAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAA-G-ATTTTATTGACAGATAACCCCTTCTCAACTTAAGTTAT
* * * * *
970966 GCTGCAAATGGTGCACCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGC
64 GCTGCAAATGATGCACCTCTGAGCTGAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGATAGC
971031 TCTTCTTGACTTAAGCTATACTGCAAATGATGCGCCTTT
129 TCTTCTTGACTTAAGCTATACTGCAAATGATGCGCCTTT
*
971070 GAGTTGAGTGTAAT
1 GAGCTGAGTGTAAT
971084 TAAACTCTAA
Statistics
Matches: 152, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
168 3 0.02
169 112 0.74
170 1 0.01
171 36 0.24
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (167 bp):
GAGCTGAGTGTAATCGAACTCGAAGATTTTATTGACAGATAACCCCTTCTCAACTTAAGTTATGC
TGCAAATGATGCACCTCTGAGCTGAATATAATCAAACTCAAAGGTCTTTGGTTGGCAGATAGCTC
TTCTTGACTTAAGCTATACTGCAAATGATGCGCCTTT
Found at i:971101 original size:84 final size:84
Alignment explanation
Indices: 970827--971102 Score: 347
Period size: 84 Copynumber: 3.3 Consensus size: 84
970817 GAGTTGAATA
* * * * *
970827 TAATCGAACTCAAAGGTCTTTTGTTGGCAGATAGACT-TTCTTGCCTTGAGCTATGCTGCAAATG
1 TAATCAAACTCGAAGGTCTTTGGTTGGCAGATAG-CTCTTCTTGACTTAAGCTATGCTGCAAATG
*
970891 ATGCGTCTTTGAGCTGAGTG
65 ATGCGCCTTTGAGCTGAGTG
* * * * * ** *
970911 TAATCGAACTCGAAGGTATTTTGTTGGCAGATAACCCCTTCTCAACTTAAGTTATGCTGCAAATG
1 TAATCAAACTCGAAGGTCTTTGGTTGGCAGAT-AGCTCTTCTTGACTTAAGCTATGCTGCAAATG
* *
970976 GTGCACCTTTGAGCTGAGTG
65 ATGCGCCTTTGAGCTGAGTG
*
970996 TAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGCTCTTCTTGACTTAAGCTATACTGCAAATGA
1 TAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGCTCTTCTTGACTTAAGCTATGCTGCAAATGA
*
971061 TGCGCCTTTGAGTTGAGTG
66 TGCGCCTTTGAGCTGAGTG
* *
971080 TAATTAAACTCTAAGGTCTTTGG
1 TAATCAAACTCGAAGGTCTTTGG
971103 CAGATAACAC
Statistics
Matches: 164, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 95 0.58
85 69 0.42
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
TAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGCTCTTCTTGACTTAAGCTATGCTGCAAATGA
TGCGCCTTTGAGCTGAGTG
Found at i:971208 original size:32 final size:31
Alignment explanation
Indices: 971172--971232 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 31
971162 AGTCAAACTC
971172 AAAGGTCTTTGTGTTTCAAGAGAAAC-ATTTTT
1 AAAGGT-TTT-TGTTTCAAGAGAAACGATTTTT
*
971204 AAAGGTTTTTTTTTCAAGAGAAACGATTT
1 AAAGGTTTTTGTTTCAAGAGAAACGATTT
971233 CAAAGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.52
31 7 0.26
32 6 0.22
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (31 bp):
AAAGGTTTTTGTTTCAAGAGAAACGATTTTT
Found at i:971220 original size:30 final size:30
Alignment explanation
Indices: 971185--971246 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
971175 GGTCTTTGTG
* *
971185 TTTCAAGAGAAAC-ATTTTTAAAGGTTTTTT
1 TTTCAAGAGAAACGA-TTTCAAAGATTTTTT
971215 TTTCAAGAGAAACGATTTCAAAGATTTTTT
1 TTTCAAGAGAAACGATTTCAAAGATTTTTT
971245 TT
1 TT
971247 GTGTTTCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTCAAGAGAAACGATTTCAAAGATTTTTT
Found at i:971398 original size:36 final size:36
Alignment explanation
Indices: 971315--971767 Score: 401
Period size: 36 Copynumber: 12.8 Consensus size: 36
971305 CAAAGGTTGG
* *
971315 TGTTTCAAGAGAAATTGTATCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
971352 TGTTTCAAGGGAAACTGTCTCAATAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
971388 TGTTTAAAGGGAAACTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
**
971424 TGTTTCAAGAGAAACTGTCTCAAGAGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
971460 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
971489 TGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATT
*
971525 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
971561 TGTATCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTC-A-AGAG----AGACAAAATT
*
971603 TGTTTCAAGAGAAACTGTCTCAAGAAAGAC-AAATCT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-T
* * *
971639 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATT
1 T-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
971676 TGTTT-AATGTA-AAACATAT-TC-----A-A-ATATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
*
971705 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
971741 TTTTTCAA-AGGAAACTGTTTCAAGAGA
1 TGTTTCAAGA-GAAACTGTCTCAAGAGA
971768 AACTGTCTCA
Statistics
Matches: 348, Mismatches: 34, Indels: 69
0.77 0.08 0.15
Matches are distributed among these distances:
28 4 0.01
29 36 0.10
30 4 0.01
31 2 0.01
32 2 0.01
33 2 0.01
34 2 0.01
35 9 0.03
36 181 0.52
37 64 0.18
38 8 0.02
40 3 0.01
41 1 0.00
42 30 0.09
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:971467 original size:21 final size:21
Alignment explanation
Indices: 971407--971468 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
971397 GGAAACTGTC
*
971407 TCAAGAGAGATAAAATTTGTT
1 TCAAGAGAGATGAAATTTGTT
* *
971428 TC---A-AGA-GAAA-CTGTC
1 TCAAGAGAGATGAAATTTGTT
971443 TCAAGAGAGATGAAATTTGTT
1 TCAAGAGAGATGAAATTTGTT
971464 TCAAG
1 TCAAG
971469 GAAAACATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 3 0.10
18 2 0.07
19 3 0.10
20 4 0.13
21 10 0.33
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
TCAAGAGAGATGAAATTTGTT
Found at i:971504 original size:101 final size:102
Alignment explanation
Indices: 971386--971574 Score: 308
Period size: 101 Copynumber: 1.9 Consensus size: 102
971376 AGAGACAAAA
* *
971386 TTTGTTTAAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTAAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
** *
971451 GATGAAATTTGTTTCAAG-GAAAACATATTCAAAGAT
66 GACAAAATTTGTATCAAGAGAAAACATATTCAAAGAT
* *
971487 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTAAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
971552 GACAAAATTTGTATCAAGAGAAA
66 GACAAAATTTGTATCAAGAGAAA
971575 CTGTCTCAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 76 0.95
102 4 0.05
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTAAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GACAAAATTTGTATCAAGAGAAAACATATTCAAAGAT
Found at i:971532 original size:21 final size:21
Alignment explanation
Indices: 971508--971572 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
971498 GAAAACTGTC
*
971508 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTA
* *
971529 TCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTA
971544 TCAAGAGAGACAAAATTTGTA
1 TCAAGAGAGACAAAATTTGTA
971565 TCAAGAGA
1 TCAAGAGA
971573 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTA
Found at i:971602 original size:42 final size:42
Alignment explanation
Indices: 971515--971635 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
971505 GTCTCAAGAG
*
971515 AGACAAAATTTGTTTCAAGGGAAACTGTCTC-A-AGAG----
1 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
*
971551 AGACAAAATTTGTATCAAGAGAAACTGTCTCAAGAGAGACAA
1 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
*
971593 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGACAA
1 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
971635 A
1 A
971636 TCTTAGTTCC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
36 29 0.39
37 1 0.01
38 4 0.05
42 41 0.55
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (42 bp):
AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
Found at i:971625 original size:78 final size:79
Alignment explanation
Indices: 971515--971672 Score: 241
Period size: 78 Copynumber: 2.0 Consensus size: 79
971505 GTCTCAAGAG
* * *
971515 AGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-TT-GTAT-CAAGAGAAACT
1 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGAC-AAATCTTAGT-TCCAAAAGAAACT
971577 GTCTCAAGAGAGACAA
64 GTCTCAAGAGAGACAA
971593 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGACAAATCTTAGTTCCAAAAGAAACTGT
1 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGACAAATCTTAGTTCCAAAAGAAACTGT
*
971658 CTCAAGGGAGACAA
66 CTCAAGAGAGACAA
971672 A
1 A
971673 ATTTGTTTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
77 4 0.05
78 41 0.56
79 28 0.38
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (79 bp):
AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGACAAATCTTAGTTCCAAAAGAAACTGT
CTCAAGAGAGACAA
Found at i:971692 original size:216 final size:210
Alignment explanation
Indices: 971315--971767 Score: 615
Period size: 216 Copynumber: 2.1 Consensus size: 210
971305 CAAAGGTTGG
* * * * *
971315 TGTTTCAAGAGAAATTGTATCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAATAGAG
1 TGTTTCAAGGGAAACTGTATCAAGAGAGACAAAACTTTGTATCAAGAGAAACTGTCTCAAGAGAG
* * * *
971380 ACAAAATTTGTTTAAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACTGTCTC
66 ACAAAATTTGTTTAAAGAGAAACTGTCTCAAGAAAGATAAAATTTGTTCCAAAAGAAACTGTCTC
**
971445 AAGAGAGATGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTC
131 AAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTC
971510 AAGAGAGACAAAATT
196 AAGAGAGACAAAATT
*
971525 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTATCAAGAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTATCAAGAGAGACAAAACTTTGTATCAAGAGAAACTGTCTC-A-AGAG
* *
971589 ACAAAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAAAGA-CAAATCTTAGTTCCAAAAGAA
64 ----AGACAAAATTTGTTTAAAGAGAAACTGTCTCAAGAAAGATAAAAT-TT-GTTCCAAAAGAA
* * * *
971653 ACTGTCTCAAGGGAGACAAAATTTGTTT-AATGTAAAACATATTCAAATATTTTGTTTCAAGGGA
123 ACTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAAACATATTCAAAGATTTTGTTTCAAGGAA
971717 AACTGTCTCAAGAGAGACAAAATT
187 AACTGTCTCAAGAGAGACAAAATT
* * *
971741 TTTTTCAAAGGAAACTGTTTCAAGAGA
1 TGTTTCAAGGGAAACTGTATCAAGAGA
971768 AACTGTCTCA
Statistics
Matches: 213, Mismatches: 21, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
209 21 0.10
210 32 0.15
211 3 0.01
214 4 0.02
215 40 0.19
216 113 0.53
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (210 bp):
TGTTTCAAGGGAAACTGTATCAAGAGAGACAAAACTTTGTATCAAGAGAAACTGTCTCAAGAGAG
ACAAAATTTGTTTAAAGAGAAACTGTCTCAAGAAAGATAAAATTTGTTCCAAAAGAAACTGTCTC
AAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTC
AAGAGAGACAAAATT
Found at i:971763 original size:15 final size:16
Alignment explanation
Indices: 971743--971784 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
971733 ACAAAATTTT
971743 TTTCAAAG-GAAACTG
1 TTTCAAAGAGAAACTG
971758 TTTC-AAGAGAAACTG
1 TTTCAAAGAGAAACTG
*
971773 TCTCAAGAGAGA
1 TTTCAA-AGAGA
971785 CAAAACTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 14 0.61
16 1 0.04
17 5 0.22
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (16 bp):
TTTCAAAGAGAAACTG
Found at i:977446 original size:29 final size:29
Alignment explanation
Indices: 977390--977466 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 29
977380 TAAGTAAAAA
977390 AAACAAAAATAAACAACAT-AAATAAAAT-G
1 AAACAAAAA-AAACAA-ATAAAATAAAATGG
977419 ATAACAAAAAAAACAAATAATAAT-AAATGG
1 A-AACAAAAAAAACAAATAA-AATAAAATGG
977449 AAA-AAAATAAAACAAATA
1 AAACAAAA-AAAACAAATA
977467 TGAAACGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
28 6 0.14
29 24 0.56
30 13 0.30
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.14
Consensus pattern (29 bp):
AAACAAAAAAAACAAATAAAATAAAATGG
Found at i:977540 original size:21 final size:21
Alignment explanation
Indices: 977473--977541 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
977463 AATATGAAAC
*
977473 GAAAATAAAACAAAAGAAATTAA
1 GAAAATAAAA-AAAACAAA-TAA
*
977496 -ATTAAATAAAAAACACAAATAA
1 GA--AAATAAAAAAAACAAATAA
*
977518 GAAAATAAAAGAAAATAAA-AA
1 GAAAATAAAA-AAAACAAATAA
977539 GAA
1 GAA
977542 TAAAGTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 13 0.34
22 10 0.26
23 7 0.18
24 8 0.21
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.13
Consensus pattern (21 bp):
GAAAATAAAAAAAACAAATAA
Found at i:977680 original size:15 final size:15
Alignment explanation
Indices: 977656--977708 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
977646 TATATAGAAA
* *
977656 AATAAGTAAATAAAT
1 AATAAATAAAAAAAT
977671 AATAAATAAAAAAAT
1 AATAAATAAAAAAAT
*
977686 ATTAATAATAAAAAAAT
1 AAT-A-AATAAAAAAAT
*
977703 ATTAAA
1 AATAAA
977709 AAACAAAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 14 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAAATAAAAAAAT
Found at i:977697 original size:17 final size:18
Alignment explanation
Indices: 977670--977707 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
977660 AGTAAATAAA
977670 TAATAAATAAAAAAATAT
1 TAATAAATAAAAAAATAT
977688 TAAT-AATAAAAAAATAT
1 TAATAAATAAAAAAATAT
977705 TAA
1 TAA
977708 AAAACAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAATAAATAAAAAAATAT
Found at i:978950 original size:20 final size:21
Alignment explanation
Indices: 978927--978966 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
978917 CATAAACATT
*
978927 ATTATATAATATAAT-TTGTA
1 ATTATACAATATAATATTGTA
978947 ATTATACAATATAATATTGT
1 ATTATACAATATAATATTGT
978967 TAATCGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTATACAATATAATATTGTA
Found at i:979024 original size:17 final size:17
Alignment explanation
Indices: 979002--979034 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
978992 AAAGAGCATA
*
979002 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
979019 ATATTATATTTTATAT
1 ATATTATATTTTATAT
979035 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:979962 original size:23 final size:23
Alignment explanation
Indices: 979932--979993 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
979922 CAATAGTTAG
979932 TTTAACGTAATAGGTATCACTTA
1 TTTAACGTAATAGGTATCACTTA
979955 TTTAACGTAATAGGTATCACTTA
1 TTTAACGTAATAGGTATCACTTA
**
979978 TTTAACAAAATAGGTA
1 TTTAACGTAATAGGTA
979994 GTGTCAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (23 bp):
TTTAACGTAATAGGTATCACTTA
Found at i:980026 original size:23 final size:23
Alignment explanation
Indices: 979932--980026 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
979922 CAATAGTTAG
* *
979932 TTTAACGTAATAGGTATCACTTA
1 TTTAACATAATAGGTATCACCTA
* *
979955 TTTAACGTAATAGGTATCACTTA
1 TTTAACATAATAGGTATCACCTA
* ** *
979978 TTTAACAAAATAGGTAGT-GTCAA
1 TTTAACATAATAGGTA-TCACCTA
* *
980001 TTTAACATAATAGGTAACGCCTA
1 TTTAACATAATAGGTATCACCTA
980024 TTT
1 TTT
980027 TATTTTACCG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 59 0.98
24 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (23 bp):
TTTAACATAATAGGTATCACCTA
Found at i:980147 original size:75 final size:74
Alignment explanation
Indices: 980062--980298 Score: 314
Period size: 75 Copynumber: 3.2 Consensus size: 74
980052 ATTTTTCATC
* *
980062 TATTTTATTTTACCATTTGCATTATTAGTAACCTTTAAACAAACCGATAGGTAGTTTAACGTAAT
1 TATTTTATTTTACCATTTGCATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACATAAT
980127 AGGTAATGCT
66 AGGTAA-GCT
* *
980137 TATTTTATTTTACCGTTTGCATTATTAGTAACCTTTAAATAAACCGGTAGGTAGTTTAACATAAT
1 TATTTTATTTTACCATTTGCATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACATAAT
*
980202 ATGT-AGCGT
66 AGGTAAGC-T
* * * * *
980211 CTATTTTATTTTACCATTTACATTATTAATAACCTTCAAACAAATCGGTAGGTAGCTTAACATAA
1 -TATTTTATTTTACCATTTGCATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACATAA
* * *
980276 TAGTTAGCGCA
65 TAGGTA-AGCT
980287 TATTTTATTTTA
1 TATTTTATTTTA
980299 ACAGGTTAAG
Statistics
Matches: 142, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
73 2 0.01
74 2 0.01
75 136 0.96
77 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (74 bp):
TATTTTATTTTACCATTTGCATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACATAAT
AGGTAAGCT
Found at i:988995 original size:30 final size:30
Alignment explanation
Indices: 988959--989026 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
988949 TTAGTCTTTA
988959 AGCTTCAACTATAAATATCATAACCCATTT
1 AGCTTCAACTATAAATATCATAACCCATTT
988989 AGCTTCAACTATAAATATCATAACCCATTT
1 AGCTTCAACTATAAATATCATAACCCATTT
989019 AGCTTCAA
1 AGCTTCAA
989027 AATCATCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (30 bp):
AGCTTCAACTATAAATATCATAACCCATTT
Found at i:991611 original size:13 final size:13
Alignment explanation
Indices: 991593--991632 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
991583 ACATGTAGAA
991593 AAGGAGTTTGAAC
1 AAGGAGTTTGAAC
991606 AAGGAGTTTGAAC
1 AAGGAGTTTGAAC
991619 AAGAGAGTTCTGAA
1 AAG-GAGTT-TGAA
991633 GCTCCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 16 0.64
14 5 0.20
15 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (13 bp):
AAGGAGTTTGAAC
Found at i:995148 original size:18 final size:18
Alignment explanation
Indices: 995125--995197 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
995115 AGTGAATATT
995125 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
995143 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* * *
995162 TTGTTCCAAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
995181 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
995198 GATAATCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 31 0.66
19 2 0.04
20 14 0.30
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:995843 original size:64 final size:64
Alignment explanation
Indices: 995771--995912 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 64
995761 CCCTTGACGG
* * * *
995771 GTGCATCGATACA-TAAAT-CCTATTCGATGTTTGTATTTTAAGGGGGTGCATCGATGCA-CTAC
1 GTGCATCGATACACT-AATGAC-ATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACCT-C
*
995833 TT
63 AT
* *
995835 GTGCATCGATACACTAATGACATTCGATGTTTTTATTTTAAAGGAGTGCATTGATACACCTCAT
1 GTGCATCGATACACTAATGACATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACCTCAT
995899 GTGCATCGATACAC
1 GTGCATCGATACAC
995913 CTTGAACAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
64 64 0.94
65 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (64 bp):
GTGCATCGATACACTAATGACATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACCTCAT
Done.