Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2156114 original size:179 final size:179
Alignment explanation
Indices: 2155790--2156127 Score: 407
Period size: 180 Copynumber: 1.9 Consensus size: 179
2155780 AATTTGTCAC
* * *
2155790 AAAAACGTGAATATCATTATTTTTGTGACAATGTTTTTTGTAATAATTATTAACACTTATAGTTA
1 AAAAACGTGAATATCATTATTTTTGTGACAATGTTTTTTGTAACAATAATTAACACTTATAATTA
** * * *
2155855 CAAAATTTGTCACTATATGACTTTTTTGGCGCAAACAGATATGAAGGGAAATCTTTGTGACAATA
66 CAAAACATGTCACTATATGACTTTTTTGGCACAAACAAATATG-AGAGAAATCTTTGTGACAATA
* *
2155920 TATTTTGTTACTATAATTAAAACATATAACGACAAAAACTGTTTTTTACT
130 CATTTTGTCACTATAATTAAAACATATAACGACAAAAACTGTTTTTTACT
* * * *
2155970 AAAAACTTGAATCTCATTATTTGTTGTGTCAAT-TTTTTTGTAACAATAATTATA-TCTTATAAT
1 AAAAACGTGAATATCATTATTT-TTGTGACAATGTTTTTTGTAACAATAATTA-ACACTTATAAT
* * * *
2156033 TGCAAAACATGTCACTATATGATTTTGTTTTGTACAAA-AAAT-TG-GAGATAATCATTTGTGAC
64 TACAAAACATGTCACTATATGACTTT-TTTGGCACAAACAAATATGAGAGA-AATC-TTTGTGAC
* *
2156095 TATACATTTTGTCACTATAATTAAAATATATAA
126 AATACATTTTGTCACTATAATTAAAACATATAA
2156128 TTACAAACAA
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
177 3 0.02
178 4 0.03
179 39 0.29
180 69 0.52
181 18 0.14
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (179 bp):
AAAAACGTGAATATCATTATTTTTGTGACAATGTTTTTTGTAACAATAATTAACACTTATAATTA
CAAAACATGTCACTATATGACTTTTTTGGCACAAACAAATATGAGAGAAATCTTTGTGACAATAC
ATTTTGTCACTATAATTAAAACATATAACGACAAAAACTGTTTTTTACT
Found at i:2159488 original size:54 final size:54
Alignment explanation
Indices: 2159203--2159489 Score: 405
Period size: 54 Copynumber: 5.3 Consensus size: 54
2159193 TTCGTTGAGA
* * * *
2159203 TGCACACATAGTGCC-AATACGGTTATTCATAAACATATTATGAATTCCGTGGGT
1 TGCACACATAGTGCCTAA-ACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * *
2159257 TGCACACATAGTGCTTAAACGGTTGTTCATCAACATATGATAAATTCCGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * * * *
2159311 TTCACACATAGTGCCAAAACAGTTGTTCATCAACTTATGATGAATTACATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* *
2159365 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGA
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* *
2159419 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATAAATTCCATGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
*
2159473 TGCACACAAAGTGCCTA
1 TGCACACATAGTGCCTA
2159490 GAGTACACAT
Statistics
Matches: 209, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 207 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (54 bp):
TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
Found at i:2162738 original size:76 final size:76
Alignment explanation
Indices: 2162646--2162824 Score: 349
Period size: 76 Copynumber: 2.4 Consensus size: 76
2162636 GACCGTTGAA
2162646 CAGGGGGAATCGGTACCCCCTTGGGGGAGAATTGGTTCCCTCCGAGCATTCTGTTATTTCTCAGA
1 CAGGGGGAATCGGTACCCCCTTGGGGGAGAATTGGTTCCCTCCGAGCATTCTGTTATTTCTCAGA
2162711 GCCAAACTATT
66 GCCAAACTATT
2162722 CAGGGGGAATCGGTACCCCCTTGGGGGAGAATTGGTTCCCTCCGAGCATTCTGTTATTTCTCAGA
1 CAGGGGGAATCGGTACCCCCTTGGGGGAGAATTGGTTCCCTCCGAGCATTCTGTTATTTCTCAGA
*
2162787 GCCAAATTATT
66 GCCAAACTATT
2162798 CAGGGGGAATCGGTACCCCCTTGGGGG
1 CAGGGGGAATCGGTACCCCCTTGGGGG
2162825 GGGGGGGTTA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 102 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (76 bp):
CAGGGGGAATCGGTACCCCCTTGGGGGAGAATTGGTTCCCTCCGAGCATTCTGTTATTTCTCAGA
GCCAAACTATT
Found at i:2179735 original size:248 final size:250
Alignment explanation
Indices: 2179270--2179766 Score: 899
Period size: 248 Copynumber: 2.0 Consensus size: 250
2179260 GAGAGCTGCT
*
2179270 GGAATGTAATTCTAATGATATTTGAAGACTCTGCTACGTTGAGAAATTTGAAGAATGAAAAATCA
1 GGAATGTAATTCTAATGATATTTGAAGACTCTGCTACGTTGAGAAATGTGAAGAATGAAAAATCA
*
2179335 AACTCTTGCAGAATAGTTTTCCAAAGTTGTTGCTTGGTCGGAGAGTATGGTGGTGGAGTGCCGTC
66 AACTCTTGCAGAATAGTTTTCCAAAGTTGCTGCTTGGTCGGAGAGTATGGTGGTGGAGTGCCGTC
2179400 GAGTGTGGCTAGTTTGCGAAGGGATTCCTTTTCACGCTTGGAATTGGAGTACTTTCAAGAACATT
131 GAGTGTGGCTAGTTTGCGAAGGGATTCCTTTTCACGCTTGGAATTGGAGTACTTTCAAGAACATT
* *
2179465 GCAGCTAGGTGGAGCAATTTATTATCAATAGACGAAAGCTCTCAATTTCCTTCGA
196 GCAGCTAGGTGGAGCAATTTATTAGCAATAGACGAAAGCGCTCAATTTCCTTCGA
* *
2179520 GGAATGTAGTTCTAATGATATTTG-A-ACTCTGCTACGTTGAGAAATGTGAAGAATGAAAAATTA
1 GGAATGTAATTCTAATGATATTTGAAGACTCTGCTACGTTGAGAAATGTGAAGAATGAAAAATCA
* *
2179583 GACTCTTGCAGAATGGTTTTCCAAAGTTGCTGCTTGGTCGGAGAGTATGGTGGTGGAGTGCCGTC
66 AACTCTTGCAGAATAGTTTTCCAAAGTTGCTGCTTGGTCGGAGAGTATGGTGGTGGAGTGCCGTC
*
2179648 GAGTGTGGTTAGTTTGCGAAGGGATTCCTTTTCACGCTTGGAATTGGAGTACTTTCAAGAACATT
131 GAGTGTGGCTAGTTTGCGAAGGGATTCCTTTTCACGCTTGGAATTGGAGTACTTTCAAGAACATT
2179713 GCAGCTAGGTGGAGCAATTTATTAGCAATAGACGAAAGCGCTCAATTTCCTTCG
196 GCAGCTAGGTGGAGCAATTTATTAGCAATAGACGAAAGCGCTCAATTTCCTTCG
2179767 TCTTTTGATT
Statistics
Matches: 238, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
248 214 0.90
249 1 0.00
250 23 0.10
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (250 bp):
GGAATGTAATTCTAATGATATTTGAAGACTCTGCTACGTTGAGAAATGTGAAGAATGAAAAATCA
AACTCTTGCAGAATAGTTTTCCAAAGTTGCTGCTTGGTCGGAGAGTATGGTGGTGGAGTGCCGTC
GAGTGTGGCTAGTTTGCGAAGGGATTCCTTTTCACGCTTGGAATTGGAGTACTTTCAAGAACATT
GCAGCTAGGTGGAGCAATTTATTAGCAATAGACGAAAGCGCTCAATTTCCTTCGA
Found at i:2197134 original size:133 final size:135
Alignment explanation
Indices: 2196941--2197247 Score: 406
Period size: 133 Copynumber: 2.3 Consensus size: 135
2196931 ATAATACATT
* * * * *
2196941 CTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCAC
* * * * * **
2197006 TCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTA
66 CCATATACATTTCAAACATAGCATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTAAA
2197071 GCATA
131 GCATA
2197076 CTTTTCTGTTGATAATGCACCCATAT-CA-TTCTAACCTA-A-CATACTTTTCTGTTGATAATGC
1 CTTTTCTGTTGATAATGCACCCATATACATTTC-AA-CTATAGCATACTTTTCTGTTGATAATGC
* * *
2197137 ACCCGTATGCATTTCAAATATAGCATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTA
64 ACCCATATACATTTCAAACATAGCATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTA
* *
2197202 AAGTATG
129 AAGCATA
*
2197209 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTAT
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
2197248 GGTATCCTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
133 111 0.74
134 9 0.06
135 30 0.20
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (135 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCAC
CCATATACATTTCAAACATAGCATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTAAA
GCATA
Found at i:2197270 original size:45 final size:45
Alignment explanation
Indices: 2196941--2197257 Score: 408
Period size: 45 Copynumber: 7.1 Consensus size: 45
2196931 ATAATACATT
* * *
2196941 CTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
2196986 CTTTTCTGTTGATAATGTACTCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
2197031 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
*
2197076 CTTTTCTGTTGATAATGCACCCATAT-CA-TTCTAACCTA-A-CATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTC-AA-CTATAGTATA
* * * *
2197119 CTTTTCTGTTGATAATGCACCCGTATGCATTTCAAATATAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
2197164 CTTTCCTGTTGATAATGCACCCATATACATTTCAACTAAAGTATG
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * *
2197209 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATGGTATC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
2197254 CTTT
1 CTTT
2197258 CATGTCAATA
Statistics
Matches: 240, Mismatches: 26, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
43 34 0.14
44 10 0.04
45 196 0.82
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
Found at i:2197271 original size:178 final size:178
Alignment explanation
Indices: 2196936--2197272 Score: 496
Period size: 178 Copynumber: 1.9 Consensus size: 178
2196926 AAACTATAAT
* * * *
2196936 ACATTCTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAA
1 ACATACTTTTATGTCGATAATGCACCCATATGCATTTCAAATATAGCATACTTTCCTGTTGATAA
* * *
2197001 TGTACTCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAA
66 TGCACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAA
* * **
2197066 CTCTAGCATACTTTTCTGTTGATAATGCACCCATATCATTCTAACCTA
131 CTATAGCATACCTTTCTGTCAATAATGCACCCATATCATTCTAACCTA
* * *
2197114 ACATACTTTTCTGTTGATAATGCACCCGTATGCATTTCAAATATAGCATACTTTCCTGTTGATAA
1 ACATACTTTTATGTCGATAATGCACCCATATGCATTTCAAATATAGCATACTTTCCTGTTGATAA
* *
2197179 TGCACCCATATACATTTCAACTAAAGTATGCTTTTCTGTTGATAATGTACCCATATACATTTCAA
66 TGCACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAA
* *
2197244 CTATGGTAT-CCTTTCATGTCAATAATGCA
131 CTATAGCATACCTTTC-TGTCAATAATGCA
2197273 TCCTTTCATG
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
177 5 0.04
178 135 0.96
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (178 bp):
ACATACTTTTATGTCGATAATGCACCCATATGCATTTCAAATATAGCATACTTTCCTGTTGATAA
TGCACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAA
CTATAGCATACCTTTCTGTCAATAATGCACCCATATCATTCTAACCTA
Found at i:2197275 original size:21 final size:21
Alignment explanation
Indices: 2197251--2197293 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2197241 CAACTATGGT
*
2197251 ATCCTTTCATGTCAATAATGC
1 ATCCTTTCATGCCAATAATGC
2197272 ATCCTTTCATGCCAATAATGC
1 ATCCTTTCATGCCAATAATGC
2197293 A
1 A
2197294 CCCATATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCCTTTCATGCCAATAATGC
Found at i:2197719 original size:22 final size:20
Alignment explanation
Indices: 2197681--2197734 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
2197671 TGGCCCTTCA
2197681 GTATCGATACCCCTACTATG
1 GTATCGATACCCCTACTATG
2197701 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACTATG
2197723 GTAT-GATACCCC
1 GTATCGATACCCC
2197735 CTTCCAGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.09
20 10 0.31
21 5 0.16
22 14 0.44
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:2197799 original size:20 final size:20
Alignment explanation
Indices: 2197774--2197830 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
2197764 GATGTAGCCG
2197774 GGTATCGATACCCTCACTAT
1 GGTATCGATACCCTCACTAT
* *
2197794 GGTATCGATACTACTACGCTAT
1 GGTATCGATAC-CCT-CACTAT
*
2197816 GGTACCGATACCCTC
1 GGTATCGATACCCTC
2197831 TTCGGTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 15 0.48
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTCACTAT
Found at i:2197819 original size:94 final size:92
Alignment explanation
Indices: 2197681--2197900 Score: 257
Period size: 94 Copynumber: 2.4 Consensus size: 92
2197671 TGGCCCTTCA
*
2197681 GTATCGATACCC-CTACTATGGTATCGATACTACCCTACTATGGTA-TGATACCCCCTTCCAGTA
1 GTATCGATACCCTC-ACTATGGTATCGATACTA--CTACTATGGTACCGATACCCCCTT-CAGTA
2197744 TCGATACAAAAATTAGCTTCGATGTAGCCGG
62 TCGATACAAAAATTAGCTTCGATGTAGCCGG
* *
2197775 GTATCGATACCCTCACTATGGTATCGATACTACTACGCTATGGTACCGATACCCTCTTCGGTATC
1 GTATCGATACCCTCACTATGGTATCGATACTACTA--CTATGGTACCGATACCCCCTTCAGTATC
* * ** *
2197840 GATACCAAAATTAGGTTCGATGTTTCCTG
64 GATACAAAAATTAGCTTCGATGTAGCCGG
* * * *
2197869 GTAT-GATACTCTTACCATGATATCGATACTAC
1 GTATCGATACCCTCACTATGGTATCGATACTAC
2197901 ATAGCTCGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
92 3 0.03
93 24 0.22
94 72 0.65
95 11 0.10
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
GTATCGATACCCTCACTATGGTATCGATACTACTACTATGGTACCGATACCCCCTTCAGTATCGA
TACAAAAATTAGCTTCGATGTAGCCGG
Found at i:2204032 original size:45 final size:45
Alignment explanation
Indices: 2203977--2204283 Score: 384
Period size: 45 Copynumber: 6.9 Consensus size: 45
2203967 ATAATACGTT
* * *
2203977 CTTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
* * * *
2204022 CTTTTCTATTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
*
2204067 CTTTTCTGTTGATAAT--ACCCATATACATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
* * ** *
2204110 CTTTTCTGTTCATAATGAACCCATATGTATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
* * *
2204155 CTTTTCGGTTGATAATGCACCCATATGCATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
* * * * * *
2204200 CTTTTTTGTTGATAATGCACCTATATACATTTCAACAAAAGTATG
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
* *
2204245 TTTTTCTGTTGATAATGTACCCATATACATTTCAACTAT
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
2204284 GACATCATTT
Statistics
Matches: 231, Mismatches: 29, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 39 0.17
45 192 0.83
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATA
Found at i:2204305 original size:90 final size:90
Alignment explanation
Indices: 2203977--2204320 Score: 342
Period size: 90 Copynumber: 3.8 Consensus size: 90
2203967 ATAATACGTT
* * * * * *
2203977 CTTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTAT-TGATAATGTA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACATTTC-ATGTCATAATGCA
*
2204041 CCCATATACATTTCAACCATAGTATA
65 CCCATATACATTTCAACAATAGTATA
* * *
2204067 CTTTTCTGTTGATAAT--ACCCATATACATTTCAACTCTAGCATACTTTTC-TGTTCATAATGAA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACATTTCATG-TCATAATGCA
** ** *
2204129 CCCATATGTATTTCAACTCTAGCATA
65 CCCATATACATTTCAACAATAGTATA
* * * ** *
2204155 CTTTTCGGTTGATAATGCACCCATATGCATTTCAACTCTAGCATAC-TTTTTTGTTGATAATGCA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACATTTCATG-TCATAATGCA
* * *
2204219 CCTATATACATTTCAACAAAAGTATG
65 CCCATATACATTTCAACAATAGTATA
* * *
2204245 TTTTTCTGTTGATAATGTACCCATATACATTTCAACTAT-GACAT-CATTTCATGCCAATAATGC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAG-CATACATTTCATGTC-ATAATGC
*
2204308 ACCCATATGCATT
64 ACCCATATACATT
2204321 AGTATTTTCA
Statistics
Matches: 211, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
86 1 0.00
88 74 0.35
89 5 0.02
90 131 0.62
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCATACATTTCATGTCATAATGCAC
CCATATACATTTCAACAATAGTATA
Found at i:2205829 original size:54 final size:54
Alignment explanation
Indices: 2205748--2206000 Score: 303
Period size: 54 Copynumber: 4.7 Consensus size: 54
2205738 TGGGGCATTA
* * **
2205748 CACTAAGTGTTCAACCCACGGAATTCATAATAAGTTTATGAACGATCGTATCAA
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGG
*
2205802 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGG
* * * *
2205856 CATTAAGTGTGCAACCCACGAAAATCATAATAAGCTTATGAATGATCGTATCGG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGG
* * * * *
2205910 CACTAAGTGTACAACCAAC-AGAATTCAAAATAAGGTTTATAAATGATCGTATCGG
1 CACTAAGTGTGCAACCCACGA-AATTCATAATAA-GTTTATGAACGATCGTATCGG
* * * *
2205965 CACTACGTGTGCACCCCATGAAACTT-ATAATGAGTT
1 CACTAAGTGTGCAACCCACGAAA-TTCATAATAAGTT
2206001 GCAATAATTA
Statistics
Matches: 171, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 127 0.74
55 40 0.23
56 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCGTATCGG
Found at i:2211571 original size:15 final size:15
Alignment explanation
Indices: 2211547--2211594 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
2211537 TGAGACATTA
2211547 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
2211562 CCCTCCCCGCATCCG
1 CCCGCCCCGCATCCG
* *
2211577 CTCGCCCCACATCCG
1 CCCGCCCCGCATCCG
2211592 CCC
1 CCC
2211595 ACCCAGCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.08, C:0.67, G:0.15, T:0.10
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:2213796 original size:2 final size:2
Alignment explanation
Indices: 2213789--2213825 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
2213779 TTACAAAAAT
2213789 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
2213826 CAAACTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2214129 original size:10 final size:10
Alignment explanation
Indices: 2214111--2214156 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
2214101 TCCGTAATCC
*
2214111 GTTCATTTAT
1 GTTCGTTTAT
2214121 GTTCGTTTAT
1 GTTCGTTTAT
*
2214131 TTTC-TTTAT
1 GTTCGTTTAT
*
2214140 GTTCGTGTAT
1 GTTCGTTTAT
2214150 GTTCGTT
1 GTTCGTT
2214157 CGTTTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.61
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:2214370 original size:10 final size:10
Alignment explanation
Indices: 2214355--2214389 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2214345 ATTTTATGTT
2214355 TGTTCGTTTA
1 TGTTCGTTTA
*
2214365 TGTTCGTTTG
1 TGTTCGTTTA
2214375 TGTTCGTTTA
1 TGTTCGTTTA
*
2214385 CGTTC
1 TGTTC
2214390 ACTCATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.06, C:0.14, G:0.23, T:0.57
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:2219454 original size:21 final size:21
Alignment explanation
Indices: 2219424--2219467 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2219414 AATCAAGAAT
* *
2219424 CAAGGTGTTTTGTTACAAAGC
1 CAAGGAGTTTTATTACAAAGC
*
2219445 CAAGGAGTTTTATTGCAAAGC
1 CAAGGAGTTTTATTACAAAGC
2219466 CA
1 CA
2219468 TAGTTCATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (21 bp):
CAAGGAGTTTTATTACAAAGC
Found at i:2225797 original size:180 final size:181
Alignment explanation
Indices: 2225604--2225943 Score: 402
Period size: 180 Copynumber: 1.9 Consensus size: 181
2225594 TTGTTTGTAA
* * *
2225604 TTATATATTTTAATTATAGTGACAAAACATATAGTCATAAATGATTAT-CTCTA-ATTTTTTGTA
1 TTATATATTTTAATTATAGTAACAAAACATATAGTCACAAA-GATTATCCTCCATATTTTTT-TA
** * *
2225667 C-AAAAACAAAATCATATAGTGACATGTTTTGCAACTATAAGAT-ATAATTATTGTTACAAAAAA
64 CGAAAAA-AAAATCATATAGTGACAAATTTTGCAACTATAAG-TGATAATAATTATTACAAAAAA
* *
2225730 -GTTGACACAACAAATAATGAGATTCAAGTTTTTAGTAAAAAACAGTTTTTGTCG
127 CATTGACACAAAAAATAATGAGATTCAAGTTTTTAGTAAAAAACAGTTTTTGTCG
* * * * *
2225784 TTATATGTTTTAATTATAGTAACAAAATATATTGTCACAAAGATTTTCCTCCATATTTTTTTGCG
1 TTATATATTTTAATTATAGTAACAAAACATATAGTCACAAAGATTATCCTCCATATTTTTTTACG
** * * *
2225849 CCAAAAAAGTCATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATT
66 AAAAAAAAATCATATAGTGACAAATTTTGCAACTATAAGTGATAATAATTATTACAAAAAACATT
* * * *
2225914 GTCATAAAAAATAATGATATTCACGTTTTT
131 GACACAAAAAATAATGAGATTCAAGTTTTT
2225944 GTACAAATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
179 6 0.05
180 89 0.67
181 37 0.28
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (181 bp):
TTATATATTTTAATTATAGTAACAAAACATATAGTCACAAAGATTATCCTCCATATTTTTTTACG
AAAAAAAAATCATATAGTGACAAATTTTGCAACTATAAGTGATAATAATTATTACAAAAAACATT
GACACAAAAAATAATGAGATTCAAGTTTTTAGTAAAAAACAGTTTTTGTCG
Found at i:2242519 original size:55 final size:55
Alignment explanation
Indices: 2242453--2242890 Score: 596
Period size: 55 Copynumber: 8.0 Consensus size: 55
2242443 AAGGGAACTG
* *
2242453 TGTGTACAACCTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
2242508 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGTG-ACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG-GCACTA
* * * *
2242563 TGTGTGCAACCTTAATAAATTCATAATGAGTTTATGAATTTTTGTATTAGCACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
* * * * *
2242618 TGTGTGTAACCTCATGAAATTCATAATGAATTTATGCATTTTCGTATTGGCACTG
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
* * * *
2242673 TGTGTGCAACCTTAAGAAATTTATAATGAGTTTATAAATTTTTGTATTGGCACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
*
2242728 TGTGTGCAACCTCACA-AAATTCAT-A-GAGTTTATGAATTTCCGTATTGGCACTA
1 TGTGTGCAACCTCA-AGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
* *
2242781 TATGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
* * * * * * **
2242836 TGAGTACAACCCCACGTAATTCATAATGAGTTTGTGAATTACCGTATTGGCACTA
1 TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
2242891 CGTATGCGAA
Statistics
Matches: 337, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
53 46 0.14
54 3 0.01
55 286 0.85
56 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (55 bp):
TGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTA
Found at i:2246351 original size:485 final size:485
Alignment explanation
Indices: 2245469--2246370 Score: 1515
Period size: 485 Copynumber: 1.9 Consensus size: 485
2245459 ATACAGTTTA
* *
2245469 CTCTTGAAGTTTCCATAATTATGGTTGAGAAGACTAATCTTATTTTCTCTTACCTCATTAGTTCC
1 CTCTTGAAGTTTCCATAATTATGATTGAGAAGACTAATCTTAGTTTCTCTTACCTCATTAGTTCC
* *
2245534 TTCATGAGTATCTTCAATTTTATCGCAAATCTCCTTGGTATTCAAACAAGATGATACTCTTCCAT
66 TTCATGAGTAACTTCAATTTTATCGCAAATCTCCTTGGCATTCAAACAAGATGATACTCTTCCAT
* * * *
2245599 ATTCATCGGGGTCAAGTGCACAAAATAGAATGTGCATTATCTTTTCATTGAGCTAGAACAATTTT
131 ATTCATCGGGGCCAAGTGCAAAAAATAGAATGTGCATTATCTTTGCATTGAGATAGAACAATTTT
*
2245664 TTTCTTCTTCACTTCACTCCTCAATTTCTCTAGTTGGAGCAGAATGTCTTCTCATCATGTACTAC
196 TTTCTTCTTCACTTCACTCCTCAATTTCTCTAGTTGAAGCAGAATGTCTTCTCATCATGTACTAC
* **
2245729 ATGCTCCCAAATCATTTGCTTGAATGAAAAACTTCATCCTATTCTTCCAATAGGCATGGTTGGCT
261 ATGCTCCCAAATCATTTGCTTGAATGAAAAACTTCATCATATTCTTCCAATAGGCATAATTGGCT
*
2245794 CCGTGGAAGTATGGAGGCTTGTTGATAGGTTGGGAATCATTGACAATGTCAAAACTTGGTGTAGA
326 CCATGGAAGTATGGAGGCTTGTTGATAGGTTGGGAATCATTGACAATGTCAAAACTTGGTGTAGA
*
2245859 GGCCATGGATGACTAGAACGATGACTTAACTATTCTAGGATATTCTCAAGAGGAGGTAAACCCTT
391 GGCCATGGATGAATAGAACGATGACTTAACTATTCTAGGATATTCTCAAGAGGAGGTAAACCCTT
2245924 CCAATGGCTTTAATATTATCATTAGGTCTC
456 CCAATGGCTTTAATATTATCATTAGGTCTC
* *
2245954 CTCTTGAAGTTTTCATAATTATGATTGAGAAGACTAATCTTAGTTTCTCTTACCTTATTAGTTCC
1 CTCTTGAAGTTTCCATAATTATGATTGAGAAGACTAATCTTAGTTTCTCTTACCTCATTAGTTCC
* * *
2246019 TTCATGAGTAACTTCAATTTTGTC-CTAAATCTCCTTGGCATTGAAACAATATGATACTCTTCCA
66 TTCATGAGTAACTTCAATTTTATCGC-AAATCTCCTTGGCATTCAAACAAGATGATACTCTTCCA
*
2246083 TATTCGTCGGGGCCAAGTGCAAAAAATAGAATGTGCATTATCTTTGCATTGAGAT-GAAACAATT
130 TATTCATCGGGGCCAAGTGCAAAAAATAGAATGTGCATTATCTTTGCATTGAGATAG-AACAATT
* *
2246147 TATTTTCTTCTTCATTTCACTCCTCAATTTCTCTAGTT-AAGTAGAATGTCTTCTCATCATGTAC
194 T-TTTTCTTCTTCACTTCACTCCTCAATTTCTCTAGTTGAAGCAGAATGTCTTCTCATCATGTAC
*
2246211 T-CTATGCTCCCAAATCATTTGCTTGAATGAAAAACTTCGTCATATTCTTCCAATAGGCATAATT
258 TAC-ATGCTCCCAAATCATTTGCTTGAATGAAAAACTTCATCATATTCTTCCAATAGGCATAATT
*
2246275 GGCTCTATGGAAGTATGGAGGCTTGTTGATAGGTTGGGAATCATTGACAATGTCAAAACTTGGTG
322 GGCTCCATGGAAGTATGGAGGCTTGTTGATAGGTTGGGAATCATTGACAATGTCAAAACTTGGTG
*
2246340 TAGAGGCCATGGATGAATAGAATGATGACTT
387 TAGAGGCCATGGATGAATAGAACGATGACTT
2246371 GACTGTTCCA
Statistics
Matches: 388, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
484 3 0.01
485 350 0.90
486 35 0.09
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (485 bp):
CTCTTGAAGTTTCCATAATTATGATTGAGAAGACTAATCTTAGTTTCTCTTACCTCATTAGTTCC
TTCATGAGTAACTTCAATTTTATCGCAAATCTCCTTGGCATTCAAACAAGATGATACTCTTCCAT
ATTCATCGGGGCCAAGTGCAAAAAATAGAATGTGCATTATCTTTGCATTGAGATAGAACAATTTT
TTTCTTCTTCACTTCACTCCTCAATTTCTCTAGTTGAAGCAGAATGTCTTCTCATCATGTACTAC
ATGCTCCCAAATCATTTGCTTGAATGAAAAACTTCATCATATTCTTCCAATAGGCATAATTGGCT
CCATGGAAGTATGGAGGCTTGTTGATAGGTTGGGAATCATTGACAATGTCAAAACTTGGTGTAGA
GGCCATGGATGAATAGAACGATGACTTAACTATTCTAGGATATTCTCAAGAGGAGGTAAACCCTT
CCAATGGCTTTAATATTATCATTAGGTCTC
Found at i:2248074 original size:42 final size:43
Alignment explanation
Indices: 2247967--2248077 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
2247957 AAACTCGAAC
* * *
2247967 ATTTTTTACCTTAGCAACTTTTATGTACTTACTCTTGAAATTA
1 ATTTTTTGCCTTAGCAACTTTTATTTACTTACACTTGAAATTA
* *
2248010 ATTTTTTGCTTTAGCAACTTTTATTTACTTACACTTGTAATTA
1 ATTTTTTGCCTTAGCAACTTTTATTTACTTACACTTGAAATTA
*
2248053 A-TTTTTGCCTTAGCAATTTTTATTT
1 ATTTTTTGCCTTAGCAACTTTTATTT
2248078 GTTTACTCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 22 0.36
43 39 0.64
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.53
Consensus pattern (43 bp):
ATTTTTTGCCTTAGCAACTTTTATTTACTTACACTTGAAATTA
Found at i:2248344 original size:19 final size:20
Alignment explanation
Indices: 2248314--2248351 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2248304 CACTCACTAT
*
2248314 TGTATCACTTGCATCGATTG
1 TGTATCACTTGCATAGATTG
2248334 TGTAT-ACTTGCATAGATT
1 TGTATCACTTGCATAGATT
2248352 TGCATGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
TGTATCACTTGCATAGATTG
Found at i:2256073 original size:22 final size:22
Alignment explanation
Indices: 2256048--2256089 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2256038 ACCGAAAGGG
2256048 GAATCGATAACATAGTAGGGTA
1 GAATCGATAACATAGTAGGGTA
* *
2256070 GAATCGATACCATGGTAGGG
1 GAATCGATAACATAGTAGGG
2256090 GTATCGGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (22 bp):
GAATCGATAACATAGTAGGGTA
Found at i:2256094 original size:94 final size:95
Alignment explanation
Indices: 2255877--2256095 Score: 305
Period size: 95 Copynumber: 2.3 Consensus size: 95
2255867 ATACCGACGT
* * *
2255877 GGTAGTATCGATACCATGGTAAGGGTATTGATATCAGGCAACATCGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGA
* * * * * *
2255942 TACCAGAATGGGGTATTGGTACCATAGTAT
66 TACCAGAAAGGGGAATCGATAACATAGTAG
* * *
2255972 GGTAGTATCAATACCATGGTAAGGGTATCGATACCAAGCCACATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGA
2256037 TACC-GAAAGGGGAATCGATAACATAGTAG
66 TACCAGAAAGGGGAATCGATAACATAGTAG
* *
2256066 GGTAGAATCGATACCATGGTAGGGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGTATCG
2256096 GTACTGAATA
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 46 0.42
95 63 0.58
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGA
TACCAGAAAGGGGAATCGATAACATAGTAG
Found at i:2256558 original size:59 final size:59
Alignment explanation
Indices: 2256430--2257248 Score: 1160
Period size: 59 Copynumber: 13.7 Consensus size: 59
2256420 ATGGCACTAA
* *
2256430 GTGTGCAAAAATATTAAGAAATTCATACTAAGTGTAGTATGAATTTCTGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAA--GT-GTATGAATTTCCGTATTGGGCACTTC
* * *
2256492 GTGTGCAAATATCTTAAGAAATTCATACTAAGTGTATGAATTTCCGCATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* * ** *
2256551 GTGTGCAAAAATGTTAAGAAATTCATATTAAGTGTATAAATTTCATTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
*
2256610 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGCCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
2256669 GTGTGCAAAAATGTTAAGCAATTCATACTAAGTGAATGAATTTCCGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
** * *
2256728 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTACAAATTTTCGTATTGGGTACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* * *
2256787 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGCATTGGACACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
**
2256846 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTATGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* * * *
2256905 TTGTGTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTATGAATTTCCGTATTGCGTAC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAA--G--TG-----TATGAATTTCCGTATTGGGCAC
2256970 TTC
57 TTC
*
2256973 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGT-TTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* * *
2257031 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* * *
2257090 GTGTGCAAAAATGTTAAGAAATTCATACTACGTGTATGAATTTCCTTATTGGTCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
2257149 GTGTG-AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
2257207 GTATGC--AAATCGTTAAGAGATTCATACTAAGTGTATGAATTT
1 GTGTGCAAAAAT-GTTAAGAAATTCATACTAAGTGTATGAATTT
2257249 TCATATGGGA
Statistics
Matches: 683, Mismatches: 62, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
57 4 0.01
58 137 0.20
59 455 0.67
60 2 0.00
61 1 0.00
62 29 0.04
63 2 0.00
64 2 0.00
66 1 0.00
68 50 0.07
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
Found at i:2257039 original size:58 final size:58
Alignment explanation
Indices: 2256948--2257248 Score: 444
Period size: 58 Copynumber: 5.2 Consensus size: 58
2256938 GTATGAATTT
* *
2256948 TATGAATTTCCGTATTGCGTACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
1 TATGAATTTCCGTATTGGGCACTTCGTGTG-AAAAATGTTAAGAAATTCATACTAAGTG
2257007 TATGAATTTCCGT-TTGGGCACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
1 TATGAATTTCCGTATTGGGCACTTCGTGTG-AAAAATGTTAAGAAATTCATACTAAGTG
* * *
2257065 TATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTACGTG
1 TATGAATTTCCGTATTGGGCACTTCGTGTG-AAAAATGTTAAGAAATTCATACTAAGTG
* *
2257124 TATGAATTTCCTTATTGGTCACTTCGTGTGAAAAATGTTAAGAAATTCATACTAAGTG
1 TATGAATTTCCGTATTGGGCACTTCGTGTGAAAAATGTTAAGAAATTCATACTAAGTG
* * * * *
2257182 TATGAATTTCCGTATTAGGCACTTTGTATG-CAAATCGTTAAGAGATTCATACTAAGTG
1 TATGAATTTCCGTATTGGGCACTTCGTGTGAAAAAT-GTTAAGAAATTCATACTAAGTG
2257240 TATGAATTT
1 TATGAATTT
2257249 TCATATGGGA
Statistics
Matches: 222, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
57 4 0.02
58 137 0.62
59 81 0.36
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (58 bp):
TATGAATTTCCGTATTGGGCACTTCGTGTGAAAAATGTTAAGAAATTCATACTAAGTG
Found at i:2257158 original size:117 final size:117
Alignment explanation
Indices: 2256948--2257248 Score: 464
Period size: 117 Copynumber: 2.6 Consensus size: 117
2256938 GTATGAATTT
* * * *
2256948 TATGAATTTCCGTATTGCGTACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAA
1 TATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAA
2257013 TTTCCGTTTGGGCACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
66 TTTCCGTTTGGGCACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
* *
2257065 TATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTACGTGTATGAA
1 TATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAA
* *
2257130 TTTCCTTATTGGTCACTTCGTGTG-AAAAATGTTAAGAAATTCATACTAAGTG
66 TTTCCGT-TTGGGCACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
* * *
2257182 TATGAATTTCCGTATTAGGCACTTTGTATGC--AAATCGTTAAGAGATTCATACTAAGTGTATGA
1 TATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAT-GTTAAGAAATTCATACTAAGTGTATGA
2257245 ATTT
65 ATTT
2257249 TCATATGGGA
Statistics
Matches: 169, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
115 4 0.02
116 29 0.17
117 121 0.72
118 15 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (117 bp):
TATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAA
TTTCCGTTTGGGCACTTCGTGTGAAAAAATGTTAAGAAATTCATACTAAGTG
Found at i:2264037 original size:46 final size:45
Alignment explanation
Indices: 2263973--2264097 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 45
2263963 TATAAAATCT
2263973 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAAT-
1 CTTACCATTTAAT-CCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2264017 CATTACCATTTAATCTCATAAGTTTGTAAGCTTATTTTACCAATATA
1 C-TTACCATTTAATC-CATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
2264064 CTTGCCA-TTACTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTAATCCATAAGCTCGTAAGCTTATTT
2264098 GCATGCTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
44 20 0.29
45 15 0.21
46 34 0.49
47 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:2264246 original size:40 final size:40
Alignment explanation
Indices: 2264202--2264403 Score: 350
Period size: 40 Copynumber: 5.0 Consensus size: 40
2264192 ACTGTAGTGC
* *
2264202 TACACATAAGGTCGTGCCTACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2264242 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2264282 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2264322 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2264362 TACACATAAGGTCTTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2264402 TA
1 TA
2264404 TAAACTTGCA
Statistics
Matches: 156, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2271403 original size:44 final size:45
Alignment explanation
Indices: 2271285--2271404 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 45
2271275 AATCTCTTAC
* *
2271285 CATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATCATTAT
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATCATTAT
* * * *
2271330 CATTTAATCTCATAAGATCGTAAGCTTATTTTACCAATAT-ACTTGT
1 CATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATCA-TTAT
2271376 CA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CATTTATTCCATAAGCTCGTAAGCTTATTT
2271405 GCATGCTTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
44 20 0.31
45 13 0.20
46 32 0.49
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (45 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATCATTAT
Found at i:2271553 original size:40 final size:40
Alignment explanation
Indices: 2271509--2271590 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
2271499 ACCGTAGTGC
2271509 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2271549 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2271589 TA
1 TA
2271591 TAAACCTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2272312 original size:44 final size:45
Alignment explanation
Indices: 2272194--2272313 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 45
2272184 AATCTCTTAC
*
2272194 CATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATCATTAT
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATCATTAT
* * * *
2272239 CATTTAATCTCATAAGATCGTAAGCTTATTTTACCAATAT-ACTTGT
1 CATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATCA-TTAT
2272285 CA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CATTTATTCCATAAGCTCGTAAGCTTATTT
2272314 GCATGCTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 20 0.30
45 13 0.20
46 33 0.50
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (45 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATCATTAT
Found at i:2272473 original size:40 final size:40
Alignment explanation
Indices: 2272418--2272499 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
2272408 ACCGTAGTGC
2272418 TACACATAAGGTCGTGCCCACCATATACACCAAAATGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAATGTAT
* *
2272458 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAATGTAT
2272498 TA
1 TA
2272500 TAAACCTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAATGTAT
Found at i:2275714 original size:2 final size:2
Alignment explanation
Indices: 2275709--2275738 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2275699 ATCACACATC
2275709 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
2275739 TACATACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2275941 original size:30 final size:32
Alignment explanation
Indices: 2275876--2275954 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
2275866 GGCATATGAA
* *
2275876 ATATGTCTCGAAGGACATAGGTAATCCTGTCC
1 ATATGTCTCGAAGGACATAGGTAATACTATCC
*
2275908 ATATGTCT-GAAGGACATAGTTAA-ACTATCC
1 ATATGTCTCGAAGGACATAGGTAATACTATCC
*
2275938 ATATGTCTCGAAAGACA
1 ATATGTCTCGAAGGACA
2275955 GTAACCCTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 13 0.31
31 21 0.50
32 8 0.19
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (32 bp):
ATATGTCTCGAAGGACATAGGTAATACTATCC
Found at i:2280721 original size:30 final size:31
Alignment explanation
Indices: 2280687--2280752 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
2280677 TCCATATGTT
*
2280687 CGAAGAACATAAGTAAT-TGTCTACATGTCC
1 CGAAGAACATAAGTAATCTGTCCACATGTCC
* * *
2280717 CGAAGGACATAGGTAATCCTGTCCATATGTCC
1 CGAAGAACATAAGTAAT-CTGTCCACATGTCC
2280749 CGAA
1 CGAA
2280753 AGACATAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 15 0.50
32 15 0.50
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (31 bp):
CGAAGAACATAAGTAATCTGTCCACATGTCC
Found at i:2280752 original size:32 final size:30
Alignment explanation
Indices: 2280677--2280795 Score: 125
Period size: 31 Copynumber: 3.9 Consensus size: 30
2280667 GAAGGACCTA
* *
2280677 TCCATATGT-TCG-AAGAACATAAGTAATTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTG
* * *
2280706 TCTACATGTCCCGAAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAAGACATAGGTAAT--TG
*
2280738 TCCATATGTCCCGAAAGACATAGGTAAATTA
1 TCCATATGTCCCGAAAGACATAGGT-AATTG
*
2280769 TCCATATGTCTCGAAAGACATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
2280796 CCCTCGACTC
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
29 7 0.09
30 14 0.19
31 27 0.36
32 24 0.32
33 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (30 bp):
TCCATATGTCCCGAAAGACATAGGTAATTG
Found at i:2291545 original size:18 final size:17
Alignment explanation
Indices: 2291509--2291547 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
2291499 TAAATTATTT
*
2291509 TTTAATTTAATTAATAA
1 TTTAATTTAAATAATAA
2291526 TTTAATTTAAATATATAA
1 TTTAATTTAAATA-ATAA
2291544 TTTA
1 TTTA
2291548 TGGAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAATTTAAATAATAA
Found at i:2292286 original size:2 final size:2
Alignment explanation
Indices: 2292279--2292309 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2292269 ACTTCAATTT
*
2292279 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2292310 TTTTTTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2295648 original size:25 final size:25
Alignment explanation
Indices: 2295614--2295672 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
2295604 TTGATTGAAT
2295614 TTTTTATAAGTTTAAGGATAAAATTA
1 TTTTT-TAAGTTTAAGGATAAAATTA
* ** *
2295640 TTTTTTAAGTTTAATGATTTATTTA
1 TTTTTTAAGTTTAAGGATAAAATTA
2295665 TTTTTTAA
1 TTTTTTAA
2295673 ATTAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTTTAAGTTTAAGGATAAAATTA
Found at i:2295688 original size:16 final size:16
Alignment explanation
Indices: 2295667--2295700 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2295657 TTTATTTATT
*
2295667 TTTTAAATTAAAATTA
1 TTTTAAATTAAAAGTA
2295683 TTTTAAATTAAAAGTA
1 TTTTAAATTAAAAGTA
2295699 TT
1 TT
2295701 AAAATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTTAAATTAAAAGTA
Found at i:2295760 original size:28 final size:28
Alignment explanation
Indices: 2295729--2295794 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
2295719 AACATTGAAA
* * *
2295729 ATATTAAAAATAATATATATATATATAT
1 ATATTAAAAATAATAAAAATATATAAAT
* *
2295757 ATATTAAAAATATTAAAAATATGTAAAT
1 ATATTAAAAATAATAAAAATATATAAAT
2295785 ATATTAAAAA
1 ATATTAAAAA
2295795 AACTATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
ATATTAAAAATAATAAAAATATATAAAT
Found at i:2295774 original size:8 final size:8
Alignment explanation
Indices: 2295689--2295793 Score: 59
Period size: 9 Copynumber: 11.9 Consensus size: 8
2295679 ATTATTTTAA
2295689 ATTAAAAGT
1 ATTAAAA-T
2295698 ATTAAAAT
1 ATTAAAAT
*
2295706 ATTTAAAAA
1 A-TTAAAAT
2295715 ATTAAACAT
1 ATTAAA-AT
*
2295724 -TGAAAAT
1 ATTAAAAT
2295731 ATTAAAAAT
1 ATT-AAAAT
* *
2295740 AATATATAT
1 ATTA-AAAT
*
2295749 ATATATATAT
1 AT-TA-AAAT
2295759 ATTAAAAAT
1 ATT-AAAAT
2295768 ATTAAAAAT
1 ATT-AAAAT
2295777 ATGTAAATAT
1 AT-TAAA-AT
2295787 ATTAAAA
1 ATTAAAA
2295794 AAACTATAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
7 2 0.03
8 14 0.18
9 48 0.61
10 15 0.19
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (8 bp):
ATTAAAAT
Found at i:2296298 original size:18 final size:18
Alignment explanation
Indices: 2296275--2296309 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2296265 AGACGAGTGA
*
2296275 CATCTTGATCTGTTGTGC
1 CATCTTGATATGTTGTGC
2296293 CATCTTGATATGTTGTG
1 CATCTTGATATGTTGTG
2296310 GCGGTGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (18 bp):
CATCTTGATATGTTGTGC
Found at i:2296425 original size:23 final size:22
Alignment explanation
Indices: 2296377--2296439 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
2296367 AAACATGCTA
* *
2296377 AAAAGCATAAAAAACGTGTCAT
1 AAAAGCATATAAAACGTGCCAT
2296399 -AAAGCATATGAAAACGTGCCAT
1 AAAAGCATAT-AAAACGTGCCAT
*
2296421 AAAAGCAGATAAAACGTGC
1 AAAAGCATATAAAACGTGC
2296440 AACACATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 8 0.22
22 20 0.56
23 8 0.22
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (22 bp):
AAAAGCATATAAAACGTGCCAT
Found at i:2303082 original size:25 final size:25
Alignment explanation
Indices: 2303048--2303102 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
2303038 CATAAACACA
*
2303048 TTAGCAAATGTTTCGAACCAGGGCC
1 TTAGAAAATGTTTCGAACCAGGGCC
2303073 TTAGAAAATGTTTCGAACCAGGGCC
1 TTAGAAAATGTTTCGAACCAGGGCC
2303098 TTAGA
1 TTAGA
2303103 GATTACTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
TTAGAAAATGTTTCGAACCAGGGCC
Found at i:2306299 original size:114 final size:113
Alignment explanation
Indices: 2305958--2306793 Score: 682
Period size: 114 Copynumber: 7.4 Consensus size: 113
2305948 ATGATAAAAG
* * * * * ** ** *
2305958 ATCTTAATTATTCATGTCTTGTTGTTTTTAGTGGAATATCAGACAAATCAAAACTTCTTTCATAT
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCACTCAAATCAAAACTTATTTCATAT
*
2306023 TGAATGAAAAATCTTATGTGATACAATAATAATTTCAAATGACAGAGA
66 TGAATGAAAAATCTTATCTGATACAATAATAATTTCAAATGACAGAGA
* * * * ** *
2306071 ATATTAATTATTCACGTCATGTTATTTTCAGTGAAATATCACATC-AAGGAAAACTTATTTTATA
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCAC-TCAAATCAAAACTTATTTCATA
* * * *
2306135 TAGAAT-AAAATTTCTTATCTAATACAATAATAATTTTAAATGACAGAGA
65 TTGAATGAAAA-ATCTTATCTGATACAATAATAATTTCAAATGACAGAGA
** * * * **
2306184 ATCTTAACTATTCATATCATGATATTTTCAGTGAAATATCACGTCAAATCAGAAA-TCGTTTCAT
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCAC-TCAAATCA-AAACTTATTTCAT
*** *
2306248 ATTGAATGAAGTTTCTTATCCT-ATACAATAATAATTTCAAATGACAAAGA
64 ATTGAATGAAAAATCTTAT-CTGATACAATAATAATTTCAAATGACAGAGA
** * *
2306298 ATCTTAACTATT-ATATCC--TT-TTTT-AGTCAATTATCACCTCAAAT-AAGAACTTAGTTCAT
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCA-CTCAAATCAA-AACTTATTTCAT
* * * *
2306357 ATTGATTGAAAAATATTAT-TTAGTACATTAATAATTTCAAATGACAGAGA
64 ATTGAATGAAAAATCTTATCTGA-TACAATAATAATTTCAAATGACAGAGA
* * * *
2306407 GTCTTGACTATTCACGTCCTTTTCA-TTTCATTCAAATATCATCTCAAATCAAAACTTATTTCAT
1 ATCTTAACTATTCACGTCCTGTT-ATTTTCAGTCAAATATCA-CTCAAATCAAAACTTATTTCAT
* * * * *
2306471 AGTGAATGAAAAATCCTATATGATACAATAATAATATCAAATGACAAAGA
64 ATTGAATGAAAAATCTTATCTGATACAATAATAATTTCAAATGACAGAGA
* * * * *
2306521 ATCTTAACTATTTACGTCCTTTTCTTTTCAGTCAAATATCATCTCAAATTAGAACTTATTTCATA
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCA-CTCAAATCAAAACTTATTTCATA
* *
2306586 TTGAATGAAAAATGTTATTTTG-TACAATAATAATTTCAAATGACAGAGA
65 TTGAATGAAAAATCTTA-TCTGATACAATAATAATTTCAAATGACAGAGA
* * * * * * * * * * * *
2306635 ACCTTAACAATTTACATCCTTTTCTTTTAAGTTAAATATCACCTTAAATTAAAACCTATTTTATA
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCA-CTCAAATCAAAACTTATTTCATA
* * * *
2306700 TTGAAT-AGAAATCTTATCCT--T--TATAATAATTTCAAATGACAAATA
65 TTGAATGAAAAATCTTAT-CTGATACAATAATAATTTCAAATGACAGAGA
* * * ** * * *
2306745 GTTTTAACAATTCATTTCCTTTTCTTTTCAGTCACATATCACCTCAAAT
1 ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCA-CTCAAAT
2306794 TAGAACTTTC
Statistics
Matches: 599, Mismatches: 102, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
107 2 0.00
108 4 0.01
109 71 0.12
110 69 0.12
111 1 0.00
112 8 0.01
113 145 0.24
114 285 0.48
115 14 0.02
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (113 bp):
ATCTTAACTATTCACGTCCTGTTATTTTCAGTCAAATATCACTCAAATCAAAACTTATTTCATAT
TGAATGAAAAATCTTATCTGATACAATAATAATTTCAAATGACAGAGA
Found at i:2306471 original size:223 final size:225
Alignment explanation
Indices: 2305992--2306801 Score: 784
Period size: 223 Copynumber: 3.6 Consensus size: 225
2305982 TTTTTAGTGG
** * *
2305992 AATATCAGACAAATCAAAACTTCTTTCATATTGAATGAAAAATCTTATGTGATACAATAATAATT
1 AATATCACTCAAATCAAAACTTATTTCATATTGAATGAAAAATCTTATCTGATACAATAATAATT
* * * ** * * * * **
2306057 TCAAATGACAGAGAATATTAATTATTCACGTCATGTTATTTTCAGTGAAATATCACATCAAGGAA
66 TCAAATGACAAAGAATCTTAACTATTCATATCCT-TTCTTTTCAGTCAAATATCACCTCAAATAA
* * * * * * *
2306122 -AACTTATTTTATATAGAAT-AAAATTTCTTATCTAATACAATAATAATTTTAAATGACAGAGAA
130 GAACTTATTTCATATTGAATGAAAA-ATATTATTTAGTACAATAATAATTTCAAATGACAGAGAA
* * ** *
2306185 TCTTAACTATTCATATCATGAT-ATTTTCAGTGA
194 TCTTAACTATTCACATCCTTTTCA-TTTCA-TTA
** ***
2306218 AATATCACGTCAAATCAGAAA-TCGTTTCATATTGAATGAAGTTTCTTATCCT-ATACAATAATA
1 AATATCAC-TCAAATCA-AAACTTATTTCATATTGAATGAAAAATCTTAT-CTGATACAATAATA
*
2306281 ATTTCAAATGACAAAGAATCTTAACTATT-ATATCC-TT-TTTT-AGTCAATTATCACCTCAAAT
63 ATTTCAAATGACAAAGAATCTTAACTATTCATATCCTTTCTTTTCAGTCAAATATCACCTCAAAT
* * *
2306342 AAGAACTTAGTTCATATTGATTGAAAAATATTATTTAGTACATTAATAATTTCAAATGACAGAGA
128 AAGAACTTATTTCATATTGAATGAAAAATATTATTTAGTACAATAATAATTTCAAATGACAGAGA
* * *
2306407 GTCTTGACTATTCACGTCCTTTTCATTTCATTCA
193 ATCTTAACTATTCACATCCTTTTCATTTCATT-A
* * *
2306441 AATATCATCTCAAATCAAAACTTATTTCATAGTGAATGAAAAATCCTATATGATACAATAATAAT
1 AATATCA-CTCAAATCAAAACTTATTTCATATTGAATGAAAAATCTTATCTGATACAATAATAAT
* * ** * *
2306506 ATCAAATGACAAAGAATCTTAACTATTTACGTCCTTTTCTTTTCAGTCAAATATCATCTCAAATT
65 TTCAAATGACAAAGAATCTTAACTATTCATATCC-TTTCTTTTCAGTCAAATATCACCTCAAATA
* *
2306571 AGAACTTATTTCATATTGAATGAAAAATGTTATTTTGTACAATAATAATTTCAAATGACAGAGAA
129 AGAACTTATTTCATATTGAATGAAAAATATTATTTAGTACAATAATAATTTCAAATGACAGAGAA
* * * * *
2306636 CCTTAACAATTTACATCCTTTTCTTTTAAGTTA
194 TCTTAACTATTCACATCCTTTTCATTTCA-TTA
* * * * * *
2306669 AATATCACCTTAAATTAAAACCTATTTTATATTGAAT-AGAAATCTTATCCT--T--TATAATAA
1 AATATCA-CTCAAATCAAAACTTATTTCATATTGAATGAAAAATCTTAT-CTGATACAATAATAA
* * * * * *
2306729 TTTCAAATGACAAATAGTTTTAACAATTCATTTCCTTTTCTTTTCAGTCACATATCACCTCAAAT
64 TTTCAAATGACAAAGAATCTTAACTATTCATATCC-TTTCTTTTCAGTCAAATATCACCTCAAAT
*
2306794 TAGAACTT
128 AAGAACTT
2306802 TCAGTGATAT
Statistics
Matches: 483, Mismatches: 84, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
222 22 0.05
223 148 0.31
224 82 0.17
226 13 0.03
227 80 0.17
228 136 0.28
229 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (225 bp):
AATATCACTCAAATCAAAACTTATTTCATATTGAATGAAAAATCTTATCTGATACAATAATAATT
TCAAATGACAAAGAATCTTAACTATTCATATCCTTTCTTTTCAGTCAAATATCACCTCAAATAAG
AACTTATTTCATATTGAATGAAAAATATTATTTAGTACAATAATAATTTCAAATGACAGAGAATC
TTAACTATTCACATCCTTTTCATTTCATTA
Found at i:2306630 original size:337 final size:337
Alignment explanation
Indices: 2306016--2306657 Score: 767
Period size: 337 Copynumber: 1.9 Consensus size: 337
2306006 CAAAACTTCT
* *
2306016 TTCATATTGAATGAAAAATCTTATGTGATACAATAATAATTTCAAATGACAGAGAATATTAATTA
1 TTCATATTGAATGAAAAATATTATGTGATACAATAATAATTTCAAATGACAGAGAATATTAACTA
* * *
2306081 TTCACGTCATGTTATTTTCAGTGAAATATCACATCAAGGAAAACTTATTTTATATAGAATAAAAT
66 TTCACGTCATGTTATTTTCAGTCAAATATCACATCAAGCAAAACTTATTTCATATAGAATAAAAT
* * * * * * *
2306146 TTCTTATCTAATACAATAATAATTTTAAATGACAGAGAATCTTAACTATTCATATCATGATATTT
131 ATCCTATATAATACAATAATAATATCAAATGACAAAGAATCTTAACTATTCACATCATGATATTT
* * ***
2306211 TCAGTGAAATATCACGTCAAATCAGAAATCGTTTCATATTGAATGAAGTTTCTTATCCTATACAA
196 TCAGTCAAATATCACGTCAAATCAGAAATCATTTCATATTGAATGAAAAATCTTATCCTATACAA
* * *
2306276 TAATAATTTCAAATGACAAAGAATCTTAACTA-TTATATCCTTTTTTAGTCAATTATCACCTCAA
261 TAATAATTTCAAATGACAAAGAACCTTAACAATTTACATCCTTTTTTAGTCAATTATCACCTCAA
2306340 ATAAGAACTTAG
326 ATAAGAACTTAG
* * * * * *
2306352 TTCATATTGATTGAAAAATATTAT-TTAGTACATTAATAATTTCAAATGACAGAGAGTCTTGACT
1 TTCATATTGAATGAAAAATATTATGTGA-TACAATAATAATTTCAAATGACAGAGAATATTAACT
* * * *
2306416 ATTCACGTCCTTTTCA-TTTCATTCAAATATCATC-TCAAATCAAAACTTATTTCATAGT-GAAT
65 ATTCACGTCATGTT-ATTTTCAGTCAAATATCA-CATC-AAGCAAAACTTATTTCATA-TAGAAT
* * * * *
2306478 GAAAA-ATCCTATATGATACAATAATAATATCAAATGACAAAGAATCTTAACTATTTACGTCCTT
126 -AAAATATCCTATATAATACAATAATAATATCAAATGACAAAGAATCTTAACTATTCACATCATG
* * * * * * **
2306542 TTCTTTTCAGTCAAATATCATC-TCAAATTAGAACTTATTTCATATTGAATGAAAAATGTTATTT
190 ATATTTTCAGTCAAATATCA-CGTCAAATCAGAAATCATTTCATATTGAATGAAAAATCTTATCC
* *
2306606 TGTACAATAATAATTTCAAATGACAGAGAACCTTAACAATTTACATCCTTTT
254 TATACAATAATAATTTCAAATGACAAAGAACCTTAACAATTTACATCCTTTT
2306658 CTTTTAAGTT
Statistics
Matches: 253, Mismatches: 45, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
335 2 0.01
336 81 0.32
337 153 0.60
338 17 0.07
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (337 bp):
TTCATATTGAATGAAAAATATTATGTGATACAATAATAATTTCAAATGACAGAGAATATTAACTA
TTCACGTCATGTTATTTTCAGTCAAATATCACATCAAGCAAAACTTATTTCATATAGAATAAAAT
ATCCTATATAATACAATAATAATATCAAATGACAAAGAATCTTAACTATTCACATCATGATATTT
TCAGTCAAATATCACGTCAAATCAGAAATCATTTCATATTGAATGAAAAATCTTATCCTATACAA
TAATAATTTCAAATGACAAAGAACCTTAACAATTTACATCCTTTTTTAGTCAATTATCACCTCAA
ATAAGAACTTAG
Found at i:2308924 original size:19 final size:18
Alignment explanation
Indices: 2308892--2308927 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2308882 TATATCAGTC
2308892 TAGGGGTATCGATACCAG
1 TAGGGGTATCGATACCAG
*
2308910 TAGGTGGTATTGATACCA
1 TAGG-GGTATCGATACCA
2308928 AAATTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (18 bp):
TAGGGGTATCGATACCAG
Found at i:2310869 original size:22 final size:23
Alignment explanation
Indices: 2310822--2310878 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
2310812 AATTAACTAC
*
2310822 TATTGTTATTTCATTTCTAATAT
1 TATTGTTATTTAATTTCTAATAT
*
2310845 TATTGTTATTTAATTT-TCATAT
1 TATTGTTATTTAATTTCTAATAT
2310867 TATT-TCTATTTA
1 TATTGT-TATTTA
2310879 TCTTCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 15 0.48
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (23 bp):
TATTGTTATTTAATTTCTAATAT
Found at i:2313149 original size:112 final size:112
Alignment explanation
Indices: 2312952--2313154 Score: 307
Period size: 112 Copynumber: 1.8 Consensus size: 112
2312942 TGTATGATAA
* ** * * **
2312952 TATCGATCGATTTTTTTTAATGAATAACGGTGCATTTTCGGCATAAAATGTGCCTTCCATGGTAT
1 TATCGATCAATTTTACTTAATGAATAACGGTGCATTTTCGACATAAAAGGTGCCACCCATGGTAT
2313017 TCATAATGAAGTGAATTACCATTTCGGCATAATTCGTGTATGAAAGT
66 TCATAATGAAGTGAATTACCATTTCGGCATAATTCGTGTATGAAAGT
* *
2313064 TATCGATCAATTTTACTTAATGCATAACGGTGCATTTTTGACATAAAAGGTGCCACCCATGGTAT
1 TATCGATCAATTTTACTTAATGAATAACGGTGCATTTTCGACATAAAAGGTGCCACCCATGGTAT
* *
2313129 TCATAATGAGGTGAGTTACCATTTCG
66 TCATAATGAAGTGAATTACCATTTCG
2313155 ACACTTCGGT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (112 bp):
TATCGATCAATTTTACTTAATGAATAACGGTGCATTTTCGACATAAAAGGTGCCACCCATGGTAT
TCATAATGAAGTGAATTACCATTTCGGCATAATTCGTGTATGAAAGT
Found at i:2315082 original size:30 final size:30
Alignment explanation
Indices: 2315046--2315178 Score: 230
Period size: 30 Copynumber: 4.4 Consensus size: 30
2315036 TCCGAAGGAC
*
2315046 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2315076 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2315106 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2315136 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
2315166 CTGTCCAAAGGTC
1 CTATCCAGAGGTC
2315179 TCGAAGGACC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 98 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2315195 original size:60 final size:60
Alignment explanation
Indices: 2315046--2315203 Score: 212
Period size: 60 Copynumber: 2.6 Consensus size: 60
2315036 TCCGAAGGAC
* *
2315046 CTATCCAGAGGTCATAAAGATCCTTGGTAACTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTAGGTAACTATCCAAAGGTCATAAAGATCCTCGGTAA
* * *
2315106 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTAGGTAACTATCCAAAGGTCATAAAGATCCTCGGTAA
* *
2315166 CTGTCCAAAGGTC-TCGAAGGA-CCTAGGTAAACTATCCA
1 CTATCCAAAGGTCAT--AAAGATCCTAGGT-AACTATCCA
2315204 TATGTTCCTT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
59 1 0.01
60 75 0.84
61 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (60 bp):
CTATCCAAAGGTCATAAAGATCCTAGGTAACTATCCAAAGGTCATAAAGATCCTCGGTAA
Found at i:2315252 original size:31 final size:30
Alignment explanation
Indices: 2315161--2315256 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
2315151 AAAGATCCTC
* * * *
2315161 GGTAACTGTCCAAAGGTCTCGAAGGACCTA
1 GGTAACTGTCCATATGTCTCGAAAGACATA
* ***
2315191 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCTCGAAAG-ACATA
2315222 GGTATACTGTCCATATGTCTCGAAAGACATA
1 GGTA-ACTGTCCATATGTCTCGAAAGACATA
2315253 GGTA
1 GGTA
2315257 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
30 7 0.14
31 39 0.78
32 4 0.08
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAAGACATA
Found at i:2315440 original size:4 final size:4
Alignment explanation
Indices: 2315431--2315463 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2315421 ATATAACCAT
2315431 TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA T
2315464 GTCATCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:2316419 original size:64 final size:63
Alignment explanation
Indices: 2316345--2316485 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
2316335 CTTTAGCATG
* * * *
2316345 TGCATCGATGCACAAATCACCTTCGATGTTTTCATTTTAAGGGGATGCATCGATGCAC-TCCTTA
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGG-TGCATCGATCCACTTCC-TA
* ** * *
2316409 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGGTGCATCGATCCACTTCCTG
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATCCACTTCCTA
*
2316472 TGCATCGATACACA
1 TGCATCGATGCACA
2316486 CTGAACAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 25 0.38
64 40 0.62
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATCCACTTCCTA
Found at i:2317382 original size:58 final size:58
Alignment explanation
Indices: 2317320--2317437 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
2317310 AATGAACATA
* *
2317320 AACGAGGGTATGTTCATGTTCGTTTGTTTAACTTTAACCAAACAAATGAACGAACACG
1 AACGAGGGTATGTTCATGTTCGTTTATTTAACTTTAACCAAACAAACGAACGAACACG
* *
2317378 AACGAGGGTATGTTCATGTTCGTTTATTTAACTTTAACCAAACAAACGAATGACCACG
1 AACGAGGGTATGTTCATGTTCGTTTATTTAACTTTAACCAAACAAACGAACGAACACG
2317436 AA
1 AA
2317438 TAACTAAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (58 bp):
AACGAGGGTATGTTCATGTTCGTTTATTTAACTTTAACCAAACAAACGAACGAACACG
Found at i:2317563 original size:14 final size:14
Alignment explanation
Indices: 2317546--2317580 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2317536 CAAATAAACA
*
2317546 AACATAAAGGAACG
1 AACATAAACGAACG
*
2317560 AACATAAACGAATG
1 AACATAAACGAACG
2317574 AACATAA
1 AACATAA
2317581 GATTAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.11
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:2322223 original size:23 final size:23
Alignment explanation
Indices: 2322197--2322269 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
2322187 TCATGTAAAA
*
2322197 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
2322220 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2322243 ATATAATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
2322266 ATAT
1 ATAT
2322270 TGTAAAGTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2323165 original size:20 final size:19
Alignment explanation
Indices: 2323125--2323165 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2323115 TTTGGTAAAA
* *
2323125 TTACTTAAAAATTATTTTT
1 TTACTTAAAAATTAATATT
2323144 TTACTTAAAACATTAATATT
1 TTACTTAAAA-ATTAATATT
2323164 TT
1 TT
2323166 TTTAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTACTTAAAAATTAATATT
Found at i:2330276 original size:40 final size:40
Alignment explanation
Indices: 2330111--2330260 Score: 255
Period size: 40 Copynumber: 3.8 Consensus size: 40
2330101 ACAGTAGTGC
*
2330111 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
* *
2330151 TACACATAAGGTTGTACCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
2330191 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
* *
2330231 TACACATAAGGTCATGCCCACCATATACAC
1 TACACATAAGGTCGTACCCACCATATACAC
2330261 TTAGTGTCCT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
Found at i:2330612 original size:24 final size:24
Alignment explanation
Indices: 2330580--2330627 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2330570 GACTTCCTGG
2330580 TGATGTATAAAACATCTATGTACA
1 TGATGTATAAAACATCTATGTACA
2330604 TGATGTATAAAACATCTATGTACA
1 TGATGTATAAAACATCTATGTACA
2330628 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
TGATGTATAAAACATCTATGTACA
Found at i:2331382 original size:19 final size:19
Alignment explanation
Indices: 2331354--2331399 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2331344 TTTGATTCGA
*
2331354 TTCAAGCATGAAATTAATT
1 TTCAATCATGAAATTAATT
2331373 TTCAATCATGAAATTAATT
1 TTCAATCATGAAATTAATT
2331392 TTCAATCA
1 TTCAATCA
2331400 ACCTTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (19 bp):
TTCAATCATGAAATTAATT
Found at i:2332243 original size:28 final size:29
Alignment explanation
Indices: 2332204--2332259 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
2332194 TTTAGTCCCT
* * *
2332204 AAACTTTTCAAAGT-TTATACTTTGGTCC
1 AAACTTTACAAAATCTTATAATTTGGTCC
2332232 AAACTTTACAAAATCTTATAATTTGGTC
1 AAACTTTACAAAATCTTATAATTTGGTC
2332260 ACTCACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (29 bp):
AAACTTTACAAAATCTTATAATTTGGTCC
Found at i:2337636 original size:40 final size:40
Alignment explanation
Indices: 2337581--2337730 Score: 255
Period size: 40 Copynumber: 3.8 Consensus size: 40
2337571 ATCGTAGTGC
*
2337581 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2337621 TACACATAAGGTCGTGCCCACTATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
2337661 TACACATAAGGTCGTTCCCACCATATACACCAAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2337701 TACACATAAGGTCGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
2337731 TTAGTGTCCT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2338083 original size:24 final size:24
Alignment explanation
Indices: 2338051--2338118 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
2338041 CTTCCTGGTA
*
2338051 ATGTATAAAACATCTATGTACATT
1 ATGTATAAAACATCTATGTACATG
*
2338075 ATGTATAAAACATTTATGTACATG
1 ATGTATAAAACATCTATGTACATG
2338099 ATGTATAAAACATCTATGTA
1 ATGTATAAAACATCTATGTA
2338119 TAATGTCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (24 bp):
ATGTATAAAACATCTATGTACATG
Found at i:2361060 original size:34 final size:36
Alignment explanation
Indices: 2361016--2361117 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
2361006 TTTCGTCCTA
*
2361016 CTAGGATTCAAACTCTTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
* *
2361051 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
2361086 GCTAGGATTCAAACTCCTAAAAATATGATAGA
1 -CTAGGATTCAAACTCCTAAAAATATGATAGA
2361118 GTTCTACTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
Found at i:2361707 original size:59 final size:59
Alignment explanation
Indices: 2361651--2361763 Score: 133
Period size: 57 Copynumber: 1.9 Consensus size: 59
2361641 TTATTTTACT
*
2361651 TATATAT-ATATACTTTTATTTTTTTATA-TATTTTAC-TCATTTATTTATCTATTTTTA
1 TATATATCATATA-TTTTATGTTTTTATATTATTTTACTTCATTTATTTATCTATTTTTA
* * * ** *
2361708 TATTTATCCTATATTTTATGTTTTTATATTCTTTTACTTGTTTTATTTATTTATTT
1 TATATATCATATATTTTATGTTTTTATATTATTTTACTTCATTTATTTATCTATTT
2361764 GCATTATCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 20 0.43
58 11 0.24
59 15 0.33
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (59 bp):
TATATATCATATATTTTATGTTTTTATATTATTTTACTTCATTTATTTATCTATTTTTA
Found at i:2361713 original size:16 final size:18
Alignment explanation
Indices: 2361692--2361726 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2361682 TTTACTCATT
2361692 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2361708 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2361726 T
1 T
2361727 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2364953 original size:24 final size:25
Alignment explanation
Indices: 2364925--2364987 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
2364915 GAAAAGAAGC
2364925 AAAAAAGCAAAAAA-AA-AAAACAA
1 AAAAAAGCAAAAAAGAACAAAACAA
*
2364948 AGAAAAAG-AGAAAAAGAACAAAAGAA
1 A-AAAAAGCA-AAAAAGAACAAAACAA
2364974 AAAAAGAGCAAAAA
1 AAAAA-AGCAAAAA
2364988 TCAAAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
23 2 0.06
24 11 0.33
25 6 0.18
26 13 0.39
27 1 0.03
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (25 bp):
AAAAAAGCAAAAAAGAACAAAACAA
Found at i:2364986 original size:8 final size:8
Alignment explanation
Indices: 2364909--2364980 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
2364899 AATCAAGAAC
2364909 AAAAAAGA
1 AAAAAAGA
* *
2364917 AAAGAAGC
1 AAAAAAGA
2364925 AAAAAAGCA
1 AAAAAAG-A
2364934 AAAAAA-A
1 AAAAAAGA
2364941 AAAACAA-A
1 AAAA-AAGA
*
2364949 GAAAAAGA
1 AAAAAAGA
*
2364957 GAAAAAGA
1 AAAAAAGA
*
2364965 ACAAAAGA
1 AAAAAAGA
2364973 AAAAAAGA
1 AAAAAAGA
2364981 GCAAAAATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
7 7 0.13
8 40 0.75
9 6 0.11
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:2365664 original size:22 final size:22
Alignment explanation
Indices: 2365637--2365707 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
2365627 CCATTAATCT
*
2365637 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
2365659 TTTGAGCATCAAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
*
2365681 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGTCAAACC
2365703 TTTGA
1 TTTGA
2365708 CCAAACACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (22 bp):
TTTGAGCATCAAATGTCAAACC
Found at i:2366145 original size:18 final size:18
Alignment explanation
Indices: 2366122--2366157 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2366112 TCAACATCAA
* *
2366122 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
2366140 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
2366158 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:2366680 original size:36 final size:36
Alignment explanation
Indices: 2366637--2366918 Score: 285
Period size: 36 Copynumber: 8.0 Consensus size: 36
2366627 ACTAGAAGAG
2366637 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2366673 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
2366709 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
2366745 TTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
2366781 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
2366810 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
2366847 TTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2366882 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2366919 ACCTTTGAAT
Statistics
Matches: 201, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.01
29 18 0.09
30 2 0.01
35 6 0.03
36 139 0.69
37 33 0.16
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:2366680 original size:71 final size:72
Alignment explanation
Indices: 2366595--2366918 Score: 249
Period size: 72 Copynumber: 4.6 Consensus size: 72
2366585 GTTTTTCTTA
* * * * * *
2366595 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAG-TTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
2366657 TTTCCCTTG
64 TTTCCCTTG
* *
2366666 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTT
2366731 TCCCTTG
66 TCCCTTG
* * * * *
2366738 AAATAAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAA------ATAT-TTGA-ATATGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-GT
* *
2366795 TTTCTTTG
65 TTCCCTTG
** * ** * * * * * *
2366803 AAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAAAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAGT
*
2366868 TTCTCTTG
65 TTCCCTTG
* * *
2366876 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTCACTAGAAACAAA
2366919 ACCTTTGAAT
Statistics
Matches: 201, Mismatches: 38, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 44 0.22
66 5 0.02
70 8 0.04
71 25 0.12
72 76 0.38
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGTT
TCCCTTG
Found at i:2366876 original size:102 final size:102
Alignment explanation
Indices: 2366693--2366881 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
2366683 CTTGAGACAG
* *
2366693 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
*
2366758 GAGATAGTTTCACTTGAAACAAAATATTTGAATATGT
66 GAGAAAGTTTCACTTGAAACAAAATATTTGAATATGT
* ** * *
2366795 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
2366859 TGAGAAAGTTTCTCTTGAAACAA
65 TGAGAAAGTTTCACTTGAAACAA
2366882 TTTTCGTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 33 0.43
102 44 0.57
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGAAAGTTTCACTTGAAACAAAATATTTGAATATGT
Found at i:2366912 original size:138 final size:137
Alignment explanation
Indices: 2366657--2366981 Score: 409
Period size: 138 Copynumber: 2.4 Consensus size: 137
2366647 CTTGAGACAG
*
2366657 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* * * *
2366722 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATATTT
66 GAGAAAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCACTTGAAACAAAACATTT
*
2366787 GAATATG
131 GAATATA
* * ** * * * * *
2366794 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * * *
2366859 TGAGAAAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGAAAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCACTTGAAACAAAACAT
*
2366923 TTGAATTTA
129 TTGAATATA
* * * *
2366932 TTTCCCCTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2366982 CAAAATCTTT
Statistics
Matches: 156, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
137 49 0.31
138 107 0.69
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGAAAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCACTTGAAACAAAACATTT
GAATATA
Found at i:2367011 original size:67 final size:68
Alignment explanation
Indices: 2366893--2367049 Score: 212
Period size: 68 Copynumber: 2.4 Consensus size: 68
2366883 TTTCGTCTAT
* *
2366893 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTATC
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTTAAATTTATTTCCCCTAAAACATAATTTTATC
2366955 TCC
66 TCC
* * * * *
2366958 CTTGAGACAGTTACTCTTGAAACACAAAATCTTTAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTTAAATTTATTTCCCCTAAAACATAATTTTATC
2367023 TCC
66 TCC
* *
2367026 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
2367050 ACAGATATCT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 29 0.37
68 31 0.39
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTTAAATTTATTTCCCCTAAAACATAATTTTATC
TCC
Found at i:2367878 original size:105 final size:105
Alignment explanation
Indices: 2367693--2368629 Score: 1481
Period size: 105 Copynumber: 9.0 Consensus size: 105
2367683 GCACTCGAGG
* * * * *
2367693 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
2367758 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2367799 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
2367864 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2367904 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
2367969 GCCAATTTCAACTTTACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2368009 CAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2368074 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2368114 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2368179 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
2368219 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2368284 GCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
2368324 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2368389 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2368429 CAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
2368489 TTCAATTTCAACTTCATAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * * *
2368529 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
2368594 AGCCAATTTCAACTTCACGAA-GGAGGATATTGGACT
65 AGCCAATTTCAACTTCAC-AACGAAGGATATTGGACT
2368630 TGGAACAATG
Statistics
Matches: 778, Mismatches: 46, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
100 81 0.10
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 609 0.78
106 73 0.09
107 2 0.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:2369221 original size:34 final size:36
Alignment explanation
Indices: 2369177--2369276 Score: 168
Period size: 34 Copynumber: 2.8 Consensus size: 36
2369167 TTTCGTCCTA
2369177 CTAGGATTCAAACTCCTAAAAATATGATAAAA-TTT
1 CTAGGATTCAAACTCCTAAAAATATGATAAAATTTT
*
2369212 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATATGATAAAATTTT
2369247 GCTAGGATTCAAACTCCTAAAAATATGATA
1 -CTAGGATTCAAACTCCTAAAAATATGATA
2369277 GAGTTCTACT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.50
35 3 0.05
37 27 0.45
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATATGATAAAATTTT
Found at i:2369871 original size:16 final size:18
Alignment explanation
Indices: 2369850--2369884 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2369840 TTTACTCATT
2369850 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2369866 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2369884 T
1 T
2369885 GTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2379890 original size:11 final size:11
Alignment explanation
Indices: 2379874--2379915 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
2379864 TTTAATTGAA
2379874 TTATTTATATT
1 TTATTTATATT
2379885 TTATTTATATT
1 TTATTTATATT
*
2379896 TTATCTTAT-TA
1 TTAT-TTATATT
2379907 TTATTTATA
1 TTATTTATA
2379916 AATAGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 20 0.71
12 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTATATT
Found at i:2379911 original size:16 final size:17
Alignment explanation
Indices: 2379873--2379915 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2379863 TTTTAATTGA
*
2379873 ATTATTTATATTTTATT
1 ATTATTTATATCTTATT
2379890 -TATATTT-TATCTTATT
1 AT-TATTTATATCTTATT
2379906 ATTATTTATA
1 ATTATTTATA
2379916 AATAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTATATCTTATT
Found at i:2380087 original size:12 final size:12
Alignment explanation
Indices: 2380055--2380089 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2380045 TAAAAAAAAT
**
2380055 AACTTAGCGGTC
1 AACTTAGCTTTC
2380067 AACTTAGCTTTC
1 AACTTAGCTTTC
2380079 AACTTAGCTTT
1 AACTTAGCTTT
2380090 AGTCGTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (12 bp):
AACTTAGCTTTC
Found at i:2380371 original size:55 final size:55
Alignment explanation
Indices: 2380297--2380413 Score: 157
Period size: 55 Copynumber: 2.1 Consensus size: 55
2380287 AGAATTATTT
* *
2380297 TTTAATAATGATATGATTTAGTAATGA-TT-ACTATTAATAATTTTATATTTAATAA
1 TTTAGTAATGATATGATTTAGTAATGATTTGA-TAATAATAATTTTATATTTAA-AA
* *
2380352 TTTAGTAATGATATGATTTATTAATGATTTGATAATAATGATTTTATATTTAAAA
1 TTTAGTAATGATATGATTTAGTAATGATTTGATAATAATAATTTTATATTTAAAA
2380407 TATTAGT
1 T-TTAGT
2380414 CTTATGATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
55 28 0.51
56 26 0.47
57 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (55 bp):
TTTAGTAATGATATGATTTAGTAATGATTTGATAATAATAATTTTATATTTAAAA
Found at i:2380376 original size:16 final size:16
Alignment explanation
Indices: 2380351--2380384 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2380341 ATATTTAATA
2380351 ATTTAGTAATGATATG
1 ATTTAGTAATGATATG
* *
2380367 ATTTATTAATGATTTG
1 ATTTAGTAATGATATG
2380383 AT
1 AT
2380385 AATAATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTAGTAATGATATG
Found at i:2380433 original size:56 final size:52
Alignment explanation
Indices: 2380297--2380463 Score: 151
Period size: 56 Copynumber: 3.1 Consensus size: 52
2380287 AGAATTATTT
* * * *
2380297 TTTAATAATGATATGATTTAGTAATGATTACTATTAATAATTTTATATTTAATAA
1 TTTAGTAAT-ATATGATTTATTAATGATT--TAATAATGATTTTATATTTAATAA
2380352 TTTAGTAATGATATGATTTATTAATGATTTGATAATAATGATTTTATATTTAA-AA
1 TTTAGTAAT-ATATGATTTATTAATGA-TT--TAATAATGATTTTATATTTAATAA
* * *
2380407 TATTAGT-CT-TATGATTTGATAATAATGATTTAATAGTGATTTTATATTTAATTA
1 T-TTAGTAATATATGATTT-AT--TAATGATTTAATAATGATTTTATATTTAATAA
2380461 TTT
1 TTT
2380464 TATATTTAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
53 30 0.31
54 4 0.04
55 31 0.32
56 32 0.33
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (52 bp):
TTTAGTAATATATGATTTATTAATGATTTAATAATGATTTTATATTTAATAA
Found at i:2380465 original size:15 final size:15
Alignment explanation
Indices: 2380445--2380478 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2380435 TTTAATAGTG
2380445 ATTTTATATTTAATT
1 ATTTTATATTTAATT
2380460 ATTTTATATTTAATT
1 ATTTTATATTTAATT
2380475 ATTT
1 ATTT
2380479 AGTAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTATATTTAATT
Found at i:2380540 original size:116 final size:122
Alignment explanation
Indices: 2380309--2380563 Score: 298
Period size: 124 Copynumber: 2.1 Consensus size: 122
2380299 TAATAATGAT
*
2380309 ATGATTTAGTAATGA--TTACTA-TTAATAATTTTATATTTAATAATTTAGTAATGATATGATTT
1 ATGATTTAATAATGATTTTA-TATTTAATAATTTTATATTTAATAATTTAGTAATGATATGATTT
* * * *
2380371 ATTAATGATTTGATAATAATGATTTTATATTTAAAATATTAGTCTTATGATTTGATAATA
65 AATAATGATATGATAATAATGATTTTATATTT-AAATATTA-TCTAATGATTTGATAAGA
* * *
2380431 ATGATTTAATAGTGATTTTATATTTAATTATTTTATATTTAATTATTTAGTAATGATATGATTTA
1 ATGATTTAATAATGATTTTATATTTAATAATTTTATATTTAATAATTTAGTAATGATATGATTTA
*
2380496 ATAATGA-AT-ACTAATAATGA-TTTAT-TATT-AATA-T-T-TAATGATTTGATACGA
66 ATAATGATATGA-TAATAATGATTTTATAT-TTAAATATTATCTAATGATTTGATAAGA
*
2380547 ATGATTTAGTAATGATT
1 ATGATTTAATAATGATT
2380564 AGTAATAATA
Statistics
Matches: 117, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
116 28 0.24
117 1 0.01
119 1 0.01
120 4 0.03
121 1 0.01
122 21 0.18
123 12 0.10
124 49 0.42
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (122 bp):
ATGATTTAATAATGATTTTATATTTAATAATTTTATATTTAATAATTTAGTAATGATATGATTTA
ATAATGATATGATAATAATGATTTTATATTTAAATATTATCTAATGATTTGATAAGA
Found at i:2380587 original size:52 final size:52
Alignment explanation
Indices: 2380531--2380641 Score: 186
Period size: 52 Copynumber: 2.1 Consensus size: 52
2380521 TATTAATATT
* *
2380531 TAATGATTTGATACGAATGATTTAGTAATGATTAGTAATAATAAAATTATAA
1 TAATGATTTGATACGAATGATTTAGTAATAATTAATAATAATAAAATTATAA
* *
2380583 TAATGATTTGATACTAATGATTTAGTAATAATTAATAATAATGAAATTATAA
1 TAATGATTTGATACGAATGATTTAGTAATAATTAATAATAATAAAATTATAA
2380635 TAATGAT
1 TAATGAT
2380642 CCCATGGACT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (52 bp):
TAATGATTTGATACGAATGATTTAGTAATAATTAATAATAATAAAATTATAA
Found at i:2380636 original size:14 final size:13
Alignment explanation
Indices: 2380556--2380640 Score: 61
Period size: 14 Copynumber: 6.5 Consensus size: 13
2380546 AATGATTTAG
2380556 TAATG-ATTAGTAA
1 TAATGAATTA-TAA
*
2380569 TAATAAAATTATAA
1 TAAT-GAATTATAA
* *
2380583 TAATGATTTGATAC
1 TAATGAATT-ATAA
*
2380597 TAATG-ATT-TAG
1 TAATGAATTATAA
2380608 TAAT-AATTAATAA
1 TAATGAATT-ATAA
2380621 TAATGAAATTATAA
1 TAATG-AATTATAA
2380635 TAATGA
1 TAATGA
2380641 TCCCATGGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
11 9 0.16
13 16 0.28
14 24 0.42
15 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (13 bp):
TAATGAATTATAA
Found at i:2382229 original size:30 final size:32
Alignment explanation
Indices: 2382195--2382272 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 32
2382185 GCCCTTAAAC
*
2382195 AACTAATAAACAATTCTTTT-A-TATAATTTA-
1 AACTAATAAACAATT-TTTTAATTATAATATAT
*
2382225 AACTAATAAACTATTTTTTAATTATAATATAT
1 AACTAATAAACAATTTTTTAATTATAATATAT
*
2382257 TACTAATAAACTAATT
1 AACTAATAAAC-AATT
2382273 AACTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 15 0.38
31 8 0.20
32 10 0.25
33 3 0.08
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (32 bp):
AACTAATAAACAATTTTTTAATTATAATATAT
Found at i:2382438 original size:38 final size:43
Alignment explanation
Indices: 2382348--2382441 Score: 123
Period size: 38 Copynumber: 2.3 Consensus size: 43
2382338 CTAATTAAAT
2382348 TTAAATATTTTTTATATATAACTAACTACTAACAAACAACTAA
1 TTAAATATTTTTTATATATAACTAACTACTAACAAACAACTAA
2382391 TT-AAT-TTTTTTA-ATAT-A-TAACTA-TAA-AAA-AACTAA
1 TTAAATATTTTTTATATATAACTAACTACTAACAAACAACTAA
2382426 TTAAATAATTTTTTAT
1 TTAAAT-ATTTTTTAT
2382442 TTATGTATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
35 8 0.17
36 6 0.13
37 3 0.06
38 13 0.28
39 1 0.02
40 4 0.09
41 7 0.15
42 3 0.06
43 2 0.04
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.44
Consensus pattern (43 bp):
TTAAATATTTTTTATATATAACTAACTACTAACAAACAACTAA
Found at i:2382570 original size:17 final size:18
Alignment explanation
Indices: 2382541--2382574 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2382531 AACAAACTAA
2382541 TAATTTAAAATAATAAAC
1 TAATTTAAAATAATAAAC
2382559 TAATTT-AAATAATAAA
1 TAATTTAAAATAATAAA
2382575 AAACTACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATTTAAAATAATAAAC
Found at i:2382578 original size:20 final size:18
Alignment explanation
Indices: 2382541--2382580 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
2382531 AACAAACTAA
*
2382541 TAATTTAAAATAATAAAC
1 TAATTTAAAATAAAAAAC
2382559 TAATTTAAATAATAAAAAAC
1 TAATTT-AA-AATAAAAAAC
2382579 TA
1 TA
2382581 CCTCACGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATTTAAAATAAAAAAC
Found at i:2383437 original size:56 final size:56
Alignment explanation
Indices: 2383370--2383481 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
2383360 GCTACTGTTT
2383370 CGTCATGGTTCCCTCAATCTTTTTCTATTTATTTGGAAGAACATAGCCTCTTCGAC
1 CGTCATGGTTCCCTCAATCTTTTTCTATTTATTTGGAAGAACATAGCCTCTTCGAC
2383426 CGTCATGGTTCCCTCAATCTTTTTCTATTTATTTGGAAGAACATAGCCTCTTCGAC
1 CGTCATGGTTCCCTCAATCTTTTTCTATTTATTTGGAAGAACATAGCCTCTTCGAC
2383482 TGCAAGAATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (56 bp):
CGTCATGGTTCCCTCAATCTTTTTCTATTTATTTGGAAGAACATAGCCTCTTCGAC
Found at i:2384020 original size:41 final size:40
Alignment explanation
Indices: 2383974--2384087 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
2383964 TTTTCCTAAT
**
2383974 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTG-GAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATACGTG--AA
* *
2384015 TCGCAATGCGATTACGTAAATCGCAATGCGAATACGTGAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATACGTGAA
* *
2384055 TCACAACGCGAAT-CTGTAAATCGCAACGCGAAT
1 TCGCAATGCGAATAC-GTAAATCGCAACGCGAAT
2384088 CTGACTATCG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 29 0.46
41 32 0.51
42 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATACGTGAA
Found at i:2384090 original size:20 final size:20
Alignment explanation
Indices: 2383974--2384087 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
2383964 TTTTCCTAAT
*
2383974 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
** *
2383994 TCGCAACGCGAATTTGGAAAA
1 TCGCAACGCGAA-TACGTAAA
* *
2384015 TCGCAATGCGATTACGTAAA
1 TCGCAACGCGAATACGTAAA
* *
2384035 TCGCAATGCGAATACGTGAA
1 TCGCAACGCGAATACGTAAA
*
2384055 TCACAACGCGAAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
2384075 TCGCAACGCGAAT
1 TCGCAACGCGAAT
2384088 CTGACTATCG
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 1 0.01
20 61 0.79
21 15 0.19
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:2384097 original size:20 final size:20
Alignment explanation
Indices: 2384074--2384136 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
2384064 GAATCTGTAA
*
2384074 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
2384094 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
*
2384114 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
2384134 ATC
1 ATC
2384137 ACAATACTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:2384102 original size:40 final size:40
Alignment explanation
Indices: 2383974--2384102 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
2383964 TTTTCCTAAT
* * **
2383974 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAACGCGAATACGTAAATCGCAACGCGAATCT-GACTA
* * *
2384015 TCGCAATGCGATTACGTAAATCGCAATGCGAATACGTGA--A
1 TCGCAACGCGAATACGTAAATCGCAACGCGAAT-C-TGACTA
*
2384055 TCACAACGCGAAT-CTGTAAATCGCAACGCGAATCTGACTA
1 TCGCAACGCGAATAC-GTAAATCGCAACGCGAATCTGACTA
2384095 TCGCAACG
1 TCGCAACG
2384103 AGATTCTGAC
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
38 3 0.04
39 2 0.03
40 36 0.48
41 31 0.41
42 2 0.03
43 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGAATACGTAAATCGCAACGCGAATCTGACTA
Found at i:2385014 original size:24 final size:24
Alignment explanation
Indices: 2384982--2385035 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2384972 GTATTCAAAA
2384982 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2385006 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2385030 TTTGAT
1 TTTGAT
2385036 GATGTTTCAG
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:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2387485 original size:20 final size:20
Alignment explanation
Indices: 2387429--2387536 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
2387419 AACATTCATT
2387429 TGACTATCGCAACGCGG-AA
1 TGACTATCGCAACGCGGAAA
2387448 --A-T-T-GCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
2387463 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
2387483 TGACTATCGCAACGCAGAAT
1 TGACTATCGCAACGCGGAAA
*
2387503 TGACTATCGCAACGCGGGAA
1 TGACTATCGCAACGCGGAAA
*
2387523 TGACTATTGCAACG
1 TGACTATCGCAACG
2387537 AGAGAATCGT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.01
14 8 0.11
15 2 0.03
16 1 0.01
17 2 0.03
18 1 0.01
19 1 0.01
20 54 0.74
21 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:2387495 original size:40 final size:40
Alignment explanation
Indices: 2387451--2387536 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
2387441 CGCGGAAATT
2387451 GCAACGC-GAATATGACTATCGCAACACGGAAATGACTATC
1 GCAACGCAGAAT-TGACTATCGCAACACGGAAATGACTATC
* * *
2387491 GCAACGCAGAATTGACTATCGCAACGCGGGAATGACTATT
1 GCAACGCAGAATTGACTATCGCAACACGGAAATGACTATC
2387531 GCAACG
1 GCAACG
2387537 AGAGAATCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (40 bp):
GCAACGCAGAATTGACTATCGCAACACGGAAATGACTATC
Found at i:2387568 original size:33 final size:34
Alignment explanation
Indices: 2387531--2387603 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
2387521 AATGACTATT
* *
2387531 GCAACGAGAGAATCGTAATGC-AAAATGAAAATC
1 GCAACGAGAGAATCGCAATACGAAAATGAAAATC
*
2387564 GCAACGAGTGAATCGCAATACGAAAATGAAAATC
1 GCAACGAGAGAATCGCAATACGAAAATGAAAATC
2387598 GCAACG
1 GCAACG
2387604 CGAATTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
GCAACGAGAGAATCGCAATACGAAAATGAAAATC
Found at i:2387680 original size:33 final size:33
Alignment explanation
Indices: 2387618--2387713 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
2387608 TTTAGTTTCG
* *
2387618 CGTTACGATTTTCATTTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
2387652 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
2387685 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
2387714 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 32 0.59
34 22 0.41
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:2387838 original size:14 final size:14
Alignment explanation
Indices: 2387819--2387855 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2387809 CATCAATTAA
2387819 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2387833 ACAAATCATCTTTT
1 ACAAATCAACATTT
2387847 ACAAATCAA
1 ACAAATCAA
2387856 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2389908 original size:20 final size:20
Alignment explanation
Indices: 2389820--2389906 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
2389810 GAAACTTAAA
2389820 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
2389840 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
2389860 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
2389880 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
2389900 ATCGCAA
1 ATCGCAA
2389907 TGAGAGAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2389960 original size:20 final size:20
Alignment explanation
Indices: 2389931--2390095 Score: 124
Period size: 20 Copynumber: 8.9 Consensus size: 20
2389921 TGCGATTTTC
2389931 ATTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
*
2389951 ATTTCACATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
*
2389971 TTTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
* *
2389991 TTTTCGCGTTGCGAT--T--
1 ATTTCGCATTGCGATAGTCA
* **
2390007 -TTGTTG--TTGCGATTTTC-
1 ATT-TCGCATTGCGATAGTCA
2390024 ATTTCGCATTGCGAT--TC-
1 ATTTCGCATTGCGATAGTCA
*
2390041 -TCTCG--TTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
* *
2390058 TTTTCGCGTTGCGATAGTCA
1 ATTTCGCATTGCGATAGTCA
*
2390078 TTTTCGCATTGCGATAGT
1 ATTTCGCATTGCGATAGT
2390096 AAACTATTCT
Statistics
Matches: 123, Mismatches: 9, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
14 14 0.11
15 2 0.02
16 9 0.07
17 4 0.03
18 7 0.06
19 7 0.06
20 80 0.65
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTCGCATTGCGATAGTCA
Found at i:2390036 original size:33 final size:34
Alignment explanation
Indices: 2389979--2390072 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
2389969 CATTTTCGCA
* * *
2389979 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
** *
2390013 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
2390046 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCGTTGCGAT
2390073 AGTCATTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.54
34 23 0.46
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:2390076 original size:87 final size:89
Alignment explanation
Indices: 2389921--2390092 Score: 258
Period size: 87 Copynumber: 1.9 Consensus size: 89
2389911 AGAATTGCAA
2389921 TGCGATTTTCATTTCGCATTGCGATAGTCAATTTCACATTGCGATAGTCATTTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGATA-TC-A--TCACATTGCGATAGTCATTTTCGCATTGCGAT
*
2389986 AGTCATTTTCGCGTTGCGATTTTGTTGT
62 AGTCATTTTCGCATTGCGATTTTGTTGT
* * *
2390014 TGCGATTTTCATTTCGCATTGCGAT-TC-TCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTC
1 TGCGATTTTCATTTCGCATTGCGATATCATCACATTGCGATAGTCATTTTCGCATTGCGATAGTC
2390077 ATTTTCGCATTGCGAT
66 ATTTTCGCATTGCGAT
2390093 AGTAAACTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
87 48 0.64
91 2 0.03
93 25 0.33
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (89 bp):
TGCGATTTTCATTTCGCATTGCGATATCATCACATTGCGATAGTCATTTTCGCATTGCGATAGTC
ATTTTCGCATTGCGATTTTGTTGT
Found at i:2392017 original size:20 final size:20
Alignment explanation
Indices: 2391962--2392052 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 20
2391952 TCTGAAACTT
* *
2391962 AAAATCGCAACACAAAAATG
1 AAAATCGCAACGCGAAAATG
*
2391982 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
2392002 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
2392022 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
2392041 AAAATCGCAACG
1 AAAATCGCAACG
2392053 ACAGAATCGC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 13 0.21
20 48 0.79
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:2392424 original size:22 final size:22
Alignment explanation
Indices: 2392396--2392449 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
2392386 ATGATTTCGC
2392396 CGGAGATGGAGACTAATATCGT
1 CGGAGATGGAGACTAATATCGT
* * * *
2392418 CGGAGATGGGGGACTGATTTTGT
1 CGGAGAT-GGAGACTAATATCGT
2392441 CGGAGATGG
1 CGGAGATGG
2392450 GGACGGATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.24, C:0.11, G:0.41, T:0.24
Consensus pattern (22 bp):
CGGAGATGGAGACTAATATCGT
Found at i:2392672 original size:20 final size:20
Alignment explanation
Indices: 2392649--2392722 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2392639 CGATAGTCAG
*
2392649 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* **
2392669 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
2392690 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
2392710 ATTCGCATTGCGA
1 ATTCGCATTGCGA
2392723 ATTAGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:2392695 original size:21 final size:20
Alignment explanation
Indices: 2392631--2392722 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
2392621 GCTATGTAAA
* *
2392631 TCGCATTGCGATAGT-CAGAT
1 TCGCATTGCGAT-TTACAAAT
* **
2392651 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACAAAT
*
2392671 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
2392692 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACAAAT
2392712 TCGCATTGCGA
1 TCGCATTGCGA
2392723 ATTAGGAAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 40 0.70
21 16 0.28
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:2392701 original size:41 final size:40
Alignment explanation
Indices: 2392631--2392722 Score: 148
Period size: 41 Copynumber: 2.3 Consensus size: 40
2392621 GCTATGTAAA
*
2392631 TCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATAGTCAAATTCGCGTTGCGATTTACGTAT
**
2392671 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATAGT-CAAATTCGCGTTGCGATTTACGTAT
2392712 TCGCATTGCGA
1 TCGCATTGCGA
2392723 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (40 bp):
TCGCATTGCGATAGTCAAATTCGCGTTGCGATTTACGTAT
Found at i:2392743 original size:41 final size:41
Alignment explanation
Indices: 2392657--2392744 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
2392647 AGATTCGCGT
* * * **
2392657 TGCGATTTACGTATTCGCATTGCGATTTTCCAAATTCGCGT
1 TGCGATTTACGTATTCGCATTGCGAATTACCAAAATCGCAA
**
2392698 TGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGATTTACGTATTCGCATTGCGAATTACCAAAATCGCAA
2392739 TGCGAT
1 TGCGAT
2392745 AGTCAGAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (41 bp):
TGCGATTTACGTATTCGCATTGCGAATTACCAAAATCGCAA
Found at i:2398492 original size:27 final size:28
Alignment explanation
Indices: 2398424--2398499 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
2398414 ATAGATGGAT
* *
2398424 TAAATTGGATTTTTTTAAAGTTCGAGGGC
1 TAAATT-GATTTTTTAAAAGTTCAAGGGC
*
2398453 TAAATTGATTTTTTAAAAGTTCAAGGGG
1 TAAATTGATTTTTTAAAAGTTCAAGGGC
* *
2398481 TTATTTGATTTTTATAAAA
1 TAAATTGATTTTT-TAAAA
2398500 AATAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 30 0.73
29 11 0.27
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (28 bp):
TAAATTGATTTTTTAAAAGTTCAAGGGC
Done.