Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 55
Found at i:4627947 original size:13 final size:12
Alignment explanation
Indices: 4627919--4627957 Score: 55
Period size: 10 Copynumber: 3.3 Consensus size: 12
4627909 GAATTTAATT
4627919 TTTAATTCTT--
1 TTTAATTCTTAA
4627929 TTTAATTCTTTAA
1 TTTAATTC-TTAA
4627942 TTTAATTCTTAA
1 TTTAATTCTTAA
4627954 TTTA
1 TTTA
4627958 GATAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 8 0.31
13 8 0.31
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTAATTCTTAA
Found at i:4630407 original size:242 final size:242
Alignment explanation
Indices: 4629982--4630455 Score: 840
Period size: 242 Copynumber: 2.0 Consensus size: 242
4629972 ATCCTCAGTG
*
4629982 AATATTTAAACCTCAGTGGAGCAACAAAGAATGTCTTGATGTAAAAAATATGGGTTTACATATTC
1 AATATTTAAACCTCAGTGGAGCAACAAAGAATGTCTCGATGTAAAAAATATGGGTTTACATATTC
* * * * *
4630047 ACTTATGGTGCGTTTGGTTCACGGAATGTAAGATTACCAATGGGAATAAAAAATTATCAGGGAAT
66 ACTTAGGGCGCGTTTAGTTCACGGAATGTAAGATTACCAATGGGAATAAAAAATTACCAAGGAAT
* *
4630112 AGGATTACTGGGAATGTTGTATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTT
131 AGGATTACTGAGAATGTTGCATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTT
4630177 TGATTAAAGGAATAAAAGATTATTGGAATGTATATTTAAACTAACAA
196 TGATTAAAGGAATAAAAGATTATTGGAATGTATATTTAAACTAACAA
4630224 AATATTTAAACCTCAGTGGAGCAACAAAGAATGTCTCGATGTAAAAAATATGGGTTTACATATTC
1 AATATTTAAACCTCAGTGGAGCAACAAAGAATGTCTCGATGTAAAAAATATGGGTTTACATATTC
* *
4630289 ACTTAGGGCGCGTTTAGTTCACGGAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAAT
66 ACTTAGGGCGCGTTTAGTTCACGGAATGTAAGATTACCAATGGGAATAAAAAATTACCAAGGAAT
*
4630354 AGGATTACTGAGAATGTTGCATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTATCGTGTT
131 AGGATTACTGAGAATGTTGCATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTT
*
4630419 TGGTTAAAGGAATAAAAGATTATTGGAATGTATATTT
196 TGATTAAAGGAATAAAAGATTATTGGAATGTATATTT
4630456 GACCAAATTG
Statistics
Matches: 220, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
242 220 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (242 bp):
AATATTTAAACCTCAGTGGAGCAACAAAGAATGTCTCGATGTAAAAAATATGGGTTTACATATTC
ACTTAGGGCGCGTTTAGTTCACGGAATGTAAGATTACCAATGGGAATAAAAAATTACCAAGGAAT
AGGATTACTGAGAATGTTGCATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTT
TGATTAAAGGAATAAAAGATTATTGGAATGTATATTTAAACTAACAA
Found at i:4631200 original size:25 final size:25
Alignment explanation
Indices: 4631172--4631219 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4631162 TACATAAAAG
*
4631172 ATTACATAAAAACAAATGTGACCAA
1 ATTACATAAAAACAAATATGACCAA
* *
4631197 ATTATATAAAAACGAATATGACC
1 ATTACATAAAAACAAATATGACC
4631220 TAATATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (25 bp):
ATTACATAAAAACAAATATGACCAA
Found at i:4631556 original size:37 final size:37
Alignment explanation
Indices: 4631509--4631579 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
4631499 TTGAAAACAG
*
4631509 TTTTCAGAATGTA-TTCGGCAGAATTAGGTTTGGGAGT
1 TTTTCAGAATGTACAT-GGCAGAATTAGGTTTGGGAGT
*
4631546 TTTTGAGAATGTACATGGCAGAATTAGGTTTGGG
1 TTTTCAGAATGTACATGGCAGAATTAGGTTTGGG
4631580 CAATTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.37
Consensus pattern (37 bp):
TTTTCAGAATGTACATGGCAGAATTAGGTTTGGGAGT
Found at i:4635284 original size:41 final size:41
Alignment explanation
Indices: 4635218--4635304 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
4635208 AATAATATCC
* *
4635218 AATATCCGAAAATGCACACTCATAATATATAGTACACCCAT
1 AATATCCGAAAATGCACACTCATAATATACAATACACCCAT
* * *
4635259 AATATTCGAAAATGTACAC-CAATAATATACAATATACCCAT
1 AATATCCGAAAATGCACACTC-ATAATATACAATACACCCAT
4635300 AATAT
1 AATAT
4635305 ATTATTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (41 bp):
AATATCCGAAAATGCACACTCATAATATACAATACACCCAT
Found at i:4639532 original size:18 final size:22
Alignment explanation
Indices: 4639483--4639560 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
4639473 TTTCTCAAGT
4639483 GGATCGATCATTCGGTTAAAGA
1 GGATCGATCATTCGGTTAAAGA
4639505 GGATCGATCATTCGGTTAAAGA
1 GGATCGATCATTCGGTTAAAGA
* * * * *
4639527 CGATCAATCCTTTGGTCAAAGA
1 GGATCGATCATTCGGTTAAAGA
*
4639549 GGATTGATCATT
1 GGATCGATCATT
4639561 TGAGTCAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (22 bp):
GGATCGATCATTCGGTTAAAGA
Found at i:4641908 original size:21 final size:22
Alignment explanation
Indices: 4641865--4641923 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
4641855 TGAAAAAATT
*
4641865 ATTATTTTAA-AATTAATAATA
1 ATTATTTTAATAAATAATAATA
*
4641886 ATT-TTTTAATAAATAATATTA
1 ATTATTTTAATAAATAATAATA
* *
4641907 ATTATTATATTAAATAA
1 ATTATTTTAATAAATAA
4641924 ATATAGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 6 0.19
21 15 0.47
22 11 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATTTTAATAAATAATAATA
Found at i:4641947 original size:26 final size:26
Alignment explanation
Indices: 4641893--4641947 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
4641883 ATAATTTTTT
* *
4641893 AATAAATAATATTAATTATTATATTA
1 AATAAATAATATTAATCATTATATAA
*
4641919 AATAAAT-ATAGTTAATCATTTTATAA
1 AATAAATAATA-TTAATCATTATATAA
4641945 AAT
1 AAT
4641948 TACCAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AATAAATAATATTAATCATTATATAA
Found at i:4645393 original size:138 final size:138
Alignment explanation
Indices: 4645145--4646451 Score: 1991
Period size: 138 Copynumber: 9.5 Consensus size: 138
4645135 TCCCGGGGGT
* * * *
4645145 GGGGGTGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* * *
4645210 CCCCCGAGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGTTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
*
4645275 GCGTTTAC
131 GCGTTTCC
* * *
4645283 GGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATCACTTATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
*
4645348 CCCCC-GGAGAACTATTCATATC-GCTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAA
66 CCCCCGGGA-AACTATTCATGTCAG-TACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAA
4645411 GCGCG-TTCTC
129 GCGCGTTTC-C
*
4645421 GGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
*
4645486 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGAAAAGTGGTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
*
4645551 GTG-TTCC
131 GCGTTTCC
* * * * *
4645558 TGGGGG-GTGCCTTTCATTATTTTGTCAGATAATATATTATCATTGCCTTATTATGTCACTCATG
1 -GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* * *
4645622 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAA
65 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
*
4645687 CGCGTTCCC
130 CGCGTTTCC
*
4645696 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAATATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
*
4645761 CCCCCGGGAAACTATTCATGTAAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
* *
4645826 TCGTTCCC
131 GCGTTTCC
* * *
4645834 GGGGACGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* ** *
4645899 CCCCCAGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGA-TTGAAAAAGTGGTGAAAGT
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
*
4645963 GCG-TTCTT
131 GCGTTTC-C
* * *
4645971 GGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCTCTATTATGTCACTCTTGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* * *
4646036 CCCCTGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGACAAAGTGGTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
* *
4646101 ACGTTTTC
131 GCGTTTCC
* * *
4646109 GGGGGCGCACCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
*
4646174 CCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
* *
4646239 ACATTTCC
131 GCGTTTCC
* * *
4646247 GGGGGTGCGCCTTCCATTATTTTTTCA-ATGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 GGGGGCGCGCCTTCCATTATTTTGTCAGA-GAATATGTTATCATTGCCCTATTATGTCACTCATG
* *
4646311 TCCCCCGGGAAACTATTTATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
65 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
*
4646376 CGCGTTCCC
130 CGCGTTTCC
*
4646385 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
4646450 CC
66 CC
4646452 TCCAGAGACG
Statistics
Matches: 1068, Mismatches: 88, Indels: 26
0.90 0.07 0.02
Matches are distributed among these distances:
136 2 0.00
137 251 0.24
138 808 0.76
139 7 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (138 bp):
GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
GCGTTTCC
Found at i:4645922 original size:413 final size:413
Alignment explanation
Indices: 4645144--4646451 Score: 2084
Period size: 413 Copynumber: 3.2 Consensus size: 413
4645134 TTCCCGGGGG
* * *
4645144 TGGGGGTGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTATGTCACTCATG
1 TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* * *
4645209 TCCCCCGAGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGTTGAAAG
66 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
* *
4645274 CGCGTTTACGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATAT
131 CGCGTTTACGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
* *
4645339 CACTTATGTCCCCC-GGAGAACTATTCATATCGCTACCTATTATTTCTGAGGGGACTTGGCAAAG
196 CACTTATGTCCCCCGGGA-AACTATTCATGTAG-TACCTATTATTTCTGAGGGGACTTGGCAAAG
* *
4645403 TGGTGAAAGCGCGTTCTCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCC
259 TGGTGAAAGCACGTTCCCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCC
4645468 CTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACT
324 CTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACT
*
4645533 TGGAAAAGTGGTGAAAGCGTGTTCC
389 TGGAAAAGTGGTGAAAGCGCGTTCC
* * * *
4645558 TGGGGG-GTGCCTTTCATTATTTTGTCAGATAATATATTATCATTGCCTTATTATGTCACTCATG
1 TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* *
4645622 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAA
66 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
** *
4645687 CGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAATATGT
131 CGCGTTTACGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
*
4645752 CACTCATGTCCCCCGGGAAACTATTCATGTAAGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
196 CACTTATGTCCCCCGGGAAACTATTCATGT-AGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
* * *
4645817 GGTGAAAGCTCGTTCCCGGGGACGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
260 GGTGAAAGCACGTTCCCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
*
4645882 TATTATGTCACTCATGTCCCCCAGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGA-TT
325 TATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTT
* * *
4645946 GAAAAAGTGGTGAAAGTGCGTTCT
390 GGAAAAGTGGTGAAAGCGCGTTCC
* *
4645970 TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCTCTATTATGTCACTCTTG
1 TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* *
4646035 TCCCCTGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGACAAAGTGGTGAAAG
66 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
* * * *
4646100 CACGTTTTCGGGGGCGCACCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTATTATGT
131 CGCGTTTACGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
*
4646165 CACTTATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
196 CACTTATGTCCCCCGGGAAACTATTCATGT-AGTACCTATTATTTCTGAGGGGACTTGGCAAAGT
* * * * *
4646230 GGTGAAAGCACATTTCCGGGGGTGCGCCTTCCATTATTTTTTCA-ATGAATATGTTATCATTGCC
260 GGTGAAAGCACGTTCCCGGGGGCGCGCCTTTCATTATTTTGTCAGA-GAATATGTTATCATTGCC
* * *
4646294 CTATTATGTCACTTATGTCCCCCGGGAAACTATTTATGTCAGTACCTATTATTTCTTAGGGGACT
324 CTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACT
*
4646359 TGGCAAAGTGGTGAAAGCGCGTTCC
389 TGGAAAAGTGGTGAAAGCGCGTTCC
* * *
4646384 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATG
1 TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
4646449 TCC
66 TCC
4646452 TCCAGAGACG
Statistics
Matches: 821, Mismatches: 68, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
412 29 0.04
413 697 0.85
414 95 0.12
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (413 bp):
TGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
CGCGTTTACGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
CACTTATGTCCCCCGGGAAACTATTCATGTAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
GTGAAAGCACGTTCCCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTG
GAAAAGTGGTGAAAGCGCGTTCC
Found at i:4646200 original size:551 final size:552
Alignment explanation
Indices: 4645145--4646456 Score: 2073
Period size: 551 Copynumber: 2.4 Consensus size: 552
4645135 TCCCGGGGGT
* * *
4645145 GGGGGTGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTATGTCACTCATGT
1 GGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* *
4645210 CCCCCGAGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGTTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTGAAAGC
** * *
4645275 GCGTTTACGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATC
131 GCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
* **
4645340 ACTTATGTCCCCC-GGAGAACTATTCATATCGCTACCTATTATTTCTGAGGGGACTTGGCAAAGT
196 ACTCATGTCCCCCAGGAGAACTATTCATATCGCTACCTATTATTTCTGAGGGGACTTGAAAAAGT
4645404 GGTGAAAGCGCGTTCTCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
261 GGTGAAAGCGCGTTCTCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
4645469 TATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTT
326 TATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTT
** * *
4645534 GGAAAAGTGGTGAAAGCGTGTTCCTGGGGGGTGCCTTTCATTATTTTGTCAGATAATATATTATC
391 GGAAAAGTGGTGAAAGCGTGTTCCTGGGGGGCACCTTCCATTATTTTGTCAGAGAATATATTATC
* * *
4645599 ATTGCCTTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTTTTAG
456 ATTGCCCTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAG
* *
4645664 GGGACTTGGCAAAGTGGTGAAAACGCGTTCCC
521 GGGACTTGGCAAAGTGGTGAAAACACATTCCC
* *
4645696 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAATATGTCACTCATGT
1 GGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* *
4645761 CCCCCGGGAAACTATTCATGTAAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
66 CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTGAAAGC
* * * *
4645826 TCGTTCCCGGGGACGCGTCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
131 GCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
*
4645891 ACTCATGTCCCCCAGGA-AACTATTCATGTCAG-TACCTATTATTTCTGAGGGGA-TTGAAAAAG
196 ACTCATGTCCCCCAGGAGAACTATTCATATC-GCTACCTATTATTTCTGAGGGGACTTGAAAAAG
* * *
4645953 TGGTGAAAGTGCGTTCTTGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCT
260 TGGTGAAAGCGCGTTCTCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCC
* * *
4646018 CTATTATGTCACTCTTGTCCCCTGGGAAACTATTCATGTCAGTACCTATTATTTCTTAGGGGACT
325 CTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACT
* * *
4646083 T-GACAAAGTGGTGAAAGCACGT-TTTC-GGGGGCGCACCTTCCATTATTTTTTCAGAGAATATG
390 TGGA-AAAGTGGTGAAAG--CGTGTTCCTGGGGG-GCACCTTCCATTATTTTGTCAGAGAATATA
* *
4646145 TTATCATTGCCCTATTATGTCACTTATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTT
451 TTATCATTGCCCTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTT
* *
4646210 CTGAGGGGACTTGGCAAAGTGGTGAAAGCACATTTCC
516 CTGAGGGGACTTGGCAAAGTGGTGAAAACACATTCCC
* *
4646247 GGGGGTGCGCCTTCCATTATTTTTTCA-ATGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 GGGGGTGCGCCTTCCATTATTTTGTCAGA-GAATATGTTATCATTGCCCTATTATGTCACTCATG
* *
4646311 TCCCCCGGGAAACTATTTATGTCAGTACCTATTATTTCTTAGGGGACTTGGCAAAGTGGTGAAAG
65 TCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTGAAAG
*
4646376 CGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGT
130 CGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
*
4646441 CACTCATGTCCTCCAG
195 CACTCATGTCCCCCAG
4646457 AGACGCAGAG
Statistics
Matches: 698, Mismatches: 56, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
549 2 0.00
550 151 0.22
551 538 0.77
552 7 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (552 bp):
GGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
CCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTGAAAGC
GCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
ACTCATGTCCCCCAGGAGAACTATTCATATCGCTACCTATTATTTCTGAGGGGACTTGAAAAAGT
GGTGAAAGCGCGTTCTCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
TATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTT
GGAAAAGTGGTGAAAGCGTGTTCCTGGGGGGCACCTTCCATTATTTTGTCAGAGAATATATTATC
ATTGCCCTATTATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATTTCTGAG
GGGACTTGGCAAAGTGGTGAAAACACATTCCC
Found at i:4646657 original size:23 final size:23
Alignment explanation
Indices: 4646609--4646658 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4646599 AATAAATTGA
* *
4646609 ATAAAATGAATAAAATGTTATGG
1 ATAAAATGAATAAAATGTGAAGG
*
4646632 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAAATGAATAAAATGTGAAG-G
4646655 ATAA
1 ATAA
4646659 GTTGGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (23 bp):
ATAAAATGAATAAAATGTGAAGG
Found at i:4646752 original size:14 final size:14
Alignment explanation
Indices: 4646733--4646763 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4646723 TGGTAGGTTG
4646733 GTTTTAATATATAT
1 GTTTTAATATATAT
*
4646747 GTTTTAATGTATAT
1 GTTTTAATATATAT
4646761 GTT
1 GTT
4646764 AAGGATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (14 bp):
GTTTTAATATATAT
Found at i:4646929 original size:34 final size:34
Alignment explanation
Indices: 4646884--4646956 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
4646874 TTAAGTTGAA
4646884 TTTAATGTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTTGAATACTATAATTTGTAT
*
4646918 TTTAATTTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTTGAATACTATAATTTGTAT
4646952 TTTAA
1 TTTAA
4646957 AAACATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (34 bp):
TTTAATGTTAAATTTTGAATACTATAATTTGTAT
Found at i:4647512 original size:21 final size:21
Alignment explanation
Indices: 4647459--4647527 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
4647449 GGTGTCATAA
* *
4647459 AACCCTGCGGGCTAGGCATGT
1 AACCCTGAGGGCTAGGAATGT
* * *
4647480 AA-TCTGGCGGGCTAGTAATGT
1 AACCCT-GAGGGCTAGGAATGT
4647501 AACCCTGAGGGCTAGGAATGT
1 AACCCTGAGGGCTAGGAATGT
4647522 AACCCT
1 AACCCT
4647528 ACGGAGATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (21 bp):
AACCCTGAGGGCTAGGAATGT
Found at i:4647577 original size:42 final size:42
Alignment explanation
Indices: 4647530--4647612 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
4647520 GTAACCCTAC
* *
4647530 GGAGATGGCATATGAACTGGTGGGCTTGGCATATACCCATGA
1 GGAGATGGCATATGAACTGGAGGGCTGGGCATATACCCATGA
* * *
4647572 GGAGATGTCATCTGAACTGGAGGGCTGGGCATGTACCCATG
1 GGAGATGGCATATGAACTGGAGGGCTGGGCATATACCCATG
4647613 TGGCATCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (42 bp):
GGAGATGGCATATGAACTGGAGGGCTGGGCATATACCCATGA
Found at i:4649209 original size:25 final size:23
Alignment explanation
Indices: 4649166--4649211 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
4649156 TAAATTCATG
4649166 ATAAATTTAAATTAAAAATAATA
1 ATAAATTTAAATTAAAAATAATA
4649189 ATAAATTTTAACATTAAAAATAA
1 ATAAA-TTTAA-ATTAAAAATAA
4649212 AAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAATTTAAATTAAAAATAATA
Found at i:4649229 original size:25 final size:25
Alignment explanation
Indices: 4649166--4649221 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
4649156 TAAATTCATG
4649166 ATAAAT-TTAA-ATTAAAAATAATA
1 ATAAATATTAACATTAAAAATAATA
*
4649189 ATAAATTTTAACATTAAAAATAA-A
1 ATAAATATTAACATTAAAAATAATA
4649213 A-AAATATTA
1 ATAAATATTA
4649222 CCATATTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 13 0.43
24 6 0.20
25 11 0.37
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAAATATTAACATTAAAAATAATA
Found at i:4649385 original size:31 final size:31
Alignment explanation
Indices: 4649318--4649417 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
4649308 TAATTAGCAC
* * *
4649318 AAAAAATAATTA-ATTAATA-AATTTAAAT-
1 AAAAAATAATTATATAAATATTATTTTAATA
*
4649346 AAATAATAATTATATAAATATTATTTTAATA
1 AAAAAATAATTATATAAATATTATTTTAATA
* * *
4649377 AAAAAATAA-TATTTATATAATTATATTAATA
1 AAAAAATAATTATATAAAT-ATTATTTTAATA
*
4649408 TAAAATATAA
1 -AAAAAATAA
4649418 CAACTATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
30 14 0.24
31 19 0.33
32 8 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
AAAAAATAATTATATAAATATTATTTTAATA
Found at i:4649765 original size:61 final size:60
Alignment explanation
Indices: 4649620--4649769 Score: 194
Period size: 60 Copynumber: 2.5 Consensus size: 60
4649610 TGACATTTAA
* * *
4649620 TGAAAGGCGCGTCCCCGCGGATGCGCCTTACCCCCGTGGCATCTGACTCATCAAAACCCCG
1 TGAAA-GCGCGTCCCCGGGGATGCGCCTTACCCCCGTGGCATCCGACTCAGCAAAACCCCG
* * * * *
4649681 TGAAAGCGCATCCCCAGGGATGCGGCTTACCCGCGTGGCATCCGACTCAGCAAAAACCCAG
1 TGAAAGCGCGTCCCCGGGGATGCGCCTTACCCCCGTGGCATCCGACTCAGC-AAAACCCCG
4649742 -GTAAAGCGCGTCCCCGGGGATGCGCCTT
1 TG-AAAGCGCGTCCCCGGGGATGCGCCTT
4649770 TGTGCCACCT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 40 0.53
61 36 0.47
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.15
Consensus pattern (60 bp):
TGAAAGCGCGTCCCCGGGGATGCGCCTTACCCCCGTGGCATCCGACTCAGCAAAACCCCG
Found at i:4651370 original size:18 final size:18
Alignment explanation
Indices: 4651347--4651388 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4651337 ACAAGTATAA
4651347 AGTTCCTCTATACTAACT
1 AGTTCCTCTATACTAACT
4651365 AGTTCCTCTATACTAACT
1 AGTTCCTCTATACTAACT
4651383 AGTTCC
1 AGTTCC
4651389 ATGTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (18 bp):
AGTTCCTCTATACTAACT
Found at i:4663364 original size:20 final size:21
Alignment explanation
Indices: 4663339--4663391 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4663329 GACCAATAAA
4663339 TTCGCAACGCGAATTCT-AAT
1 TTCGCAACGCGAATTCTCAAT
* * *
4663359 TTCGCAAC-CCAGTTTTCAAT
1 TTCGCAACGCGAATTCTCAAT
4663379 TTCGCAACGCGAA
1 TTCGCAACGCGAA
4663392 AGTCAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCGCAACGCGAATTCTCAAT
Found at i:4663403 original size:60 final size:60
Alignment explanation
Indices: 4663336--4663459 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
4663326 AATGACCAAT
* * *** *
4663336 AAATTCGCAACGCGAA-TTCTAATTTCGCAACCCAGTTTTCAATTTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAATTTCTAA-ATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
*** *
4663396 AAATTCGCGTTGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAATTTCTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
4663456 AAAT
1 AAAT
4663460 GTTTTTACGC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 48 0.91
61 5 0.09
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (60 bp):
AAATTCGCAACGCGAATTTCTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
Found at i:4663445 original size:20 final size:20
Alignment explanation
Indices: 4663420--4663459 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4663410 AATTTGTAAA
4663420 TCGCAACAC-AGAAGTCAAAT
1 TCGCAACACGA-AAGTCAAAT
*
4663440 TCGCAACGCGAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
4663460 GTTTTTACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAGTCAAAT
Found at i:4663617 original size:22 final size:22
Alignment explanation
Indices: 4663592--4663656 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
4663582 GCGACATCTG
*
4663592 TCCCCATCTCCGACGAAATCCA
1 TCCCCATTTCCGACGAAATCCA
*
4663614 TCCCCATTTCCGACGAAATCCG
1 TCCCCATTTCCGACGAAATCCA
* *
4663636 TCCCAATTTCTGACGAAATCC
1 TCCCCATTTCCGACGAAATCC
4663657 GTCTATCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.26, C:0.40, G:0.11, T:0.23
Consensus pattern (22 bp):
TCCCCATTTCCGACGAAATCCA
Found at i:4663959 original size:19 final size:20
Alignment explanation
Indices: 4663915--4663961 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4663905 TCGCAACACC
*
4663915 AAAATCGCAACGCAAAAGTG
1 AAAATCGCAACGCAAAACTG
*
4663935 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCAAAACTG
4663954 AAAATCGC
1 AAAATCGC
4663962 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCAAAACTG
Found at i:4663999 original size:20 final size:20
Alignment explanation
Indices: 4663961--4663999 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4663951 ACTAAAATCG
* * *
4663961 CGTTGCGATTTTCATTTTCC
1 CGTTGCGAATTTAAGTTTCC
4663981 CGTTGCGAATTTAAGTTTC
1 CGTTGCGAATTTAAGTTTC
4664000 AGAAACTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (20 bp):
CGTTGCGAATTTAAGTTTCC
Found at i:4665550 original size:42 final size:42
Alignment explanation
Indices: 4665491--4665591 Score: 184
Period size: 42 Copynumber: 2.4 Consensus size: 42
4665481 CCCACCTCGA
*
4665491 GAGCCATCACCTGATCGGGCCGATTCTACAGCTCGACACCCG
1 GAGCCATCACCTGATCGGGCCAATTCTACAGCTCGACACCCG
4665533 GAGCCATCACCTGATCGGGCCAATTCTACAGCTCGACACCCG
1 GAGCCATCACCTGATCGGGCCAATTCTACAGCTCGACACCCG
*
4665575 TAGCCATCACCTGATCG
1 GAGCCATCACCTGATCG
4665592 AGCCTCTTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.18
Consensus pattern (42 bp):
GAGCCATCACCTGATCGGGCCAATTCTACAGCTCGACACCCG
Found at i:4666188 original size:21 final size:22
Alignment explanation
Indices: 4666141--4666189 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
4666131 GATGCACCTA
*
4666141 TCATCATTCAAGAGGCGCCTTC
1 TCATCATTCAAGAGGCGCCATC
4666163 T-ATCATTCAAGAGGC-CCATC
1 TCATCATTCAAGAGGCGCCATC
4666183 TCATCAT
1 TCATCAT
4666190 CGACGAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (22 bp):
TCATCATTCAAGAGGCGCCATC
Found at i:4666223 original size:21 final size:21
Alignment explanation
Indices: 4666197--4666259 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
4666187 CATCGACGAA
4666197 GCCCCTCCCACCGTTCAAGAG
1 GCCCCTCCCACCGTTCAAGAG
** * *
4666218 GCCCCTGTCATCGTTCAAGTG
1 GCCCCTCCCACCGTTCAAGAG
* * *
4666239 GTCCCGCCCGCCGTTCAAGAG
1 GCCCCTCCCACCGTTCAAGAG
4666260 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.19
Consensus pattern (21 bp):
GCCCCTCCCACCGTTCAAGAG
Found at i:4667685 original size:14 final size:14
Alignment explanation
Indices: 4667666--4667705 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4667656 TTTTGATTAA
4667666 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
4667680 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
4667694 TTGATTTGTAAA
1 TTGATTTGTAAA
4667706 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4667717 original size:61 final size:62
Alignment explanation
Indices: 4667616--4667755 Score: 185
Period size: 66 Copynumber: 2.2 Consensus size: 62
4667606 TTTTACATTG
*
4667616 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
** * *
4667676 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
4667741 A
62 A
4667742 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
4667756 GTTTCTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 17 0.25
61 17 0.25
64 4 0.06
66 31 0.45
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:4668123 original size:39 final size:39
Alignment explanation
Indices: 4668069--4668155 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
4668059 TCAAGTTGTA
*
4668069 GATTTTGATTTCCTTTTGCTTAGCACCATCTGAGATTTG
1 GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
* * *
4668108 GATTTTGATTTCCTTTTGCTTGGCACTATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
4668147 GATTTTGAT
1 GATTTTGAT
4668156 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
Found at i:4668565 original size:25 final size:25
Alignment explanation
Indices: 4668531--4668580 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4668521 ATTATTTTTC
*
4668531 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4668556 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4668581 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4671549 original size:12 final size:12
Alignment explanation
Indices: 4671528--4671561 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4671518 GGTTGTGGGT
*
4671528 TTTGAGATTGTG
1 TTTGATATTGTG
4671540 TTTGATATTGTG
1 TTTGATATTGTG
*
4671552 TTTGGTATTG
1 TTTGATATTG
4671562 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:4672391 original size:20 final size:20
Alignment explanation
Indices: 4672342--4672395 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4672332 CAATTTACAT
*
4672342 ATTCACGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
4672362 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
4672382 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
4672396 TTTGTTAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:4674202 original size:25 final size:25
Alignment explanation
Indices: 4674168--4674250 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 25
4674158 AATTTTTTTG
4674168 CTTTATATATTTAATATTCCCTCTA
1 CTTTATATATTTAATATTCCCTCTA
* ** * * *
4674193 CTTTCTATATTT-CCA-T--GTATG
1 CTTTATATATTTAATATTCCCTCTA
4674214 CTTTATATATTTAATATTCCCTCTA
1 CTTTATATATTTAATATTCCCTCTA
*
4674239 CTTTCTATATTT
1 CTTTATATATTT
4674251 TCAAATCTCT
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
21 13 0.32
22 1 0.02
23 2 0.05
24 1 0.02
25 24 0.59
ACGTcount: A:0.24, C:0.19, G:0.02, T:0.54
Consensus pattern (25 bp):
CTTTATATATTTAATATTCCCTCTA
Found at i:4684402 original size:22 final size:22
Alignment explanation
Indices: 4684377--4685180 Score: 1229
Period size: 22 Copynumber: 36.6 Consensus size: 22
4684367 ATAATAAATT
*
4684377 TTTTTAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
4684399 TTTTAAAATAAATCAATATATA
1 TTTTAAAATAAATCAATCCATA
* ***
4684421 TTTTAAAACAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
4684443 -TTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
4684464 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
4684486 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684508 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
4684530 TTTTAAAATAAAAT-TGTCCATA
1 TTTTAAAAT-AAATCAATCCATA
4684552 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684574 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
4684596 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
4684618 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
4684640 TTTTATAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
4684662 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
*
4684684 TTTTAAAATAAACCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
4684706 TTTTTAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684728 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684750 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
4684772 TTTTAAAATAAATCTTTCCATA
1 TTTTAAAATAAATCAATCCATA
4684794 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
4684816 TTTTAAAATAAACCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
4684838 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
4684860 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
4684882 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
* *
4684904 TTTTAGATTAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
4684926 TTTTAAAATAAATTGTTCCATA
1 TTTTAAAATAAATCAATCCATA
4684948 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684970 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4684992 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
4685014 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
4685036 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
4685058 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
4685080 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4685102 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
4685124 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
4685146 TTTTAAAATAAATCAATTCGTA
1 TTTTAAAATAAATCAATCCATA
4685168 TTTTAAAATAAAT
1 TTTTAAAATAAAT
4685181 TTTAAAATAG
Statistics
Matches: 708, Mismatches: 67, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
21 29 0.04
22 668 0.94
23 11 0.02
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:4685197 original size:11 final size:12
Alignment explanation
Indices: 4685167--4685206 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4685157 ATCAATTCGT
4685167 ATTTTAAAATAA
1 ATTTTAAAATAA
*
4685179 ATTTTAAAATAG
1 ATTTTAAAATAA
4685191 A-TTT-AAAT-A
1 ATTTTAAAATAA
4685200 ATTTTAA
1 ATTTTAA
4685207 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:4688691 original size:11 final size:11
Alignment explanation
Indices: 4688677--4688712 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4688667 TCTCAAGAAA
4688677 CTCTCTAAATT
1 CTCTCTAAATT
4688688 CTCTCTAAA--
1 CTCTCTAAATT
4688697 CTCTCTAAATT
1 CTCTCTAAATT
4688708 CTCTC
1 CTCTC
4688713 AAGAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCTAAATT
Found at i:4688697 original size:20 final size:20
Alignment explanation
Indices: 4688674--4688712 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4688664 AACTCTCAAG
4688674 AAACTCTCTAAATTCTCTCT
1 AAACTCTCTAAATTCTCTCT
4688694 AAACTCTCTAAATTCTCTC
1 AAACTCTCTAAATTCTCTC
4688713 AAGAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (20 bp):
AAACTCTCTAAATTCTCTCT
Found at i:4695836 original size:45 final size:46
Alignment explanation
Indices: 4695746--4695838 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
4695736 TATTTTAAAA
*
4695746 TTTTAATCAAATAAATAATTATAGACTTTTATTTATTAATTATAAT
1 TTTTAATCAAATAAATAATTATAGACTTGTATTTATTAATTATAAT
** *
4695792 TTTTAATTGAATAAATAATTATTGA-TTGTATTTATTAATTATAAT
1 TTTTAATCAAATAAATAATTATAGACTTGTATTTATTAATTATAAT
4695837 TT
1 TT
4695839 AATAGCTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (46 bp):
TTTTAATCAAATAAATAATTATAGACTTGTATTTATTAATTATAAT
Found at i:4703698 original size:38 final size:37
Alignment explanation
Indices: 4703606--4703709 Score: 94
Period size: 38 Copynumber: 2.9 Consensus size: 37
4703596 TCGGGTCGGG
* * *
4703606 TATATATATTTA-AATTAAATTTATAAATACTATATA
1 TATATATATTAATAATTAAATTTATTAATATTATATA
*
4703642 TAT-T-TTTTAATTTCAATTAAATTTATTAATATTATATA
1 TATATATATTAA--T-AATTAAATTTATTAATATTATATA
4703680 TATATATATATAATAATT--ATTT-TTAATATT
1 TATATATAT-TAATAATTAAATTTATTAATATT
4703710 TATCGGGCTG
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
34 4 0.07
35 9 0.16
36 7 0.12
38 29 0.52
39 2 0.04
40 2 0.04
41 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (37 bp):
TATATATATTAATAATTAAATTTATTAATATTATATA
Found at i:4704361 original size:7 final size:8
Alignment explanation
Indices: 4704335--4704376 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
4704325 TATGTTTCTT
4704335 TTTATGTA
1 TTTATGTA
4704343 TTTATGTA
1 TTTATGTA
4704351 TTTAT-TA
1 TTTATGTA
4704358 TTTAT-T-
1 TTTATGTA
*
4704364 TTTATGTT
1 TTTATGTA
4704372 TTTAT
1 TTTAT
4704377 CGCTTATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.16
7 9 0.28
8 18 0.56
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (8 bp):
TTTATGTA
Found at i:4704696 original size:27 final size:27
Alignment explanation
Indices: 4704639--4704699 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
4704629 TTTTTTATTG
*
4704639 CAAAAATTTAAGTATTTCTTTCAACAA
1 CAAAAATTTAAGTATGTCTTTCAACAA
4704666 -AAAAATTTAAGTATGTCTTTCAACAA
1 CAAAAATTTAAGTATGTCTTTCAACAA
4704692 CAAAAATT
1 CAAAAATT
4704700 CACTTGAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (27 bp):
CAAAAATTTAAGTATGTCTTTCAACAA
Found at i:4707167 original size:32 final size:32
Alignment explanation
Indices: 4707120--4707188 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
4707110 GCGTGTACCG
* * * *
4707120 TAGGATGCGCTATTCAAGGGATGCGCATTTCC
1 TAGGATGCACCATTCAAGGGAGGCACATTTCC
*
4707152 TAGGATGCACCATTCAATGGAGGCACATTTCC
1 TAGGATGCACCATTCAAGGGAGGCACATTTCC
4707184 TAGGA
1 TAGGA
4707189 CACGCCTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (32 bp):
TAGGATGCACCATTCAAGGGAGGCACATTTCC
Found at i:4707756 original size:6 final size:6
Alignment explanation
Indices: 4707740--4707785 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
4707730 AGTAGAATTT
4707740 CCCTT- CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTT
4707786 ATACCCTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTTC
Found at i:4716503 original size:2 final size:2
Alignment explanation
Indices: 4716496--4716520 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4716486 TTTCAAATAG
4716496 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4716521 GAATTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4722620 original size:186 final size:186
Alignment explanation
Indices: 4722306--4722659 Score: 627
Period size: 186 Copynumber: 1.9 Consensus size: 186
4722296 ATAAAATTTT
*
4722306 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCTAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
4722371 TTTAAGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAAATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
* * *
4722436 TTATTTTATAATTATGTATTATTTAAATTAATTGTAAAATGTTTTTCTGAATTAAG
131 ATATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTCTGAATTAAG
* * *
4722492 AAATATTAAATATATTATTTATCACATATGAGCTTAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
4722557 TTTAAAATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAAATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
4722622 ATATTTTATAATTATATATTATTTAAATTAATTATAAA
131 ATATTTTATAATTATATATTATTTAAATTAATTATAAA
4722660 CTATTTTTTA
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 159 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAAATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
ATATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTCTGAATTAAG
Found at i:4722644 original size:18 final size:18
Alignment explanation
Indices: 4722623--4722683 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
4722613 ATAAAATTTA
* *
4722623 TATTTTATAATTATATAT
1 TATTTTATAATTATAAAC
*
4722641 TATTTAAATTAATTATAAAC
1 TATTT-TA-TAATTATAAAC
* *
4722661 TATTTTTTAATTATAAAA
1 TATTTTATAATTATAAAC
4722679 TATTT
1 TATTT
4722684 AATTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 20 0.57
19 1 0.03
20 14 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTATAATTATAAAC
Found at i:4725533 original size:3 final size:3
Alignment explanation
Indices: 4725525--4725559 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4725515 AATGATCATC
4725525 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4725560 TATTTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4726331 original size:3 final size:3
Alignment explanation
Indices: 4726265--4726317 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
4726255 TAAACACTTT
4726265 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4726313 TAA TA
1 TAA TA
4726318 TGGTTCAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4728146 original size:16 final size:16
Alignment explanation
Indices: 4728125--4728157 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4728115 TAATAAATAG
4728125 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4728141 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4728157 A
1 A
4728158 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4728238 original size:10 final size:10
Alignment explanation
Indices: 4728223--4728297 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
4728213 CATTTAATAA
4728223 ATAAACGAAC
1 ATAAACGAAC
4728233 ATAAACGAAC
1 ATAAACGAAC
4728243 ----ACGAAC
1 ATAAACGAAC
4728249 ATAAACGAAC
1 ATAAACGAAC
** *
4728259 ACGAAC-ATAA
1 ATAAACGA-AC
4728269 ATGAACACGAAC
1 AT-AA-ACGAAC
4728281 ATAAACGAAC
1 ATAAACGAAC
4728291 ATAAACG
1 ATAAACG
4728298 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4728248 original size:16 final size:16
Alignment explanation
Indices: 4728227--4728291 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
4728217 TAATAAATAA
4728227 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4728243 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4728259 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
4728275 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4728291 A
1 A
4728292 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4729060 original size:14 final size:14
Alignment explanation
Indices: 4729043--4729098 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
4729033 AATGAACATA
4729043 AACGAACATAATCG
1 AACGAACATAATCG
4729057 AACGAACAT-A---
1 AACGAACATAATCG
* *
4729067 AACAAACATAACCG
1 AACGAACATAATCG
4729081 AACGAACATAATCG
1 AACGAACATAATCG
4729095 AACG
1 AACG
4729099 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:4729063 original size:24 final size:24
Alignment explanation
Indices: 4729023--4729097 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
4729013 GATTGAGTTA
*
4729023 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
4729047 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
4729071 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
4729095 AAC
1 AAC
4729098 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:4732186 original size:13 final size:12
Alignment explanation
Indices: 4732162--4732224 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 12
4732152 AGATCCAATC
*
4732162 AGAACAAAAAAG
1 AGAAAAAAAAAG
4732174 AGAAAAGAAAAAG
1 AGAAAA-AAAAAG
4732187 AGAAAAAACAAAG
1 AGAAAAAA-AAAG
*
4732200 ATAAAATATAAAAG
1 AGAAAA-A-AAAAG
4732214 AGAAACAAAAA
1 AGAAA-AAAAA
4732225 CAAAGGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.16
13 24 0.56
14 10 0.23
15 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:4733932 original size:64 final size:64
Alignment explanation
Indices: 4733862--4734055 Score: 327
Period size: 64 Copynumber: 3.0 Consensus size: 64
4733852 AAGCTATCTA
*
4733862 TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTGGAC
1 TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
*
4733926 TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGA-
1 TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * *
4733989 TACAACAAACAACTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACTGCGAAGGATATTGTAC
1 T-CAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
4734054 TC
1 TC
4734056 GAAACAACGC
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.01
64 120 0.98
65 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (64 bp):
TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
Found at i:4734288 original size:149 final size:153
Alignment explanation
Indices: 4733992--4734289 Score: 406
Period size: 149 Copynumber: 2.0 Consensus size: 153
4733982 TATTGGATAC
** *
4733992 AACAAACAACTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACTGCGAAGGATATTGTACTCG
1 AACAAACAACTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCG
* * *
4734057 AAACAACGCAACTTACACAAGATTGGATTTCAACTTCACGATGAAGATTATCCAATTCAAAGCTC
66 -AACAAC-CAAC-TACACAAGATTGGATTTCAACTTCACAAGGAAGAGTATCCAATTCAAAGCTC
4734122 AACTTCACAACGAATGAGCGTTTGTT
128 AACTTCACAACGAATGAGCGTTTGTT
* ** *
4734148 AACAAACAACTTTCCAGTTTCATTTGGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCG
1 AACAAACAACTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCG
* * * *
4734213 -A-AA-TAA-TGCACAATATTGGATTTCAACTTCACAAGGAAGGGTATCCAATTCAAAGCTCAAC
66 AACAACCAACTACACAAGATTGGATTTCAACTTCACAAGGAAGAGTATCCAATTCAAAGCTCAAC
*
4734274 TTCACAGCGAATGAGC
131 TTCACAACGAATGAGC
4734290 CATCCACGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
149 64 0.50
151 2 0.02
153 2 0.02
154 1 0.01
156 58 0.46
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (153 bp):
AACAAACAACTTTCCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCG
AACAACCAACTACACAAGATTGGATTTCAACTTCACAAGGAAGAGTATCCAATTCAAAGCTCAAC
TTCACAACGAATGAGCGTTTGTT
Found at i:4734571 original size:83 final size:85
Alignment explanation
Indices: 4734397--4734602 Score: 265
Period size: 83 Copynumber: 2.4 Consensus size: 85
4734387 TCTCAACCTA
* * * * *
4734397 TTACATCATAACTCAAAGTGAGAAGGGTTATCTGTCAGCAAAGACCTTCGATTTCGATTACATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCGATTTCGATTACATTC
*
4734462 AGCTCAAAGGTATATCAAAT
66 AGCTCAAAGGCATATCAAAT
*
4734482 TTACAGCCTAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AA-ACCCTCGAGTTT-GATTACATT
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCGA-TTTCGATTACATT
* * *
4734544 CAGCTTAAGGGCATATCCAAT
65 CAGCTCAAAGGCATATCAAAT
* * *
4734565 TTACAGCATAGCTCAAGGCGAGAAGGGCTAACTGTCAA
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA
4734603 TAAAAAACTG
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
83 67 0.63
84 5 0.05
85 34 0.32
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (85 bp):
TTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCGATTTCGATTACATTC
AGCTCAAAGGCATATCAAAT
Found at i:4737074 original size:18 final size:19
Alignment explanation
Indices: 4737044--4737080 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4737034 AGTCCATCCA
4737044 ATGTTTCTTTGTTAATATT
1 ATGTTTCTTTGTTAATATT
4737063 ATGTTT-TTTGTTAATATT
1 ATGTTTCTTTGTTAATATT
4737081 CGAATTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (19 bp):
ATGTTTCTTTGTTAATATT
Found at i:4738280 original size:14 final size:14
Alignment explanation
Indices: 4738261--4738300 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4738251 AGTTTATGTG
4738261 AATATAAATATTTA
1 AATATAAATATTTA
*
4738275 AATATAAAAATTT-
1 AATATAAATATTTA
4738288 -AT-TAAATATTTA
1 AATATAAATATTTA
4738300 A
1 A
4738301 TCAAGTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 8 0.36
12 2 0.09
14 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATAAATATTTA
Found at i:4740227 original size:21 final size:19
Alignment explanation
Indices: 4740184--4740223 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4740174 AAGATGCAAA
* *
4740184 ATTTATTATATTTTAAATT
1 ATTTATTAAATATTAAATT
4740203 ATTTATTAAATATT-AATT
1 ATTTATTAAATATTAAATT
4740221 ATT
1 ATT
4740224 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATTAAATATTAAATT
Found at i:4746060 original size:25 final size:25
Alignment explanation
Indices: 4745992--4746060 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
4745982 TCTATAACCC
4745992 TAAAAAT-AACTAAA-GATAAAATCT
1 TAAAAATAAAC-AAATGATAAAATCT
** *
4746016 TAAAAATATTCAAATAATAAAATCT
1 TAAAAATAAACAAATGATAAAATCT
*
4746041 TAAAAATAAACGAATGATAA
1 TAAAAATAAACAAATGATAA
4746061 TTCCCAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 10 0.28
25 26 0.72
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (25 bp):
TAAAAATAAACAAATGATAAAATCT
Found at i:4746701 original size:3 final size:3
Alignment explanation
Indices: 4746693--4746758 Score: 98
Period size: 3 Copynumber: 21.7 Consensus size: 3
4746683 TTGTCTGAGT
4746693 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
4746742 TTTA TTT TTA TT- TTA TT
1 -TTA TTA TTA TTA TTA TT
4746759 TATAGGCCTT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 50 0.85
4 7 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:4747032 original size:18 final size:18
Alignment explanation
Indices: 4747001--4747035 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4746991 GTTCAAACAA
*
4747001 CCAAAAAATAAATCAAAT
1 CCAAAAAACAAATCAAAT
*
4747019 CCAAAAAACCAATCAAA
1 CCAAAAAACAAATCAAA
4747036 AGCAGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.23, G:0.00, T:0.11
Consensus pattern (18 bp):
CCAAAAAACAAATCAAAT
Found at i:4753543 original size:122 final size:122
Alignment explanation
Indices: 4753326--4753547 Score: 426
Period size: 122 Copynumber: 1.8 Consensus size: 122
4753316 TTCCAGAAGA
*
4753326 TGCAAACTTAAACTGAGGAGTTGCTACACTGACATTGGGGCAAGCTTTTTCCAGGATGATCAAGA
1 TGCAAACTTAAACTGAGGAGTTGCTACACTGACATTGGGGCAAGCTTTTTCCAGGACGATCAAGA
*
4753391 AGAGGAACACCAAGTTCTTCACTAAGAAGTCAGAAGTAGATTGATGACCAACATATT
66 AGAGGAACACCAAGTTCTTCACTAACAAGTCAGAAGTAGATTGATGACCAACATATT
4753448 TGCAAACTTAAACTGAGGAGTTGCTACACTGACATTGGGGCAAGCTTTTTCCAGGACGATCAAGA
1 TGCAAACTTAAACTGAGGAGTTGCTACACTGACATTGGGGCAAGCTTTTTCCAGGACGATCAAGA
4753513 AGAGGAACACCAAGTTCTTCACTAACAAGTCAGAA
66 AGAGGAACACCAAGTTCTTCACTAACAAGTCAGAA
4753548 AGCGATTTTC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 98 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (122 bp):
TGCAAACTTAAACTGAGGAGTTGCTACACTGACATTGGGGCAAGCTTTTTCCAGGACGATCAAGA
AGAGGAACACCAAGTTCTTCACTAACAAGTCAGAAGTAGATTGATGACCAACATATT
Found at i:4754786 original size:2 final size:2
Alignment explanation
Indices: 4754779--4754809 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4754769 ATTTTAGCCT
*
4754779 TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4754810 ATATATATAT
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:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:4755263 original size:94 final size:94
Alignment explanation
Indices: 4755157--4755346 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
4755147 TTTGTATGTT
4755157 ATGTTTTTTACGTTTAAACCTTATCCTTGCCATGTTTGTTATTTTACCTTTAAAATTTATGTTTC
1 ATGTTTTTTACGTTTAAACCTTATCCTTGCCATGTTTGTTATTTTACCTTTAAAATTTATGTTTC
4755222 TTTTTATTTATTTAATCATAAGATTATAC
66 TTTTTATTTATTTAATCATAAGATTATAC
4755251 ATGTTTTTTACGTTTAAACCTTATCCTTGCCATGTTTGTTATTTTACCTTTAAAATTTATGTTTC
1 ATGTTTTTTACGTTTAAACCTTATCCTTGCCATGTTTGTTATTTTACCTTTAAAATTTATGTTTC
4755316 TTTTTATTTATTTAATCATAAGATTATAC
66 TTTTTATTTATTTAATCATAAGATTATAC
4755345 AT
1 AT
4755347 TTGATTTGTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (94 bp):
ATGTTTTTTACGTTTAAACCTTATCCTTGCCATGTTTGTTATTTTACCTTTAAAATTTATGTTTC
TTTTTATTTATTTAATCATAAGATTATAC
Found at i:4761108 original size:3 final size:3
Alignment explanation
Indices: 4761100--4761147 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
4761090 ATTTTTTCAT
4761100 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4761147 T
1 T
4761148 AAATTATCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4762258 original size:13 final size:13
Alignment explanation
Indices: 4762240--4762264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4762230 TCGTGCATTT
4762240 TAATTTTGTTTTG
1 TAATTTTGTTTTG
4762253 TAATTTTGTTTT
1 TAATTTTGTTTT
4762265 ATTTATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TAATTTTGTTTTG
Found at i:4762984 original size:26 final size:27
Alignment explanation
Indices: 4762894--4762986 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 27
4762884 TCAATTTCTT
* * *
4762894 TTATTTTGATCATTATTTAATTACAATT-
1 TTATTTT-ATTATTA-TTACTTTCAATTA
* *
4762922 TTATTTTGTTTTTATTACTTTCAA-TA
1 TTATTTTATTATTATTACTTTCAATTA
*
4762948 -T-TTTTA-AATTATTACTTT-AATTA
1 TTATTTTATTATTATTACTTTCAATTA
4762971 TTATTTTATTATTATT
1 TTATTTTATTATTATT
4762987 CATATTAGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
22 2 0.04
23 12 0.24
24 5 0.10
25 7 0.14
26 14 0.27
27 4 0.08
28 7 0.14
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTTTATTATTATTACTTTCAATTA
Found at i:4763344 original size:125 final size:127
Alignment explanation
Indices: 4763205--4763451 Score: 419
Period size: 125 Copynumber: 2.0 Consensus size: 127
4763195 TATATACTAA
*
4763205 TTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATTTATTAATATTAAGAAAT
1 TTTATTTTAATTATTTTTAGAGAAATATTTTATTAATATTTATTTATTTATTAATATTAAGAAAT
* *
4763270 GGGTTGTCTTAAAGTACCTAGAAGTCATTTTCTGATATTAT-TAAATAAATAAATATCCTATT
66 GGATTGTCTTAAAGCACCTAGAAGTCATTTTCTGATA-TATCTAAATAAATAAATATCCTATT
*
4763332 TTTA-TTT-ATTATTTTTAGAGAAATATTTTATTAATATTTATTTATTTTTTAATATTAAGAAAT
1 TTTATTTTAATTATTTTTAGAGAAATATTTTATTAATATTTATTTATTTATTAATATTAAGAAAT
*
4763395 GGATTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATATCTAAGTAAATAAATATC
66 GGATTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATATCTAAATAAATAAATATC
4763452 TCATTTAAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
124 3 0.03
125 104 0.91
126 3 0.03
127 4 0.04
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (127 bp):
TTTATTTTAATTATTTTTAGAGAAATATTTTATTAATATTTATTTATTTATTAATATTAAGAAAT
GGATTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATATCTAAATAAATAAATATCCTATT
Found at i:4768596 original size:72 final size:72
Alignment explanation
Indices: 4768479--4768620 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
4768469 ACAATAAAGC
* * *
4768479 TTGAGTTATCCCCCTAAAGTAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAGCTAGCCT
1 TTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCAGACTTTATGGATAATATTAAGCTAGCCT
*
4768544 GTTATGA
66 ATTATGA
* *
4768551 TTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCTAG-CTTTATGGATAATATTAAGCTAGCC
1 TTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCC-AGACTTTATGGATAATATTAAGCTAGCC
4768615 TATTAT
65 TATTAT
4768621 ACTATTATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 62 0.98
73 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (72 bp):
TTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCAGACTTTATGGATAATATTAAGCTAGCCT
ATTATGA
Found at i:4773831 original size:45 final size:44
Alignment explanation
Indices: 4773767--4773899 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 44
4773757 CTATTTCTCA
4773767 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAG-CCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
* * *
4773812 CATCTATAAGCCTTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCC-TTCAGTGCATGATGTTTTCAAAACCTTCAGGT
* * *
4773857 CATCTGTAAGTCCTACAGTACAGGATGTTTTCGAAAAGCCTTC
1 CATCTGTAAG-CCTTCAGTGCATGATGTTTTC-AAAA-CCTTC
4773900 GGGAGCTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 2 0.03
45 64 0.84
46 5 0.07
47 5 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (44 bp):
CATCTGTAAGCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
Found at i:4773961 original size:45 final size:45
Alignment explanation
Indices: 4773912--4774013 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 45
4773902 GAGCTTTTTA
* *
4773912 ATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTACAGTGCAAG
* * * *
4773957 ATGTTTTCAAAGCCTTTGGGTCATCTGTAAGTCCTACAGTGCAAG
1 ATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTACAGTGCAAG
4774002 ATGTTTTCAAAA
1 ATGTTTTCAAAA
4774014 AGCCTTCAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
ATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTACAGTGCAAG
Found at i:4774005 original size:121 final size:121
Alignment explanation
Indices: 4773791--4774099 Score: 438
Period size: 121 Copynumber: 2.5 Consensus size: 121
4773781 TCAGTGCATG
* * * *
4773791 ATGTTTTCAAAACCTTCAGGTCATCTATAAGCCTTTCAGTGCATGATGTTTTCAAAGCCTTCGGG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTTGGG
* * *
4773856 TCATCTGTAAGTCCTACAGTACAGGATGTTTTCGAAAAGCCTTCGGGAGCTTTTTA
66 TCATCTGTAAGTCCTACAGTACAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTA
*
4773912 ATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTTGGG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTTGGG
* *
4773977 TCATCTGTAAGTCCTACAGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTG
66 TCATCTGTAAGTCCTACAGTACAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTA
* * * * * * * *
4774033 ATATATTCAAAGCCTTCGGGTTATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTTTG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTTG
4774098 GG
64 GG
4774100 AGCTTTTTGA
Statistics
Matches: 167, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
121 155 0.93
123 12 0.07
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (121 bp):
ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTTGGG
TCATCTGTAAGTCCTACAGTACAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTA
Found at i:4774045 original size:76 final size:76
Alignment explanation
Indices: 4773955--4774249 Score: 423
Period size: 76 Copynumber: 3.9 Consensus size: 76
4773945 CTTCAGTGCA
* * *
4773955 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGTCCTACAGTGCAAGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
*
4774020 CAGGAGCTTTT
66 CGGGAGCTTTT
* *
4774031 TGATATATTCAAAGCCTTCGGGTTATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
*
4774096 TGGGAGCTTTT
66 CGGGAGCTTTT
* * *
4774107 TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTGCAGGATATTTTCGAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
4774172 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * ** * *
4774183 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTC--AAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
4774246 CGGG
66 CGGG
4774250 TCATCTATAA
Statistics
Matches: 198, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
74 12 0.06
76 186 0.94
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:4774219 original size:273 final size:273
Alignment explanation
Indices: 4773834--4774362 Score: 851
Period size: 273 Copynumber: 1.9 Consensus size: 273
4773824 TTTCAGTGCA
* * *
4773834 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTACAGGATGTTTTCGAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTACAGGATATTTTCGAAAAGCCTT
4773899 CGGGAGCTTTTTAATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATGATGTTTT
66 CGGGAGCTTTTTAATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATGATGTTTT
* * *
4773964 CAAAGCCTTTGGGTCATCTGTAAGTCCTACAGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTT
131 CAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTT
* * *
4774029 TTTGATATATTCAAAGCCTTCGGGTTATCTGTAAGTCCTACAGTGCAAGATATTTTCAAAAAGCC
196 TTTGATATATTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAAGATATTTTCAAAAAGCC
4774094 TTTGGGAGCTTTT
261 TTTGGGAGCTTTT
*
4774107 TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTGCAGGATATTTTCGAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTACAGGATATTTTCGAAAAGCCTT
* * *
4774172 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTT
66 CGGGAGCTTTTTAATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATGATGTTTT
* * *
4774237 CAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCAGGATGTTTTTAAAAAGCCTTCGGGAGCTT
131 CAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTT
* * * * * * *
4774302 TTTGATGTTTTCAAAACCTTCTGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAA
196 TTTGATATATTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAAGATATTTTCAAAA
4774363 CCTTCAGGTC
Statistics
Matches: 233, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
273 233 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (273 bp):
TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTACAGGATATTTTCGAAAAGCCTT
CGGGAGCTTTTTAATGTTTTCAAAACCTTCGGGTCAGCTGTAAGCCCTTCAGTGCATGATGTTTT
CAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTT
TTTGATATATTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAAGATATTTTCAAAAAGCC
TTTGGGAGCTTTT
Found at i:4774234 original size:45 final size:45
Alignment explanation
Indices: 4774183--4774296 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
4774173 GGGAGCTTTT
* ** *
4774183 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAATGCA
* *
4774228 TGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAATGCA
* *
4774273 GGATGTTTTTAAAAAGCCTTCGGG
1 TGATG-TTTTCAAAA-CCTTCGGG
4774297 AGCTTTTTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 43 0.74
46 7 0.12
47 8 0.14
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAATGCA
Found at i:4774249 original size:121 final size:121
Alignment explanation
Indices: 4774107--4774393 Score: 457
Period size: 121 Copynumber: 2.4 Consensus size: 121
4774097 GGGAGCTTTT
* * *
4774107 TGATATTTTCAAAGCCTTCGGGCCATCTGTAAGTCCTACAGTGCAGGATATTTTCGAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATATTTTCAAAAAGCCTT
*
4774172 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTTAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
4774228 TGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTACAATGCAGGATGTTTTTAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATATTTTCAAAAAGCCTT
*
4774293 CGGGAGCTTTTTGATGTTTTCAAAACCTTCTGGTCATCTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
4774349 TGATGTTTTTAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCA
4774394 AGATGATAAG
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 151 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATATTTTCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:4774353 original size:45 final size:45
Alignment explanation
Indices: 4774304--4774398 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
4774294 GGGAGCTTTT
* *
4774304 TGATGTTTTCAAAACCTTCTGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
*
4774349 TGATGTTTTTAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
*
4774394 AGATG
1 TGATG
4774399 ATAAGACCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTACAGTGCA
Found at i:4774424 original size:20 final size:20
Alignment explanation
Indices: 4774399--4774453 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
4774389 GTGCAAGATG
4774399 ATAAGACCTCCGGGCCATTC
1 ATAAGACCTCCGGGCCATTC
*
4774419 ATAAGACCTTCGGGCCATTC
1 ATAAGACCTCCGGGCCATTC
*
4774439 ATAAGACCTCTGGGC
1 ATAAGACCTCCGGGC
4774454 AGAATGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (20 bp):
ATAAGACCTCCGGGCCATTC
Found at i:4774619 original size:18 final size:18
Alignment explanation
Indices: 4774590--4774649 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
4774580 TTTTCATTTT
*
4774590 ATTATT-TTATTATTATT
1 ATTATTATTATTATTATA
* *
4774607 ATTATAATTATTATAATA
1 ATTATTATTATTATTATA
4774625 ATTATTATTATT-TTATAA
1 ATTATTATTATTATTAT-A
4774643 ATTATTA
1 ATTATTA
4774650 CAAAACAGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.22
18 28 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATTATTATTATTATA
Found at i:4774649 original size:3 final size:3
Alignment explanation
Indices: 4774588--4774640 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
4774578 TTTTTTCATT
* * *
4774588 TTA TTA TT- TTA TTA TTA TTA TTA TAA TTA TTA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4774635 TT- TTA T
1 TTA TTA T
4774641 AAATTATTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4776495 original size:11 final size:11
Alignment explanation
Indices: 4776410--4776498 Score: 53
Period size: 11 Copynumber: 8.2 Consensus size: 11
4776400 TTCTTTTTAT
*
4776410 TTTAATCATTA
1 TTTAATTATTA
**
4776421 TTTAATTACAA
1 TTTAATTATTA
*
4776432 TTTTATT-TTA
1 TTTAATTATTA
4776442 TTT--TTATTA
1 TTTAATTATTA
4776451 CTTTCAA-TATGT-
1 -TTT-AATTAT-TA
*
4776463 TTAAATTATTA
1 TTTAATTATTA
4776474 CTTTAATTATTA
1 -TTTAATTATTA
*
4776486 TTTTATTATTA
1 TTTAATTATTA
4776497 TT
1 TT
4776499 CATATTAGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
8 2 0.03
9 3 0.05
10 10 0.17
11 31 0.52
12 13 0.22
13 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:4776847 original size:126 final size:128
Alignment explanation
Indices: 4776705--4776955 Score: 470
Period size: 126 Copynumber: 2.0 Consensus size: 128
4776695 TATATACTAA
*
4776705 TTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAA
1 TTTATTTTAATTATTTTAAGAGAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAA
*
4776770 TGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATT
66 TGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATT
4776833 TTTA-TTT-ATTATTTTAAGAGAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAA
1 TTTATTTTAATTATTTTAAGAGAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAA
4776896 TGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCT
66 TGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCT
4776956 TCCCCAAACG
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
126 114 0.94
127 3 0.02
128 4 0.03
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (128 bp):
TTTATTTTAATTATTTTAAGAGAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAA
TGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATT
Found at i:4782804 original size:37 final size:37
Alignment explanation
Indices: 4782763--4782839 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
4782753 GTTATATTTG
4782763 GAATTTAGTTTACAAACAGAGACTGAAAATATAAGAT
1 GAATTTAGTTTACAAACAGAGACTGAAAATATAAGAT
4782800 GAATTTAGTTTACAAACAGAGACTGAAAATATAAGAT
1 GAATTTAGTTTACAAACAGAGACTGAAAATATAAGAT
4782837 GAA
1 GAA
4782840 AATATAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (37 bp):
GAATTTAGTTTACAAACAGAGACTGAAAATATAAGAT
Found at i:4782841 original size:13 final size:13
Alignment explanation
Indices: 4782823--4782848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4782813 AAACAGAGAC
4782823 TGAAAATATAAGA
1 TGAAAATATAAGA
4782836 TGAAAATATAAGA
1 TGAAAATATAAGA
4782849 ACGACCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
TGAAAATATAAGA
Found at i:4786918 original size:17 final size:17
Alignment explanation
Indices: 4786896--4786936 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4786886 CCATTTCCCA
4786896 TTCCATTC-ATCCTTCTT
1 TTCCATTCAAT-CTTCTT
*
4786913 TTCCATTCAATCTTGTT
1 TTCCATTCAATCTTCTT
4786930 TTCCATT
1 TTCCATT
4786937 TAGTCCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (17 bp):
TTCCATTCAATCTTCTT
Found at i:4787820 original size:21 final size:21
Alignment explanation
Indices: 4787790--4787841 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4787780 TTAATCTAGG
4787790 AGTATTGATACTCAGAGTGAA
1 AGTATTGATACTCAGAGTGAA
* * *
4787811 AGTATCGATACTCAGGGTGAT
1 AGTATTGATACTCAGAGTGAA
4787832 AGTATTGATA
1 AGTATTGATA
4787842 TTGGGGCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.31
Consensus pattern (21 bp):
AGTATTGATACTCAGAGTGAA
Found at i:4789012 original size:2 final size:2
Alignment explanation
Indices: 4789005--4789045 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4788995 TCGTCTAAAG
4789005 TA TA TA TA TA TA TA TA TA TA 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 TA TA TA TA TA T
4789046 GAGTGTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4789155 original size:22 final size:23
Alignment explanation
Indices: 4789097--4789161 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 23
4789087 ATATATACTG
4789097 CAGTGCTAAGGCACTT-TAGTAT
1 CAGTGCTAAGGCACTTCTAGTAT
* **
4789119 CAGTGCAAAAACACTTCT-GTAT
1 CAGTGCTAAGGCACTTCTAGTAT
4789141 CAGTGCTAAGGCACTTC-AGTA
1 CAGTGCTAAGGCACTTCTAGTA
4789162 AATTGATGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
CAGTGCTAAGGCACTTCTAGTAT
Found at i:4791080 original size:24 final size:20
Alignment explanation
Indices: 4791024--4791081 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
4791014 TTCCCCTTGA
*
4791024 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
4791044 AGTACATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4791067 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4791082 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4791173 original size:45 final size:44
Alignment explanation
Indices: 4791089--4791190 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 44
4791079 GCACTACCCA
* * * *
4791089 TGCATCGATACACCAATCACCTTCGATATTTTCATTTTAAGTGGG
1 TGCATCGATACACCAATCACATTCGATAGTTTCATTTTAA-AGAG
* * * *
4791134 TGCATCGATGCACTAATTACATTCGAT-GTTTCTTCTTTAAAGAG
1 TGCATCGATACACCAATCACATTCGATAGTTTCAT-TTTAAAGAG
4791178 TGCATCGATACAC
1 TGCATCGATACAC
4791191 ATTGAATGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 19 0.40
45 28 0.60
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (44 bp):
TGCATCGATACACCAATCACATTCGATAGTTTCATTTTAAAGAG
Found at i:4793376 original size:131 final size:131
Alignment explanation
Indices: 4793150--4793406 Score: 480
Period size: 131 Copynumber: 2.0 Consensus size: 131
4793140 AGACTTCCAC
4793150 TTGTGCTCATTTATGTTCATGCAATTAAGTATCTAACACACATTGTACGCGTTTATATTTTTTGA
1 TTGTGCTCATTTATGTTCATGCAATTAAGTATCTAACACACATTGTACGCGTTTATATTTTTTGA
4793215 ACAAAATTTGTATATATTTTTTATATTTTTTTGCCCATATTTTTCATTTTCTTTTATTTTAGTCA
66 ACAAAATTTGTATATATTTTTTATATTTTTTTGCCCATATTTTTCATTTTCTTTTATTTTAGTCA
4793280 A
131 A
4793281 TTGTGCTCATTTATGTTCATGCAATTAAGTATCTAACACACATTGTACGCGTTTATATTTTTTGA
1 TTGTGCTCATTTATGTTCATGCAATTAAGTATCTAACACACATTGTACGCGTTTATATTTTTTGA
* *
4793346 ACAAAATTTGTATATATCTTTTTATA-TTTTTTGTCCATCTTTTTCATTTTCTTTTATTTTA
66 ACAAAATTTGTATATAT-TTTTTATATTTTTTTGCCCATATTTTTCATTTTCTTTTATTTTA
4793407 ATCAGGAGAG
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
131 115 0.93
132 8 0.07
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (131 bp):
TTGTGCTCATTTATGTTCATGCAATTAAGTATCTAACACACATTGTACGCGTTTATATTTTTTGA
ACAAAATTTGTATATATTTTTTATATTTTTTTGCCCATATTTTTCATTTTCTTTTATTTTAGTCA
A
Found at i:4793601 original size:43 final size:43
Alignment explanation
Indices: 4793538--4793824 Score: 196
Period size: 43 Copynumber: 6.7 Consensus size: 43
4793528 AATTTGTTTT
* *
4793538 TATCTTTATAATTGATGCCCCTAATTTTTGTAATCCTACTTTC
1 TATCTTTATAATTGAGGCCCCTAATTTTTGTAATCCTACTTTA
*
4793581 TATCTTTATAATT-AGGGCCCCTAATTTGTGTAATCCTACTTTA
1 TATCTTTATAATTGA-GGCCCCTAATTTTTGTAATCCTACTTTA
* * *
4793624 TATCTTTATAATTGAGGCCCTTAATTTTTTTCAATCCCACTTT-
1 TATCTTTATAATTGAGGCCCCTAATTTTTGT-AATCCTACTTTA
* * * * * ** ** *
4793667 TTTACATTTACAATTGATGACACTAAACTTTCCAA-CCTCACTTTG
1 TAT-C-TTTATAATTGAGGCCCCTAATTTTTGTAATCCT-ACTTTA
* * * * *
4793712 TATCTTTATAATTGA-ACTCCTAATTTTTTTCAAT-TTCACTTTC
1 TATCTTTATAATTGAGGCCCCTAATTTTTGT-AATCCT-ACTTTA
* * * *
4793755 TA-CTTTTATAATTGAGACCCTTAAGTTTT-TAA-CC-ACTTTT
1 TATC-TTTATAATTGAGGCCCCTAATTTTTGTAATCCTACTTTA
*
4793795 TACCTTTATAATTGAGGCCCCTAACTTTTT
1 TATCTTTATAATTGAGGCCCCTAA-TTTTT
4793825 CAATATCATT
Statistics
Matches: 192, Mismatches: 38, Indels: 30
0.74 0.15 0.12
Matches are distributed among these distances:
40 25 0.13
41 5 0.03
42 11 0.06
43 101 0.53
44 30 0.16
45 20 0.10
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (43 bp):
TATCTTTATAATTGAGGCCCCTAATTTTTGTAATCCTACTTTA
Found at i:4793904 original size:45 final size:45
Alignment explanation
Indices: 4793840--4793936 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
4793830 TCATTTTTAC
* *
4793840 CCCTAA-TTTTTTTCAATTTCACTATTTATCTTTAAAATTGAAG-
1 CCCTAATTTTTTTTCAATTTCACTATTTACCTTTAAAATTAAAGT
* *
4793883 CTCCTAATTTTTTTTTAATTTCACTCTTTACCTTTAAAATTAAAGT
1 C-CCTAATTTTTTTTCAATTTCACTATTTACCTTTAAAATTAAAGT
4793929 CCCTAATT
1 CCCTAATT
4793937 CTTTAAAAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 5 0.11
45 40 0.85
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (45 bp):
CCCTAATTTTTTTTCAATTTCACTATTTACCTTTAAAATTAAAGT
Found at i:4800981 original size:17 final size:17
Alignment explanation
Indices: 4800961--4800994 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4800951 AAAATGATGG
4800961 TCAAAATAAAAAAATTA
1 TCAAAATAAAAAAATTA
* *
4800978 TCAAATTATAAAAATTA
1 TCAAAATAAAAAAATTA
4800995 AGAACCCTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TCAAAATAAAAAAATTA
Found at i:4801198 original size:21 final size:21
Alignment explanation
Indices: 4801182--4801224 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4801172 TAATTTTGAC
4801182 ACTATAAAATATTATTTTAAA
1 ACTATAAAATATTATTTTAAA
4801203 ACTATAAAATATTATTTTAAA
1 ACTATAAAATATTATTTTAAA
4801224 A
1 A
4801225 TATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ACTATAAAATATTATTTTAAA
Found at i:4803334 original size:21 final size:21
Alignment explanation
Indices: 4803310--4803359 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4803300 GAGGAAAAAA
*
4803310 ATCGATCCCTTC-ACCAAAATG
1 ATCGATCCC-TCGACCAAAAGG
* *
4803331 ATCGATCTCTCGACGAAAAGG
1 ATCGATCCCTCGACCAAAAGG
4803352 ATCGATCC
1 ATCGATCC
4803360 ATTCCCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (21 bp):
ATCGATCCCTCGACCAAAAGG
Found at i:4804010 original size:42 final size:42
Alignment explanation
Indices: 4803963--4804043 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
4803953 CTTCCACCAA
*
4803963 ATTTCTTAGAAGGCGCATATTTCGGTTGTTCGTAAGAGCCAC
1 ATTTCTTAGAAGGCACATATTTCGGTTGTTCGTAAGAGCCAC
*
4804005 ATTTCTTAGAAGGCACATATTTCGGTTGTTCGTTAGAGC
1 ATTTCTTAGAAGGCACATATTTCGGTTGTTCGTAAGAGC
4804044 TAACAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
ATTTCTTAGAAGGCACATATTTCGGTTGTTCGTAAGAGCCAC
Found at i:4813948 original size:27 final size:27
Alignment explanation
Indices: 4813918--4813970 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4813908 GAATGTTTTT
4813918 AATATAT-TAAATAATAATTTTTAAAAA
1 AATATATAT-AATAATAATTTTTAAAAA
* *
4813945 AATATATATATTTATAATTTTTAAAA
1 AATATATATAATAATAATTTTTAAAA
4813971 CAAAAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATATATATAATAATAATTTTTAAAAA
Found at i:4829787 original size:18 final size:18
Alignment explanation
Indices: 4829764--4829808 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
4829754 TTAGTAATCA
4829764 TATTCCCTGATAATCTTT
1 TATTCCCTGATAATCTTT
*
4829782 TATTCCCACTGGTAATCTTT
1 TATT-CC-CTGATAATCTTT
4829802 TATTCCC
1 TATTCCC
4829809 AATAATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 15 0.62
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (18 bp):
TATTCCCTGATAATCTTT
Found at i:4829817 original size:20 final size:20
Alignment explanation
Indices: 4829773--4829820 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4829763 ATATTCCCTG
* *
4829773 ATAATCTTTTATTCCCACTG
1 ATAATCTTTTATTCCCAATA
*
4829793 GTAATCTTTTATTCCCAATA
1 ATAATCTTTTATTCCCAATA
4829813 ATAATCTT
1 ATAATCTT
4829821 ACATTTCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.04, T:0.46
Consensus pattern (20 bp):
ATAATCTTTTATTCCCAATA
Found at i:4833058 original size:22 final size:21
Alignment explanation
Indices: 4833033--4833084 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
4833023 ATTTAATTAA
*
4833033 AATAAATAATTTAAAAGAAAAG
1 AATAAATAAATTAAAA-AAAAG
**
4833055 AATAGCTAAATTAAAAAAAAG
1 AATAAATAAATTAAAAAAAAG
*
4833076 -ATGAATAAA
1 AATAAATAAA
4833085 GGATCGAATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 6 0.25
21 5 0.21
22 13 0.54
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (21 bp):
AATAAATAAATTAAAAAAAAG
Found at i:4835833 original size:17 final size:17
Alignment explanation
Indices: 4835806--4835854 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
4835796 TCCGAGCCAT
*
4835806 TTTCAATGCTCAAGTGAC
1 TTTC-ATGCTCAAGTCAC
4835824 TTTCATGCTCAAGTCAC
1 TTTCATGCTCAAGTCAC
*
4835841 TTCCATGCTCAAGT
1 TTTCATGCTCAAGT
4835855 ACATAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (17 bp):
TTTCATGCTCAAGTCAC
Found at i:4837303 original size:60 final size:59
Alignment explanation
Indices: 4837222--4837382 Score: 182
Period size: 60 Copynumber: 2.7 Consensus size: 59
4837212 CCATATGAAA
* * *
4837222 TACCCTAGACCCTAGGATCTAGGATTCCATTATGGAAG-ATACAAGCATCCATAAGGATT
1 TACCCTACACCCTAGGATCTAGGAGTCCATTATGGAAGAAT-CAAGCATCCATAAGGACT
* * * **
4837281 TACCTTACACCCTTAGGATCTAGGAGTCTATTATAGAAGAATCGGGCATCCATAAGGACT
1 TACCCTACACCC-TAGGATCTAGGAGTCCATTATGGAAGAATCAAGCATCCATAAGGACT
* * * *
4837341 TACCCTAGATCCTAGAATCTAGGAGTCCATTAT-GAAAAATCA
1 TACCCTACACCCTAGGATCTAGGAGTCCATTATGGAAGAATCA
4837383 TAACATACAG
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 7 0.08
59 29 0.34
60 47 0.55
61 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (59 bp):
TACCCTACACCCTAGGATCTAGGAGTCCATTATGGAAGAATCAAGCATCCATAAGGACT
Found at i:4838196 original size:15 final size:15
Alignment explanation
Indices: 4838178--4838207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4838168 CAACGATCAA
*
4838178 CAGGTTGACTCGGTC
1 CAGGTTAACTCGGTC
4838193 CAGGTTAACTCGGTC
1 CAGGTTAACTCGGTC
4838208 TGAGTTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (15 bp):
CAGGTTAACTCGGTC
Found at i:4841565 original size:60 final size:59
Alignment explanation
Indices: 4841458--4841610 Score: 209
Period size: 60 Copynumber: 2.6 Consensus size: 59
4841448 AAATACCCTC
* * * *
4841458 GAACATACATCTATAAGGACTTACCTTAGTCCC-TAGGATCTAGGAGTCCAATATGGAA
1 GAACATGCATCTATAAGGACTTACCCTAGACCCTTAGGAGCTAGGAGTCCAATATGGAA
* *
4841516 GATACATGCATTTATAAGGACTTACCCTAGACCCTTAGGAGCTAGGAGTCCATTATGGAA
1 GA-ACATGCATCTATAAGGACTTACCCTAGACCCTTAGGAGCTAGGAGTCCAATATGGAA
* *
4841576 GAATCAAGCATCCATAAGGACTTACCCTAGACCCT
1 GAA-CATGCATCTATAAGGACTTACCCTAGACCCT
4841611 AGTCCATTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
58 2 0.02
59 28 0.34
60 53 0.64
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (59 bp):
GAACATGCATCTATAAGGACTTACCCTAGACCCTTAGGAGCTAGGAGTCCAATATGGAA
Found at i:4843766 original size:18 final size:18
Alignment explanation
Indices: 4843743--4843796 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
4843733 ACCGGTCATA
*
4843743 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
4843761 ACCCGA-CC-A---GTTG
1 ACCCGACCCGACCCGTTG
4843774 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
4843792 ACCCG
1 ACCCG
4843797 TTGACCGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
15 1 0.03
16 1 0.03
17 2 0.07
18 15 0.50
ACGTcount: A:0.19, C:0.48, G:0.20, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:4843794 original size:8 final size:8
Alignment explanation
Indices: 4843783--4843811 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4843773 GACCCGACCC
4843783 GACCCGTT
1 GACCCGTT
4843791 GACCCGTT
1 GACCCGTT
4843799 GA-CCGTT
1 GACCCGTT
4843806 GACCCG
1 GACCCG
4843812 CGTTGACCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.38, G:0.28, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:4843796 original size:13 final size:13
Alignment explanation
Indices: 4843747--4843783 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4843737 GTCATAACCC
4843747 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
4843760 TACCCGACCAGTT
1 GACCCGACCCGTT
4843773 GACCCGACCCG
1 GACCCGACCCG
4843784 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4845132 original size:18 final size:18
Alignment explanation
Indices: 4845106--4845141 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4845096 TCGAAAGGAC
*
4845106 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
4845124 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
4845142 CGGATGGCAG
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:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:4846304 original size:23 final size:23
Alignment explanation
Indices: 4846278--4846337 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
4846268 TCAAATTTGA
* *
4846278 ATTCTGTTATGATATTGACCTGG
1 ATTCTGATATGATATTGACATGG
*
4846301 ATTCTGATCTGATATTGACATGG
1 ATTCTGATATGATATTGACATGG
*
4846324 ATTCTGATCTGATA
1 ATTCTGATATGATA
4846338 CATGATCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (23 bp):
ATTCTGATATGATATTGACATGG
Found at i:4846360 original size:24 final size:24
Alignment explanation
Indices: 4846328--4846377 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4846318 ACATGGATTC
*
4846328 TGATCTGATACATGA-TCTGAATTA
1 TGATATGATACATGACT-TGAATTA
*
4846352 TGATATGATACTTGACTTGAATTA
1 TGATATGATACATGACTTGAATTA
4846376 TG
1 TG
4846378 TTTTGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (24 bp):
TGATATGATACATGACTTGAATTA
Found at i:4846492 original size:35 final size:35
Alignment explanation
Indices: 4846445--4846519 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
4846435 TTGAGGAAGA
*
4846445 TTACTTGGAGGCTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
4846480 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
4846515 TTACT
1 TTACT
4846520 GTTCGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.09, C:0.29, G:0.29, T:0.32
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:4848213 original size:12 final size:13
Alignment explanation
Indices: 4848196--4848225 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4848186 TTTTCATACC
4848196 AACATC-ACATTT
1 AACATCAACATTT
4848208 AACATCAACATTT
1 AACATCAACATTT
4848221 AACAT
1 AACAT
4848226 GGAATTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
AACATCAACATTT
Found at i:4851630 original size:14 final size:14
Alignment explanation
Indices: 4851596--4851629 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4851586 ACCAAAAAAA
*
4851596 TTAAAATTTTAATT
1 TTAAAATATTAATT
4851610 TTAAAATATTAATT
1 TTAAAATATTAATT
4851624 TATAAA
1 T-TAAA
4851630 TTATAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAATATTAATT
Done.