Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009074.1 Hibiscus syriacus cultivar Beakdansim tig00112507_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: 2143704
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:754292 original size:30 final size:29
Alignment explanation
Indices: 754258--754327 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
754248 TTTAAATATC
* *
754258 TGTTTTAGCTATTTTAGCCTTTTAAGTTTA
1 TGTTTTAGCTATTTAAGCC-TTTAAGTTCA
* *
754288 TGTTTTTA-CCATTTAATCCTTTAAGTTCA
1 TG-TTTTAGCTATTTAAGCCTTTAAGTTCA
*
754317 TGTTTTTGCTA
1 TGTTTTAGCTA
754328 GATTTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.12
29 13 0.41
30 10 0.31
31 5 0.16
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (29 bp):
TGTTTTAGCTATTTAAGCCTTTAAGTTCA
Found at i:757450 original size:2 final size:2
Alignment explanation
Indices: 757443--757480 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
757433 TCATTTATCC
757443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
757481 CCCTTGTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757685 original size:12 final size:13
Alignment explanation
Indices: 757669--757707 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
757659 AAAAAAAGGG
757669 AAAAAAATAAAGCA
1 AAAAAAATAAAG-A
*
757683 AAAAAAGTAAAG-
1 AAAAAAATAAAGA
757695 AAAAAAATAAAGA
1 AAAAAAATAAAGA
757708 CAAGAAGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAGA
Found at i:757686 original size:14 final size:12
Alignment explanation
Indices: 757668--757707 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
757658 CAAAAAAAGG
757668 GAAAAAAATAAA
1 GAAAAAAATAAA
757680 GCAAAAAAAGTAAA
1 G-AAAAAAA-TAAA
757694 GAAAAAAATAAA
1 GAAAAAAATAAA
757706 GA
1 GA
757708 CAAGAAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.27
13 14 0.54
14 5 0.19
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (12 bp):
GAAAAAAATAAA
Found at i:758805 original size:92 final size:92
Alignment explanation
Indices: 758643--758826 Score: 314
Period size: 92 Copynumber: 2.0 Consensus size: 92
758633 GAAAATTCTT
758643 TTTCAAACAAGACAATCACTCTACAGTAGATCTTACTATTTGACATATGGTTCTCAGATGCAAAG
1 TTTCAAACAAGACAATCACTCTACAGTAGATCTTACTATTTGACATATGGTTCTCAGATGCAAAG
*
758708 TTCATGTTTAAAATCAGCGCTGAAGCA
66 CTCATGTTTAAAATCAGCGCTGAAGCA
* * ** *
758735 TTTCAAACAAGACAATCTCTCTACAGTGGATCTTGGTATTTGACATGTGGTTCTCAGATGCAAAG
1 TTTCAAACAAGACAATCACTCTACAGTAGATCTTACTATTTGACATATGGTTCTCAGATGCAAAG
758800 CTCATGTTTAAAATCAGCGCTGAAGCA
66 CTCATGTTTAAAATCAGCGCTGAAGCA
758827 ATAGAGGGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (92 bp):
TTTCAAACAAGACAATCACTCTACAGTAGATCTTACTATTTGACATATGGTTCTCAGATGCAAAG
CTCATGTTTAAAATCAGCGCTGAAGCA
Found at i:759441 original size:13 final size:13
Alignment explanation
Indices: 759423--759448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
759413 CTACGGAGGA
759423 TATCGTACCCACG
1 TATCGTACCCACG
759436 TATCGTACCCACG
1 TATCGTACCCACG
759449 AATCCACGAT
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:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
TATCGTACCCACG
Found at i:765787 original size:21 final size:21
Alignment explanation
Indices: 765761--765800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
765751 CCCCCTTTGA
*
765761 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
765782 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
765801 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:769226 original size:41 final size:42
Alignment explanation
Indices: 769179--769297 Score: 159
Period size: 41 Copynumber: 2.8 Consensus size: 42
769169 GACGAAGGGG
*
769179 CCATCCACGATTTCAACTCCACGACGGAGGATATTGTACCCA
1 CCATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCA
* * * *
769221 -GATCCATGATTTCAATTCCACGACGGAGGATATCGTGCCCA
1 CCATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCA
* *
769262 CCCATCCACGATTTCAACTTCACGACGAAGGATATC
1 -CCATCCACGATTTCAACTCCACGACGGAGGATATC
769298 CAACTTAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 36 0.55
43 29 0.45
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (42 bp):
CCATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCA
Found at i:769561 original size:121 final size:121
Alignment explanation
Indices: 769392--769616 Score: 317
Period size: 121 Copynumber: 1.9 Consensus size: 121
769382 ACAGCACAAG
* * * *
769392 CTTGGATATCAACTTCAGGACGAAGGATATTCAAGTCAAGGCTCAATTTCACGACGAA-GGGACT
1 CTTGGATATCAACTTCAGGACGAAGGATATCCAAGTCAAAGCTCAATTTCACGACGAATGAGACA
* *
769456 CTCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGTAGCAATGTAACC
66 C-CCAAGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGTAGCAATGTAACC
* * * * * *
769513 CTTGGATTTCAACTTCATGACGGAGGATATCCAATTCAAAGCTTAATTTCACGACGAATGAGCCA
1 CTTGGATATCAACTTCAGGACGAAGGATATCCAAGTCAAAGCTCAATTTCACGACGAATGAGACA
*
769578 CCCAAGATTTCAACTTCACGAAGAAGGATATTGTGCCCA
66 CCCAAGATTTCAACTTCACGAAGAAGGATATCGTGCCCA
769617 ATGGATTGAC
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 86 0.96
122 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (121 bp):
CTTGGATATCAACTTCAGGACGAAGGATATCCAAGTCAAAGCTCAATTTCACGACGAATGAGACA
CCCAAGATTTCAACTTCACGAAGAAGGATATCGTGCCCACAAGTAGCAATGTAACC
Found at i:769764 original size:40 final size:40
Alignment explanation
Indices: 769709--769805 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
769699 TAATCAATCG
* *
769709 TCCTCATCACGTAGGAACCGTGTCATCCCTTGACTAGGTC
1 TCCTCATCACGTAGGAACCATGTCATCCCTCGACTAGGTC
*
769749 TCCTCATCACGTAGGAACCATGTCATCCCTCGACTATGTC
1 TCCTCATCACGTAGGAACCATGTCATCCCTCGACTAGGTC
* *
769789 TTCTCATCATGTAGGAA
1 TCCTCATCACGTAGGAA
769806 TTGTGTTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCATGTCATCCCTCGACTAGGTC
Found at i:770879 original size:146 final size:146
Alignment explanation
Indices: 770661--770975 Score: 375
Period size: 146 Copynumber: 2.2 Consensus size: 146
770651 CTTGTCGGTG
* * * *
770661 ATCGGAATCTCCGATCAACATTTTCGAACGGTCAAAAGTTGCGCAAAACCATCACGAACAACATA
1 ATCGGGATCTCCGATCAACATTCTCGAACGGTCAAAAGTTGCGCAAAACCAGCACAAACAACATA
* * ** * *
770726 CGAAAAATTCAAAAGGATCGGAAGGTGGGCGGA-GATGGATCGAAGAAAATAAGCAGAATGGTTT
66 CGAAAAATTCAAAACGATCGGAAGGTGGAC-GACGACAGATCGAAGAAAATAAGCAGAACGATTT
770790 TTGGCCTCTTGCCAGCA
130 TTGGCCTCTTGCCAGCA
* *
770807 ATCGGGATCTCCGATCAACATTCT-GAACGGTCAAAAGTTGCGCGAGACCAGCACAAACAACATA
1 ATCGGGATCTCCGATCAACATTCTCGAACGGTCAAAAGTTGCGCAAAACCAGCACAAACAACATA
* ** * * * *
770871 CTGTAAAATTCAGGACGATTGGACGGTGGACGACGACAGATCGAAGAAAATATGCCGAACGATTT
66 C-GAAAAATTCAAAACGATCGGAAGGTGGACGACGACAGATCGAAGAAAATAAGCAGAACGATTT
* ** *
770936 TTGGCTTCTTGCTGGCG
130 TTGGCCTCTTGCCAGCA
770953 ATCGGGATCAT-CGATCAACATTC
1 ATCGGGATC-TCCGATCAACATTC
770976 CAAATTGTGA
Statistics
Matches: 143, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
145 39 0.27
146 103 0.72
147 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (146 bp):
ATCGGGATCTCCGATCAACATTCTCGAACGGTCAAAAGTTGCGCAAAACCAGCACAAACAACATA
CGAAAAATTCAAAACGATCGGAAGGTGGACGACGACAGATCGAAGAAAATAAGCAGAACGATTTT
TGGCCTCTTGCCAGCA
Found at i:771146 original size:145 final size:147
Alignment explanation
Indices: 770787--771194 Score: 356
Period size: 146 Copynumber: 2.8 Consensus size: 147
770777 AGCAGAATGG
* ** * ** *
770787 TTTTTGGCCTCTTGCCAGCAATCGGGATC-TCCGATCAACATTCTGAACGGTCAAAAGTTGCG-C
1 TTTTTGGCCTCTCGCTGGCGATCGGGATCAT-CGATCAACATTCCAAACGGTCAAAAGTTGTGTC
* * * * * ** **
770850 GA-GACCAGCACAAACAACATACTGTAAAA-TTCAGGACGATTGGACGGTGG-AC-GACGACAGA
65 -ATG-TCAACACGAACAACATAC--TAAAATTTCAGGACGATCGAACGGTGGCACGGTGGTGA-A
* *
770911 TCGAAG-AAA-ATATGCCGAACGA
125 TCGAAGAAAACAAAT-CCGAACAA
* * ** *
770933 TTTTTGGCTTCTTGCTGGCGATCGGGATCATCGATCAACATTCCAAATTGTGAAAAGTTGTGTCA
1 TTTTTGGCCTCTCGCTGGCGATCGGGATCATCGATCAACATTCCAAACGGTCAAAAGTTGTGTCA
* *
770998 TGTCAACATGAATAGA-ATACTAAAATTTCAGGACGATCGAACGGTGG-ACGGTGGTGAATCGAA
66 TGTCAACACGAACA-ACATACTAAAATTTCAGGACGATCGAACGGTGGCACGGTGGTGAATCGAA
771061 GAAAACAAATCCGAACAA
130 GAAAACAAATCCGAACAA
* **
771079 TTTTTGGCCTCTCGCTGGCGATCGGGA-CTTCCGATCAACATT-TTAACGGTCAAAAGTTGTG-C
1 TTTTTGGCCTCTCGCTGGCGATCGGGATCAT-CGATCAACATTCCAAACGGTCAAAAGTTGTGTC
* * *
771141 GATGTCAACACGAACAACATACTAAAATTTTAGGTCGATCGGACGGTGGCACGG
65 -ATGTCAACACGAACAACATACTAAAATTTCAGGACGATCGAACGGTGGCACGG
771195 CAGCGCAACA
Statistics
Matches: 214, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
144 7 0.03
145 85 0.40
146 115 0.54
147 7 0.03
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (147 bp):
TTTTTGGCCTCTCGCTGGCGATCGGGATCATCGATCAACATTCCAAACGGTCAAAAGTTGTGTCA
TGTCAACACGAACAACATACTAAAATTTCAGGACGATCGAACGGTGGCACGGTGGTGAATCGAAG
AAAACAAATCCGAACAA
Found at i:772185 original size:89 final size:89
Alignment explanation
Indices: 772012--772187 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
772002 TTATATACAA
* *
772012 GAGCTTATCGAGTTCAGTGGAACTTCCCCACTGGTTTCTCAAAGAGGAGTTTAAAGATGAAAAGT
1 GAGCTTATCGAGTGCAGTGGAACTTCCCCACTGGTTTCTCAAAGAGGAGCTTAAAGATGAAAAGT
**
772077 GGTATTTCCAAGGCAAATATGGGG
66 GGTATTTCCAAACCAAATATGGGG
*
772101 GAGCTTATCGAGTGCGGTGGAACTTCCCCACTGGTTTCTCAAAGAGGAGCTTAAAGATGAAAAGT
1 GAGCTTATCGAGTGCAGTGGAACTTCCCCACTGGTTTCTCAAAGAGGAGCTTAAAGATGAAAAGT
* *
772166 GGTATTTTCAAACCTAATATGG
66 GGTATTTCCAAACCAAATATGG
772188 CAGAGACAGA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (89 bp):
GAGCTTATCGAGTGCAGTGGAACTTCCCCACTGGTTTCTCAAAGAGGAGCTTAAAGATGAAAAGT
GGTATTTCCAAACCAAATATGGGG
Found at i:772839 original size:21 final size:21
Alignment explanation
Indices: 772814--772872 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
772804 ATTTTAAATT
772814 ATGTTATTTTATTTATTATAA
1 ATGTTATTTTATTTATTATAA
* * *
772835 ATGTTATGTT-TTTAGTATTA
1 ATGTTATTTTATTTATTATAA
*
772855 ATTTATATTTTAATTTAT
1 ATGT-TATTTT-ATTTAT
772873 ATACTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 11 0.38
21 14 0.48
23 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
ATGTTATTTTATTTATTATAA
Found at i:773261 original size:21 final size:21
Alignment explanation
Indices: 773237--773276 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
773227 ACCGGTAAAA
*
773237 ACCTAAAACATTATTATTTCT
1 ACCTAAAACATTAATATTTCT
773258 ACCTAAAACATTAATATTT
1 ACCTAAAACATTAATATTT
773277 TTTAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
ACCTAAAACATTAATATTTCT
Found at i:777689 original size:8 final size:8
Alignment explanation
Indices: 777676--777716 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
777666 CTCATTTTCA
777676 GAGAATTT
1 GAGAATTT
777684 GAGAATTT
1 GAGAATTT
*
777692 -AGAGTTT
1 GAGAATTT
*
777699 GGGAATTT
1 GAGAATTT
777707 GAGAATTT
1 GAGAATTT
777715 GA
1 GA
777717 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:778214 original size:128 final size:128
Alignment explanation
Indices: 777986--778661 Score: 1219
Period size: 128 Copynumber: 5.3 Consensus size: 128
777976 TTATCATTGC
777986 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
*
778051 CGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
778114 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
* *
778179 CGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAAAATATGTTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
778242 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
* *
778307 CGTTCCCGGGGGCACGCCTTCTATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
778370 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
* *
778435 TGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
* ***
778498 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC-TTAGGGGACATGAAGGC
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-TTCACATGAAGGC
* *
778562 GCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGCCCTATTATGT
65 GCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
778626 CACTCATGTCCCTCGGGGACACTAGATATATCAGTA
1 CACTCATGTCCCTCGGGGACACTAGATATATCAGTA
778662 AATCAGGTAA
Statistics
Matches: 528, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
127 2 0.00
128 526 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (128 bp):
CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCG
CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGT
Found at i:778388 original size:256 final size:256
Alignment explanation
Indices: 777787--778661 Score: 1538
Period size: 256 Copynumber: 3.5 Consensus size: 256
777777 TAATCGGAGT
* ** *
777787 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
777852 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
777917 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
131 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
777982 TTG--C--------CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
778033 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
778098 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
778163 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAAAATATGTTATCA
131 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
778228 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
778289 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCTATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
778354 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
778419 TATTCACATGAAGGCGTGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
131 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
778484 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * * *
778545 -TTAGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTA
778609 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
778662 AATCAGGTAA
Statistics
Matches: 602, Mismatches: 16, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
246 193 0.32
248 1 0.00
255 2 0.00
256 406 0.67
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (256 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:778568 original size:384 final size:374
Alignment explanation
Indices: 777793--778661 Score: 1506
Period size: 384 Copynumber: 2.3 Consensus size: 374
777783 GAGTACTATT
777793 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTATCATTGC
777858 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
*
777923 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCA
131 CATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCA
777988 CTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCG
196 CTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCG
*
778053 TTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACT
261 TTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTATTATGTCACT
**
778118 CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATT
326 CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
* * *
778167 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAAAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTATCATTGC
778232 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
* *
778297 CATGAAGGCGCGTTCCCGGGGGCACGCCTTCTATTATTTCGTCAGAGAATATGTTATCATTGCCC
131 CATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTG--C
778362 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACA
194 --------CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACA
* *
778427 TGAAGGCGTGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTA
251 TGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTA
*
778492 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC-TTAGGG
316 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GG
* *
778551 GACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTATCATTGC
778616 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
778662 AATCAGGTAA
Statistics
Matches: 467, Mismatches: 17, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
374 186 0.40
376 1 0.00
383 2 0.00
384 278 0.60
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (374 bp):
CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCATAGAATATGTTATCATTGC
CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
CATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCA
CTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCG
TTCCCGGGGGCACGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTATTATGTCACT
CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
Found at i:778771 original size:32 final size:32
Alignment explanation
Indices: 778729--778789 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
778719 TAACTTAAAT
**
778729 TAAAACGTTATGTGA-AGTTTGAATAAATTAGA
1 TAAAACGTTATG-GATAAATTGAATAAATTAGA
*
778761 TAAAATGTTATGGATAAATTGAATAAATT
1 TAAAACGTTATGGATAAATTGAATAAATT
778790 TGAAGTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.08
32 23 0.92
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (32 bp):
TAAAACGTTATGGATAAATTGAATAAATTAGA
Found at i:779141 original size:34 final size:34
Alignment explanation
Indices: 779062--779160 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
779052 AAATTTAATG
779062 TTAAATTTCGAA-AATATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
779095 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
779128 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
779161 AACATTTATC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
32 3 0.05
33 33 0.59
34 20 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:779732 original size:21 final size:21
Alignment explanation
Indices: 779679--779814 Score: 211
Period size: 21 Copynumber: 6.5 Consensus size: 21
779669 TATGGTATAA
* *
779679 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTCGGAATGT
* *
779700 AA-CCTGGTGGGCTAGGAATGT
1 AACCCT-GCGGGCTCGGAATGT
779721 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
779742 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
779763 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
779784 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
*
779805 AACCTTGCGG
1 AACCCTGCGG
779815 AGATGGCATA
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
20 3 0.03
21 102 0.94
22 3 0.03
ACGTcount: A:0.20, C:0.26, G:0.34, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGCTCGGAATGT
Found at i:779838 original size:63 final size:63
Alignment explanation
Indices: 779679--779838 Score: 207
Period size: 63 Copynumber: 2.5 Consensus size: 63
779669 TATGGTATAA
* *
779679 AACCCTGCGGGCTAGGCATGTAACCTGGTGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGATCGGCATGTAACCTGGTGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGT
* * * *
779742 AACCCTGCGGGCTCGGAATGTAACCCT-GCGGGCTCGGAATGTAACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGATCGGCATGTAA-CCTGGTGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGT
* * *
779805 AACCTTGCGGAGAT-GGCATATAAACTGGTGGGCT
1 AACCCTGCGG-GATCGGCATGTAACCTGGTGGGCT
779839 TGGCATATGA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
62 2 0.02
63 77 0.92
64 5 0.06
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (63 bp):
AACCCTGCGGGATCGGCATGTAACCTGGTGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGT
Found at i:779844 original size:21 final size:21
Alignment explanation
Indices: 779818--779865 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
779808 CTTGCGGAGA
*
779818 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
779839 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
779860 GGGCAT
1 TGGCAT
779866 GTACCCCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:781616 original size:17 final size:17
Alignment explanation
Indices: 781576--781680 Score: 53
Period size: 17 Copynumber: 6.3 Consensus size: 17
781566 ATTAGCAAAA
*
781576 AAAAATTAATAATTCTA-
1 AAAAA-TAATAATTATAT
781593 AATAAATAATAATTATAT
1 AA-AAATAATAATTATAT
* *
781611 AAAAATTAT-TTTA-AT
1 AAAAATAATAATTATAT
*
781626 AAAAA-AATAA-TATTT
1 AAAAATAATAATTATAT
781641 ACATAAAT-AT-ATTAATAT
1 A-A-AAATAATAATT-ATAT
* * *
781659 AAAAGTAATAACTATTT
1 AAAAATAATAATTATAT
781676 AAAAA
1 AAAAA
781681 ATACTAACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
14 4 0.06
15 9 0.14
16 8 0.12
17 34 0.52
18 11 0.17
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (17 bp):
AAAAATAATAATTATAT
Found at i:781683 original size:34 final size:31
Alignment explanation
Indices: 781596--781683 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 31
781586 AATTCTAAAT
* * *
781596 AAATAATAATTATATAAAAATTATTTTAATAA
1 AAATAATAA-TATTTAAAAAATATATTAATAA
*
781628 AAA-AATAATATTTACATAAATATATTAATATA
1 AAATAATAATATTTA-AAAAATATATTAATA-A
781660 AAAGTAATAACTATTTAAAAAATA
1 AAA-TAATAA-TATTTAAAAAATA
781684 CTAACATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
30 5 0.11
31 17 0.37
32 7 0.15
34 11 0.24
35 6 0.13
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (31 bp):
AAATAATAATATTTAAAAAATATATTAATAA
Found at i:783168 original size:37 final size:36
Alignment explanation
Indices: 783097--783181 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 36
783087 ATAATATTAC
*
783097 AAATTATAAAATATTTATATATTTTCTTTAAAAATT
1 AAATTATAAAATATTTATATAATTTCTTTAAAAATT
*
783133 AAATT-TATAATATTTATATAAAATTT-TTTATAAAATT
1 AAATTATAAAATATTTATAT--AATTTCTTTA-AAAATT
*
783170 AAAAATATAAAA
1 -AAATTATAAAA
783182 AAGTTTAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
35 13 0.32
36 9 0.22
37 10 0.25
38 4 0.10
39 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (36 bp):
AAATTATAAAATATTTATATAATTTCTTTAAAAATT
Found at i:784415 original size:19 final size:18
Alignment explanation
Indices: 784388--784440 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
784378 ATGACTAACA
* *
784388 AATTCGCAACGCGATCTCG
1 AATTTGCAACGCGAT-TCC
784407 AATTTGCAACGCGAATTCC
1 AATTTGCAACGCG-ATTCC
784426 AATTTCGCAACGCGA
1 AATTT-GCAACGCGA
784441 ATTTGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (18 bp):
AATTTGCAACGCGATTCC
Found at i:784437 original size:20 final size:20
Alignment explanation
Indices: 784390--784443 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
784380 GACTAACAAA
*
784390 TTCGCAACGCG-ATCTCGAAT
1 TTCGCAACGCGAAT-TCCAAT
784410 TT-GCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
784429 TTCGCAACGCGAATT
1 TTCGCAACGCGAATT
784444 TGTAAATTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:784455 original size:20 final size:20
Alignment explanation
Indices: 784410--784468 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
784400 GATCTCGAAT
** *
784410 TTGCAACGCGAA-TTCCAAT
1 TTGCAACGCGAATTTGTAAA
784429 TTCGCAACGCGAATTTGTAAA
1 TT-GCAACGCGAATTTGTAAA
784450 TTGCAACGCGAATTTGTAA
1 TTGCAACGCGAATTTGTAA
784469 TTCACAACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.06
20 27 0.77
21 6 0.17
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (20 bp):
TTGCAACGCGAATTTGTAAA
Found at i:784683 original size:22 final size:22
Alignment explanation
Indices: 784653--784708 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
784643 CGGTAACATC
*
784653 CGTCCCCATTTCCGACGAATTT
1 CGTCCCCATCTCCGACGAATTT
*
784675 CGTCTCCATCTCCGACGAATTT
1 CGTCCCCATCTCCGACGAATTT
*
784697 CGTCCTCATCTC
1 CGTCCCCATCTC
784709 AGGCGAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.16, C:0.39, G:0.12, T:0.32
Consensus pattern (22 bp):
CGTCCCCATCTCCGACGAATTT
Found at i:784715 original size:22 final size:22
Alignment explanation
Indices: 784666--784715 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
784656 CCCCATTTCC
*
784666 GACGAATTTCGTCTCCATCTCC
1 GACGAATTTCGTCTCCATCTCA
784688 GACGAATTTCGTC-CTCATCTCA
1 GACGAATTTCGTCTC-CATCTCA
*
784710 GGCGAA
1 GACGAA
784716 ATCCGTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (22 bp):
GACGAATTTCGTCTCCATCTCA
Found at i:786141 original size:21 final size:21
Alignment explanation
Indices: 786114--786163 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
786104 GTTAGTAAAG
* *
786114 TTACGTGATGAGGTCAGTGTT
1 TTACGTGAGGAGGTCAGTATT
* *
786135 TTGCGTGAGGAGGTCGGTATT
1 TTACGTGAGGAGGTCAGTATT
786156 TTACGTGA
1 TTACGTGA
786164 CAACAATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.10, G:0.36, T:0.36
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAGTATT
Found at i:786574 original size:21 final size:20
Alignment explanation
Indices: 786508--786579 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
786498 TTCATCTGTA
*
786508 ATCGTTCAAGATGCTCTCT-
1 ATCGTTCAAGATGCACTCTC
* * * *
786527 ATCTTTCAAAAAGCACCTCCC
1 ATCGTTCAAGATGCA-CTCTC
*
786548 ACCGTTCAAGATGCCACTCTC
1 ATCGTTCAAGATG-CACTCTC
*
786569 ATCGTTTAAGA
1 ATCGTTCAAGA
786580 GGTCATTCCC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 11 0.29
20 3 0.08
21 22 0.58
22 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (20 bp):
ATCGTTCAAGATGCACTCTC
Found at i:786595 original size:21 final size:21
Alignment explanation
Indices: 786543--786601 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
786533 CAAAAAGCAC
*
786543 CTCCCACCGTTCAAGATGCCA
1 CTCCCACCGTTCAAGAGGCCA
* * * *
786564 CTCTCATCGTTTAAGAGGTCA
1 CTCCCACCGTTCAAGAGGCCA
* *
786585 TTCCCACCGTTGAAGAG
1 CTCCCACCGTTCAAGAG
786602 CTCGATTCAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (21 bp):
CTCCCACCGTTCAAGAGGCCA
Found at i:790695 original size:24 final size:24
Alignment explanation
Indices: 790668--790727 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
790658 CTGAAACATC
790668 ATCAAAATTCGAGTATTGACCAAA
1 ATCAAAATTCGAGTATTGACCAAA
* * * *
790692 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAA
*
790716 ATCAAATTTCGA
1 ATCAAAATTCGA
790728 ATACTGACTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAA
Found at i:790977 original size:20 final size:20
Alignment explanation
Indices: 790911--790981 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
790901 AATAAAACCT
* *
790911 GTTGCGAATTCAAAAATCTA
1 GTTGCGAATTCAGAAATCGA
** * *
790931 GTTGCGCTTTTTC-GAATTCGC
1 GTTGCG--AATTCAGAAATCGA
790952 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
790972 GTTGCGAATT
1 GTTGCGAATT
790982 TGAAATCCAG
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.08
20 22 0.58
21 10 0.26
22 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCGA
Found at i:790999 original size:21 final size:19
Alignment explanation
Indices: 790973--791025 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
790963 AGAAATCGAG
*
790973 TTGCGAATTTGAAATCCAGTA
1 TTGCGAATTTGAAAT--AGCA
*
790994 TTGCGAATTTGGAAATTGCA
1 TTGCGAATTT-GAAATAGCA
791014 TTGCGAATTTGA
1 TTGCGAATTTGA
791026 CTTCTGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 10 0.34
22 5 0.17
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (19 bp):
TTGCGAATTTGAAATAGCA
Found at i:791037 original size:20 final size:20
Alignment explanation
Indices: 791014--791062 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
791004 GGAAATTGCA
791014 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
791034 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
791054 TTGCGAATT
1 TTGCGAATT
791063 ACAGATTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.12, G:0.24, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:791679 original size:23 final size:23
Alignment explanation
Indices: 791632--791679 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
791622 AATAACATAT
* **
791632 TAGGTAGCGCTTATATAATGTAA
1 TAGGCAGCGCTTATATAATAAAA
791655 TAGGCAGCGCTTATATAATAAAA
1 TAGGCAGCGCTTATATAATAAAA
791678 TA
1 TA
791680 TGTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (23 bp):
TAGGCAGCGCTTATATAATAAAA
Found at i:791772 original size:158 final size:158
Alignment explanation
Indices: 791484--791816 Score: 441
Period size: 158 Copynumber: 2.1 Consensus size: 158
791474 ATGGCTGTGT
* * *
791484 TTATATAACGTAATAGGTATAGCTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAA
1 TTATATAATGTAATAGGCAGAGCTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAA
* ** * * * ** *
791549 CATATTAGGTAAACGCATAAAATGTTATCAATGATAACATAACCGATTAATTACCGTTAATATTA
66 CATATTAGGTAAACACATAAAAAATTACCAAAGATAACATAAACGATTAATTACCGGAAACATTA
*
791614 TCAAGCACAATAACATATTAGGTAGCGC
131 TCAAGCACAATAACATATTAAGTAGCGC
* *
791642 TTATATAATGTAATAGGCAGCGCTTATATAATAAAATATGTTAATTATTTAATTTGTTATTACAA
1 TTATATAATGTAATAGGCAGAGCTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAA
* * * * **
791707 CATATTAGGTTAACACCTAAAAAATTACCAAAGATAACATAAATGGTTAATTATTGGAAACATTA
66 CATATTAGGTAAACACATAAAAAATTACCAAAGATAACATAAACGATTAATTACCGGAAACATTA
* * *
791772 TTAAGCATAATAATATATTAAGTAGCGC
131 TCAAGCACAATAACATATTAAGTAGCGC
*
791800 TTATGTAATGTAATAGG
1 TTATATAATGTAATAGG
791817 TTGCATATTA
Statistics
Matches: 150, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
158 150 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (158 bp):
TTATATAATGTAATAGGCAGAGCTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAA
CATATTAGGTAAACACATAAAAAATTACCAAAGATAACATAAACGATTAATTACCGGAAACATTA
TCAAGCACAATAACATATTAAGTAGCGC
Found at i:792127 original size:2 final size:2
Alignment explanation
Indices: 792120--792154 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
792110 TAAGTATGAA
792120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
792155 ATGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:794293 original size:203 final size:202
Alignment explanation
Indices: 793990--794392 Score: 646
Period size: 203 Copynumber: 2.0 Consensus size: 202
793980 TCAAAACCAG
*
793990 TATCTATTTACCGGTTACATTATATATAGAAACCAGTTTGATCAATTTTTAACCTTTTATATCAT
1 TATCTATTGACCGGTTACATTATATATAGAAACCAGTTTGATCAATTTTTAACCTTTTATATCAT
* * *
794055 TATGTATCGATATATTTTTATAGGTATAGATACTTCTTGCGTGCTTGTAGTTTTGAGAAGCATAC
66 TATGTATCGATACATTTTTATAGGTATAGATACTTCTTACGTGCATGTAGTTTTGAGAAGCATAC
794120 TGAACAAAAAATATCGATACATATATAAAAAA-TATCAACACTTTATATAAAATTATGTTACCAT
131 TGAACAAAAAATATCGATACATATA-AAAAAAGTATCAACACTTTATATAAAATTATGTTACCAT
794184 TAAACTAA
195 TAAACTAA
* * *
794192 TATCTATTGACCGGTTACATTATATATTGAAACCGGTTTTTATCAATTTTTAACCTTTTATATCA
1 TATCTATTGACCGGTTACATTATATATAGAAACCAG-TTTGATCAATTTTTAACCTTTTATATCA
* **
794257 TTATGTATCGATACATTTTTATTGGTATCTATACTTCTTACGTGCATGTAGTTTTGAGAAGCATA
65 TTATGTATCGATACATTTTTATAGGTATAGATACTTCTTACGTGCATGTAGTTTTGAGAAGCATA
* ** * *
794322 CTGAACAAAAAGTATCGATACATATAAAAAAAGTATCAGTACTTTATATTAACTTATGTTACCAT
130 CTGAACAAAAAATATCGATACATATAAAAAAAGTATCAACACTTTATATAAAATTATGTTACCAT
794387 TAAACT
195 TAAACT
794393 GGTATATTTT
Statistics
Matches: 184, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
202 39 0.21
203 145 0.79
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (202 bp):
TATCTATTGACCGGTTACATTATATATAGAAACCAGTTTGATCAATTTTTAACCTTTTATATCAT
TATGTATCGATACATTTTTATAGGTATAGATACTTCTTACGTGCATGTAGTTTTGAGAAGCATAC
TGAACAAAAAATATCGATACATATAAAAAAAGTATCAACACTTTATATAAAATTATGTTACCATT
AAACTAA
Found at i:794463 original size:22 final size:22
Alignment explanation
Indices: 794421--794463 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
794411 ATATTGTTTA
*
794421 TTTACCTATTACCATTAAATTG
1 TTTACCTATTACCAGTAAATTG
794443 TTTACCTATTA-CAGTAGAATT
1 TTTACCTATTACCAGTA-AATT
794464 TGAAAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTACCTATTACCAGTAAATTG
Found at i:794847 original size:15 final size:15
Alignment explanation
Indices: 794827--794858 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
794817 GAACAACCTA
794827 TTATGTTAGTGACAT
1 TTATGTTAGTGACAT
794842 TTATGTTAGTGACAT
1 TTATGTTAGTGACAT
794857 TT
1 TT
794859 GAGACAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TTATGTTAGTGACAT
Found at i:797185 original size:22 final size:23
Alignment explanation
Indices: 797158--797208 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
797148 AACTTGCATT
797158 TATAATTAAAT-T-TATCATTTTA
1 TATAA-TAAATATATATCATTTTA
797180 TATAATAAATATACTATCATTTTA
1 TATAATAAATATA-TATCATTTTA
797204 TATAA
1 TATAA
797209 AAAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.19
22 6 0.23
24 15 0.58
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
TATAATAAATATATATCATTTTA
Found at i:803515 original size:179 final size:177
Alignment explanation
Indices: 803252--803576 Score: 465
Period size: 179 Copynumber: 1.8 Consensus size: 177
803242 TAGGTCAACT
* * *
803252 TAATGTATCGATACTTTGCTAAATTGTATCGATACTTTTTTCCAGAATGACTGCCAAACGAGATG
1 TAATGTATCGATAATTT-CTAAATTGTATCGATACTTTTTTCCAGAATGAATACCAAACGAGATG
** * *
803317 CACGCATAAAGTATCGATACATTTATTGTAAGTATCGATCCTC-AAAACATTGAAACCGATTATT
65 CACGCATAAAGTATCGATACATTTATAATAAGTATCGATCC-CAAAAACATCGAAACCGATAATT
803381 ATAAAATAATAGGTAAAATATACTGGTTTAATATGAGAATATGTAAATA
129 ATAAAATAATAGGTAAAATATACTGGTTTAATATGAGAATATGTAAATA
* * *
803430 TAATGTATCGATAATTT-TAAAATTGTATCGATACTTTTTTATCCAGAATGAATACCCAATGAGG
1 TAATGTATCGATAATTTCT-AAATTGTATCGATAC-TTTTT-TCCAGAATGAATACCAAACGAGA
* *
803494 TGTACGCATAAAGTGTCGATACATTTATAATAAGTATCGATCCCAAAAACATCGAAACCGATAAT
63 TGCACGCATAAAGTATCGATACATTTATAATAAGTATCGATCCCAAAAACATCGAAACCGATAAT
**
803559 TATAATGTAATAGGTAAA
128 TATAAAATAATAGGTAAA
803577 TTTACAATGT
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
176 1 0.01
177 15 0.12
178 22 0.17
179 91 0.71
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (177 bp):
TAATGTATCGATAATTTCTAAATTGTATCGATACTTTTTTCCAGAATGAATACCAAACGAGATGC
ACGCATAAAGTATCGATACATTTATAATAAGTATCGATCCCAAAAACATCGAAACCGATAATTAT
AAAATAATAGGTAAAATATACTGGTTTAATATGAGAATATGTAAATA
Found at i:803655 original size:200 final size:199
Alignment explanation
Indices: 803396--804036 Score: 923
Period size: 200 Copynumber: 3.2 Consensus size: 199
803386 ATAATAGGTA
* * * * * * * *
803396 AAATATACTGGTTTAA-TATGAGAATATGTAAATATAATGTATCGATAATTTTAAAATTGTATCG
1 AAATATACCGGTTTAATTA-GAAAATAGGTCAACATAATGTATCGATACTTTTTAAATTGTGTCG
* * *
803460 ATACTTTTTTATCCAGAATGAATACCCAATGAGGTGTACGCATAAAGTGTCGATACATTTATAAT
65 ATACTTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGATACATTTATAAT
803525 AAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC
130 AAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC
803590 TGATAG
195 TG-TAG
**
803596 AAATATATTGGTTTAA-T-GAAAATAGGTCAACATAATGTATCGATACTTTTTTTAAATTGTGTC
1 AAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGTATCGATAC--TTTTTAAATTGTGTC
*
803659 GATATTTTTTTGTCCATG-ATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGATACATTTATA
64 GATACTTTTTTGTCCA-GAATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGATACATTTATA
* *
803723 ATAAATATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
128 ATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
*
803788 ACTGGTAC
193 ACT-GTAG
* * * * **
803796 AAATATATCAGTTTAATTAGAAAATAGGTCAAAATAATGTATCAATACTTTTTAAATTGTGTTAA
1 AAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTTAAATTGTGTCGA
* *
803861 TAC-TTTTTGTCCAGAATAAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATAATA
66 TACTTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGATACATTTATAATA
**
803925 AGTATCGATCCCAAAAACATCGAAACTTATAATTATAATGTAATAGGTAAATTTACAATGTAAAC
131 AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT-AAC
*
803990 AGTAG
195 TGTAG
*
803995 AAATATACCGGCTTAATTAGAAAATAGGTCAACATAATGTAT
1 AAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGTAT
804037 TAATACATTT
Statistics
Matches: 399, Mismatches: 34, Indels: 17
0.89 0.08 0.04
Matches are distributed among these distances:
198 25 0.06
199 155 0.39
200 189 0.47
201 3 0.01
202 27 0.07
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (199 bp):
AAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTTTAAATTGTGTCGA
TACTTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCATAAAGTGTCGATACATTTATAATA
AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACT
GTAG
Found at i:804185 original size:21 final size:22
Alignment explanation
Indices: 804161--804203 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
804151 AAATAAAATG
* *
804161 TATCGATA-TTTTTTTAAATTA
1 TATCGATACATTTTATAAATTA
804182 TATCGATACATTTTATAAATTA
1 TATCGATACATTTTATAAATTA
804204 CGCGTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATCGATACATTTTATAAATTA
Found at i:804804 original size:14 final size:15
Alignment explanation
Indices: 804785--804813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
804775 AGCGTAAGCC
804785 TAATAAGAA-TAATA
1 TAATAAGAATTAATA
804799 TAATAAGAATTAATA
1 TAATAAGAATTAATA
804814 CCCATTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
TAATAAGAATTAATA
Found at i:807097 original size:24 final size:24
Alignment explanation
Indices: 807051--807098 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
807041 TATTTAACTG
* *
807051 GAGTTTGAATTTAAATTTCAATTT
1 GAGTTTGAATTTAAATATAAATTT
**
807075 GAGTTTGAATTTTGATATAAATTT
1 GAGTTTGAATTTAAATATAAATTT
807099 CGGCTCCACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (24 bp):
GAGTTTGAATTTAAATATAAATTT
Found at i:809119 original size:182 final size:182
Alignment explanation
Indices: 808805--809141 Score: 566
Period size: 182 Copynumber: 1.9 Consensus size: 182
808795 TTTATATGTA
*
808805 TCGATACTTTTTGTGCAATATGCTTCTCAAAACTACATGCACATAAGAAGTATAGATACCTATAA
1 TCGATACTTTTTGTCCAATATGCTTCTCAAAACTACATGCACATAAGAAGTATAGATACCTATAA
*
808870 AAATGTATCGATACATAATGATATAAAAGGTTAAAAATTGATAAAAACCGGTTTCAATATACAAT
66 AAATGTATCGATACATAATGATATAAAAGGTTAAAAATTGATAAAAACCAGTTTCAATATACAAT
*
808935 GTAACCGGTCAATATATACCGGTTTAATGGTAATATAATTTTATATAAAGTG
131 GTAACCGGTCAATAAATACCGGTTTAATGGTAATATAATTTTATATAAAGTG
* ** **
808987 TCGATACTTTTTGTCCAATGTGCTTCTCAAAACTACATGCATGTAAGAAGTATCTATACCTATAA
1 TCGATACTTTTTGTCCAATATGCTTCTCAAAACTACATGCACATAAGAAGTATAGATACCTATAA
* * *
809052 AAATGTATCGATACATAGTGATATAAAAGGTTAAAAATTGATAAAAACCAGTTTCTATATCCAAT
66 AAATGTATCGATACATAATGATATAAAAGGTTAAAAATTGATAAAAACCAGTTTCAATATACAAT
*
809117 GTAATCGGTCAATAAATACCGGTTT
131 GTAACCGGTCAATAAATACCGGTTT
809142 TGAAAAAAAT
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 143 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (182 bp):
TCGATACTTTTTGTCCAATATGCTTCTCAAAACTACATGCACATAAGAAGTATAGATACCTATAA
AAATGTATCGATACATAATGATATAAAAGGTTAAAAATTGATAAAAACCAGTTTCAATATACAAT
GTAACCGGTCAATAAATACCGGTTTAATGGTAATATAATTTTATATAAAGTG
Found at i:810969 original size:2 final size:2
Alignment explanation
Indices: 810962--811015 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
810952 AAATGTATCG
810962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
811004 AT AT AT AT AT AT
1 AT AT AT AT AT AT
811016 GCTTATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:811163 original size:2 final size:2
Alignment explanation
Indices: 811158--811198 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
811148 ACACACTCAT
811158 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
811199 CCATACTTAT
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:811539 original size:23 final size:24
Alignment explanation
Indices: 811494--811539 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
811484 ATCAACTTTA
*
811494 ATAATGCGCAACCTATTACGTTAC
1 ATAATGCGCAACCTAATACGTTAC
* *
811518 ATAA-GCGCTACCTAATATGTTA
1 ATAATGCGCAACCTAATACGTTA
811540 TTATGCTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
ATAATGCGCAACCTAATACGTTAC
Found at i:811784 original size:23 final size:23
Alignment explanation
Indices: 811758--811808 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
811748 TAAGTAATTA
**
811758 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
811781 ACCTATTACGTTATTTAAGCGCT
1 ACCTATTACATTATATAAGCGCT
811804 ACCTA
1 ACCTA
811809 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:811816 original size:23 final size:23
Alignment explanation
Indices: 811768--811818 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
811758 ACCTATTTTA
* *
811768 TTATATAAGCGCTACCTATTACG
1 TTATTTAAGCGCTACCTAATACG
*
811791 TTATTTAAGCGCTACCTAATATG
1 TTATTTAAGCGCTACCTAATACG
811814 TTATT
1 TTATT
811819 GTGCTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (23 bp):
TTATTTAAGCGCTACCTAATACG
Found at i:811913 original size:142 final size:141
Alignment explanation
Indices: 811494--811859 Score: 417
Period size: 135 Copynumber: 2.6 Consensus size: 141
811484 ATCAACTTTA
* * * * **
811494 ATAATGCGCAACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTT
1 ATAA-GCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAA
* * * ***
811559 CAGTAATTAACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTAACCTAATATGTTGT-AATA
65 CGGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAA-ATCAAGTAAATA
** *
811623 A-CAAATTAAGTA-
129 ACCAGGTT-ATTAT
* *
811635 ATTAA-C-TTA--TTTTA--TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAA
1 A-TAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAA
* * *
811694 CGGTAATTAACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAAATTAAGTAATTAA
65 CGGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAAATCAAGTAAATAA
**
811759 CCTATTTTATTAT
130 CC-AGGTTATTAT
*
811772 ATAAGCGCTACCTATTACGTTATTTAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAAC
1 ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAAC
811837 GGTAATTAACCGGTTATGTTATC
66 GGTAATTAACCGGTTATGTTATC
811860 GTCTATATTT
Statistics
Matches: 194, Mismatches: 20, Indels: 21
0.83 0.09 0.09
Matches are distributed among these distances:
134 4 0.02
135 94 0.48
136 7 0.04
137 9 0.05
138 2 0.01
139 1 0.01
140 5 0.03
141 1 0.01
142 71 0.37
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (141 bp):
ATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTAAC
GGTAATTAACCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTACCTAAATCAAGTAAATAAC
CAGGTTATTAT
Found at i:812087 original size:2 final size:2
Alignment explanation
Indices: 812080--812104 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
812070 TAAGAGTCTT
812080 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
812105 GCTTGTTCTT
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:816918 original size:21 final size:21
Alignment explanation
Indices: 816889--816936 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
816879 TAAGTTTTTT
* *
816889 TTGCTAAGATGCCTACTATTC
1 TTGCAAAGATGCATACTATTC
816910 TTGCAAAGATGCATACTATTC
1 TTGCAAAGATGCATACTATTC
816931 TTGCAA
1 TTGCAA
816937 TTGTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (21 bp):
TTGCAAAGATGCATACTATTC
Found at i:817713 original size:51 final size:51
Alignment explanation
Indices: 817654--817757 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
817644 TAAGATCTTT
*
817654 TTTCTTCATCTTTAGATACATTGGGTGATGAGTGTATAACACTTGATATCC
1 TTTCTTCATCTTTAGATACATTGGGTGAAGAGTGTATAACACTTGATATCC
817705 TTTCTTCATCTTTAGATACATTGGGTGAAGAGTGTATAACACTTGATATCC
1 TTTCTTCATCTTTAGATACATTGGGTGAAGAGTGTATAACACTTGATATCC
817756 TT
1 TT
817758 CTTGCAACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (51 bp):
TTTCTTCATCTTTAGATACATTGGGTGAAGAGTGTATAACACTTGATATCC
Found at i:818037 original size:25 final size:25
Alignment explanation
Indices: 818006--818055 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
817996 TTAAACATTT
*
818006 GCAAATATAAATTTGTAATTTGAAG
1 GCAAATATAAATTTATAATTTGAAG
818031 GCAAATATAAATTTATAATTTGAAG
1 GCAAATATAAATTTATAATTTGAAG
818056 CCAAGCAAAA
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:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (25 bp):
GCAAATATAAATTTATAATTTGAAG
Found at i:818911 original size:223 final size:224
Alignment explanation
Indices: 818511--819050 Score: 671
Period size: 223 Copynumber: 2.4 Consensus size: 224
818501 GGAAGTGCTT
* *
818511 TTTTTCTCAGAGAATCTCTATCATGCCATATTGTATCATCCCATCAAATATAATTGACGGGAATA
1 TTTTTCTCAGAGAATCTCTACCATGCCATATTGTATCATCCCATCAAACATAATTGACGGGAATA
** * * *
818576 GTTTCCCGAGATGCCAACATCATTTATTCACATAATTGACTAAGTCATGCATAAAAATCTTATAA
66 G-TTCCCGAGATGCCAACATCATTTATTCACATAATTGACTAAAACATGCAGAAAAATCTGACAA
* * * *
818641 AATAAAAATGCTCGTTCCAGGTGGAGCGCTTTTTCTTTTCATAGAGAATCTCTGAC-A-AAAAAA
130 AATAAAAAGGCTCGTTCCAAGAGGAGCGCTTTTCCTTTTCATAGAGAATCTCTGACAAGAAAAAA
*
818704 GAAAGGCTT-GTTCCAGGGGAAA-CACTTTTC
195 GAAAAG-TTCGTTCCA-GGGAAAGCACTTTTC
* *
818734 TTTTTCTCAGAGAATCTCTACCATGTCATATTGTATCATCCCATCAAACATAATTGATGGGAATA
1 TTTTTCTCAGAGAATCTCTACCATGCCATATTGTATCATCCCATCAAACATAATTGACGGGAATA
* * **
818799 GTTCCCTGGGGT-TTAACATCATTTATTCACATAATTGACTAAAACATGCAGATAAAATCTGACA
66 GTTCCC-GAGATGCCAACATCATTTATTCACATAATTGACTAAAACATGCAGA-AAAATCTGACA
* * * *
818863 AAA-AGGAAAGGCTTGTTCTAAGAGGAGCGCTTTTCCTTTTCGTAGAGAATCTCTGACAAAAAGA
129 AAATA-AAAAGGCTCGTTCCAAGAGGAGCGCTTTTCCTTTTCATAGAGAATCTCTGAC---AAGA
**
818927 AAAAAGAAAAGTTCGTTCCAGGGAAAGCGTTTTTC
190 AAAAAGAAAAGTTCGTTCCAGGGAAAGCACTTTTC
* * * *
818962 TTTTTCTCAAAGAATCTCTACCATGCCATATTGTATCGTCCCATCAAACATAATTAAGGGGAATA
1 TTTTTCTCAGAGAATCTCTACCATGCCATATTGTATCATCCCATCAAACATAATTGACGGGAATA
* *
819027 GTTCCCCA-ACTACCAACATCATTT
66 GTTCCCGAGA-TGCCAACATCATTT
819051 TTTATTTATA
Statistics
Matches: 271, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
222 41 0.15
223 121 0.45
227 10 0.04
228 99 0.37
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (224 bp):
TTTTTCTCAGAGAATCTCTACCATGCCATATTGTATCATCCCATCAAACATAATTGACGGGAATA
GTTCCCGAGATGCCAACATCATTTATTCACATAATTGACTAAAACATGCAGAAAAATCTGACAAA
ATAAAAAGGCTCGTTCCAAGAGGAGCGCTTTTCCTTTTCATAGAGAATCTCTGACAAGAAAAAAG
AAAAGTTCGTTCCAGGGAAAGCACTTTTC
Found at i:819113 original size:16 final size:15
Alignment explanation
Indices: 819093--819148 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
819083 AGTACCACAT
819093 CTCTCAAACTTTTAA
1 CTCTCAAACTTTTAA
*
819108 CATCTCAAACCTTCTAA
1 C-TCTCAAA-CTTTTAA
* *
819125 CTCTCAATCTTTGCAA
1 CTCTCAAACTTT-TAA
819141 CTCTCAAA
1 CTCTCAAA
819149 ATGGGGCGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 4 0.12
16 22 0.67
17 7 0.21
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.34
Consensus pattern (15 bp):
CTCTCAAACTTTTAA
Found at i:823098 original size:26 final size:27
Alignment explanation
Indices: 823040--823101 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
823030 AAATCAAAGA
823040 GAAAGAAGAAGACGACACAAAAAATTT
1 GAAAGAAGAAGACGACACAAAAAATTT
*
823067 GAAAGAAGAATAC-ATCAC-AAAAATATT
1 GAAAGAAGAAGACGA-CACAAAAAAT-TT
823094 G-AAGAAGA
1 GAAAGAAGA
823102 TGGATAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.13
Consensus pattern (27 bp):
GAAAGAAGAAGACGACACAAAAAATTT
Found at i:828291 original size:241 final size:241
Alignment explanation
Indices: 827812--828300 Score: 962
Period size: 240 Copynumber: 2.0 Consensus size: 241
827802 AATAGCGCGT
*
827812 GGAAACCACGTGCTGGTGAGAACAACACCAAACGCGCATTCACACGCCGAACAAAGTCCATTTCC
1 GGAATCCACGTGCTGGTGAGAACAACACCAAACGCGCATTCACACGCCGAACAAAGTCCATTTCC
827877 AGGAAATTACGGCAGGAAAATTCGAGAGAATCTTCAATCATTCTACAAAATGGTCGAATCCCAAT
66 AGGAAATTACGGCAGGAAAATTCGAGAGAATCTTCAATCATTCTACAAAATGGTCGAATCCCAAT
827942 ATGGAAACAAATTGGTCAATAGAATCGAACCAAATCAAGATCAAACCCAAATCAAAATCCCAAAA
131 ATGGAAACAAATTGGTCAATAGAATCGAACCAAATCAAGATCAAACCCAAATCAAAATCCCAAAA
828007 CACATGTATCATGCATGCAAGGCAAATTGAACAAATCGGGGGGGGG
196 CACATGTATCATGCATGCAAGGCAAATTGAACAAATCGGGGGGGGG
828053 GGAATCCACGTGCTGGTGAGAACAACACCAAACGCGCATTCACACGCCGAACAAAGTCCATTTCC
1 GGAATCCACGTGCTGGTGAGAACAACACCAAACGCGCATTCACACGCCGAACAAAGTCCATTTCC
828118 AGGAAATTACGGCAGGAAAATTCGAGAGAATCTTCAATCATTCTAC-AAATGGTCGAATCCCAAT
66 AGGAAATTACGGCAGGAAAATTCGAGAGAATCTTCAATCATTCTACAAAATGGTCGAATCCCAAT
828182 ATGGAAACAAATTGGTCAATAGAATCGAACCAAATCAAGATCAAACCCAAATCAAAATCCCAAAA
131 ATGGAAACAAATTGGTCAATAGAATCGAACCAAATCAAGATCAAACCCAAATCAAAATCCCAAAA
828247 CACATGTATCATGCATGCAAGGCAAATTGAACAAATCGGGGGGGGG
196 CACATGTATCATGCATGCAAGGCAAATTGAACAAATCGGGGGGGGG
828293 GGAATCCA
1 GGAATCCA
828301 TCCTCAAATA
Statistics
Matches: 247, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
240 137 0.55
241 110 0.45
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.18
Consensus pattern (241 bp):
GGAATCCACGTGCTGGTGAGAACAACACCAAACGCGCATTCACACGCCGAACAAAGTCCATTTCC
AGGAAATTACGGCAGGAAAATTCGAGAGAATCTTCAATCATTCTACAAAATGGTCGAATCCCAAT
ATGGAAACAAATTGGTCAATAGAATCGAACCAAATCAAGATCAAACCCAAATCAAAATCCCAAAA
CACATGTATCATGCATGCAAGGCAAATTGAACAAATCGGGGGGGGG
Found at i:830257 original size:12 final size:12
Alignment explanation
Indices: 830242--830269 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
830232 TTCAATTAGG
830242 ATTTAGGATATT
1 ATTTAGGATATT
830254 ATTTAGGATATT
1 ATTTAGGATATT
830266 ATTT
1 ATTT
830270 TATTTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
ATTTAGGATATT
Found at i:831030 original size:5 final size:5
Alignment explanation
Indices: 831020--831084 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
831010 TTTAACATTT
* * * *
831020 TTTTA TTTTA TTTTG TTTTA TCTTTA -TTT- TTTCA CTTTTT TTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
831070 TTTTA TTTTTA TTTT
1 TTTTA -TTTTA TTTT
831085 CTCTTTTAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
4 5 0.11
5 30 0.64
6 12 0.26
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:831061 original size:40 final size:41
Alignment explanation
Indices: 831010--831112 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 41
831000 TTCTTTAAAA
*
831010 TTTAACA--TTTTTTTATTTTATTTT-GTTTTATCTTTATTT
1 TTTAACATTTTTTTTTATTTTATTTTAGTTTTAT-TTTATCT
* * * *
831049 TTTCAC-TTTTTTTTTATTTTGTTTTATTTTTATTTTCTCT
1 TTTAACATTTTTTTTTATTTTATTTTAGTTTTATTTTATCT
*
831089 TTTAACATTTTTTTGTATTTTATT
1 TTTAACATTTTTTTTTATTTTATT
831113 ATTTTTCATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
39 5 0.10
40 26 0.50
41 21 0.40
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.75
Consensus pattern (41 bp):
TTTAACATTTTTTTTTATTTTATTTTAGTTTTATTTTATCT
Found at i:831062 original size:29 final size:29
Alignment explanation
Indices: 831016--831079 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
831006 AAAATTTAAC
* *
831016 ATTTTTTTA-TTTTATTTTGTTTTATCTTT
1 ATTTTTTCATTTTTATTTTATTTTAT-TTT
*
831045 ATTTTTTCACTTTTT-TTTTATTTTGTTTT
1 ATTTTTTCA-TTTTTATTTTATTTTATTTT
831074 ATTTTT
1 ATTTTT
831080 ATTTTCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 17 0.57
30 9 0.30
31 4 0.13
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (29 bp):
ATTTTTTCATTTTTATTTTATTTTATTTT
Found at i:835983 original size:29 final size:29
Alignment explanation
Indices: 835950--836007 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
835940 CATAATGTGG
835950 TTCATATCTCAATTGACCGACAAGTGCGA
1 TTCATATCTCAATTGACCGACAAGTGCGA
835979 TTCATATCTCAATTGACCGACAAGTGCGA
1 TTCATATCTCAATTGACCGACAAGTGCGA
836008 CCTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (29 bp):
TTCATATCTCAATTGACCGACAAGTGCGA
Found at i:841673 original size:12 final size:12
Alignment explanation
Indices: 841636--841674 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
841626 ATATGATACT
841636 TGACATGGATTC
1 TGACATGGATTC
*
841648 TGATAT-GATATC
1 TGACATGGAT-TC
841660 TGACATGGATTC
1 TGACATGGATTC
841672 TGA
1 TGA
841675 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:841728 original size:24 final size:24
Alignment explanation
Indices: 841621--841714 Score: 138
Period size: 24 Copynumber: 3.9 Consensus size: 24
841611 TTTATTTAAT
841621 TTCTGATATGATACTTGACATGGA
1 TTCTGATATGATACTTGACATGGA
841645 TTCTGATATGATA-TCTGACATGGA
1 TTCTGATATGATACT-TGACATGGA
*
841669 TTCTGATCTGATACTTGATC-TGGA
1 TTCTGATATGATACTTGA-CATGGA
*
841693 TTTTGATATGATACTTGACATG
1 TTCTGATATGATACTTGACATG
841715 AATTATGGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.03
24 59 0.94
25 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:845533 original size:31 final size:32
Alignment explanation
Indices: 845434--845534 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
845424 TAGCCTCGGG
* *
845434 ACATATGGACAAGATTACCTATGTACTTCGAGA
1 ACATATGGAC-AGGTTACCTATGTTCTTCGAGA
* *
845467 A-ATATGGATAGGATTACCTATG-TCATTCGTG-
1 ACATATGGACAGG-TTACCTATGTTC-TTCGAGA
*
845498 ACATACGGACAGGTTACCTATGTTCTTCG-GA
1 ACATATGGACAGGTTACCTATGTTCTTCGAGA
845529 ACATAT
1 ACATAT
845535 AGATAGGTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
30 1 0.02
31 22 0.39
32 32 0.57
33 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (32 bp):
ACATATGGACAGGTTACCTATGTTCTTCGAGA
Found at i:849643 original size:21 final size:22
Alignment explanation
Indices: 849600--849651 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
849590 GTATGAACAA
849600 TATCGATACCATATGGAAGGGG
1 TATCGATACCATATGGAAGGGG
*
849622 TATCGATACC-TATGTATA-GGG
1 TATCGATACCATATGGA-AGGGG
849643 TATCGATAC
1 TATCGATAC
849652 TCGGGGAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (22 bp):
TATCGATACCATATGGAAGGGG
Found at i:850079 original size:16 final size:17
Alignment explanation
Indices: 850038--850082 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
850028 CATAAATAGA
*
850038 AGTATATGTTTGCTATG
1 AGTATATGTGTGCTATG
*
850055 ATTTATATGTGTGC-ATG
1 A-GTATATGTGTGCTATG
850072 AGTATATGTGT
1 AGTATATGTGT
850083 TGACATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
18 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (17 bp):
AGTATATGTGTGCTATG
Found at i:851456 original size:24 final size:23
Alignment explanation
Indices: 851423--851483 Score: 104
Period size: 24 Copynumber: 2.6 Consensus size: 23
851413 ATAAAAGATG
*
851423 TTGTTTTAGGAATTATCTTTAGC
1 TTGTTTTAGGAATTATCTTCAGC
851446 TTGTTTTTAGGAATTATCTTCAGC
1 TTG-TTTTAGGAATTATCTTCAGC
851470 TTGTTTTAGGAATT
1 TTGTTTTAGGAATT
851484 TGAAGGCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 14 0.39
24 22 0.61
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.52
Consensus pattern (23 bp):
TTGTTTTAGGAATTATCTTCAGC
Found at i:852005 original size:17 final size:17
Alignment explanation
Indices: 851983--852020 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
851973 CTTTAAATTA
*
851983 TTTATTTAATTATTTTC
1 TTTATTTAATTATTATC
*
852000 TTTATTTAATTCTTATC
1 TTTATTTAATTATTATC
852017 TTTA
1 TTTA
852021 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTTAATTATTATC
Found at i:852171 original size:5 final size:5
Alignment explanation
Indices: 852161--852237 Score: 52
Period size: 5 Copynumber: 15.2 Consensus size: 5
852151 AAAATTTCTT
* ** *
852161 TTTTA TTTTA TTTTG TTTTA TCTTTA TTTTCA CACTTC TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT-A -TTTTA TTTTA TTTTA
*
852208 -TTT- TTTTA TTGTA TTTTA TTTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA T
852238 CTTTTAGCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 10 0.18
5 33 0.59
6 11 0.20
7 2 0.04
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:852179 original size:16 final size:16
Alignment explanation
Indices: 852161--852190 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
852151 AAAATTTCTT
852161 TTTTAT-TTTATTTTG
1 TTTTATCTTTATTTTG
852176 TTTTATCTTTATTTT
1 TTTTATCTTTATTTT
852191 CACACTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTATCTTTATTTTG
Found at i:852266 original size:17 final size:17
Alignment explanation
Indices: 852203--852268 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
852193 CACTTCTTTT
* *
852203 TTTTATTTTTTTATTGTA
1 TTTTATTATTTT-TTATA
* *
852221 TTTTATTTTTATTTTATC
1 TTTTATTATT-TTTTATA
**
852239 TTTTAGCATTTTTTATA
1 TTTTATTATTTTTTATA
852256 TTTTATTATTTTT
1 TTTTATTATTTTT
852269 CTTTTCTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
17 17 0.44
18 20 0.51
19 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTATTTTTTATA
Found at i:853297 original size:17 final size:17
Alignment explanation
Indices: 853275--853308 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
853265 GAAGAAGAAT
853275 GCTTTGAACACACAAGG
1 GCTTTGAACACACAAGG
853292 GCTTTGAACACACAAGG
1 GCTTTGAACACACAAGG
853309 CAATCACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
GCTTTGAACACACAAGG
Found at i:856147 original size:10 final size:10
Alignment explanation
Indices: 856134--856173 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
856124 CATATATTTT
856134 TATATAAAAA
1 TATATAAAAA
856144 TATATAAAAA
1 TATATAAAAA
856154 TTATATAAAAA
1 -TATATAAAAA
856165 T-T-TAAAAA
1 TATATAAAAA
856173 T
1 T
856174 TTAAGGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.24
9 1 0.03
10 11 0.38
11 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TATATAAAAA
Found at i:856158 original size:11 final size:11
Alignment explanation
Indices: 856133--856166 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
856123 CCATATATTT
856133 TTATATAAAAA
1 TTATATAAAAA
856144 -TATATAAAAA
1 TTATATAAAAA
856154 TTATATAAAAA
1 TTATATAAAAA
856165 TT
1 TT
856167 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTATATAAAAA
Found at i:856159 original size:21 final size:19
Alignment explanation
Indices: 856133--856174 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
856123 CCATATATTT
856133 TTATATAAAAATATATAAAAA
1 TTATATAAAAAT-T-TAAAAA
856154 TTATATAAAAATTTAAAAA
1 TTATATAAAAATTTAAAAA
856173 TT
1 TT
856175 TAAGGTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATATAAAAATTTAAAAA
Found at i:858057 original size:13 final size:15
Alignment explanation
Indices: 858027--858055 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
858017 ATTAAAAAAT
858027 AAAAAAAATCAAGAG
1 AAAAAAAATCAAGAG
858042 AAAAAAAATCAAGA
1 AAAAAAAATCAAGA
858056 AACGACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAAAAATCAAGAG
Found at i:863418 original size:41 final size:42
Alignment explanation
Indices: 863372--863462 Score: 98
Period size: 43 Copynumber: 2.2 Consensus size: 42
863362 TTAAAAAATT
*
863372 GAATATAAATATTATCTCATAAT-C-A-TATTAAAATGATAAAA
1 GAATATAAATACTATCT-A-AATACTATTATTAAAATGATAAAA
** *
863413 GAATATGCATACTATCTAAATACTATTTATTGAAATGATAAAA
1 GAATATAAATACTATCTAAATACTA-TTATTAAAATGATAAAA
863456 GAATATA
1 GAATATA
863463 CCAACGGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 3 0.07
40 2 0.05
41 15 0.37
43 21 0.51
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (42 bp):
GAATATAAATACTATCTAAATACTATTATTAAAATGATAAAA
Found at i:879472 original size:21 final size:23
Alignment explanation
Indices: 879418--879472 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
879408 CCCTCTAGGG
879418 GTATCGATACACATTCAAGGAAT
1 GTATCGATACACATTCAAGGAAT
* *
879441 ATATCGGTACACATTCAA-G-AT
1 GTATCGATACACATTCAAGGAAT
879462 GTATCGATACA
1 GTATCGATACA
879473 TAGTCGATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.39
22 1 0.04
23 16 0.57
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
GTATCGATACACATTCAAGGAAT
Found at i:883083 original size:21 final size:20
Alignment explanation
Indices: 883059--883098 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
883049 GAAGCTTTAA
*
883059 GATCATCGATTTTCTTTTGAT
1 GATCATC-ATTTACTTTTGAT
*
883080 GATCGTCATTTACTTTTGA
1 GATCATCATTTACTTTTGA
883099 AAGTAAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
GATCATCATTTACTTTTGAT
Found at i:885669 original size:29 final size:29
Alignment explanation
Indices: 885628--885691 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
885618 ACTTTAGGCG
* *
885628 TTTTATCATTTATACCAATGAACTTTAAA
1 TTTTGTCAGTTATACCAATGAACTTTAAA
* * * *
885657 TTTTGTCAGTTATAGCATTGAATTTTAAT
1 TTTTGTCAGTTATACCAATGAACTTTAAA
885686 TTTTGT
1 TTTTGT
885692 TTTAATTATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTGTCAGTTATACCAATGAACTTTAAA
Found at i:889339 original size:13 final size:13
Alignment explanation
Indices: 889321--889345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
889311 GTCATTAGTC
889321 CATAAACAATATT
1 CATAAACAATATT
889334 CATAAACAATAT
1 CATAAACAATAT
889346 GTAATGGTAA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
CATAAACAATATT
Found at i:890906 original size:13 final size:12
Alignment explanation
Indices: 890872--890908 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
890862 ACCTAATAGG
890872 CAATTTTGAAAA
1 CAATTTTGAAAA
*
890884 CTATTTTGAAAA
1 CAATTTTGAAAA
890896 CAATGTTTGAAAA
1 CAAT-TTTGAAAA
890909 ATCATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (12 bp):
CAATTTTGAAAA
Found at i:891683 original size:20 final size:21
Alignment explanation
Indices: 891658--891727 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
891648 TATTATTCCA
891658 AATTAATT-AAATATATATTT
1 AATTAATTAAAATATATATTT
* *
891678 AATTAATTGAAATTAAATATTT
1 AATTAATT-AAAATATATATTT
* *
891700 GGGATT-ATTAAAACATATATTT
1 --AATTAATTAAAATATATATTT
891722 AATTAA
1 AATTAA
891728 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 11 0.29
21 1 0.03
22 20 0.53
23 3 0.08
24 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (21 bp):
AATTAATTAAAATATATATTT
Found at i:893773 original size:42 final size:42
Alignment explanation
Indices: 893724--893805 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
893714 ATACACATTC
*
893724 AAAGAGGGTATCGATACATGTTGAAGAAGTATCAATACCTCG
1 AAAGAGGGTATCGATACATGTTCAAGAAGTATCAATACCTCG
* ** *
893766 AAAGAGGGTATCGATACCTGTTCAAGGGGTATCGATACCT
1 AAAGAGGGTATCGATACATGTTCAAGAAGTATCAATACCT
893806 GGTGCACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (42 bp):
AAAGAGGGTATCGATACATGTTCAAGAAGTATCAATACCTCG
Found at i:893795 original size:21 final size:21
Alignment explanation
Indices: 893704--893806 Score: 77
Period size: 21 Copynumber: 4.8 Consensus size: 21
893694 GTACCCATCT
*
893704 AGGGGTATCGATACAC-ATTCAA
1 AGGGGTATCGATAC-CTGTTC-A
* *
893726 AGAGGGTATCGATACATGTTGA
1 AG-GGGTATCGATACCTGTTCA
** * *
893748 AGAAGTATCAATACCTCG--AA
1 AGGGGTATCGATACCT-GTTCA
893768 AGAGGGTATCGATACCTGTTCA
1 AG-GGGTATCGATACCTGTTCA
893790 AGGGGTATCGATACCTG
1 AGGGGTATCGATACCTG
893807 GTGCACAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 13
0.72 0.14 0.15
Matches are distributed among these distances:
20 4 0.06
21 36 0.57
22 9 0.14
23 14 0.22
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (21 bp):
AGGGGTATCGATACCTGTTCA
Found at i:895664 original size:12 final size:12
Alignment explanation
Indices: 895647--895671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
895637 ATGATGATTC
895647 TCCAACGTCATG
1 TCCAACGTCATG
895659 TCCAACGTCATG
1 TCCAACGTCATG
895671 T
1 T
895672 GCGTTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:903507 original size:27 final size:26
Alignment explanation
Indices: 903445--903513 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 26
903435 AAAGTTGTTT
*
903445 TTAAATAAAAAATAAAA-AATAAGAA
1 TTAAATAAAAAATAAAAGAAAAAGAA
*
903470 TTAAAT--AAAATAAAAGAAAAATAA
1 TTAAATAAAAAATAAAAGAAAAAGAA
*
903494 TTAAATAAACAAATTAAAGA
1 TTAAATAAA-AAATAAAAGA
903514 GATTGAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 9 0.24
24 12 0.32
25 6 0.16
26 1 0.03
27 9 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (26 bp):
TTAAATAAAAAATAAAAGAAAAAGAA
Found at i:912174 original size:20 final size:20
Alignment explanation
Indices: 912137--912175 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
912127 CTTTACATAG
*
912137 TAGTATCGATATCATAGGCT
1 TAGTATCGATACCATAGGCT
*
912157 TAGTATCGATACCGTAGGC
1 TAGTATCGATACCATAGGC
912176 CCAACGGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (20 bp):
TAGTATCGATACCATAGGCT
Found at i:912246 original size:21 final size:21
Alignment explanation
Indices: 912220--912272 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
912210 ATATAAAGGA
912220 AGTACCGATATTCCCCATATG
1 AGTACCGATATTCCCCATATG
912241 AGTACCGATATTCCCCATATG
1 AGTACCGATATTCCCCATATG
912262 AGTACCGATAT
1 AGTACCGATAT
912273 CCTCTGTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTACCGATATTCCCCATATG
Found at i:916234 original size:19 final size:19
Alignment explanation
Indices: 916202--916252 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
916192 ATTGTCTGCA
916202 AATTCTTT--CTCCTCATC
1 AATTCTTTAACTCCTCATC
916219 AATTCTTTAACTCCTCATC
1 AATTCTTTAACTCCTCATC
916238 AATTCTTTAACTCCT
1 AATTCTTTAACTCCT
916253 TTATGCTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.25
19 24 0.75
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTTTAACTCCTCATC
Found at i:918357 original size:16 final size:16
Alignment explanation
Indices: 918303--918359 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
918293 AGTCAAACCA
918303 AAAGTAA-TCGGAATCG
1 AAAGTAACTC-GAATCG
*
918319 AAAGCAA-TCGAATCGG
1 AAAGTAACTCGAATC-G
*
918335 AAA-TAACTTGAATCG
1 AAAGTAACTCGAATCG
918350 AAAGTAACTC
1 AAAGTAACTC
918360 AAATTTAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.32
16 23 0.68
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAGTAACTCGAATCG
Found at i:919764 original size:29 final size:31
Alignment explanation
Indices: 919725--919782 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
919715 ACTTACTATA
919725 GACCGAATAAAACC-AAACAC-AAATGACTT
1 GACCGAATAAAACCGAAACACGAAATGACTT
* *
919754 GACCGACTAAAACCGAAACCCGAAATGAC
1 GACCGAATAAAACCGAAACACGAAATGAC
919783 CCAACCCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 5 0.20
31 7 0.28
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (31 bp):
GACCGAATAAAACCGAAACACGAAATGACTT
Found at i:920066 original size:35 final size:36
Alignment explanation
Indices: 920011--920365 Score: 411
Period size: 35 Copynumber: 9.8 Consensus size: 36
920001 TAAAATCGGT
*
920011 TTTTGAACATA-ATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
920046 TTTTGAATATATATATATATATATAAATATTTTTTAAAACA
1 TTTTGAA-A-ATATATATA-ATAT--ATAGTTTTTAAAACA
*
920087 TTTTGAAAACT-TATATAATATATAGTTTCTAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTTAAAACA
* *
920123 TTTTGAATATATATATATATAATATAATTTTTAAAACA
1 TTTTGAAAATATATATA-AT-ATATAGTTTTTAAAACA
* * ** *
920161 -TTTGAAAACT-TGTATAATGTATAACTTCTAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTTAAAACA
920196 TTTTGAAAATATATAT-ATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
920231 TTTTGAATATATATAT-ATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
920266 TTTTGAAAAAATATATAATATATAGTTTTT-AAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
920301 TTTTGAAAAATATATATAATATATAATTTTT-AAATA
1 TTTTG-AAAATATATATAATATATAGTTTTTAAAACA
* *
920337 TTTTGAAAATATATTATATTATATGGTTT
1 TTTTGAAAATATA-TATAATATATAGTTT
920366 AGAAAATAAT
Statistics
Matches: 278, Mismatches: 26, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
35 104 0.37
36 98 0.35
37 17 0.06
38 25 0.09
39 11 0.04
40 2 0.01
41 21 0.08
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:920456 original size:21 final size:21
Alignment explanation
Indices: 920424--920478 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
920414 TTTATTTTTA
920424 TTATTATATATT-ATATTAATAT
1 TTATTAT-TATTCA-ATTAATAT
*
920446 TTTTTATTATTCAATTAATAT
1 TTATTATTATTCAATTAATAT
920467 TTATTACTTATT
1 TTATTA-TTATT
920479 TTTCTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATTATTCAATTAATAT
Found at i:922091 original size:16 final size:16
Alignment explanation
Indices: 922070--922103 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
922060 TCCCAAACCC
* *
922070 GACACATTTCTGGTAA
1 GACACATATCAGGTAA
922086 GACACATATCAGGTAA
1 GACACATATCAGGTAA
922102 GA
1 GA
922104 TGGTGTCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (16 bp):
GACACATATCAGGTAA
Found at i:924052 original size:24 final size:24
Alignment explanation
Indices: 924007--924052 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
923997 CAAGTGGACT
*
924007 CATCTGCTGTAAAGGTAAAAACCC
1 CATCTGCTGTAAAGATAAAAACCC
*
924031 CATCTGCTGTAAAGATACAAAC
1 CATCTGCTGTAAAGATAAAAAC
924053 TGTTGTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (24 bp):
CATCTGCTGTAAAGATAAAAACCC
Found at i:925864 original size:95 final size:94
Alignment explanation
Indices: 925752--925951 Score: 285
Period size: 95 Copynumber: 2.1 Consensus size: 94
925742 AGATTATAAT
* * *
925752 ATTATATATATATAATAAAGCTTGAGTTGTCCCTCTAAAGAAATTGGTTAAACG-CTCCGGCTTT
1 ATTATA-ATATACAATAAAGCTTGAGTTATCCCTCTAAAGAAATTGGTTAAACGAC-CC-GATTT
*
925816 ATGGATAAGATTCAGCTAGCCTGATAAAGGTA
63 ATGGATAAGATTCAGCTAGCCTGATAAAGGCA
* * *
925848 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAATGACCCGATTTTTG
1 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGAAATTGGTTAAACGACCCGATTTATG
* *
925913 GATAAGATTCAGCTAGCCTGCTAAAGGCG
66 GATAAGATTCAGCTAGCCTGATAAAGGCA
925942 ATTATAATAT
1 ATTATAATAT
925952 TGAGTTGTCC
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 42 0.45
95 45 0.48
96 7 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (94 bp):
ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGAAATTGGTTAAACGACCCGATTTATG
GATAAGATTCAGCTAGCCTGATAAAGGCA
Found at i:927176 original size:86 final size:86
Alignment explanation
Indices: 927031--927242 Score: 271
Period size: 86 Copynumber: 2.5 Consensus size: 86
927021 GGAGTTATTC
* * ** * * * * *
927031 GAAGAACATCCCACTTGGCTTTCATGTGAAGGAGAGTTATCCAAAGATTGTCTCACCTGGTTCAG
1 GAAGAATATACCACTTGGCTTTCCCGTAAAGGGGAGTCATCCAAAGATCGGCTCACCTGGTTCAG
927096 ACCCACGAAGGGGAACCACCT
66 ACCCACGAAGGGGAACCACCT
* *
927117 GAAGAATATACCACTTGGCTTTCCCATAAAGGGGAGTCATCCAAATATCGGCTCACCTGGTTCAG
1 GAAGAATATACCACTTGGCTTTCCCGTAAAGGGGAGTCATCCAAAGATCGGCTCACCTGGTTCAG
* ***
927182 ACTCGTTAAGGGGAACCACCT
66 ACCCACGAAGGGGAACCACCT
* *
927203 GAAGAATATACCACTTGGCTTTCCCGTCAAGGGGATTCAT
1 GAAGAATATACCACTTGGCTTTCCCGTAAAGGGGAGTCAT
927243 TTAAAGAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 108 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (86 bp):
GAAGAATATACCACTTGGCTTTCCCGTAAAGGGGAGTCATCCAAAGATCGGCTCACCTGGTTCAG
ACCCACGAAGGGGAACCACCT
Found at i:927451 original size:85 final size:85
Alignment explanation
Indices: 927303--927719 Score: 525
Period size: 85 Copynumber: 4.9 Consensus size: 85
927293 TAAAGGAATT
* * * *
927303 ATTTGCAGCATAGCTCATGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
927368 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGGCATATCAA
* * * *
927388 ATTTACAGCATAGCTCAAGGTGAGAAGGGCTATCTGTCAACCTAA-ACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAA-CAAAGACCTTCGAGTTCGATTACA
* * **
927452 TTTAGCTCAAAGAAATATCAA
65 TTCAGCTCAAGGGCATATCAA
* * * * * *
927473 ATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAATAAAGACCTTTGAGTTTGATTATAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
927538 TCAGCTCGAA-GGCATATCAA
66 TCAGCTC-AAGGGCATATCAA
* * * *
927558 ATTTACAGCATAACTCATGGCGAGAATGGATATTTGTTAACAAAGACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
927623 TCAGCTCAAGGACATATCAA
66 TCAGCTCAAGGGCATATCAA
* * * * * *
927643 ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTATCAACAAATACCTTCAAGTTCGATT-CTA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTCGATTAC-A
927707 TTCAGCTCAAGGG
65 TTCAGCTCAAGGG
927720 TGTCGCCCCC
Statistics
Matches: 283, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
84 5 0.02
85 273 0.96
86 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (85 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
TCAGCTCAAGGGCATATCAA
Found at i:928391 original size:36 final size:36
Alignment explanation
Indices: 928343--928412 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
928333 ACTAAATATT
*
928343 TGTCCCAGAGGACCACAATGCCCCGAATGACCACAA
1 TGTCCCAGAGGACCACAATGCCCCGAAGGACCACAA
* *
928379 TGTCCC-GAAGGACCACTATGTCCCGAAGGACCAC
1 TGTCCCAG-AGGACCACAATGCCCCGAAGGACCAC
928413 TGATAATCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.30, C:0.36, G:0.21, T:0.13
Consensus pattern (36 bp):
TGTCCCAGAGGACCACAATGCCCCGAAGGACCACAA
Found at i:928413 original size:18 final size:18
Alignment explanation
Indices: 928351--928412 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
928341 TTTGTCCCAG
*
928351 AGGACCACAATGCCCCGA
1 AGGACCACAATGTCCCGA
*
928369 ATGACCACAATGTCCCGA
1 AGGACCACAATGTCCCGA
*
928387 AGGACCACTATGTCCCGA
1 AGGACCACAATGTCCCGA
928405 AGGACCAC
1 AGGACCAC
928413 TGATAATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.32, C:0.35, G:0.21, T:0.11
Consensus pattern (18 bp):
AGGACCACAATGTCCCGA
Found at i:930781 original size:38 final size:38
Alignment explanation
Indices: 930723--931176 Score: 584
Period size: 38 Copynumber: 11.8 Consensus size: 38
930713 TCGATTTTTG
930723 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
* *
930761 AAAATATATAAAATACATAG-TTTTAAAACATTTTG-A
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
* *
930797 AAACT-TATATAATATATAGTTTGTAAAACATTTTGAA
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
* * *
930834 TATATATATATAATATATAGTTTTTAAAAAATTTTG-A
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
*
930871 AAACT-TATATAATATATAGTTTTTAAAACATTTT-AA
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
*
930907 AAATATATATATAATATATAGTTTTTAAAACATTTTAATA
1 AAA-ATATATATAATATATAGTTTTTAAAACATTTTGA-A
930947 TATATATATATATATATATAATATAGTTTTTAAAACATTTT-AA
1 -A-A-A-ATATATATA-AT-ATATAGTTTTTAAAACATTTTGAA
*
930990 ATATATATATATATATAATATAGTTTTTAAAACATTTTGAA
1 A-AAATATATATA-AT-ATATAGTTTTTAAAACATTTTGAA
931031 TATATATATATATATAATATATAGTTTTTAAAACATTTTGAA
1 -A-A-A-ATATATATAATATATAGTTTTTAAAACATTTTGAA
931073 AAAATATATATAATATATAGTTTTTAAAACATTTTG-A
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
931110 AAAATATATATAATATATAGTTTTTAAAACATTTTG-A
1 AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
* * *
931147 AAAATATATTATATTATATGGTTTTGAAAA
1 AAAATATA-TATAATATATAGTTTTTAAAA
931177 TAATTATTTT
Statistics
Matches: 377, Mismatches: 21, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
35 12 0.03
36 51 0.14
37 68 0.18
38 126 0.33
39 2 0.01
40 36 0.10
41 4 0.01
42 31 0.08
43 14 0.04
44 12 0.03
45 21 0.06
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (38 bp):
AAAATATATATAATATATAGTTTTTAAAACATTTTGAA
Found at i:930891 original size:74 final size:74
Alignment explanation
Indices: 930718--931176 Score: 550
Period size: 74 Copynumber: 6.0 Consensus size: 74
930708 AAAAATCGAT
* * *
930718 TTTTGAAAA-TATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATAAAATACATAG-
1 TTTTGAAAACT-TATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATAATATATAGT
930781 TTTTAAAACA
65 TTTTAAAACA
* *
930791 TTTTGAAAACTTATATAATATATAGTTTGTAAAACATTTTGAATATATATATATAATATATAGTT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATAATATATAGTT
*
930856 TTTAAAAAA
66 TTTAAAACA
*
930865 TTTTGAAAACTTATATAATATATAGTTTTTAAAACATTTTAAAAATATATATATAATATATAGTT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATAATATATAGTT
930930 TTTAAAACA
66 TTTAAAACA
* *
930939 TTTT-AATATATATATATATATATATATAATATAGTTTTTAAAACATTTT-AAATATATATATAT
1 TTTTGAA-A-A-CT-TATATA-ATATAT-A-GT--TTTT-AAAACATTTTGAAA-ATATATATAT
931002 ATATAATATAGTTTTTAAAACA
55 A-AT-ATATAGTTTTTAAAACA
* *
931024 TTTTGAATATATATATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAATAT
1 TTTTG-A-A-A-A-CT-TATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATAATAT
931089 ATAGTTTTTAAAACA
60 ATAGTTTTTAAAACA
* * *
931104 TTTTGAAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAA-ATATATTATATTATATGG
1 TTTTGAAAACT-TATATAATATATAGTTTTTAAAACATTTTGAAAATATATA-TATAATATATAG
*
931168 TTTTGAAAA
64 TTTTTAAAA
931177 TAATTATTTT
Statistics
Matches: 349, Mismatches: 17, Indels: 38
0.86 0.04 0.09
Matches are distributed among these distances:
73 58 0.17
74 90 0.26
75 56 0.16
76 2 0.01
77 7 0.02
78 7 0.02
79 2 0.01
80 23 0.07
81 2 0.01
82 27 0.08
83 28 0.08
84 2 0.01
85 22 0.06
86 1 0.00
87 7 0.02
88 15 0.04
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (74 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATAATATATAGTT
TTTAAAACA
Found at i:931242 original size:13 final size:12
Alignment explanation
Indices: 931230--931264 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
931220 TTATTTTTAT
931230 TATTATATATTA
1 TATTATATATTA
931242 TATTAATATATTA
1 TATT-ATATATTA
931255 TATTAT-TATT
1 TATTATATATT
931265 CAATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 6 0.27
13 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATATATTA
Found at i:932493 original size:24 final size:24
Alignment explanation
Indices: 932450--932509 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
932440 CCAACTTTTA
932450 TTTTATTTTATTTACTTTTT-ACTT
1 TTTTATTTTATTTACTTTTTGA-TT
932474 TTTTATTTTATTT-CTGTTTTGATT
1 TTTTATTTTATTTACT-TTTTGATT
932498 TTTCT-TTTTATT
1 TTT-TATTTTATT
932510 ATTTTTTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.06
24 29 0.88
25 2 0.06
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTATTTTATTTACTTTTTGATT
Found at i:934262 original size:13 final size:12
Alignment explanation
Indices: 934170--934259 Score: 62
Period size: 13 Copynumber: 7.4 Consensus size: 12
934160 AATTATTAAC
934170 ATATTTAA-AAT
1 ATATTTAATAAT
*
934181 ATATTTATTAAT
1 ATATTTAATAAT
934193 ACT-TTTAATAAT
1 A-TATTTAATAAT
*
934205 ATAATATAATAAT
1 AT-ATTTAATAAT
*
934218 ATTATTACAATAAT
1 A-TATT-TAATAAT
* *
934232 ATACTCAAT--T
1 ATATTTAATAAT
934242 ATATTATAATAAT
1 ATATT-TAATAAT
934255 ATATT
1 ATATT
934260 ATACTATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.08
11 11 0.18
12 17 0.27
13 21 0.34
14 8 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:934270 original size:13 final size:13
Alignment explanation
Indices: 934239--934272 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
934229 AATATACTCA
934239 ATTATATTATAAT
1 ATTATATTATAAT
* *
934252 AATATATTATACT
1 ATTATATTATAAT
934265 ATTATATT
1 ATTATATT
934273 CTTATTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:934285 original size:55 final size:52
Alignment explanation
Indices: 934226--934328 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 52
934216 ATATTATTAC
* * * *
934226 AATAATATACTCAATTATATTATAATAA-TATATTATACTATTATATTCTTATTTT
1 AATAATATAATAAATTAT-TAATAAAAATTATATTAT--TATTA-ATTCTTATTTT
934281 AATAATATAATAAATTATTAATAAAAATTATATTATTATTAATTCTTA
1 AATAATATAATAAATTATTAATAAAAATTATATTATTATTAATTCTTA
934329 AAAATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
52 7 0.16
53 5 0.12
54 7 0.16
55 24 0.56
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (52 bp):
AATAATATAATAAATTATTAATAAAAATTATATTATTATTAATTCTTATTTT
Found at i:934631 original size:21 final size:21
Alignment explanation
Indices: 934601--934640 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
934591 ATTCTAATAT
934601 TTTTAAAAT-AATAATATTAAG
1 TTTTAAAATAAAT-ATATTAAG
*
934622 TTTTATAATAAATATATTA
1 TTTTAAAATAAATATATTA
934641 TTTATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTAAAATAAATATATTAAG
Found at i:941029 original size:58 final size:58
Alignment explanation
Indices: 940965--941116 Score: 189
Period size: 58 Copynumber: 2.6 Consensus size: 58
940955 CCACTGATTA
* *
940965 TTAAAAGTTACGAAATAATCTAT-TAATTATTGGGCACTGTTGTTGAGTTTTTCAACTC
1 TTAAAAGTTACAAAATAATC-ATCTAATTATAGGGCACTGTTGTTGAGTTTTTCAACTC
** * ** *
941023 TTAAAAGTTACAAAATTGTCATCTAATTATAGTGCGTTGTTGTTGAGTTTTTCAACTG
1 TTAAAAGTTACAAAATAATCATCTAATTATAGGGCACTGTTGTTGAGTTTTTCAACTC
** *
941081 TTAAAAGTTACAAAATCTTCACCTAATTATAGGGCA
1 TTAAAAGTTACAAAATAATCATCTAATTATAGGGCA
941117 TTACTTGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 2 0.03
58 78 0.98
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (58 bp):
TTAAAAGTTACAAAATAATCATCTAATTATAGGGCACTGTTGTTGAGTTTTTCAACTC
Done.