Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 40
Found at i:511738 original size:20 final size:21
Alignment explanation
Indices: 511690--511741 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
511680 ATAGTCAGTA
*
511690 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
511711 TCGTATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
511731 TCGCATTGCGA
1 TCGCATTGCGA
511742 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:512674 original size:22 final size:22
Alignment explanation
Indices: 512631--512674 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
512621 TAAATTGTAC
*
512631 TTTTCTATTTCATATCATATCA
1 TTTTCTATTTCATATCAGATCA
*
512653 TTTTCATATTTTAT-TCAGATCA
1 TTTTC-TATTTCATATCAGATCA
512675 GATCTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTCTATTTCATATCAGATCA
Found at i:513197 original size:21 final size:21
Alignment explanation
Indices: 513155--513198 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
513145 TGAAATAAAA
**
513155 TAAAAATAAAATGTATGTATT
1 TAAAAATAAAATGTATACATT
* *
513176 TAAAAATAAAATTTTTACATT
1 TAAAAATAAAATGTATACATT
513197 TA
1 TA
513199 GTTAATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAAATAAAATGTATACATT
Found at i:522391 original size:17 final size:18
Alignment explanation
Indices: 522358--522393 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
522348 TTTTATAATT
522358 TTATAACTATTACAATGA
1 TTATAACTATTACAATGA
*
522376 TTATAA-TATTATAATGA
1 TTATAACTATTACAATGA
522393 T
1 T
522394 CATTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
TTATAACTATTACAATGA
Found at i:539998 original size:95 final size:95
Alignment explanation
Indices: 539890--540071 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
539880 ATATTATTTA
* * * *
539890 TATACAATAAAGCTTTAGTTGTCCTTCT-AGAGTAATTGGTTAAACGCCCCGACTTTATGGATAA
1 TATACAATAAAGCTTGAGCTGTCCCTCTAAG-GCAATTGGTTAAACGCCCCGACTTTATGGATAA
* *
539954 TATTCAGCTAGCCTGATAAAGGTGATTATAT
65 GATTCAGCTAACCTGATAAAGGTGATTATAT
*
539985 TATACAATAAAGCTTGAGCTGTCCCTCTAAGGCAATTGGTTAAACGCCCTGACTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
540050 ATTCAGCTAACCTGATAAAGGT
66 ATTCAGCTAACCTGATAAAGGT
540072 ATTTACATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 77 0.97
96 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAT
Found at i:541487 original size:36 final size:37
Alignment explanation
Indices: 541435--541515 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
541425 TAATTTACTC
* *
541435 AAAACAAAGTTTTGTCTCTCTCGAGACATTTTCTCTT
1 AAAACAAAGTTTTGTCTCTCTCGAGACAGTTTCCCTT
* * *
541472 AAAACAAA-TTTTGTCTTTCTTGAGACGGTTTCCCTT
1 AAAACAAAGTTTTGTCTCTCTCGAGACAGTTTCCCTT
*
541508 GAAACAAA
1 AAAACAAA
541516 AACTTCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 30 0.79
37 8 0.21
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (37 bp):
AAAACAAAGTTTTGTCTCTCTCGAGACAGTTTCCCTT
Found at i:541593 original size:36 final size:37
Alignment explanation
Indices: 541544--541754 Score: 151
Period size: 36 Copynumber: 6.0 Consensus size: 37
541534 CTTGAAATAG
* *
541544 AGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAA
1 AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
* * *
541581 A-TTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAA
1 AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
* * *
541617 A-TTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAA
1 AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
* * *
541653 A-----ATCT-T-T-GA-ATCTGTTTTCCTTAAAACAA
1 AGTTTTGTCTCTCTCGAGA-CAGTTTCCCTTAAAACAA
* * * **
541682 A-TTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAA
1 AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
* * *
541718 A-TTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAA
1 AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
541754 A
1 A
541755 ATCCTTGAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
28 1 0.01
29 18 0.12
30 1 0.01
31 1 0.01
32 3 0.02
33 3 0.02
35 1 0.01
36 114 0.79
37 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (37 bp):
AGTTTTGTCTCTCTCGAGACAGTTTCCCTTAAAACAA
Found at i:541691 original size:101 final size:101
Alignment explanation
Indices: 541566--541811 Score: 384
Period size: 101 Copynumber: 2.4 Consensus size: 101
541556 CTTGAGACAG
* *
541566 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTATT
1 TTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTATT
* *
541631 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
65 GAGACAGTTTCCCTTGAAACAAAATCCTTGAATATGT
* * *
541668 TTTCCTTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTG
1 TTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTATTG
*
541733 AGACGGTTTCCCTTGAAACAAAATCCTTGAATATGT
66 AGACAGTTTCCCTTGAAACAAAATCCTTGAATATGT
* * *
541769 TTTCCTTTAAACAAATTTCGTCTCTCTCGAGATAGTTTCTCTT
1 TTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTT
541812 GAAGCACCAA
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 127 0.97
102 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (101 bp):
TTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTATTG
AGACAGTTTCCCTTGAAACAAAATCCTTGAATATGT
Found at i:541905 original size:33 final size:36
Alignment explanation
Indices: 541834--541978 Score: 113
Period size: 31 Copynumber: 4.4 Consensus size: 36
541824 TTTGAAATTG
541834 TTTCTCTTGAAACACAAAAAAAAACCTTTGAAACAAT
1 TTTCTCTTGAAACAC-AAAAAAAACCTTTGAAACAAT
* **
541871 TTT-TCTTGAAACACAAAAAAAATC-TTGGGA-AAT
1 TTTCTCTTGAAACACAAAAAAAACCTTTGAAACAAT
* *
541904 TTTCTTTTG-AACAC---AAAAACCTTTG-AA-ATT
1 TTTCTCTTGAAACACAAAAAAAACCTTTGAAACAAT
541934 GTTTCTCTTG--A-A-AAAAAAAACCTTTG-AA-AAT
1 -TTTCTCTTGAAACACAAAAAAAACCTTTGAAACAAT
541965 ATTTCTCTTGAAAC
1 -TTTCTCTTGAAAC
541979 CCTGAATCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
29 1 0.01
30 10 0.11
31 35 0.39
33 12 0.13
34 8 0.09
35 9 0.10
36 11 0.12
37 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (36 bp):
TTTCTCTTGAAACACAAAAAAAACCTTTGAAACAAT
Found at i:541939 original size:31 final size:31
Alignment explanation
Indices: 541849--541977 Score: 118
Period size: 31 Copynumber: 4.1 Consensus size: 31
541839 CTTGAAACAC
*
541849 AAAAAAAAACCTTTGAAACA-ATTTTTCTTGAAA
1 AAAAAAAAACCTTTGAAA-ATATTTCTCTTG--A
* * * *
541882 CACAAAAAAAATCTTGGGAAAT-TTTCTTTTGA
1 -A-AAAAAAAACCTTTGAAAATATTTCTCTTGA
* * * *
541914 ACACAAAAACCTTTGAAATTGTTTCTCTTGA
1 AAAAAAAAACCTTTGAAAATATTTCTCTTGA
541945 AAAAAAAAACCTTTGAAAATATTTCTCTTGA
1 AAAAAAAAACCTTTGAAAATATTTCTCTTGA
541976 AA
1 AA
541978 CCCTGAATCT
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
30 13 0.17
31 39 0.51
32 1 0.01
34 9 0.12
35 14 0.18
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (31 bp):
AAAAAAAAACCTTTGAAAATATTTCTCTTGA
Found at i:543554 original size:288 final size:290
Alignment explanation
Indices: 543038--543618 Score: 1031
Period size: 288 Copynumber: 2.0 Consensus size: 290
543028 GAAAACCAGA
*
543038 AAAAAAAAAGGTACCAGATTCATTCGAAGTTAAAAAAAAAGAGAACCGTTCGAGGGGATCCATTG
1 AAAAAAAAAGGTACCAGATTCATTCGAAGTTAAAAAAAAAGAGAACCGTTCGAGGGGATCCAGTG
543103 GAGAAAACCAGAAATCATATCTCAAATACAAAGAAGGAAACAAAGAGCCAAGTAAAAAACCTGAC
66 GAGAAAACCAGAAATCATATCTCAAATACAAAGAAGGAAACAAAGAGCCAAGTAAAAAACCTGAC
*
543168 CTTTCCATTCGAAGAAGGCAATTTTCGTTCACCACAGCCAATAACCTTCAAAAGGGGTAATTTCA
131 CTTTCCATTCGAAGAAGGCAATTTTCGTTCACCACAGCCAAGAACCTTCAAAAGGGGTAATTTCA
*
543233 ATCGATCAAAGGTAATTATTCGAATCAAA-TT-TTTAAATTTAAATTCTTAATTTTCGCAATTAA
196 ATCGATCAAAGGTAATTATTCGAATCAAATTTATTTAAATTTAAATTCTTAATTTTCACAATTAA
*
543296 AGACAATCGACAAATTAATTGGTACCGAAT
261 AGACAACCGACAAATTAATTGGTACCGAAT
*
543326 AAAAAAAAGGGTACCAGATTCATTCGAAGTTAAAAAAAAAGAGAACCGTTCGAGGGGATCCAGTG
1 AAAAAAAAAGGTACCAGATTCATTCGAAGTTAAAAAAAAAGAGAACCGTTCGAGGGGATCCAGTG
* *
543391 GAGAAAACCAGAAATCATTTCTCAAATACAAAGAAGGAAACAAAGATCCAAGTAAAAAACCTGAC
66 GAGAAAACCAGAAATCATATCTCAAATACAAAGAAGGAAACAAAGAGCCAAGTAAAAAACCTGAC
*
543456 CTTTCCATTCGAAGAAGGCAATTTTCGTTCACCAGAGCCAAGAACCTTCAAAAGGGGTAATTTCA
131 CTTTCCATTCGAAGAAGGCAATTTTCGTTCACCACAGCCAAGAACCTTCAAAAGGGGTAATTTCA
*
543521 ATCGGTCAAAGGTAATTATTCGAATCAAATTTTTAAATTTAAATTTAAATTCTTAATTTTCACAA
196 ATCGATCAAAGGTAATTATTCGAATCAAA--TTT--ATTTAAATTTAAATTCTTAATTTTCACAA
543586 TTAAAGACAACCGACAAATTAATTGGTACCGAA
257 TTAAAGACAACCGACAAATTAATTGGTACCGAA
543619 AGGGCGGTTC
Statistics
Matches: 278, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
288 217 0.78
291 2 0.01
294 59 0.21
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (290 bp):
AAAAAAAAAGGTACCAGATTCATTCGAAGTTAAAAAAAAAGAGAACCGTTCGAGGGGATCCAGTG
GAGAAAACCAGAAATCATATCTCAAATACAAAGAAGGAAACAAAGAGCCAAGTAAAAAACCTGAC
CTTTCCATTCGAAGAAGGCAATTTTCGTTCACCACAGCCAAGAACCTTCAAAAGGGGTAATTTCA
ATCGATCAAAGGTAATTATTCGAATCAAATTTATTTAAATTTAAATTCTTAATTTTCACAATTAA
AGACAACCGACAAATTAATTGGTACCGAAT
Found at i:557823 original size:3 final size:3
Alignment explanation
Indices: 557815--557839 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
557805 ATGTTACATG
557815 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
557840 TATTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:558625 original size:18 final size:18
Alignment explanation
Indices: 558604--558647 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
558594 AGTATCCAAC
*
558604 AATAATAAAATCGGTAAA
1 AATAATAAAATCGATAAA
558622 AATAATAAAATCGATAAA
1 AATAATAAAATCGATAAA
558640 AATAATAA
1 AATAATAA
558648 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (18 bp):
AATAATAAAATCGATAAA
Found at i:572159 original size:14 final size:16
Alignment explanation
Indices: 572140--572173 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
572130 ATCATATGTC
572140 TTAATTAAAT-ATTT-
1 TTAATTAAATCATTTA
572154 TTAATTAAATCATTTA
1 TTAATTAAATCATTTA
572170 TTAA
1 TTAA
572174 AATTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 4 0.22
16 4 0.22
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAAATCATTTA
Found at i:574886 original size:2 final size:2
Alignment explanation
Indices: 574879--574927 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
574869 ATCAATATGA
574879 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
574921 AT AT AT A
1 AT AT AT A
574928 CACACACACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:591806 original size:55 final size:56
Alignment explanation
Indices: 591716--591820 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 56
591706 CATTACTTCC
* *
591716 GATTTCTTTTAGTTTTTTTTATTAAGCTAATGTGATTACAAAGTAATATTGTTTCT
1 GATTTCTTCTAGTTTTTTTTATTAAGCTAAGGTGATTACAAAGTAATATTGTTTCT
*
591772 GATTTCTTCTA-TTTTTTTTATTAAGTTAAGGTGATTACAAAGTAATATT
1 GATTTCTTCTAGTTTTTTTTATTAAGCTAAGGTGATTACAAAGTAATATT
591821 ATTCTAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 36 0.78
56 10 0.22
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (56 bp):
GATTTCTTCTAGTTTTTTTTATTAAGCTAAGGTGATTACAAAGTAATATTGTTTCT
Found at i:595668 original size:17 final size:17
Alignment explanation
Indices: 595643--595677 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
595633 ACGAAGGATA
595643 ATAACAGAAAAACGAAG
1 ATAACAGAAAAACGAAG
*
595660 ATAAGAGAAAAACGAAG
1 ATAACAGAAAAACGAAG
595677 A
1 A
595678 AAATTGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.20, T:0.06
Consensus pattern (17 bp):
ATAACAGAAAAACGAAG
Found at i:595857 original size:22 final size:23
Alignment explanation
Indices: 595829--595874 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
595819 TTGGTTACAC
595829 AGTCG-TTTATCACGAACAACAT
1 AGTCGTTTTATCACGAACAACAT
595851 AGTCGTTTTATCACGAACAACAT
1 AGTCGTTTTATCACGAACAACAT
595874 A
1 A
595875 ATAAATGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (23 bp):
AGTCGTTTTATCACGAACAACAT
Found at i:606116 original size:19 final size:19
Alignment explanation
Indices: 606075--606117 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
606065 ATTAAATCAG
*
606075 CCTTGGGCTAAAGCTTATG
1 CCTTGGGCTAAAGCTTATA
*
606094 CCTTGGGCTAAAGCTTCTA
1 CCTTGGGCTAAAGCTTATA
606113 CCTTG
1 CCTTG
606118 ATTCAAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.33
Consensus pattern (19 bp):
CCTTGGGCTAAAGCTTATA
Found at i:612957 original size:178 final size:180
Alignment explanation
Indices: 612720--613099 Score: 603
Period size: 178 Copynumber: 2.1 Consensus size: 180
612710 ATTAAATTTT
*
612720 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATA-T-TATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
612785 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATAT-AAATTT
64 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
* *
612848 TTATTTTATAATTATATATTGTTTAAATT-ATTGTAAACTGTTTTT-AATTAAA
129 TTA-TTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTGAATT-AA
*
612900 AAATATTAAATATATTATATAACATATGGGCT-AAGCCCAAACCATTTAAAGCCCAATTAATAAT
1 AAATATTAAATATATTATATAACATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATAAT
*
612964 TTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATTTT
65 TTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
*
613029 TATTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAA
130 TATTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTGAATTAA
*
613080 AAATATTTAAT-T-TTATATAA
1 AAATATTAAATATATTATATAA
613100 ATTAGAAAAT
Statistics
Matches: 188, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
177 2 0.01
178 102 0.54
179 31 0.16
180 49 0.26
181 4 0.02
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (180 bp):
AAATATTAAATATATTATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATT
TAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTT
ATTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTGAATTAA
Found at i:613206 original size:30 final size:30
Alignment explanation
Indices: 613149--613209 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
613139 ACCGAAATTT
* **
613149 ATTCGGTTCGGTTAATATGTTCGGAAAAAA
1 ATTCGGTTCGGTTAATAGGTTAAGAAAAAA
613179 ATTCGGTTCGGTTAAT-GGTTAAAGAAAAAA
1 ATTCGGTTCGGTTAATAGGTT-AAGAAAAAA
613209 A
1 A
613210 AAGTTTGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (30 bp):
ATTCGGTTCGGTTAATAGGTTAAGAAAAAA
Found at i:613235 original size:15 final size:15
Alignment explanation
Indices: 613215--613243 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
613205 AAAAAAAGTT
613215 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
613230 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
613244 CGGTCGGCCA
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:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:617473 original size:30 final size:30
Alignment explanation
Indices: 617407--617473 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
617397 GAACTTTTCA
* *
617407 AAATTTTTAAAAATTTTAATTTAAATCTCT
1 AAATTTTTAAAAATTTTAAATTAAATCACT
* * *
617437 AGATTTTTTAAAATTTTAAATT-ATTCCACT
1 AAATTTTTAAAAATTTTAAATTAAAT-CACT
617467 AAATTTT
1 AAATTTT
617474 ATCACCAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATTTTTAAAAATTTTAAATTAAATCACT
Found at i:618902 original size:23 final size:24
Alignment explanation
Indices: 618852--618907 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
618842 ATAATTTTAA
*
618852 AATTTTTATTTAAAATAAAAAATAT
1 AATTTTT-TTTAAAATAAAAAACAT
*
618877 AATTTTTTTTAAAA-AAAAAACCT
1 AATTTTTTTTAAAATAAAAAACAT
618900 AATTTTTT
1 AATTTTTT
618908 AAAACTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 15 0.52
24 7 0.24
25 7 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTTTTTTAAAATAAAAAACAT
Found at i:620883 original size:60 final size:58
Alignment explanation
Indices: 620743--620907 Score: 159
Period size: 60 Copynumber: 2.8 Consensus size: 58
620733 AACTATACTC
* *
620743 ATTTTTTGCTTTAAACCCCTAAACTATTTTTAGTCAAAATAAGTCCTTAAACTATTAT
1 ATTTTTTGCTTTAAGCCCCTAAACTATTTTTAGTCAAAATAAGTCCATAAACTATTAT
***** ** * *
620801 ATATAACCACTTTAAGTACCTAAACTATATTTTGGTCAAAATAAGTCCATAAACTATGTTT
1 AT-TTTTTGCTTTAAGCCCCTAAACTAT-TTTTAGTCAAAATAAGTCCATAAACTAT-TAT
* * *
620862 CTTTTTTGCTTCAAGCCCCTAAACTACTTTCTTAATCAAAATAAGT
1 ATTTTTTGCTTTAAGCCCCTAAACTA-TTT-TTAGTCAAAATAAGT
620908 ACCTATTTTT
Statistics
Matches: 80, Mismatches: 22, Indels: 7
0.73 0.20 0.06
Matches are distributed among these distances:
58 2 0.03
59 17 0.21
60 44 0.55
61 17 0.21
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (58 bp):
ATTTTTTGCTTTAAGCCCCTAAACTATTTTTAGTCAAAATAAGTCCATAAACTATTAT
Found at i:622442 original size:33 final size:33
Alignment explanation
Indices: 622400--622464 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
622390 CATATGATGT
*
622400 TATCATTATATTGAGATTGGAGAAGATTAAGAG
1 TATCATTATATTGAGATTGGAGAAGATCAAGAG
622433 TATCATTATATTGAGATTGGAGAAGATCAAGA
1 TATCATTATATTGAGATTGGAGAAGATCAAGA
622465 ATTAAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (33 bp):
TATCATTATATTGAGATTGGAGAAGATCAAGAG
Found at i:622477 original size:33 final size:33
Alignment explanation
Indices: 622407--622477 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
622397 TGTTATCATT
* * **
622407 ATATTGAGATTGGAGAAGATTAAGAGTATCATT
1 ATATTGAGATTGGAGAAGATCAAGAGTATAAGA
*
622440 ATATTGAGATTGGAGAAGATCAAGAAT-TAAAGA
1 ATATTGAGATTGGAGAAGATCAAGAGTAT-AAGA
622473 ATATT
1 ATATT
622478 TGATAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.31
Consensus pattern (33 bp):
ATATTGAGATTGGAGAAGATCAAGAGTATAAGA
Found at i:633678 original size:34 final size:34
Alignment explanation
Indices: 633640--633708 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
633630 AGGCCCCGAT
633640 TCTTGTCTCAAGAGGACACCAAAGGCCTCCATCG
1 TCTTGTCTCAAGAGGACACCAAAGGCCTCCATCG
633674 TCTTGTCTCAAGAGGACACCAAAGGCCTCCATCG
1 TCTTGTCTCAAGAGGACACCAAAGGCCTCCATCG
633708 T
1 T
633709 TCCATTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (34 bp):
TCTTGTCTCAAGAGGACACCAAAGGCCTCCATCG
Found at i:634799 original size:44 final size:44
Alignment explanation
Indices: 634730--635255 Score: 242
Period size: 43 Copynumber: 12.1 Consensus size: 44
634720 GGCTTTAATC
*
634730 ATAAAGGTAGAAATTAAGATTGAAAAAAGATTAGGGGCATCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAA-ATTAGGGGCATCAATT
* * * * * *
634775 ATAAATGT-GTAATTGATATTG-AAAAATTTA-GGGCCTCAATA
1 ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* * *
634816 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGCCTCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* * *
634860 GTAAAGGTA-AAGAGTGAGATTGAAAAAAACTTAGGAG-ACTCAATT
1 ATAAAGGTAGAA-ATTGAGATTGAAAAAAA-TTAGGGGCA-TCAATT
* *
634905 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGG---C----
1 ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* *
634942 -TAAAGGTA-AAGAGTGAGATTGAAAAAAACTTAGGAG-ACTCAATT
1 ATAAAGGTAGAA-ATTGAGATTGAAAAAAA-TTAGGGGCA-TCAATT
* * * * * * *
634986 ATAAAGTTAAAAAAGTGGGATT--AACAAGTTAGGGGCCTCAATT
1 ATAAAGGT-AGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* * *
635029 ATAAAGATGGAAATTGAGATT-ACAAAAATTA-GGGC-TCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* * * * *
635070 GTAAAAGTAGAAAAGGTAGAATGAGATTGAAAAAACTTAAGGGCCTCAATT
1 ATAAAGGTAG-AAA--T----TGAGATTGAAAAAAATTAGGGGCATCAATT
** * * *
635121 ATAAATTTA-AAA-CGTAGGATT-AAAAAAATTAGGGACCTCAATT
1 ATAAAGGTAGAAATTG-A-GATTGAAAAAAATTAGGGGCATCAATT
** * ** * * *
635164 ATAATTGTAAAAAAAGAGATTG-AAAAAATTAGAGACTTCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
* * * * *
635207 ATACAA-ATA-AAAGGTGAGATTGAATAAAATTA-AGACATCAATT
1 ATA-AAGGTAGAAA-TTGAGATTGAAAAAAATTAGGGGCATCAATT
635250 ATAAAG
1 ATAAAG
635256 ATAAAAAAAT
Statistics
Matches: 376, Mismatches: 65, Indels: 82
0.72 0.12 0.16
Matches are distributed among these distances:
35 2 0.01
36 23 0.06
37 5 0.01
40 1 0.00
41 29 0.08
42 36 0.10
43 115 0.31
44 70 0.19
45 48 0.13
46 11 0.03
47 2 0.01
48 7 0.02
49 11 0.03
50 4 0.01
51 12 0.03
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (44 bp):
ATAAAGGTAGAAATTGAGATTGAAAAAAATTAGGGGCATCAATT
Found at i:634820 original size:41 final size:44
Alignment explanation
Indices: 634730--634941 Score: 227
Period size: 44 Copynumber: 4.8 Consensus size: 44
634720 GGCTTTAATC
* * * * *
634730 ATAAAGGTAGAAATTAAGATTGAAAAAAGATTAGGGGCATCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAA-CTTATGGGCCTCAATA
* * * *
634775 ATAAATGT-GTAATTGATATTG-AAAAATTTA-GGGCCTCAATA
1 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGCCTCAATA
*
634816 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGCCTCAATT
1 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGCCTCAATA
* * * *
634860 GTAAAGGTA-AAGAGTGAGATTGAAAAAAACTTA-GGAGACTCAATT
1 ATAAAGGTAGAA-ATTGAGATTG-AAAAAACTTATGG-GCCTCAATA
634905 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGC
1 ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGC
634942 TAAAGGTAAA
Statistics
Matches: 141, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
41 16 0.11
42 14 0.10
43 15 0.11
44 50 0.35
45 44 0.31
46 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (44 bp):
ATAAAGGTAGAAATTGAGATTGAAAAAACTTATGGGCCTCAATA
Found at i:635219 original size:135 final size:135
Alignment explanation
Indices: 634955--635306 Score: 297
Period size: 135 Copynumber: 2.7 Consensus size: 135
634945 AGGTAAAGAG
* * *
634955 TGAGATTGAAAAAAACTTAGGAGACTCAATTATAAAGTTAAAAAAGTGGGATTAACAAGTTAGGG
1 TGAGATTGAAAAAAACTTAGGAGACTCAATTATAAAGTTAAAAAAGTAGGATTAAAAAATTAGGG
* ** ** * *
635020 GCCTCAATTATAAAGATGGAAATTGAGATTACAAAAATTAGGGCTCAATTGTAAAAGTAGAAAAG
66 ACCTCAATTATAAAGATAAAAAAAGAGATTACAAAAATTAGGACTCAATTATAAAAGTA-AAAAG
635085 GTAGAA
130 GTAGAA
* * *
635091 TGAGATTG-AAAAAACTTAAGG-GCCTCAATTATAAA-TTTAAAACGTAGGATTAAAAAAATTAG
1 TGAGATTGAAAAAAACTT-AGGAGACTCAATTATAAAGTTAAAAAAGTAGGATT-AAAAAATTAG
*
635153 GGACCTCAATTATAATTG-TAAAAAAAGAGATTGA-AAAAATTAGAGACTTCAATTATACAAA-T
64 GGACCTCAATTATAA-AGATAAAAAAAGAGATT-ACAAAAATTAG-GAC-TCAATTATA-AAAGT
635215 -AAAA-G--G--
124 AAAAAGGTAGAA
* * * * * *
635221 TGAGATTGAATAAAA-TTA--AGACATCAATTATAAAGATAAAAAAATAAGATAAAAAAATTAAA
1 TGAGATTGAAAAAAACTTAGGAGAC-TCAATTATAAAGTTAAAAAAGTAGGATTAAAAAATT-AG
* *
635283 GG-CCT-AATTACAAAGATGAAAAAA
64 GGACCTCAATTATAAAGATAAAAAAA
635307 TAGGGGCCCT
Statistics
Matches: 177, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
127 1 0.01
128 16 0.09
129 23 0.13
130 23 0.13
131 5 0.03
132 1 0.01
134 14 0.08
135 67 0.38
136 15 0.08
137 9 0.05
138 3 0.02
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.24
Consensus pattern (135 bp):
TGAGATTGAAAAAAACTTAGGAGACTCAATTATAAAGTTAAAAAAGTAGGATTAAAAAATTAGGG
ACCTCAATTATAAAGATAAAAAAAGAGATTACAAAAATTAGGACTCAATTATAAAAGTAAAAAGG
TAGAA
Found at i:635276 original size:12 final size:13
Alignment explanation
Indices: 635253--635278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
635243 ATCAATTATA
635253 AAGATAAAAAAAT
1 AAGATAAAAAAAT
635266 AAGATAAAAAAAT
1 AAGATAAAAAAAT
635279 TAAAGGCCTA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAGATAAAAAAAT
Found at i:635933 original size:2 final size:2
Alignment explanation
Indices: 635926--635954 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
635916 TTATTTAAAT
635926 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 T
635955 TGAAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:637449 original size:73 final size:73
Alignment explanation
Indices: 637330--637487 Score: 282
Period size: 73 Copynumber: 2.2 Consensus size: 73
637320 AGCTAAACAC
* * *
637330 TAACATGCTAACTATGATATGATAAATTCTAATCCTAGAATTTCAAATGACTATCATATGTCAGT
1 TAACATCCTAACTATGATATGATAAATTATAATCCTAGAATTTCAAATGACTATCATATATCAGT
637395 TATCATGT
66 TATCATGT
637403 TAACATCCTAACTATGATATGATAAATTATAATCCTAGAATTTCAAATGACTATCATATATCAGT
1 TAACATCCTAACTATGATATGATAAATTATAATCCTAGAATTTCAAATGACTATCATATATCAGT
637468 TATCATGT
66 TATCATGT
637476 TAACATCC-AACT
1 TAACATCCTAACT
637488 TATACAATCC
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
72 4 0.05
73 78 0.95
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (73 bp):
TAACATCCTAACTATGATATGATAAATTATAATCCTAGAATTTCAAATGACTATCATATATCAGT
TATCATGT
Found at i:641672 original size:14 final size:14
Alignment explanation
Indices: 641653--641679 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
641643 ATCAAGTTGC
641653 TTCCCTTAGTAGAA
1 TTCCCTTAGTAGAA
641667 TTCCCTTAGTAGA
1 TTCCCTTAGTAGA
641680 TTTTCTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (14 bp):
TTCCCTTAGTAGAA
Found at i:651569 original size:24 final size:25
Alignment explanation
Indices: 651526--651579 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
651516 GTACTTTTAA
* *
651526 TAAATTAAAATAAATTAAATATTTT
1 TAAATGAAAATAAATGAAATATTTT
651551 TAAATGAAAA-AAATGAAATATTTT
1 TAAATGAAAATAAATGAAATATTTT
651575 TAAAT
1 TAAAT
651580 TAAGTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAATGAAAATAAATGAAATATTTT
Found at i:651614 original size:25 final size:24
Alignment explanation
Indices: 651566--651637 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 24
651556 GAAAAAAATG
*
651566 AAATATTTTTAAATTAAGTTAATAGTA
1 AAATATATTT-AA-TAAGTTAATA-TA
651593 AAATATATTTAATAAGTTAATATA
1 AAATATATTTAATAAGTTAATATA
651617 AAA-ATATTT--TAAGTTAATATA
1 AAATATATTTAATAAGTTAATATA
651638 TATAAAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 12 0.27
23 6 0.14
24 5 0.11
25 10 0.23
26 2 0.05
27 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATATTTAATAAGTTAATATA
Found at i:651644 original size:24 final size:23
Alignment explanation
Indices: 651579--651645 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
651569 TATTTTTAAA
*
651579 TTAAGTTAATAGTA-AAATATATT
1 TTAAGTTAATA-TATAAAAATATT
651602 TAATAAGTT-A-ATATAAAAATATT
1 T--TAAGTTAATATATAAAAATATT
651625 TTAAGTTAATATATATAAAAT
1 TTAAGTTAATATATA-AAAAT
651646 TATTGTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.16
22 3 0.08
23 16 0.43
24 6 0.16
25 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TTAAGTTAATATATAAAAATATT
Found at i:654591 original size:25 final size:23
Alignment explanation
Indices: 654537--654585 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
654527 TTTAATAATG
*
654537 TTAAATTTAAAGACATATTAAATA
1 TTAAAATTAAA-ACATATTAAATA
*
654561 TAAAAATTAAAACATATTAAATA
1 TTAAAATTAAAACATATTAAATA
654584 TT
1 TT
654586 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAAATTAAAACATATTAAATA
Found at i:658959 original size:19 final size:20
Alignment explanation
Indices: 658935--658980 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
658925 TTTTTCAAAT
658935 TCGCAACGCG-ATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
658954 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATATGTAAA
658974 TCGCAAC
1 TCGCAAC
658981 ACAGAAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:658994 original size:20 final size:20
Alignment explanation
Indices: 658971--659019 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
658961 GCGAATTTGT
658971 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
*
658991 AATTCGTAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
659011 AATTCGCAA
1 AATTCGCAA
659020 AGCGCGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.18
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:659082 original size:21 final size:20
Alignment explanation
Indices: 659039--659150 Score: 125
Period size: 20 Copynumber: 5.5 Consensus size: 20
659029 ATTTTCATAA
*
659039 CGCGTTGCGAATTTGAAAAC
1 CGCGTTGCGATTTTGAAAAC
*
659059 CGCGTTACGATTTTGAAGAAC
1 CGCGTTGCGATTTTGAA-AAC
* *
659080 CGCGTTGCGATTTTGGAGAAT
1 CGCGTTGCGATTTT-GAAAAC
*
659101 CGCGTTGCGAATTTGAAAAC
1 CGCGTTGCGATTTTGAAAAC
* *
659121 CACGTTGCGATTTTGGAAAC
1 CGCGTTGCGATTTTGAAAAC
* *
659141 TGTGTTGCGA
1 CGCGTTGCGA
659151 AACTGGAGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
20 43 0.57
21 31 0.41
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (20 bp):
CGCGTTGCGATTTTGAAAAC
Found at i:659085 original size:41 final size:40
Alignment explanation
Indices: 659039--659140 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
659029 ATTTTCATAA
* *
659039 CGCGTTGCGAATTTGAAAACCGCGTTACGATTTTGAAGAAC
1 CGCGTTGCGATTTTGAAAACCGCGTTACGAATTTGAA-AAC
* * *
659080 CGCGTTGCGATTTTGGAGAATCGCGTTGCGAATTTGAAAAC
1 CGCGTTGCGATTTT-GAAAACCGCGTTACGAATTTGAAAAC
* *
659121 CACGTTGCGATTTTGGAAAC
1 CGCGTTGCGATTTTGAAAAC
659141 TGTGTTGCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.06
41 29 0.57
42 19 0.37
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (40 bp):
CGCGTTGCGATTTTGAAAACCGCGTTACGAATTTGAAAAC
Found at i:674448 original size:20 final size:20
Alignment explanation
Indices: 674373--674449 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
674363 ATTCACATTG
*
674373 CATTTCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATTTTC
* *
674393 CATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* ** *
674414 GAGATCGTGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
674434 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
674450 AGTTGAAATC
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:674461 original size:20 final size:21
Alignment explanation
Indices: 674397--674461 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 21
674387 TTTTTCCATT
* *
674397 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * * **
674418 TCGTGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
674438 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
674458 TCGC
1 TCGC
674462 AACGCGATCT
Statistics
Matches: 32, Mismatches: 11, Indels: 3
0.70 0.24 0.07
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:674514 original size:21 final size:21
Alignment explanation
Indices: 674498--674656 Score: 144
Period size: 21 Copynumber: 7.7 Consensus size: 21
674488 GCGTTGCATT
674498 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
674519 TCGCGTTGTGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
674539 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
674560 TCGCGTTGTGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
674580 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
674601 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
674621 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
674642 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
674657 CTACAGTTGT
Statistics
Matches: 101, Mismatches: 34, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
20 43 0.43
21 58 0.57
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:674544 original size:20 final size:20
Alignment explanation
Indices: 674519--674632 Score: 102
Period size: 20 Copynumber: 5.6 Consensus size: 20
674509 TAGTTGAAAA
*
674519 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
674539 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
674560 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
674580 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
674601 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
674621 TCGCGTTGCGAT
1 TCGCGTTGCGAT
674633 AGTTGAAAAT
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 40 0.58
21 29 0.42
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:674652 original size:41 final size:41
Alignment explanation
Indices: 674494--674653 Score: 302
Period size: 41 Copynumber: 3.9 Consensus size: 41
674484 ATTCGCGTTG
*
674494 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
674535 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
674576 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
674617 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
674654 AGTCTACAGT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:674690 original size:82 final size:82
Alignment explanation
Indices: 674497--674675 Score: 261
Period size: 82 Copynumber: 2.2 Consensus size: 82
674487 CGCGTTGCAT
* *
674497 TTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
* * * *
674562 GCGTTGTGATTTTCCAT
66 GCGTTGCGATTCTACAG
*
674579 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
674644 GCGTTGCGATAGTCTACAG
66 GCGTTGCGAT--TCTACAG
674663 TT-GTCGTTGCGAT
1 TTCG-CGTTGCGAT
674676 TTTCCAAATT
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
82 73 0.82
83 1 0.01
84 15 0.17
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (82 bp):
TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
GCGTTGCGATTCTACAG
Found at i:674776 original size:6 final size:6
Alignment explanation
Indices: 674765--674796 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
674755 AGACACGTAT
674765 GACCAC GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GA
674797 GACGAGACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.47, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:675175 original size:40 final size:40
Alignment explanation
Indices: 675126--675232 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
675116 ACTATTTAAG
675126 GCTC-AATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
1 GCTCAAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
675165 GCTCAAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
1 GCTCAAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
*
675205 GCTCAAATCCCACATAGTATTGGAAACA
1 GCTCAAATCCCACATAGTATTGGGAACA
675233 CTATTGGGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 4 0.06
40 62 0.94
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
GCTCAAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
Found at i:675327 original size:5 final size:5
Alignment explanation
Indices: 675317--675343 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
675307 GCGCCGCCGC
675317 CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CG
675344 GGTCGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.37
Consensus pattern (5 bp):
CGTCT
Found at i:675360 original size:6 final size:6
Alignment explanation
Indices: 675344--675381 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
675334 TCTCGTCTCG
675344 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
675382 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:681228 original size:2 final size:2
Alignment explanation
Indices: 681221--681258 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
681211 ATTATGTCAA
681221 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
681259 TAAAATCAAA
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:685809 original size:4 final size:5
Alignment explanation
Indices: 685776--685806 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
685766 CATTTCTTAG
685776 TTTCT TTTCT TTTCT TTTCT TTTC- TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
685807 CTTGTAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:695105 original size:13 final size:14
Alignment explanation
Indices: 695081--695111 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
695071 TTTGGGAAAT
695081 AAATTTTAATAAAA
1 AAATTTTAATAAAA
695095 AAATTTT-ATAAAA
1 AAATTTTAATAAAA
695108 AAAT
1 AAAT
695112 ATTTTTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTTTAATAAAA
Found at i:695509 original size:2 final size:2
Alignment explanation
Indices: 695502--695537 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
695492 TTAAATGATC
695502 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
695538 TCAAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:695643 original size:27 final size:26
Alignment explanation
Indices: 695596--695654 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
695586 CGTTTAAAAT
*
695596 GGTTTTTAAATTTTATGATGTTGTTA
1 GGTTTTTAAATTTTATGATGTTATTA
* * *
695622 GGTTTTTATATTTTGTTTATGTTATTA
1 GGTTTTTAAATTTT-ATGATGTTATTA
695649 GAGTTT
1 G-GTTT
695655 AGTCCCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.48
27 10 0.37
28 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.61
Consensus pattern (26 bp):
GGTTTTTAAATTTTATGATGTTATTA
Found at i:697737 original size:43 final size:43
Alignment explanation
Indices: 697669--697799 Score: 226
Period size: 43 Copynumber: 3.0 Consensus size: 43
697659 CCTTACGATT
* *
697669 GAAAAGAAAAAGAAGAAATCTTGATGAACAAGTTACTGCGATG
1 GAAAAGAAAAAGAAGAAATCCTGATGAACAAGTTACTGCAATG
*
697712 GAAAAGAAAAAGAAGAAGTCCTGATGAACAAGTTACTGCAATG
1 GAAAAGAAAAAGAAGAAATCCTGATGAACAAGTTACTGCAATG
*
697755 GAAAAGAAAAAGAAGAAATTCTGATGAACAAGTTACTGCAATG
1 GAAAAGAAAAAGAAGAAATCCTGATGAACAAGTTACTGCAATG
697798 GA
1 GA
697800 GCTCGGTTGA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.18
Consensus pattern (43 bp):
GAAAAGAAAAAGAAGAAATCCTGATGAACAAGTTACTGCAATG
Found at i:700195 original size:58 final size:58
Alignment explanation
Indices: 700105--700223 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
700095 TTCCATTACT
* *
700105 ATCCTATTAGGAATGGGTATGAGATCCGAATCAAATAATTTTAACCTGATTTAATTCG
1 ATCCTATTAGGAATGGATATGAGATCCGAATCAAATAATTTTAACCCGATTTAATTCG
* *
700163 ATCCTATTAGGAATGGATATGAGATCCGAATCAAATAGTTTTGACCCGATTTAATTCG
1 ATCCTATTAGGAATGGATATGAGATCCGAATCAAATAATTTTAACCCGATTTAATTCG
700221 ATC
1 ATC
700224 GCATCAGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (58 bp):
ATCCTATTAGGAATGGATATGAGATCCGAATCAAATAATTTTAACCCGATTTAATTCG
Found at i:700822 original size:25 final size:25
Alignment explanation
Indices: 700788--700844 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
700778 CTTAATCTGA
700788 CACCGCCGCCCTTTTCAGCCACGAC
1 CACCGCCGCCCTTTTCAGCCACGAC
700813 CACCGCCGCCCTTTTCAGCCACGAC
1 CACCGCCGCCCTTTTCAGCCACGAC
700838 CACCGCC
1 CACCGCC
700845 ATCGAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.16, C:0.54, G:0.16, T:0.14
Consensus pattern (25 bp):
CACCGCCGCCCTTTTCAGCCACGAC
Found at i:702328 original size:14 final size:14
Alignment explanation
Indices: 702309--702336 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
702299 GAGTGAAAGA
702309 ATAGTTATATAATT
1 ATAGTTATATAATT
702323 ATAGTTATATAATT
1 ATAGTTATATAATT
702337 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:712836 original size:15 final size:16
Alignment explanation
Indices: 712806--712837 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
712796 CAGTCTGAAT
712806 ACTGAACGGTTTCAGC
1 ACTGAACGGTTTCAGC
712822 ACTGAACGG-TTCAGC
1 ACTGAACGGTTTCAGC
712837 A
1 A
712838 TTCATCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (16 bp):
ACTGAACGGTTTCAGC
Found at i:715722 original size:16 final size:15
Alignment explanation
Indices: 715701--715731 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
715691 ATTTGTCAAA
715701 AAAATATACTATATTT
1 AAAATATACT-TATTT
715717 AAAATATACTTATTT
1 AAAATATACTTATTT
715732 TTTTGGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATATACTTATTT
Found at i:716818 original size:23 final size:25
Alignment explanation
Indices: 716780--716826 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
716770 CAAAGCTTTC
716780 CTTTCTCTTCTCTGTTTCCTTTTTA
1 CTTTCTCTTCTCTGTTTCCTTTTTA
716805 CTTTCTC-TCT-TGTTTCCTTTTT
1 CTTTCTCTTCTCTGTTTCCTTTTT
716827 CCCTCGCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.66
Consensus pattern (25 bp):
CTTTCTCTTCTCTGTTTCCTTTTTA
Found at i:719836 original size:29 final size:27
Alignment explanation
Indices: 719774--719836 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
719764 ATAATCTTTT
* *
719774 AATTATAAAATATTTTTTAATTATTAA
1 AATTATAAAATATCTTTTAACTATTAA
719801 AATTTATAAAATGATCTTTTAACTATATAA
1 AA-TTATAAAAT-ATCTTTTAACTAT-TAA
*
719831 TATTAT
1 AATTAT
719837 TTTATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.07
28 9 0.30
29 15 0.50
30 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (27 bp):
AATTATAAAATATCTTTTAACTATTAA
Found at i:720104 original size:19 final size:19
Alignment explanation
Indices: 720076--720112 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
720066 AAATTTAATA
720076 AAATAACATTATATAATTG
1 AAATAACATTATATAATTG
* *
720095 AAATACCATTTTATAATT
1 AAATAACATTATATAATT
720113 CTTGATAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATAACATTATATAATTG
Found at i:729894 original size:10 final size:10
Alignment explanation
Indices: 729879--729931 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
729869 ACACGCTGGG
729879 CATCCGAGGC
1 CATCCGAGGC
729889 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
**
729903 CATCCGAGAA
1 CATCCGAGGC
729913 CATCCGAGGC
1 CATCCGAGGC
729923 CATCCGAGG
1 CATCCGAGG
729932 GCAACCGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 23 0.66
11 2 0.06
13 2 0.06
14 8 0.23
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.09
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:729901 original size:14 final size:14
Alignment explanation
Indices: 729882--729909 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
729872 CGCTGGGCAT
729882 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
729896 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
729910 GAACATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:730043 original size:12 final size:12
Alignment explanation
Indices: 730026--730050 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
730016 TGCCATGCAA
730026 CACGTTCATTCT
1 CACGTTCATTCT
730038 CACGTTCATTCT
1 CACGTTCATTCT
730050 C
1 C
730051 TCTGTTTGAG
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:734238 original size:20 final size:20
Alignment explanation
Indices: 734213--734250 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
734203 GTCCAAAACG
734213 CAGGTAATGTTACAATACCT
1 CAGGTAATGTTACAATACCT
734233 CAGGTAATGTTACAATAC
1 CAGGTAATGTTACAATAC
734251 TTAAGGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
CAGGTAATGTTACAATACCT
Found at i:734261 original size:20 final size:20
Alignment explanation
Indices: 734218--734261 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
734208 AAACGCAGGT
* *
734218 AATGTTACAATACCTCAGGT
1 AATGTTACAATACCTAAGGG
*
734238 AATGTTACAATACTTAAGGG
1 AATGTTACAATACCTAAGGG
734258 AATG
1 AATG
734262 AAAGTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
AATGTTACAATACCTAAGGG
Found at i:734589 original size:38 final size:37
Alignment explanation
Indices: 734547--734625 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
734537 ATACATATAG
*
734547 TTTAGTTTTTGTTTCATTTTAGTAC-ATGCGTTAAAAA
1 TTTAGTTTTTATTTCATTTTAGTACTAT-CGTTAAAAA
* *
734584 CTTTAGTTTTTATTTTATTTTAGTACTATCGTTCAAAA
1 -TTTAGTTTTTATTTCATTTTAGTACTATCGTTAAAAA
734622 TTTA
1 TTTA
734626 ACGTTACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 4 0.11
38 31 0.84
39 2 0.05
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.54
Consensus pattern (37 bp):
TTTAGTTTTTATTTCATTTTAGTACTATCGTTAAAAA
Found at i:736373 original size:8 final size:8
Alignment explanation
Indices: 736360--736391 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
736350 ATGCATGCTA
736360 TGTATTAT
1 TGTATTAT
736368 TGTATTAT
1 TGTATTAT
736376 TGTATTAT
1 TGTATTAT
736384 TGTATTAT
1 TGTATTAT
736392 GTCTGTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (8 bp):
TGTATTAT
Found at i:741359 original size:110 final size:110
Alignment explanation
Indices: 741231--741450 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
741221 TTATGACACT
741231 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
*
741296 AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
66 AAGGAACGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
*
741341 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
741406 AAGGAACGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
66 AAGGAACGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
741451 GCGGGAATCT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (110 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
AAGGAACGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:741754 original size:18 final size:18
Alignment explanation
Indices: 741731--741777 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
741721 CTTTGTGGCC
741731 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
741749 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
741767 GAAGCGTGAGA
1 GAAGCGTGAGA
741778 CTAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:745145 original size:14 final size:14
Alignment explanation
Indices: 745126--745218 Score: 84
Period size: 14 Copynumber: 6.6 Consensus size: 14
745116 CTCGAGTACA
745126 TATTTAATAATAAT
1 TATTTAATAATAAT
*
745140 TATTTAA-ATTTAAT
1 TATTTAATA-ATAAT
*
745154 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
745168 GATTTAATAATAAT
1 TATTTAATAATAAT
*
745182 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
745196 GATTTAATAATAAT
1 TATTTAATAATAAT
745210 TACTTTAAT
1 TA-TTTAAT
745219 GATTTAACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
13 3 0.05
14 54 0.84
15 7 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTTAATAATAAT
Found at i:745160 original size:8 final size:8
Alignment explanation
Indices: 745136--745577 Score: 131
Period size: 8 Copynumber: 59.5 Consensus size: 8
745126 TATTTAATAA
745136 TAATTATT
1 TAATTATT
745144 TAA--ATT
1 TAATTATT
745150 TAATTATT
1 TAATTATT
*
745158 TAA--CTT
1 TAATTATT
*
745164 TAATGATT
1 TAATTATT
*
745172 TAA-TA-A
1 TAATTATT
745178 TAATTATT
1 TAATTATT
*
745186 TAA--CTT
1 TAATTATT
*
745192 TAATGATT
1 TAATTATT
*
745200 TAA-TA-A
1 TAATTATT
745206 TAATTACTT
1 TAATTA-TT
*
745215 TAATGATT
1 TAATTATT
*
745223 TAA--CTT
1 TAATTATT
*
745229 TAATGATT
1 TAATTATT
*
745237 TAA-TA-A
1 TAATTATT
745243 TAATTACTT
1 TAATTA-TT
*
745252 TAATGATT
1 TAATTATT
745260 TAA-T-TT
1 TAATTATT
*
745266 TAATGATT
1 TAATTATT
*
745274 TAA-TA-A
1 TAATTATT
745280 TAATTACTT
1 TAATTA-TT
*
745289 TAATGATT
1 TAATTATT
745297 TAA-T-TT
1 TAATTATT
*
745303 TAATGATT
1 TAATTATT
*
745311 TAATGATT
1 TAATTATT
*
745319 TAA--CTT
1 TAATTATT
*
745325 TAATGATT
1 TAATTATT
*
745333 TAA-TA-A
1 TAATTATT
745339 TAATTACTT
1 TAATTA-TT
*
745348 TAATGATT
1 TAATTATT
*
745356 TAATGATT
1 TAATTATT
*
745364 TAATGATT
1 TAATTATT
*
745372 TAA-TA-A
1 TAATTATT
745378 TAATTATTT
1 TAATTA-TT
*
745387 TAATGATT
1 TAATTATT
*
745395 TAATGATT
1 TAATTATT
*
745403 TAATGATT
1 TAATTATT
*
745411 TAATAATT
1 TAATTATT
*
745419 TAA-TA-A
1 TAATTATT
745425 TAATTACTT
1 TAATTA-TT
*
745434 TAATGATT
1 TAATTATT
*
745442 TAA--CTT
1 TAATTATT
**
745448 TAATGCTT
1 TAATTATT
*
745456 TAA-TA-A
1 TAATTATT
745462 TAATTACTT
1 TAATTA-TT
*
745471 TAATGATT
1 TAATTATT
*
745479 TAATGATT
1 TAATTATT
*
745487 TAATGATT
1 TAATTATT
*
745495 TAA-TA-A
1 TAATTATT
745501 TAATTACTT
1 TAATTA-TT
*
745510 TAATGATT
1 TAATTATT
745518 TAA-T-TT
1 TAATTATT
*
745524 TAATAATT
1 TAATTATT
*
745532 TAA-TA-A
1 TAATTATT
*
745538 TAATTACT
1 TAATTATT
745546 TAA-T-TT
1 TAATTATT
*
745552 TAATGATT
1 TAATTATT
745560 TAA-T-TT
1 TAATTATT
*
745566 TAATGATT
1 TAATTATT
745574 TAAT
1 TAAT
745578 AATAATTACT
Statistics
Matches: 325, Mismatches: 59, Indels: 100
0.67 0.12 0.21
Matches are distributed among these distances:
6 85 0.26
7 30 0.09
8 170 0.52
9 40 0.12
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (8 bp):
TAATTATT
Found at i:745225 original size:37 final size:37
Alignment explanation
Indices: 745178--745588 Score: 489
Period size: 37 Copynumber: 11.0 Consensus size: 37
745168 GATTTAATAA
* *
745178 TAATTATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
745215 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
745252 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
745289 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATT-ACTT
** * * *
745325 TAATGATTTAATAATAATTACTTTAATGATTTAATGA-TT
1 TAATGATTTAATTTTAATGA-TTTAAT-A-ATAATTACTT
* ** *
745364 TAATGATTTAA---TAAT-AATT-ATTTTAATGA-TT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
745395 TAATGATTTAATGATTTAATAATTTAATAATAATTACTT
1 TAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
* *
745434 TAATGATTTAACTTTAATGCTTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
745471 TAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
*
745510 TAATGATTTAATTTTAATAATTTAATAATAATTACTTAATTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTAC-----TT
745552 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
745589 GACTTTAATG
Statistics
Matches: 331, Mismatches: 22, Indels: 42
0.84 0.06 0.11
Matches are distributed among these distances:
31 20 0.06
33 2 0.01
34 2 0.01
35 3 0.01
36 29 0.09
37 167 0.50
38 7 0.02
39 63 0.19
40 1 0.00
41 1 0.00
42 36 0.11
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATGATTTAATTTTAATGATTTAATAATAATTACTT
Found at i:745374 original size:39 final size:38
Alignment explanation
Indices: 745287--745623 Score: 353
Period size: 39 Copynumber: 8.5 Consensus size: 38
745277 TAATAATTAC
** * *
745287 TTTAATGATTTAATTTTAATGA-TTTAATGATTTAA-C
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
745323 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
*
745362 TTTAATGATTTAATAATAATTATTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
*
745401 TTTAATGATTTAATAATTTAATAATAATTACTTTAATGATTTAA-C
1 TTTAATG--------ATTTAATAATAATTACTTTAATGATTTAATA
*
745446 TTTAATGCTTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
745485 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
*
745522 TTTAATAATTTAATAATAATTACTTAATTTTAATGATTTAAT-
1 TTTAATGATTTAATAATAATTAC-----TTTAATGATTTAATA
745564 TTTAATGATTTAATAATAATTACTTGACTTTAATGATTT-ATA
1 TTTAATGATTTAATAAT-A--A-TT-ACTTTAATGATTTAATA
* *
745606 TTTACTGATATAATAATA
1 TTTAATGATTTAATAATA
745624 GTAAATATAT
Statistics
Matches: 263, Mismatches: 14, Indels: 43
0.82 0.04 0.13
Matches are distributed among these distances:
36 19 0.07
37 63 0.24
39 81 0.31
41 3 0.01
42 56 0.21
43 1 0.00
45 8 0.03
46 2 0.01
47 30 0.11
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (38 bp):
TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
Found at i:745527 original size:23 final size:23
Alignment explanation
Indices: 745160--745482 Score: 88
Period size: 23 Copynumber: 13.7 Consensus size: 23
745150 TAATTATTTA
*
745160 ACTTTAATGATTTAATAATAATTATTT
1 ACTTTAATGATTTAAT--T--TTAATT
**
745187 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
* *
745211 ACTTTAATGATTTAACTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* * *
745234 A-TTTAATAATAATT-ACTTTAATG
1 ACTTTAATGAT--TTAATTTTAATT
745257 A-TTTAAT--TTTAATGATTTAA-T
1 ACTTTAATGATTTAAT--TTTAATT
* *
745278 A--ATAATTACTTTAATGATTTAA-T
1 ACTTTAATGA-TTTAAT--TTTAATT
745301 --TTTAATGATTTAATGATTT-A--
1 ACTTTAATGATTTAAT--TTTAATT
**
745321 ACTTTAATGATTTAATAATAATT
1 ACTTTAATGATTTAATTTTAATT
*
745344 ACTTTAATGATTTAATGATTTAATG
1 ACTTTAATGATTTAAT--TTTAATT
* *
745369 A-TTTAATAATAATT-ATTTTAATG
1 ACTTTAATGAT--TTAATTTTAATT
745392 A-TTTAATGATTTAATGATTTAA-T
1 ACTTTAATGATTTAAT--TTTAATT
* * * *
745415 AATTTAATAATAATTACTTTAATGATTT
1 ACTTTAATGAT--TTAATTT--T-AATT
* **
745443 AACTTTAATGCTTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
745467 ACTTTAATGATTTAAT
1 ACTTTAATGATTTAAT
745483 GATTTAATGA
Statistics
Matches: 234, Mismatches: 32, Indels: 63
0.71 0.10 0.19
Matches are distributed among these distances:
19 2 0.01
20 6 0.03
21 6 0.03
22 40 0.17
23 103 0.44
24 32 0.14
25 8 0.03
26 7 0.03
27 5 0.02
28 17 0.07
29 8 0.03
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
ACTTTAATGATTTAATTTTAATT
Found at i:745609 original size:14 final size:13
Alignment explanation
Indices: 745136--745619 Score: 237
Period size: 14 Copynumber: 36.9 Consensus size: 13
745126 TATTTAATAA
*
745136 TAATTATTTAAATT
1 TAATGATTT-AATT
*
745150 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
745164 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
745178 TAATTATTTAACTT
1 TAATGATTTAA-TT
745192 TAATGATTTAA--
1 TAATGATTTAATT
* *
745203 TAAT-AATTACTT
1 TAATGATTTAATT
745215 TAATGATTTAACTT
1 TAATGATTTAA-TT
745229 TAATGATTTAA--
1 TAATGATTTAATT
* *
745240 TAAT-AATTACTT
1 TAATGATTTAATT
745252 TAATGATTTAATTT
1 TAATGATTTAA-TT
745266 TAATGATTTAA--
1 TAATGATTTAATT
* *
745277 TAAT-AATTACTT
1 TAATGATTTAATT
745289 TAATGATTTAATTT
1 TAATGATTTAA-TT
745303 TAATG-----ATT
1 TAATGATTTAATT
745311 TAATGATTTAACTT
1 TAATGATTTAA-TT
745325 TAATGATTTAA--
1 TAATGATTTAATT
* *
745336 TAAT-AATTACTT
1 TAATGATTTAATT
745348 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
745364 TAATGATTTAA--
1 TAATGATTTAATT
* *
745375 TAAT-AATTATTT
1 TAATGATTTAATT
745387 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
745403 TAATGATTTAATAATT
1 TAATGA-TT--TAATT
* *
745419 TAATAATAATTACTT
1 TAATGAT--TTAATT
745434 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
745448 TAATGCTTTAA--
1 TAATGATTTAATT
* *
745459 TAAT-AATTACTT
1 TAATGATTTAATT
745471 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
745487 TAATGATTTAA--
1 TAATGATTTAATT
* *
745498 TAAT-AATTACTT
1 TAATGATTTAATT
745510 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
745524 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
745538 TAATTACTTAATTT
1 TAATGATTTAA-TT
745552 TAATGATTTAATTT
1 TAATGATTTAA-TT
*
745566 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
745580 TAATTACTTGACTT
1 TAATGA-TTTAATT
745594 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
745608 TACTGATATAAT
1 TAATGATTTAAT
745620 AATAGTAAAT
Statistics
Matches: 360, Mismatches: 56, Indels: 109
0.69 0.11 0.21
Matches are distributed among these distances:
8 7 0.02
9 1 0.00
10 27 0.08
11 28 0.08
12 28 0.08
13 41 0.11
14 166 0.46
15 19 0.05
16 38 0.11
17 3 0.01
18 1 0.00
19 1 0.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:745609 original size:76 final size:80
Alignment explanation
Indices: 745309--745603 Score: 310
Period size: 76 Copynumber: 3.7 Consensus size: 80
745299 ATTTTAATGA
* *
745309 TTTAATGATTTAA-CTTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTT
1 TTTAATGATTTAATATTTAATGATTTAATAATAATTAC-TT-ATGATTTAATGATTTAATAATTT
*
745373 AATAATAATTATTTTAAT
64 AATAATAATTA-ATTAAT
* * *
745391 GATTTAATGATTTAATGATTTAATAATTTAATAATAATTACTTTAATGATTTAA--CTTTAAT-G
1 --TTTAATGATTTAAT-ATTTAATGATTTAATAATAATTAC-TT-ATGATTTAATGATTTAATAA
* *
745453 CTT--TAATAA-TAATT-AC
61 TTTAATAATAATTAATTAAT
745469 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAAT--TTTAATAATT
1 TTTAATGATTTAAT-ATTTAATGATTTAATAATAATTAC-TT-ATGATTTAATGATTTAATAATT
*
745532 TAATAATAATTACTTAAT
63 TAATAATAATTAATTAAT
745550 TTTAATGATTTAAT-TTTAATGATTTAATAATAATTAC-T-TGACTTTAATGATTTA
1 TTTAATGATTTAATATTTAATGATTTAATAATAATTACTTATGA-TTTAATGATTTA
745604 TATTTACTGA
Statistics
Matches: 188, Mismatches: 12, Indels: 28
0.82 0.05 0.12
Matches are distributed among these distances:
75 3 0.02
76 63 0.34
77 3 0.02
78 5 0.03
79 31 0.16
80 6 0.03
81 21 0.11
83 2 0.01
84 19 0.10
86 35 0.19
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (80 bp):
TTTAATGATTTAATATTTAATGATTTAATAATAATTACTTATGATTTAATGATTTAATAATTTAA
TAATAATTAATTAAT
Found at i:748816 original size:34 final size:34
Alignment explanation
Indices: 748773--748857 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
748763 CATGCACAGC
*
748773 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
*
748807 ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
748841 ACTGAAGACGCCGAGAG
1 ACTGAAGACGCCGAGAG
748858 ATCAATCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (34 bp):
ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
Found at i:751139 original size:28 final size:29
Alignment explanation
Indices: 751095--751160 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
751085 ACTAATTTAT
* *
751095 ATTTTAAATTTTGTAAA-AAAATTATATGA
1 ATTTAAAATTTTGTAAAGAAAA-TATATAA
751124 ATTTAAAATTTT-TAAAGAAAATATATAA
1 ATTTAAAATTTTGTAAAGAAAATATATAA
*
751152 ATTAAAAAT
1 ATTTAAAAT
751161 AATAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (29 bp):
ATTTAAAATTTTGTAAAGAAAATATATAA
Found at i:758437 original size:26 final size:25
Alignment explanation
Indices: 758392--758462 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 25
758382 TAAATATATT
758392 TAATTT-TTTT-TTAATAATTTTAAATA
1 TAATTTATTTTCTT-AT-ATTTTAAA-A
758418 TAATTTATTTTCTTATA-TTTAAAA
1 TAATTTATTTTCTTATATTTTAAAA
** *
758442 -AATAAATTTTCTAATATTTTA
1 TAATTTATTTTCTTATATTTTA
758463 GAATTACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.33
24 5 0.13
25 6 0.15
26 7 0.18
27 6 0.15
28 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATTTATTTTCTTATATTTTAAAA
Found at i:761215 original size:45 final size:45
Alignment explanation
Indices: 761151--761239 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
761141 TAAATCTTAT
761151 GGACTGCACTGCTGGGTGCCTGTTTACAGGATCTAGTTTACAGTA
1 GGACTGCACTGCTGGGTGCCTGTTTACAGGATCTAGTTTACAGTA
761196 GGACTGCACTGCTGGGTGCCTGTTTACAGGATCTAGTTTACAGT
1 GGACTGCACTGCTGGGTGCCTGTTTACAGGATCTAGTTTACAGT
761240 TGAGTGAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (45 bp):
GGACTGCACTGCTGGGTGCCTGTTTACAGGATCTAGTTTACAGTA
Found at i:762790 original size:27 final size:30
Alignment explanation
Indices: 762726--762793 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
762716 TTGGATAGTT
* *
762726 TAGGTACATATTTTGACTAAAAAGATAACTT
1 TAGGTACTTATTTTGAC-AAAAAGATAACTG
*
762757 TGGGTACTTATTTTGAC-AAAA-AT-ACTG
1 TAGGTACTTATTTTGACAAAAAGATAACTG
762784 TAGGTACTTA
1 TAGGTACTTA
762794 AATGAAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.36
28 2 0.06
29 4 0.12
31 15 0.45
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (30 bp):
TAGGTACTTATTTTGACAAAAAGATAACTG
Found at i:764475 original size:20 final size:20
Alignment explanation
Indices: 764417--764501 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
764407 AAATGACCAA
* **
764417 CAAATTCGCAACGCGAACTC
1 CAAATACGCAACGCGATTTC
* * * *
764437 CAATTTCGCAACACAATTTC
1 CAAATACGCAACGCGATTTC
*
764457 CAAATACGCAACGGGATTTTC
1 CAAATACGCAACGCGA-TTTC
* *
764478 CAAATTCGCAACGCGATTTT
1 CAAATACGCAACGCGATTTC
764498 CAAA
1 CAAA
764502 ATCGCAACTC
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 33 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (20 bp):
CAAATACGCAACGCGATTTC
Found at i:764479 original size:21 final size:20
Alignment explanation
Indices: 764453--764509 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
764443 CGCAACACAA
*
764453 TTTCCAAATACGCAACGGGAT
1 TTTCCAAAT-CGCAACGCGAT
764474 TTTCCAAATTCGCAACGCGAT
1 TTTCCAAA-TCGCAACGCGAT
*
764495 TTTCAAAATCGCAAC
1 TTTCCAAATCGCAAC
764510 TCAGTTTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 25 0.76
22 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (20 bp):
TTTCCAAATCGCAACGCGAT
Found at i:764607 original size:20 final size:20
Alignment explanation
Indices: 764584--764623 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
764574 TTGAAAATCG
764584 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764604 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764624 TCTATATCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:764631 original size:77 final size:77
Alignment explanation
Indices: 764548--764700 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
764538 TTGTGTAAAC
*
764548 CTATATCGGTAATTCGCATTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACATTGCGAT
1 CTATATCGGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACATTGCGAT
764613 AGTACTGTTTAT
66 AGTACTGTTTAT
*
764625 CTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACATTGCGAT
1 CTATATCGGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACATTGCGAT
764690 AGTACTGTTTA
66 AGTACTGTTTA
764701 CATTGCGATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (77 bp):
CTATATCGGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACATTGCGAT
AGTACTGTTTAT
Found at i:764684 original size:20 final size:20
Alignment explanation
Indices: 764661--764741 Score: 162
Period size: 20 Copynumber: 4.0 Consensus size: 20
764651 TTGAAAATCG
764661 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764681 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764701 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764721 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
764741 C
1 C
764742 CTATATCGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:772897 original size:639 final size:639
Alignment explanation
Indices: 771679--774879 Score: 6060
Period size: 639 Copynumber: 5.0 Consensus size: 639
771669 AATATTTTAA
771679 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
1 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
*
771744 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATATTCGGATCGAATGGACTC
66 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
771809 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
131 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
*
771874 TCGAAAACATAATATATTAAGATTTTATTTTAAAAAAAATAAATTATTAATAATATTAACATTTA
196 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
*
771939 TGTATTGATTTTTTAAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
261 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
772004 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
326 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
772069 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
391 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
*
772134 GAATCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
456 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
*
772199 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAATCC
521 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
772264 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
586 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
772318 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
1 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
*
772383 CAGATTACGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
66 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
772448 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
131 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
*
772513 TCGAAAACATAATATATTAAGATTTTATTTTTTAAAAAATAAATTATTAATAATATTAACATTTA
196 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
772578 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
261 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
772643 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
326 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
772708 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
391 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
772773 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
456 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
* * *
772838 CTCGTTTACACCGCTAGTAAGTGTTCCCTAGAGAGCCACATGGATCTGCCACTGAGACCAAGTCC
521 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
*
772903 AATTGACAAAAGATTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
586 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
772957 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
1 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
*
773022 CAGATTGCGAGAGATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
66 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
* *
773087 GACTAGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACCCGAAAAGCTCATGAGAAGG
131 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
**
773152 TCGAAAACATAATATATTAAGATTTTATTTAAAAAAAAATAAATTATTAATAATATTAACATTTA
196 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
*
773217 TGTATTGATTTTTTAAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
261 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
*
773282 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTATTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
326 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
*
773347 CACGAGCTTCGGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
391 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
773412 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
456 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
773477 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
521 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
773542 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
586 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
*
773596 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATAAGACGAGA
1 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
* *
773661 CAGATTGTGAGATATTCGAGATCGACTCGATCAAGGCTCTATAAATACTCGGATCGAATGGACTC
66 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
773726 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
131 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
773791 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
196 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
773856 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
261 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
*
773921 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGTTGCT
326 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
773986 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
391 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
774051 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
456 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
* * *
774116 CTCGTTTACACCGCTAGTAAGTGTTCCCTAGAGAGCCACATGGATCTGCCACTGAGACCAAGTCC
521 CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
*
774181 AATTGACAAAAGATTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
586 AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
774235 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
1 AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
*
774300 CAGATTGCGAGAGATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
66 CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
774365 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
131 GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
774430 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
196 TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
*
774495 TGTATAGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
261 TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
774560 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
326 TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
* *
774625 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAACTCGCGAATTTTC
391 CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
774690 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
456 GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTC-A----A
*
774755 CTCGACTCGTTTACACCGCTAATAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCA
516 CTCGACTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCA
*
774820 AGTCCAATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATGAACACACAGATTTGT
581 AGTCCAATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
774879 A
1 A
774880 CAAGTTTCGA
Statistics
Matches: 2502, Mismatches: 55, Indels: 5
0.98 0.02 0.00
Matches are distributed among these distances:
639 2381 0.95
640 1 0.00
644 120 0.05
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (639 bp):
AGTATTTAATAAAACAATAATTTAATAATAGGAGTGTAAGTGGTAGGGTTGTAAATGAGACGAGA
CAGATTGCGAGATATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
GACTCGAGTTCTTAACGAGCCGAAACGAGCTACTTGATATTCGACTCGAAAAGCTCATGAGAAGG
TCGAAAACATAATATATTAAGATTTTATTTTTAAAAAAATAAATTATTAATAATATTAACATTTA
TGTATTGATTTTTTTAAAAATACAGTAAGATTTTCATGTATTTAAGGTTCAGGCTCGAGTTTGAG
TTTGAGGCTTCAATCGAGTTAAGTTTAAGAATTTTTTTCTTCATTTCGAGCCTTTTCGAGCTGCT
CACGAGCTTCAGTTCAGGATTTCGAGTTCGAGTCGAGCTTGAAAATTTTAAGCTCGCGAGTTTTC
GAGTCGAGTTTCATTTAAGAATTTTCAAATCGAGTCGAGCTCAACACTACTCGAACTCAACTCGA
CTCGTTTACACCGCTAGTAAGTGCTCCCTAGAGAGCCACATGCATCCGCCACTGAGACCAAGTCC
AATTGACAAAAGGTTGTGGTGGGTCCAAATGAAGGGATAAACACACAGATTTGT
Found at i:777695 original size:24 final size:24
Alignment explanation
Indices: 777667--777713 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
777657 CATGAACAAA
777667 TTTATTTATTGACAAGTTTATAAG
1 TTTATTTATTGACAAGTTTATAAG
**
777691 TTTATTTATTGACTTGTTTATAA
1 TTTATTTATTGACAAGTTTATAA
777714 TCTCGTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (24 bp):
TTTATTTATTGACAAGTTTATAAG
Found at i:779196 original size:5 final size:5
Alignment explanation
Indices: 779186--779210 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
779176 TATTGCTGAG
779186 CTCGA CTCGA CTCGA CTCGA CTCGA
1 CTCGA CTCGA CTCGA CTCGA CTCGA
779211 AAACTCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (5 bp):
CTCGA
Found at i:779231 original size:31 final size:31
Alignment explanation
Indices: 779196--779261 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
779186 CTCGACTCGA
779196 CTCGACTCG-ACTCGAAAACTCTGAAATGAAG
1 CTCGACTCGAACTCGAAAAC-CTGAAATGAAG
* *
779227 CTCGACTCGAACTCGAAATCCTGAATTGAAG
1 CTCGACTCGAACTCGAAAACCTGAAATGAAG
779258 CTCG
1 CTCG
779262 TGAGCAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (31 bp):
CTCGACTCGAACTCGAAAACCTGAAATGAAG
Found at i:784204 original size:37 final size:37
Alignment explanation
Indices: 784158--784233 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
784148 AACATTTTAA
*
784158 ACCCTAGACCTAAAAAATTAACAACAATCCCTTCAAC
1 ACCCGAGACCTAAAAAATTAACAACAATCCCTTCAAC
** * *
784195 ACCCGAGACCTAAAGGATTAACAACTATTCCTTCAAC
1 ACCCGAGACCTAAAAAATTAACAACAATCCCTTCAAC
784232 AC
1 AC
784234 TGATGTAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.32, G:0.07, T:0.20
Consensus pattern (37 bp):
ACCCGAGACCTAAAAAATTAACAACAATCCCTTCAAC
Found at i:786775 original size:21 final size:20
Alignment explanation
Indices: 786743--786783 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
786733 TATATTATAA
786743 TTATTTAATAATTTATTATT
1 TTATTTAATAATTTATTATT
* *
786763 TTATTGTATTAATTTTTTATT
1 TTATT-TAATAATTTATTATT
786784 ATTTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTAATAATTTATTATT
Found at i:788989 original size:173 final size:172
Alignment explanation
Indices: 788645--789000 Score: 604
Period size: 173 Copynumber: 2.1 Consensus size: 172
788635 ACACACATAC
* * * *
788645 ATATATATGTTATTAATTTGGGATCAATAAAAAGTAATATATGTTTAAAGACAATTATCAACCTT
1 ATATATATATAATTAATTTGGGATAAATAAAAAGTAATATATGTTTAAAGAAAATTATCAACCTT
* * * *
788710 TTGATATTGAAAGTTTACACCACTAACATTATAGTGTACTAACTCAGATTTTCAAGAAATAACAA
66 TTAATATTAAAAGCTTACACCACTAACATTATAGTATACTAACTCAGATTTTCAAGAAATAACAA
*
788775 TAATTTATTTTTCATAGAATTCATTTGATTTGTGCTATATAT
131 TAATTTATTTTTAATAGAATTCATTTGATTTGTGCTATATAT
*
788817 ATATATATATAATTAATTTGGGATAAATAAAAAGTAATATATGTTTAAAGAAAATTCTCAACCTT
1 ATATATATATAATTAATTTGGGATAAATAAAAAGTAATATATGTTTAAAGAAAATTATCAACCTT
788882 TTAATATTAAAAGCTTACACCACTAACATTTATAGTATACTAACTCAGATTTTCAAGAAATAACA
66 TTAATATTAAAAGCTTACACCACTAACA-TTATAGTATACTAACTCAGATTTTCAAGAAATAACA
*
788947 ATAATTTATTTTTAATAGAATTCATTTGATTTGTGTTATATAT
130 ATAATTTATTTTTAATAGAATTCATTTGATTTGTGCTATATAT
788990 ATATATATATA
1 ATATATATATA
789001 TATATATATA
Statistics
Matches: 172, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
172 85 0.49
173 87 0.51
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (172 bp):
ATATATATATAATTAATTTGGGATAAATAAAAAGTAATATATGTTTAAAGAAAATTATCAACCTT
TTAATATTAAAAGCTTACACCACTAACATTATAGTATACTAACTCAGATTTTCAAGAAATAACAA
TAATTTATTTTTAATAGAATTCATTTGATTTGTGCTATATAT
Found at i:788990 original size:2 final size:2
Alignment explanation
Indices: 788983--789017 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
788973 TGATTTGTGT
788983 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 T
789018 TATTAATTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:789696 original size:16 final size:17
Alignment explanation
Indices: 789675--789707 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
789665 ACAACCCTAA
789675 AAAAGA-TATAATTATT
1 AAAAGAGTATAATTATT
789691 AAAAGAGTTATAATTAT
1 AAAAGAG-TATAATTAT
789708 AGAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAGAGTATAATTATT
Found at i:791027 original size:226 final size:226
Alignment explanation
Indices: 790629--791312 Score: 1156
Period size: 226 Copynumber: 3.0 Consensus size: 226
790619 GAACATTATT
*
790629 AGTAAAATAAATAACTAAATAAAGAAAATTT-GGATTTCATTGCCCACCCTCGAATACATGTGTA
1 AGTAAAATAAATAACTAAATAAAG-AAATTTCGGATTTCAGTGCCCACCCTCGAATACATGTGTA
*
790693 TCCGCTACTGGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATCTC-ATGTAGGGATTTA
65 TCCG---CT-GTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAAT-TAGGGATTTA
* *
790757 CTTTTTCTTTTCATCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTT
125 CTTTTTCTTTTCTTCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTA
790822 TATCTCTACTCTAAAGATGAAAAAATAATTCATCTCC
190 TATCTCTACTCTAAAGATGAAAAAATAATTCATCTCC
790859 AGTAAAATAAATAACTAAATAAAGAAATTTCGGATTTCAGTGCCCACCCTCGAATACATGTGTAT
1 AGTAAAATAAATAACTAAATAAAGAAATTTCGGATTTCAGTGCCCACCCTCGAATACATGTGTAT
790924 CCGCTGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAATTAGGGATTTACTTTTT
66 CCGCTGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAATTAGGGATTTACTTTTT
*
790989 CTTTTCTTCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTCTATCTC
131 CTTTTCTTCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTATATCTC
791054 TACTCTAAAGATGAAAAAATAATTCATCTCC
196 TACTCTAAAGATGAAAAAATAATTCATCTCC
* *
791085 AGTAAAATAAATAACTAAATAAAGAAAATTCAGATTTCAGTGCCCACCCTCGAATACATGTGTAT
1 AGTAAAATAAATAACTAAATAAAGAAATTTCGGATTTCAGTGCCCACCCTCGAATACATGTGTAT
*
791150 CAGCTGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAATTAGGGATTTACTTTTT
66 CCGCTGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAATTAGGGATTTACTTTTT
* * * **
791215 CTTTTCTTCAAGGATTCTTAAGTAAGATAGTCCAGTCCATCTCTAATTTACAATATCTATATCTC
131 CTTTTCTTCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTATATCTC
* * *
791280 TATTCTAAAGATGAAACAATAATTCGTCTCC
196 TACTCTAAAGATGAAAAAATAATTCATCTCC
791311 AG
1 AG
791313 CACTATCTCT
Statistics
Matches: 436, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
226 366 0.84
227 4 0.01
229 6 0.01
230 60 0.14
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (226 bp):
AGTAAAATAAATAACTAAATAAAGAAATTTCGGATTTCAGTGCCCACCCTCGAATACATGTGTAT
CCGCTGTGAAAATGATTATGTTAAAGTGATAGGAAATGATAATATCAATTAGGGATTTACTTTTT
CTTTTCTTCAAGGATTCTTAAGTAAGATAGTTCGGTCCATGTCTAATTTACAGCATCTATATCTC
TACTCTAAAGATGAAAAAATAATTCATCTCC
Found at i:791580 original size:16 final size:18
Alignment explanation
Indices: 791542--791581 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
791532 ATGTTTATTT
*
791542 ATTTTTATCTATCTTGCA
1 ATTTTAATCTATCTTGCA
791560 A-TTTAATCTA-CTTG-A
1 ATTTTAATCTATCTTGCA
791575 ATTTTAA
1 ATTTTAA
791582 AAAAATCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 8 0.40
18 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTAATCTATCTTGCA
Found at i:803515 original size:44 final size:44
Alignment explanation
Indices: 803400--803654 Score: 259
Period size: 45 Copynumber: 5.7 Consensus size: 44
803390 ATATACATAT
* * * *
803400 CATTTAATCCATAAGCT-GATAAGCTCATTTTAT-CAACCTATTTAC
1 CATTTATTCCATAAGCTCG-TAAGCTTATTTTATAC-A-TTACTTAC
* * *
803445 CATTTATTCCCATAACCTCATAAGCTTATTTTACTACATT-CTTAT
1 CATTTATT-CCATAAGCTCGTAAGCTTATTTTA-TACATTACTTAC
* *
803490 AATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATT-CTTAC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTA--TACATTACTTAC
* * *
803535 CATTTATTCTATAAGCTTGTAAGCTTATTTTATTCATTTACTTAC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTATACA-TTACTTAC
* * *
803580 CATTTATTCTATAAGCTCGTAAGCTTATTTTATCCATATACTTGC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTATACAT-TACTTAC
803625 CA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 CATTTATTCCATAAGCTCGTAAGCTTATTTT
803655 CCTGGTTACC
Statistics
Matches: 181, Mismatches: 21, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
43 2 0.01
44 52 0.29
45 103 0.57
46 21 0.12
47 2 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.44
Consensus pattern (44 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTATACATTACTTAC
Found at i:803585 original size:90 final size:89
Alignment explanation
Indices: 803400--803654 Score: 286
Period size: 90 Copynumber: 2.9 Consensus size: 89
803390 ATATACATAT
* * * * *
803400 CATTTAATCCATAAGCT-GATAAGCTCATTTTATCAACCTAT-TTACCATTTATTCCCATAACCT
1 CATTTATTCCATAAGCTCG-TAAGCTTATTTTACCAACAT-TCTTACCATTTATT-CCATAAGCT
* *
803463 CATAAGCTTATTTTACTACATTCTTAT
63 CGTAAGCTTATTTTACTACATTCTTAC
* * *
803490 AATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATTCTTACCATTTATTCTATAAGCTTGT
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATTCTTACCATTTATTCCATAAGCTCGT
*
803555 AAGCTTATTTTA-TTCATTTACTTAC
66 AAGCTTATTTTACTACA-TT-CTTAC
* * * *
803580 CATTTATTCTATAAGCTCGTAAGCTTATTTTATCC-ATATACTTGCCA-TTATTCCATAAGCTCG
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTA-CCAACATTCTTACCATTTATTCCATAAGCTCG
803643 TAAGCTTATTTT
65 TAAGCTTATTTT
803655 CCTGGTTACC
Statistics
Matches: 142, Mismatches: 18, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.02
89 49 0.35
90 87 0.61
91 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.44
Consensus pattern (89 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATTCTTACCATTTATTCCATAAGCTCGT
AAGCTTATTTTACTACATTCTTAC
Found at i:803806 original size:40 final size:40
Alignment explanation
Indices: 803757--803879 Score: 228
Period size: 40 Copynumber: 3.1 Consensus size: 40
803747 CACCGCAGTG
*
803757 TTACACATAAGGTCGTGCCCACTATATACACCGAAGTGTA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
803797 TTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
*
803837 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGTA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
803877 TTA
1 TTA
803880 TAAACCTGCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
TTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
Found at i:815464 original size:20 final size:20
Alignment explanation
Indices: 815439--815479 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
815429 TTAAAGAACC
815439 TAGTGTCTCATTCCACTTGT
1 TAGTGTCTCATTCCACTTGT
815459 TAGTGTCTCATTCCACTTGT
1 TAGTGTCTCATTCCACTTGT
815479 T
1 T
815480 GTTGGTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (20 bp):
TAGTGTCTCATTCCACTTGT
Found at i:821546 original size:17 final size:17
Alignment explanation
Indices: 821502--821536 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
821492 TCGGGTATTA
821502 AATTATAATAAAAATAT
1 AATTATAATAAAAATAT
821519 AATTATAATAAAAATAT
1 AATTATAATAAAAATAT
821536 A
1 A
821537 TTTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTATAATAAAAATAT
Found at i:821614 original size:23 final size:24
Alignment explanation
Indices: 821588--821636 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
821578 ATTTATTTAT
821588 TTTTAAATAAT-TAA-AATAAATTA
1 TTTTAAA-AATATAATAATAAATTA
*
821611 TTTTAAAAATATAATATTAAATTA
1 TTTTAAAAATATAATAATAAATTA
821635 TT
1 TT
821637 AAAATAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.13
23 10 0.43
24 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTTAAAAATATAATAATAAATTA
Found at i:822421 original size:2 final size:2
Alignment explanation
Indices: 822414--822446 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
822404 ATGTTTTTCA
822414 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 A
822447 ATTGAGTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:823234 original size:21 final size:21
Alignment explanation
Indices: 823206--823319 Score: 94
Period size: 21 Copynumber: 5.4 Consensus size: 21
823196 ATTTTGAACT
823206 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
823227 ATCACAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
* *
823248 ATCACAACGAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
823269 ATCGCAACGCAAACTTGGACT--
1 ATCGCAACG--AATTTGGAATAA
823290 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
823311 ATCGCAACG
1 ATCGCAACG
823320 CGAACTTCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.03
19 15 0.20
21 39 0.52
23 16 0.21
24 3 0.04
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:823258 original size:42 final size:42
Alignment explanation
Indices: 823198--823338 Score: 219
Period size: 42 Copynumber: 3.3 Consensus size: 42
823188 TCGTTGCGAT
*
823198 TTTGAACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
1 TTTG-ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
823241 TTTGACTATCACAACGAACTTGGAATAAATCGCAACGCAAAC
1 TTTGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
823283 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTTGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
823325 TTCGACTATCGCAA
1 TTTGACTATCGCAA
823339 TGCGAACTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 85 0.96
43 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
TTTGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:823335 original size:21 final size:21
Alignment explanation
Indices: 823231--823365 Score: 116
Period size: 21 Copynumber: 6.4 Consensus size: 21
823221 GAATAAATCA
* *
823231 CAACGCGAACTTTGACTATCA
1 CAACGCGAACTTGGACTATCG
*
823252 CAA--CGAACTTGGAATAAATCG
1 CAACGCGAACTTGGACT--ATCG
*
823273 CAACGCAAACTTGGACTATCG
1 CAACGCGAACTTGGACTATCG
* *
823294 CAA--CGAATTTGGAATAAATCG
1 CAACGCGAACTTGGACT--ATCG
*
823315 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTGGACTATCG
*
823336 CAATGCGAACTTGGACTATCG
1 CAACGCGAACTTGGACTATCG
* *
823357 TAATGCGAA
1 CAACGCGAA
823366 TATGTAAATC
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
19 19 0.21
21 54 0.59
23 19 0.21
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
CAACGCGAACTTGGACTATCG
Found at i:826459 original size:6 final size:6
Alignment explanation
Indices: 826446--826497 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
826436 TTTGGGCCGT
* * *
826446 CCACTC CTACTC CTACTC CCACTGG CCACTC CCACTC CCACTC CCACTC
1 CCACTC CCACTC CCACTC CCACT-C CCACTC CCACTC CCACTC CCACTC
826495 CCA
1 CCA
826498 TTTCCTCACC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.17, C:0.60, G:0.04, T:0.19
Consensus pattern (6 bp):
CCACTC
Found at i:826482 original size:19 final size:18
Alignment explanation
Indices: 826446--826497 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
826436 TTTGGGCCGT
* *
826446 CCACTCCTACTCCTACTC
1 CCACTCCCACTCCCACTC
*
826464 CCACTGGCCACTCCCACTC
1 CCACT-CCCACTCCCACTC
826483 CCACTCCCACTCCCA
1 CCACTCCCACTCCCA
826498 TTTCCTCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.17, C:0.60, G:0.04, T:0.19
Consensus pattern (18 bp):
CCACTCCCACTCCCACTC
Found at i:826482 original size:25 final size:25
Alignment explanation
Indices: 826446--826493 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
826436 TTTGGGCCGT
* *
826446 CCACTCCTACTCCTACTCCCACTGG
1 CCACTCCCACTCCCACTCCCACTGG
826471 CCACTCCCACTCCCACTCCCACT
1 CCACTCCCACTCCCACTCCCACT
826494 CCCATTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.58, G:0.04, T:0.21
Consensus pattern (25 bp):
CCACTCCCACTCCCACTCCCACTGG
Found at i:826747 original size:13 final size:13
Alignment explanation
Indices: 826711--826750 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
826701 TCCGAAATAG
*
826711 TTAATTAAATTAT
1 TTAATTATATTAT
*
826724 TTACTTTATATTAT
1 TTA-ATTATATTAT
826738 TTAATTATATTAT
1 TTAATTATATTAT
826751 ATATCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:828513 original size:183 final size:183
Alignment explanation
Indices: 828205--828579 Score: 741
Period size: 183 Copynumber: 2.0 Consensus size: 183
828195 GTTGCTGGAC
828205 AGTTTCGGGGGTGAAGGCTTCGCGAGTTGTTTCGACAGGTTGTTGTTCAACTGATTCAAATAGGG
1 AGTTTCGGGGGTGAAGGCTTCGCGAGTTGTTTCGACAGGTTGTTGTTCAACTGATTCAAATAGGG
828270 GGTTAAAATTGGATTCAGATATGGATGGGCCATGTTTTTGCATGGGATTTGCATGGGTGTTATGT
66 GGTTAAAATTGGATTCAGATATGGATGGGCCATGTTTTTGCATGGGATTTGCATGGGTGTTATGT
828335 TGGGATCGTTTCTGCCTTCGGTCAACTAGCATCCACGGTCTGAACGACTCACT
131 TGGGATCGTTTCTGCCTTCGGTCAACTAGCATCCACGGTCTGAACGACTCACT
828388 AGTTTCGGGGGTGAAGGCTTCGCGAGTTGTTTCGACAGGTTGTTGTTCAACTGATTCAAATAGGG
1 AGTTTCGGGGGTGAAGGCTTCGCGAGTTGTTTCGACAGGTTGTTGTTCAACTGATTCAAATAGGG
828453 GGTTAAAATTGGATTCAGATATGGATGGGCCATGTTTTTGCATGGGATTTGCATGGGTGTTATGT
66 GGTTAAAATTGGATTCAGATATGGATGGGCCATGTTTTTGCATGGGATTTGCATGGGTGTTATGT
*
828518 TGGGATCGTTTCTGCCTTCGGTCAACTAGCATCCACGGTCTGACCGACTCACT
131 TGGGATCGTTTCTGCCTTCGGTCAACTAGCATCCACGGTCTGAACGACTCACT
828571 AGTTTCGGG
1 AGTTTCGGG
828580 CTTGGTTTGT
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 191 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (183 bp):
AGTTTCGGGGGTGAAGGCTTCGCGAGTTGTTTCGACAGGTTGTTGTTCAACTGATTCAAATAGGG
GGTTAAAATTGGATTCAGATATGGATGGGCCATGTTTTTGCATGGGATTTGCATGGGTGTTATGT
TGGGATCGTTTCTGCCTTCGGTCAACTAGCATCCACGGTCTGAACGACTCACT
Found at i:834731 original size:32 final size:31
Alignment explanation
Indices: 834695--834755 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
834685 AAAAAATAAA
*
834695 TAATAAAATATTT-TAAATATTTTTAAAATGTT
1 TAAT-AAATATTTATAAA-ATATTTAAAATGTT
834727 TAATAAATATTTAGTAAAATATTTAAAAT
1 TAATAAATATTTA-TAAAATATTTAAAAT
834756 ATTCCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 8 0.31
32 14 0.54
33 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
TAATAAATATTTATAAAATATTTAAAATGTT
Done.