Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_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: 971753
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 5 of 6
Found at i:753032 original size:18 final size:18
Alignment explanation
Indices: 753009--753104 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 18
752999 AATAAATCGT
753009 AAAAATAAAAATAAAATA
1 AAAAATAAAAATAAAATA
*
753027 AAAAATAAATTGAAGAAAATA
1 AAAAATAAA---AATAAAATA
*
753048 ATTAAAT-AAAATAAAA-A
1 A-AAAATAAAAATAAAATA
*
753065 GATAAATAAAAATAGAAATA
1 -AAAAATAAAAATA-AAATA
*
753085 AATAAATAAATA-AAAATA
1 AA-AAATAAAAATAAAATA
753103 AA
1 AA
753105 CCTAAAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
17 6 0.09
18 29 0.45
19 5 0.08
20 9 0.14
21 11 0.17
22 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAATAAAAATAAAATA
Found at i:753073 original size:4 final size:4
Alignment explanation
Indices: 753017--753098 Score: 55
Period size: 4 Copynumber: 19.8 Consensus size: 4
753007 GTAAAAATAA
*
753017 AAAT AAAAT AAA- AAAT AAATT GAAGA- AAAT AATT AAAT AAAAT AAA-
1 AAAT -AAAT AAAT AAAT AAA-T -AA-AT AAAT AAAT AAAT -AAAT AAAT
*
753063 AAGAT AAAT AAA- AATAG AAAT AAAT AAAT AAAT AAA
1 AA-AT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAA
753099 AATAAACCTA
Statistics
Matches: 64, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
3 8 0.12
4 40 0.62
5 13 0.20
6 2 0.03
7 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:754190 original size:3 final size:3
Alignment explanation
Indices: 754161--754238 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
754151 ATTGGGGCCT
* * * *
754161 ATA A-A ATA ATT ATA TATA A-A TTA ATA ATA ATA CTA AAA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
754205 ATA AGTA ATT ATT ATA ATA ATA GTA ATA ACA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
754239 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
2 3 0.05
3 48 0.84
4 6 0.11
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:754604 original size:84 final size:84
Alignment explanation
Indices: 754468--754652 Score: 244
Period size: 84 Copynumber: 2.2 Consensus size: 84
754458 AGCTGAATGC
* *
754468 AATCGAACTCGTCAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
1 AATCGAACTCG-AAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
754533 TATGCCTCGGAGCTGAGCGT
65 TATGCCTCGGAGCTGAGCGT
* * * * * *
754553 AGTCGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATTAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * *
754618 GTGTCTTGGAGCTGAGTGT
66 ATGCCTCGGAGCTGAGCGT
*
754637 AATCGAGCTCGAAGGT
1 AATCGAACTCGAAGGT
754653 TTGGTGTTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 76 0.88
85 10 0.12
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
ATGCCTCGGAGCTGAGCGT
Found at i:754742 original size:37 final size:37
Alignment explanation
Indices: 754689--754840 Score: 150
Period size: 37 Copynumber: 4.2 Consensus size: 37
754679 AAGGTTTTTT
*
754689 TTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* **
754726 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AATT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * *
754762 TTTTTTTGAAGAGAATCTATCTCAAGAGAGACAAAA-
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * *
754798 TTTAG-TTCTAAAAGAAATTGTCTCAAGGGAGACGAAA-
1 TTT-GTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAAC
754835 TTTGTT
1 TTTGTT
754841 CAAAGATTTT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
36 35 0.38
37 58 0.62
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (37 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:754791 original size:36 final size:36
Alignment explanation
Indices: 754686--754795 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
754676 TCAAAGGTTT
*
754686 TTTTTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAA
1 TTTTTT-TTTCAAGAGAAACTGTCTCAAGAGAGAC-AA
** * *
754724 ACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAA
* * *
754760 TTTTTTTTTGAAGAGAATCTATCTCAAGAGAGACAA
1 TTTTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAA
754796 AATTTAGTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 31 0.52
37 26 0.43
38 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (36 bp):
TTTTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAA
Found at i:754820 original size:73 final size:74
Alignment explanation
Indices: 754686--754830 Score: 179
Period size: 73 Copynumber: 2.0 Consensus size: 74
754676 TCAAAGGTTT
* * **
754686 TTTTTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAA
1 TTTTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAACTGTCTCAA
754751 GAGAGACAA
66 GAGAGACAA
* * *
754760 TTTTTT-TTTGAAGAGAATCTATCTCAAGAGAGACAAAA-TTTAG-TTCTAAAAGAAATTGTCTC
1 TTTTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTT-GTTTC-AAAAGAAACTGTCTC
*
754822 AAGGGAGAC
64 AAGAGAGAC
754831 GAAATTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
72 6 0.10
73 49 0.80
74 6 0.10
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (74 bp):
TTTTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAAAGAAACTGTCTCAA
GAGAGACAA
Found at i:754858 original size:34 final size:36
Alignment explanation
Indices: 754781--754861 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 36
754771 AGAGAATCTA
*
754781 TCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAATTG
1 TCTCAAGGGAGACAAAATTTAGTTC-AAAAGAAATTG
* **
754818 TCTCAAGGGAGACGAAATTT-GTTC-AAAGATTTTG
1 TCTCAAGGGAGACAAAATTTAGTTCAAAAGAAATTG
*
754852 TTTCAAGGGA
1 TCTCAAGGGA
754862 AAGTCTCAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 17 0.44
36 4 0.10
37 18 0.46
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (36 bp):
TCTCAAGGGAGACAAAATTTAGTTCAAAAGAAATTG
Found at i:754886 original size:34 final size:36
Alignment explanation
Indices: 754848--754925 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
754838 GTTCAAAGAT
754848 TTTGTTTCAAGGGAAA-GTCTCAAGAGAGACAAAA-
1 TTTGTTTCAAGGGAAACGTCTCAAGAGAGACAAAAC
754882 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGGGAAAC-GTCTCAAGAGAGACAAAAC
754919 TTTGTTT
1 TTTGTTT
754926 TGAGTAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
34 16 0.39
36 18 0.44
37 7 0.17
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACGTCTCAAGAGAGACAAAAC
Found at i:754941 original size:120 final size:121
Alignment explanation
Indices: 754726--754952 Score: 300
Period size: 120 Copynumber: 1.9 Consensus size: 121
754716 GAGACAAAAC
** * * *
754726 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAATTTTTTTTTGAAGAGAATCTATCTCAAGAGA
1 TTTGTTTCAAGGGAAAC-GTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGA
*
754791 GACAAAATTTAGTTCTAAAAGAAATTGTCTCAAGGGAGACGAAATTTGTTCAAAGAT
65 GACAAAATTTAGTTCTAAAAGAAATTGTCTCAAGCGAGACGAAATTTGTTCAAAGAT
* *
754848 TTTGTTTCAAGGGAAA-GTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TTTGTTTCAAGGGAAACGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAG
**
754912 ACAAAACTTT-GTT-T-TGAGTAAATTAGTCTCAAGCGAGACGA
66 ACAAAA-TTTAGTTCTAAAAG-AAATT-GTCTCAAGCGAGACGA
754953 CCTCTTGTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
118 2 0.02
119 6 0.07
120 65 0.71
121 3 0.03
122 16 0.17
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (121 bp):
TTTGTTTCAAGGGAAACGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAG
ACAAAATTTAGTTCTAAAAGAAATTGTCTCAAGCGAGACGAAATTTGTTCAAAGAT
Found at i:759320 original size:4 final size:4
Alignment explanation
Indices: 759313--759371 Score: 59
Period size: 4 Copynumber: 14.8 Consensus size: 4
759303 AAATCGAAGA
* * *
759313 AAAT AAAT AAAT AAAAT AAA- AGAT AAAT AGAA- ATAG AAAT AAAT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
759361 AAAT AAAT AAA
1 AAAT AAAT AAA
759372 AATAAACCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.07
4 37 0.80
5 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:759340 original size:16 final size:15
Alignment explanation
Indices: 759287--759377 Score: 73
Period size: 16 Copynumber: 5.8 Consensus size: 15
759277 GTAAAAATAA
759287 AAATAAAATAGAAAAT
1 AAATAAAATA-AAAAT
759303 AAATCGAAGAA-AATAAAT
1 AAAT--AA-AATAA-AAAT
759321 AAATAAAATAAAAGAT
1 AAATAAAATAAAA-AT
*
759337 AAATAGAAATAGAAAT
1 AAATA-AAATAAAAAT
759353 AAAT-AAAT--AAAT
1 AAATAAAATAAAAAT
759365 AAATAAAAATAAA
1 AAAT-AAAATAAA
759378 CCCAAAATAA
Statistics
Matches: 63, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
12 8 0.13
14 8 0.13
15 4 0.06
16 22 0.35
17 8 0.13
18 11 0.17
19 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:759366 original size:28 final size:28
Alignment explanation
Indices: 759278--759375 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 28
759268 AAATAAATCG
* *
759278 TAAAAATAAAAATAAAATAGAAAATAAA
1 TAAAAATAGAAATAAAATAAAAAATAAA
* *
759306 TCGAAGAAAATAAATAAATAAAATAAAAGATAAA
1 T---A-AAAAT--AGAAATAAAATAAAAAATAAA
*
759340 TAGAAATAGAAAT-AAATAAATAAATAAA
1 TAAAAATAGAAATAAAATAAA-AAATAAA
759368 TAAAAATA
1 TAAAAATA
759376 AACCCAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
27 7 0.12
28 19 0.34
30 4 0.07
31 2 0.04
32 5 0.09
34 19 0.34
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.19
Consensus pattern (28 bp):
TAAAAATAGAAATAAAATAAAAAATAAA
Found at i:759374 original size:45 final size:45
Alignment explanation
Indices: 759278--759377 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 45
759268 AAATAAATCG
*
759278 TAAAAATAAAAATAAAATAGAAAATAAATCGAAGAAAATAAATAAA
1 TAAAAATAAAAATAAAATAGAAAAGAAATC-AAGAAAATAAATAAA
759324 T-AAAATAAAAGAT-AAATAGAAATAGAAAT-AA-ATAAATAAATAAA
1 TAAAAATAAAA-ATAAAATAGAAA-AGAAATCAAGA-AAATAAATAAA
759368 TAAAAATAAA
1 TAAAAATAAA
759378 CCCAAAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
43 1 0.02
44 14 0.29
45 26 0.53
46 8 0.16
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (45 bp):
TAAAAATAAAAATAAAATAGAAAAGAAATCAAGAAAATAAATAAA
Found at i:759386 original size:39 final size:39
Alignment explanation
Indices: 759313--759407 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 39
759303 AAATCGAAGA
*
759313 AAATAAATAAATAAAATAAAAGATAAATAGAAATAGA-AAT
1 AAATAAATAAAT-AAATAAAAGATAAACAGAAATA-ATAAT
759353 AAATAAATAAATAAATAAAA-ATAAACCCA-AAATAATAAT
1 AAATAAATAAATAAATAAAAGATAAA--CAGAAATAATAAT
* *
759392 AAAAAAATTAATAAAT
1 AAATAAATAAATAAAT
759408 GAAGGAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 6 0.12
39 30 0.61
40 13 0.27
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (39 bp):
AAATAAATAAATAAATAAAAGATAAACAGAAATAATAAT
Found at i:760464 original size:3 final size:3
Alignment explanation
Indices: 760435--760515 Score: 58
Period size: 3 Copynumber: 27.0 Consensus size: 3
760425 ATTGGGGCCT
* * * *
760435 ATA A-A ATA ATT ATA TATA A-A TTA ATA ATA ATA ATA CTA AAA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
760479 ATA ATA AGTA ATT ATT ATA ATA ATA GTA ATA ACA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
760516 TAAAAAAAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 3 0.05
3 51 0.85
4 6 0.10
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:760929 original size:84 final size:84
Alignment explanation
Indices: 760759--760930 Score: 182
Period size: 84 Copynumber: 2.0 Consensus size: 84
760749 CGAACTCGTC
* * * *
760759 AGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTCGGAGA
1 AGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTCAGAGA
* * *
760824 TGAGCGTAGTTGAACTCGA
66 TGAGCGTAATCGAACTAGA
* * * * * * * * *
760843 AGGTCTTTGGTTGGAAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATTATGTGTCTTAGAGC
1 AGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTCAGAGA
* *
760908 TGAGTGTAATCGAGCTAGA
66 TGAGCGTAATCGAACTAGA
760927 AGGT
1 AGGT
760931 TTGGTGTTTC
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (84 bp):
AGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTCAGAGA
TGAGCGTAATCGAACTAGA
Found at i:761010 original size:37 final size:37
Alignment explanation
Indices: 760967--761203 Score: 164
Period size: 37 Copynumber: 6.2 Consensus size: 37
760957 AAGGTTTTTT
*
760967 TTTGTTTCATGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* *
761004 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * **
761040 TTTTTTTGAAGAGAAACAATCTCAAGAGAGACAAAA-
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * *
761076 TTTAG-TTCTAAAAGAAA-TATTCTCAAGGGAGACGAAA-
1 TTT-GTTTC-AAGAGAAACT-GTCTCAAGAGAGACAAAAC
**
761113 TTTG-TTCAAAGATTTGGTTTTAAGGGAAAGTCTCAAGAGAGACAAAA-
1 TTTGTTTC-AAGA----G----AA---ACTGTCTCAAGAGAGACAAAAC
*
761160 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
761197 TTTGTTT
1 TTTGTTT
761204 TGAGTACATT
Statistics
Matches: 158, Mismatches: 24, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
36 61 0.39
37 65 0.41
39 2 0.01
40 1 0.01
43 1 0.01
44 2 0.01
47 23 0.15
48 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (37 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:761172 original size:34 final size:35
Alignment explanation
Indices: 761119--761203 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 35
761109 GAAATTTGTT
*
761119 CAAAGATTTGGTTTTAAGGGAAA-GTCTCAAGAGAGA
1 CAAA-ATTT-GTTTCAAGGGAAACGTCTCAAGAGAGA
761155 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAAC-GTCTCAAGAGAGA
761191 CAAAACTTTGTTT
1 CAAAA-TTTGTTT
761204 TGAGTACATT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 12 0.27
35 4 0.09
36 22 0.49
37 7 0.16
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (35 bp):
CAAAATTTGTTTCAAGGGAAACGTCTCAAGAGAGA
Found at i:763387 original size:23 final size:23
Alignment explanation
Indices: 763361--763447 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
763351 CAGCTCATAT
*
763361 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTGAGTGCCACGTAG
* **
763384 AATTGTA-CTGGAGTGCTGCGTAG
1 AATTGCACCT-GAGTGCCACGTAG
* *
763407 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCTGAGTGCCACGTAG
763430 AATTGCACC-GTAGTGCCA
1 AATTGCACCTG-AGTGCCA
763448 TATAATAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.06
23 49 0.92
24 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (23 bp):
AATTGCACCTGAGTGCCACGTAG
Found at i:763588 original size:103 final size:103
Alignment explanation
Indices: 763463--763783 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
763453 TAATGTCCAT
* *
763463 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTTAGCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
763528 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
763566 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTAGGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
763631 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
763669 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
763734 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
763772 AATGACCACATA
1 AAGGACCACATA
763784 GACCCTCTAC
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:764290 original size:21 final size:20
Alignment explanation
Indices: 764264--764303 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
764254 TTTTTTATTA
*
764264 TGGGGGAATCGGTTCTCCCCC
1 TGGGGGAATCGATTC-CCCCC
*
764285 TGGGGGTATCGATTCCCCC
1 TGGGGGAATCGATTCCCCC
764304 ATAGCGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.25
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:764354 original size:21 final size:21
Alignment explanation
Indices: 764330--764372 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
764320 TCATATTCGT
*
764330 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
764351 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
764372 T
1 T
764373 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:770448 original size:23 final size:23
Alignment explanation
Indices: 770418--770470 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
770408 AGCTCATATA
770418 AGTGCCACGTAGAATTACACCGG
1 AGTGCCACGTAGAATTACACCGG
* *
770441 AGTGCCACGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTACACCGG
770464 AGTGCCA
1 AGTGCCA
770471 TATAATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
AGTGCCACGTAGAATTACACCGG
Found at i:770599 original size:103 final size:103
Alignment explanation
Indices: 770486--770806 Score: 572
Period size: 103 Copynumber: 3.1 Consensus size: 103
770476 TAATGTCCAT
770486 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
770551 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
770589 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTAGGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
770654 GACCTT-ACACATGTTCCAAAGAATACATATATGTCCCG
66 GA-CTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
770692 AAAGACCACATATCATTCCTTAAGAATCATATACATACGTCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
770757 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
770795 AAGGACCACATA
1 AAGGACCACATA
770807 GACCCTCTAC
Statistics
Matches: 207, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
102 3 0.01
103 201 0.97
104 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:771324 original size:19 final size:20
Alignment explanation
Indices: 771287--771327 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
771277 TTTTTTATTA
*
771287 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
771307 TGGGGGTATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
771327 T
1 T
771328 AGCGTTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:771376 original size:21 final size:21
Alignment explanation
Indices: 771352--771394 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
771342 TCATATTCGT
*
771352 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
771373 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
771394 T
1 T
771395 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:774935 original size:4 final size:4
Alignment explanation
Indices: 774902--774978 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
774892 GTAAAAATAA
*
774902 AAAT AAAAT AAA- AAAT AAAT CAAAGA AAAT AAAT AAAT AAAAT AAA-
1 AAAT -AAAT AAAT AAAT AAAT -AAA-T AAAT AAAT AAAT -AAAT AAAT
* *
774948 AGAT AAAT AAA- AATAG AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAA
774979 AATAAACCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
3 7 0.12
4 37 0.62
5 16 0.27
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:774942 original size:40 final size:37
Alignment explanation
Indices: 774896--774984 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 37
774886 TAAATCGTAA
774896 AAATAAAAATAAAATAAAAAATAAATCAA-AGAAAATAAAT
1 AAATAAAAATAAAA-AAAAAATAAA--AATAG-AAATAAAT
* *
774936 AAAT-AAAATAAAAGATAAATAAAAATAGAAATAAAT
1 AAATAAAAATAAAAAAAAAATAAAAATAGAAATAAAT
774972 AAATAAAAATAAA
1 AAATAAAAATAAA
774985 CCCAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 14 0.31
37 10 0.22
38 8 0.18
39 9 0.20
40 4 0.09
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (37 bp):
AAATAAAAATAAAAAAAAAATAAAAATAGAAATAAAT
Found at i:774955 original size:20 final size:19
Alignment explanation
Indices: 774893--774984 Score: 76
Period size: 16 Copynumber: 5.2 Consensus size: 19
774883 AAATAAATCG
774893 TAAAAAT-AA-AAATAAAA
1 TAAAAATAAATAAATAAAA
*
774910 T--AAA-AAATAAATCAAA
1 TAAAAATAAATAAATAAAA
*
774926 -GAAAATAAATAAATAAAA
1 TAAAAATAAATAAATAAAA
774944 TAAAAGATAAAT--A-AAAA
1 TAAAA-ATAAATAAATAAAA
*
774961 TAGAAATAAATAAATAAAAA
1 TAAAAATAAATAAAT-AAAA
774981 TAAA
1 TAAA
774985 CCCAAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
15 5 0.08
16 13 0.22
17 12 0.20
18 13 0.22
19 3 0.05
20 13 0.22
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.18
Consensus pattern (19 bp):
TAAAAATAAATAAATAAAA
Found at i:774992 original size:31 final size:30
Alignment explanation
Indices: 774894--775005 Score: 88
Period size: 31 Copynumber: 3.6 Consensus size: 30
774884 AATAAATCGT
* *
774894 AAAAATAAAA-ATA-AAATAAAAAATAAATC
1 AAAAATAAAATAAATAAATAAAAGATAAA-C
* *
774923 AAAGAAAATAAATAAATAAAATAAAAGATAAAT
1 AAA-AATA-AAATAAAT-AAATAAAAGATAAAC
774956 AAAAATAGAAATAAATAAATAAAA-ATAAACC
1 AAAAATA-AAATAAATAAATAAAAGATAAA-C
*
774987 CAAAATAATAATAAA-AAAT
1 AAAAATAA-AATAAATAAAT
775006 GAATAAATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
29 3 0.04
30 13 0.19
31 23 0.34
32 13 0.19
33 3 0.04
34 13 0.19
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (30 bp):
AAAAATAAAATAAATAAATAAAAGATAAAC
Found at i:776068 original size:3 final size:3
Alignment explanation
Indices: 776060--776119 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
776050 ATATATAAAT
* * * *
776060 TAA TAA TAA TAA TAC TAA AAA TAA TAA TAA GTAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* *
776106 TAG TAA TAA CAA TA
1 TAA TAA TAA TAA TA
776120 TAAAAAAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:776069 original size:21 final size:21
Alignment explanation
Indices: 776043--776125 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
776033 GGGCCTACAA
* *
776043 AATAATTATA-TATAAATTAAT
1 AATAATAATACTA-AAAATAAT
776064 AATAATAATACTAAAAATAAT
1 AATAATAATACTAAAAATAAT
* *
776085 AATAAGTAATTATTATAATAATAGT
1 AATAA-TAA-TACTA-AA-AATAAT
*
776110 AATAACAATA-TAAAAA
1 AATAATAATACTAAAAA
776126 AATTTAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
20 2 0.04
21 23 0.44
22 7 0.13
23 6 0.12
24 4 0.08
25 10 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAATAATACTAAAAATAAT
Found at i:780178 original size:21 final size:21
Alignment explanation
Indices: 780152--780221 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
780142 GTTTCCAGAT
780152 TCGCAACGCGATAATACATAA
1 TCGCAACGCGATAATACATAA
**
780173 TCGCAACGCGATTTTGAC-T-A
1 TCGCAACGCGATAAT-ACATAA
*
780193 TCGCAATGCGATAATACATAA
1 TCGCAACGCGATAATACATAA
*
780214 CCGCAACG
1 TCGCAACG
780222 TGATTCTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 2 0.05
20 14 0.36
21 21 0.54
22 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGATAATACATAA
Found at i:780240 original size:41 final size:41
Alignment explanation
Indices: 780152--780241 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
780142 GTTTCCAGAT
* * *
780152 TCGCAACGCGATAATACATAATCGCAACGCGATTTTGACTA
1 TCGCAATGCGATAATACATAACCGCAACGCGATTCTGACTA
*
780193 TCGCAATGCGATAATACATAACCGCAACGTGATTCTGACTA
1 TCGCAATGCGATAATACATAACCGCAACGCGATTCTGACTA
780234 TCGCAATG
1 TCGCAATG
780242 TAATTTTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
TCGCAATGCGATAATACATAACCGCAACGCGATTCTGACTA
Found at i:780420 original size:22 final size:22
Alignment explanation
Indices: 780395--780441 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
780385 GGCGACATCT
* *
780395 GTCCCCATCTTCGACGAAATTC
1 GTCCCCATCTCCGACGAAATCC
780417 GTCCCCATCTCCGACGAAATCC
1 GTCCCCATCTCCGACGAAATCC
780439 GTC
1 GTC
780442 TATCTCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCC
Found at i:780831 original size:19 final size:19
Alignment explanation
Indices: 780788--780914 Score: 66
Period size: 20 Copynumber: 6.7 Consensus size: 19
780778 GGAACGCAAC
780788 GCGATTTTAATTTCGCGTT
1 GCGATTTTAATTTCGCGTT
* * *
780807 GTGATTTTTATTTCGCTTT
1 GCGATTTTAATTTCGCGTT
*
780826 GCGA--TT-A--TCTCGTT
1 GCGATTTTAATTTCGCGTT
* * *
780840 GCGATAGTCAAATTCGCGTT
1 GCGAT-TTTAATTTCGCGTT
* * * *
780860 GCGATAGTCATTTTCGTGTT
1 GCGAT-TTTAATTTCGCGTT
* *
780880 GCGATTTTCATTTTCGTGTT
1 GCGATTTT-AATTTCGCGTT
780900 GCGATTTTAAGTTTC
1 GCGATTTTAA-TTTC
780915 AGAAACTATT
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
14 9 0.10
16 1 0.01
17 3 0.03
18 1 0.01
19 21 0.24
20 51 0.59
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (19 bp):
GCGATTTTAATTTCGCGTT
Found at i:780861 original size:20 final size:20
Alignment explanation
Indices: 780836--780884 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
780826 GCGATTATCT
780836 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
780856 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
780876 TGTTGCGAT
1 CGTTGCGAT
780885 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:780890 original size:20 final size:20
Alignment explanation
Indices: 780852--780907 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
780842 GATAGTCAAA
* **
780852 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
780872 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
780892 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
780908 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:780914 original size:20 final size:20
Alignment explanation
Indices: 780871--780914 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
780861 CGATAGTCAT
* *
780871 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
780891 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
780911 TTTC
1 TTTC
780915 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:782878 original size:33 final size:34
Alignment explanation
Indices: 782817--782915 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
782807 CACGAAACTT
* * * **
782817 AAAATCGCAACGCGAAAATGATTATCGCAACGGG
1 AAAATCACAATGCGAAAATAAAAATCGCAACGGG
* *
782851 ATAATCACAATGCG-AAATAAAAATCGCAACGTG
1 AAAATCACAATGCGAAAATAAAAATCGCAACGGG
* *
782884 AAAATCGCAATGCGAAAATGAAAATCGCAACG
1 AAAATCACAATGCGAAAATAAAAATCGCAACG
782916 CGAATTTAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.50
34 27 0.50
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (34 bp):
AAAATCACAATGCGAAAATAAAAATCGCAACGGG
Found at i:782905 original size:20 final size:20
Alignment explanation
Indices: 782882--782919 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
782872 AATCGCAACG
*
782882 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
782902 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
782920 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:782937 original size:19 final size:19
Alignment explanation
Indices: 782915--782954 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
782905 AAATCGCAAC
782915 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* * *
782934 GCGATTTTGGTTTCGCTTT
1 GCGAATTTAGTTTCGCGTT
782953 GC
1 GC
782955 ATTTTTCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.17, G:0.28, T:0.45
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:782960 original size:19 final size:19
Alignment explanation
Indices: 782924--782959 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
782914 CGCGAATTTA
782924 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
782943 GTTTCGCTTTGC-ATTTT
1 GTTTCGCGTTGCGATTTT
782960 TCTCATTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.17, G:0.25, T:0.53
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:783020 original size:20 final size:20
Alignment explanation
Indices: 782997--783045 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
782987 CGATTATCTT
782997 GTTGCGATTGTCAAATTCGC
1 GTTGCGATTGTCAAATTCGC
* ** *
783017 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTGTCAAATTCGC
783037 GTTGCGATT
1 GTTGCGATT
783046 TTAAGTTTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (20 bp):
GTTGCGATTGTCAAATTCGC
Found at i:783054 original size:20 final size:20
Alignment explanation
Indices: 783031--783073 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
783021 CGATAGTCAT
783031 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
783051 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
783071 TTT
1 TTT
783074 TAGAAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:783625 original size:42 final size:42
Alignment explanation
Indices: 783561--783642 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
783551 CTGTCATCAT
* * *
783561 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
*
783603 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
783643 GTTGAAGAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:783645 original size:21 final size:21
Alignment explanation
Indices: 783554--783652 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
783544 GACTCACCTG
* *
783554 TCATCATTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
783574 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * *
783596 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* *
783617 CCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
*
783638 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
783653 TTCATCCCAC
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 58 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:785177 original size:20 final size:20
Alignment explanation
Indices: 785152--785209 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
785142 AGGTACACTT
785152 TCGCAAAGCGAAAGTCAAAA
1 TCGCAAAGCGAAAGTCAAAA
* *
785172 TCGCAATGCGAAAGCCAAAA
1 TCGCAAAGCGAAAGTCAAAA
*
785192 TCGCAACGCGAAAGTCAA
1 TCGCAAAGCGAAAGTCAA
785210 TTCGCGTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.10
Consensus pattern (20 bp):
TCGCAAAGCGAAAGTCAAAA
Found at i:785275 original size:20 final size:20
Alignment explanation
Indices: 785248--785398 Score: 125
Period size: 20 Copynumber: 7.8 Consensus size: 20
785238 GTGATTTTCT
*
785248 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCA
* *
785268 CATTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
785288 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
**
785308 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCA
* * * *
785322 TGTTGCGCTAGTCATATTCG
1 CGTTGCGATAGTCAAATTCA
* **
785342 CGTTACGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCA
*
785362 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
*
785382 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
785399 GAATGTGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
14 10 0.09
16 1 0.01
18 1 0.01
20 95 0.89
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:785334 original size:74 final size:74
Alignment explanation
Indices: 785208--785390 Score: 226
Period size: 74 Copynumber: 2.5 Consensus size: 74
785198 CGCGAAAGTC
* * *
785208 AATTCGCGTTGCGATAGTCTAATAT-GCTTTGTGATTTTCTCGTTGCGATAGTCAAATTCCCATT
1 AATTCGCGTTGCGATAGTCAAAT-TCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCATT
*
785272 GCGATAATCA
65 ACGATAATCA
* * * * * *
785282 AATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGTGTTGCGCTAGTCATATTCGCGTT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATTCCCATT
*
785346 ACGATAGTCA
65 ACGATAATCA
*
785356 AATTTGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
785391 ATTCAAATGA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
73 2 0.02
74 92 0.98
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCATTA
CGATAATCA
Found at i:785381 original size:40 final size:39
Alignment explanation
Indices: 785248--785398 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 39
785238 GTGATTTTCT
* * **
785248 CGTTGCGATAGTCAAATTCCCATTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT-ATCAAATTTG
785288 CGTTGCGATAGTCAAATTCGCGTTGCGAT-T----TTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATATCAAATTTG
* * * *
785322 TGTTGCGCTAGTCATATTCGCGTTACGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATA-TCAAATTTG
785362 CGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATA-TCAAAT
785399 GAATGTGTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
34 27 0.29
36 1 0.01
38 1 0.01
40 63 0.68
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (39 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATATCAAATTTG
Found at i:785621 original size:140 final size:140
Alignment explanation
Indices: 785369--785651 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
785359 TTGCGTTGCG
* * *
785369 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAAGAGATCA
1 ATAGTCAAATTCGCATTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
785434 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
785499 AATACACATA
131 AATACACATA
785509 ATAGTCAAATTCGCATTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCATTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
785574 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
785639 AATACACATA
131 AATACACATA
785649 ATA
1 ATA
785652 CAGCGTTTGC
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:785732 original size:18 final size:18
Alignment explanation
Indices: 785709--785743 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
785699 AAGCCGGTTG
785709 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
785727 TGATTGCGATTTTGATT
1 TGATTGAGATTTTGATT
785744 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:787799 original size:14 final size:14
Alignment explanation
Indices: 787780--787816 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
787770 TCCTGTGGCA
787780 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
787794 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
787808 TTCTTCTTC
1 TT-TTCTTC
787817 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:788040 original size:24 final size:24
Alignment explanation
Indices: 788006--788059 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
787996 CTGAAACATC
788006 ATCAAAATCCGAG-TATTGACCAAG
1 ATCAAAATCCG-GTTATTGACCAAG
*
788030 ATCAAAGTCCGGTTATTGACCAAG
1 ATCAAAATCCGGTTATTGACCAAG
788054 ATCAAA
1 ATCAAA
788060 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGGTTATTGACCAAG
Found at i:788073 original size:24 final size:24
Alignment explanation
Indices: 788006--788073 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
787996 CTGAAACATC
* * *
788006 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
788030 ATCAAAGTCCGGTTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
788054 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
788074 TAGTACTCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:788905 original size:20 final size:20
Alignment explanation
Indices: 788880--789089 Score: 167
Period size: 20 Copynumber: 10.3 Consensus size: 20
788870 GAAATTCAGT
*
788880 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
788900 GTTGCGATAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGC
* **
788920 GTTGTGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
*
788941 ATTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
** *
788961 GTTGCGATTAGGT-ATTATCGT
1 GTTGCGA-TA-GTCAGAATCGC
788982 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* ** *
789002 ATTGCGATTATGT-ATTATCGT
1 GTTGCGA-TA-GTCAGAATCGC
789023 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* * *
789043 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CAGAATCGC
* *
789063 ATTGCGATAGTCAAAATCGC
1 GTTGCGATAGTCAGAATCGC
789083 GTTGCGA
1 GTTGCGA
789090 ATCTGGAAAC
Statistics
Matches: 146, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
19 7 0.05
20 93 0.64
21 40 0.27
22 6 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:788940 original size:41 final size:41
Alignment explanation
Indices: 788895--789089 Score: 268
Period size: 41 Copynumber: 4.8 Consensus size: 41
788885 GACAGTCAGA
* *
788895 ATCGCGTTGCGATAGTCAGAATCGAGTTGTGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* *
788936 ATCGCATTGCGATAGTCAGAATCGCGTTGCGATTAGGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* *
788977 ATCGTGTTGCGATAGTCAGAATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* **
789018 ATCGTGTTGCGATAGTCAGAATCGCGTTGCGATT-TACA-T
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* *
789057 ATTCGCATTGCGATAGTCAAAATCGCGTTGCGA
1 A-TCGCGTTGCGATAGTCAGAATCGCGTTGCGA
789090 ATCTGGAAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 30 0.22
41 107 0.77
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
Found at i:789127 original size:20 final size:19
Alignment explanation
Indices: 789104--789149 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
789094 GGAAACTGAT
* *
789104 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
789124 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
789143 TTGCGAT
1 TTGCGAT
789150 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:789139 original size:19 final size:19
Alignment explanation
Indices: 789115--789151 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
789105 TGCGATACTG
*
789115 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
789134 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
789152 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:789276 original size:31 final size:31
Alignment explanation
Indices: 789235--789300 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
789225 TTATTTTCTC
* *
789235 TTTATAATATATAGTCTT-AAATAAATTTAAT
1 TTTATAATATATAAT-TTCAAAGAAATTTAAT
*
789266 TTTATTATATATAATTTCAAAGAAATTTAAT
1 TTTATAATATATAATTTCAAAGAAATTTAAT
789297 TTTA
1 TTTA
789301 AAATTTTGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTATAATATATAATTTCAAAGAAATTTAAT
Found at i:792757 original size:45 final size:45
Alignment explanation
Indices: 792687--792783 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 45
792677 AATTTGAATG
* * *
792687 AATTAAATTATTTATTAACGTTGTTTTAAAATTAAGTCATTTTAA
1 AATTAAATTATCTATTAACGATGTTTTAAAATTAAATCATTTTAA
*
792732 AATTAAATTATCTATTCACGATGTTTTAAAATTAAATCATTTTAA
1 AATTAAATTATCTATTAACGATGTTTTAAAATTAAATCATTTTAA
792777 AATTAAA
1 AATTAAA
792784 ATTAAATCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (45 bp):
AATTAAATTATCTATTAACGATGTTTTAAAATTAAATCATTTTAA
Found at i:798456 original size:21 final size:20
Alignment explanation
Indices: 798386--798483 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
798376 AATCAGTTTC
*
798386 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAATGCGATT-TT
* * **
798407 GAAAATTGCAATGCGATAGT
1 CAAAATCGCAATGCGATTTT
* *
798427 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAATGCGATTTT
* * *
798447 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAATGCGATTTT
* *
798468 GAAAATCGCAACGCGA
1 CAAAATCGCAATGCGA
798484 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
20 30 0.51
21 29 0.49
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAATGCGATTTT
Found at i:798493 original size:20 final size:20
Alignment explanation
Indices: 798470--798643 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
798460 GCGAATATGA
798470 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
798490 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
798510 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
798530 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
798550 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
798570 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
798590 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
798610 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
798631 AAATCGCAACGCG
1 AAATCGCAACGCG
798644 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:798494 original size:40 final size:39
Alignment explanation
Indices: 798450--798644 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
798440 CGATTTTCCA
* ** *
798450 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
798490 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
798530 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
798570 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
798610 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
798645 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:798534 original size:60 final size:60
Alignment explanation
Indices: 798450--798643 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
798440 CGATTTTCCA
* ** * *
798450 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
798510 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
798570 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
798631 AAATCGCAACGCG
1 AAATCGCAACGCG
798644 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:799064 original size:33 final size:33
Alignment explanation
Indices: 799025--799095 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
799015 TTCACTTAGA
799025 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
799058 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
799091 TTTCA
1 TTTCA
799096 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:799232 original size:19 final size:20
Alignment explanation
Indices: 799177--799249 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
799167 CAGAAGAGTT
* *
799177 GCAACGAGATAAATGAAAATC
1 GCAACGAGA-GAATGACAATC
**
799198 GCAACGAGAGAATGACTGTC
1 GCAACGAGAGAATGACAATC
*
799218 GCAACGCGA-AATGACAATC
1 GCAACGAGAGAATGACAATC
799237 GCAACGAGAGAAT
1 GCAACGAGAGAAT
799250 CGCAACGCGA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
19 16 0.37
20 18 0.42
21 9 0.21
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (20 bp):
GCAACGAGAGAATGACAATC
Found at i:799258 original size:33 final size:33
Alignment explanation
Indices: 799187--799278 Score: 121
Period size: 33 Copynumber: 2.6 Consensus size: 33
799177 GCAACGAGAT
799187 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
799226 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
799259 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
799279 AACCAAAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
33 29 0.57
36 1 0.02
38 1 0.02
39 20 0.39
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:799271 original size:19 final size:19
Alignment explanation
Indices: 799187--799291 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
799177 GCAACGAGAT
*
799187 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
799206 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
799226 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
799243 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
799259 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
**
799278 AAACCAAAATCGCA
1 AAATGAAAATCGCA
799292 TTGCGATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 15 0.22
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:799328 original size:14 final size:14
Alignment explanation
Indices: 799309--799365 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
799299 TTTTATTTCG
799309 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
799323 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
799342 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
799356 CGTTGCGATT
1 CGTTGCGATT
799366 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:799340 original size:33 final size:33
Alignment explanation
Indices: 799292--799373 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
799282 CAAAATCGCA
*
799292 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
799325 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
799358 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
799374 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:799347 original size:19 final size:18
Alignment explanation
Indices: 799287--799351 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
799277 GAAACCAAAA
* *
799287 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGA-TTTCATT
799306 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
799320 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATT-TCATT
799339 TCGCGTTGCGATT
1 TCGCGTTGCGATT
799352 CTCTCGTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:799937 original size:14 final size:14
Alignment explanation
Indices: 799918--799953 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
799908 ATTGTTTAAT
799918 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
799932 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
799946 TGATTTGT
1 TGATTTGT
799954 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:800076 original size:19 final size:19
Alignment explanation
Indices: 800060--800161 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
800050 AAAAATGACT
800060 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
800079 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
800098 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
800112 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
800131 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
800151 ATCGCAATGCG
1 ATCGCAATGCG
800162 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:800210 original size:33 final size:33
Alignment explanation
Indices: 800168--800391 Score: 233
Period size: 33 Copynumber: 6.5 Consensus size: 33
800158 TGCGTTTATA
* *
800168 ATTTCGCATTGCGATTCTCTCGTTACGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
*
800201 ATTTCGCATTGTGATTCTTTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
800234 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
800272 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
800308 -TGTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
800343 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
800376 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
800392 TTCATTTCGC
Statistics
Matches: 174, Mismatches: 7, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
33 95 0.55
35 14 0.08
36 15 0.09
38 50 0.29
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
Found at i:800247 original size:19 final size:19
Alignment explanation
Indices: 800193--800476 Score: 339
Period size: 19 Copynumber: 16.3 Consensus size: 19
800183 TCTCTCGTTA
800193 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
800212 TGA--TTC-TTTCG--TTG
1 CGATTTTCATTTCGCATTG
800226 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800245 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800264 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800283 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
800302 CGA--TTC-TGTCG--TTG
1 CGATTTTCATTTCGCATTG
800316 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800335 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
800354 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
800368 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800387 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
800406 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
800420 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
800439 CGATTTTCA--T-G--TTG
1 CGATTTTCATTTCGCATTG
* *
800453 GGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCATTG
800472 CGATT
1 CGATT
800477 GTAATTTCCG
Statistics
Matches: 230, Mismatches: 10, Indels: 50
0.79 0.03 0.17
Matches are distributed among these distances:
14 34 0.15
16 31 0.13
17 31 0.13
19 134 0.58
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:800279 original size:71 final size:71
Alignment explanation
Indices: 800193--800410 Score: 329
Period size: 71 Copynumber: 3.1 Consensus size: 71
800183 TCTCTCGTTA
*
800193 CGATTTTCATTTCGCATTGTGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
1 CGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
800258 GCATTG
66 GCATTG
*
800264 CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 CGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
800324 ATTTCGCATTG
61 ATTTCGCATTG
*
800335 CGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
1 CGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
800400 GCATTG
66 GCATTG
800406 CGATT
1 CGATT
800411 CTCTCGTTGC
Statistics
Matches: 133, Mismatches: 4, Indels: 20
0.85 0.03 0.13
Matches are distributed among these distances:
66 6 0.05
68 7 0.05
69 7 0.05
71 92 0.69
73 7 0.05
74 8 0.06
76 6 0.05
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (71 bp):
CGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
GCATTG
Found at i:800421 original size:33 final size:33
Alignment explanation
Indices: 800242--800476 Score: 217
Period size: 33 Copynumber: 6.8 Consensus size: 33
800232 TCATTTCGCA
*
800242 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
800278 CATTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
800313 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
800349 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
800384 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
800417 TTGCGATTTTCATTTCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
* *
800450 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
800477 GTAATTTCCG
Statistics
Matches: 169, Mismatches: 16, Indels: 29
0.79 0.07 0.14
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 91 0.54
34 1 0.01
35 9 0.05
36 7 0.04
37 2 0.01
38 33 0.20
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:800484 original size:52 final size:51
Alignment explanation
Indices: 800223--800476 Score: 332
Period size: 52 Copynumber: 4.8 Consensus size: 51
800213 GATTCTTTCG
*
800223 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCG------ATTTCGCGTTGCGATTTTCATTTCGCA
800280 TTGCGATTTTCATTTCGCATTGCGA-TTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTC-G-CGTTGCGATTTTCATTTCGCA
*
800332 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATT-TCGCGTTGCGATTTTCATTTCGCA
*
800384 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATT-TCGCGTTGCGATTTTCATTTCGCA
* * *
800436 TTGCGATTTTCATGTTGGGATTTTC-ATTTCGCGTTGCGATT
1 TTGCGATTTTCAT-TTCGCA-TTGCGATTTCGCGTTGCGATT
800477 GTAATTTCCG
Statistics
Matches: 185, Mismatches: 6, Indels: 17
0.89 0.03 0.08
Matches are distributed among these distances:
50 3 0.02
51 2 0.01
52 143 0.77
53 8 0.04
54 5 0.03
57 24 0.13
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCGCGTTGCGATTTTCATTTCGCA
Found at i:802772 original size:12 final size:12
Alignment explanation
Indices: 802755--802779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
802745 TCTTCGGGGA
802755 CTTTTTCTTCTT
1 CTTTTTCTTCTT
802767 CTTTTTCTTCTT
1 CTTTTTCTTCTT
802779 C
1 C
802780 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:802988 original size:24 final size:24
Alignment explanation
Indices: 802954--803000 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
802944 CTGAAACATC
802954 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
802978 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
803001 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:803711 original size:20 final size:20
Alignment explanation
Indices: 803683--803892 Score: 206
Period size: 20 Copynumber: 10.5 Consensus size: 20
803673 AAATTTCAGT
* * *
803683 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
803703 GTTGCGATTTACGTATTATC
1 GTTGCGATTTACGGATTCGC
* *
803723 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
803743 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
803763 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
803783 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
803803 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
803823 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
803843 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
803863 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
803883 GTTGCGATTT
1 GTTGCGATTT
803893 TGGAAAATCG
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:803886 original size:60 final size:57
Alignment explanation
Indices: 803742--804013 Score: 161
Period size: 60 Copynumber: 4.5 Consensus size: 57
803732 TACAGATTCT
* * ** * ** *
803742 CGTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGAAACG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT-CGGATACGCATTGCGAT-TTTGG-ATCG
* * * * *
803802 CGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT-CGGATACGCATTGCGATTT-TG-GATCG
* * * * * *
803862 CGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAATGCGAATTTGACTATCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTTCGG-ATA-CGCATTGCGATTTTG--GATCG
* * * * *
803923 CATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGACACTG-ATTTGCGATTCTGGGGATCG
1 CGTTGCGATTTTC-AGATTCGCGTTGCGATTTCGGATAC-GCA-TTGCGATT-T-TGGATCG
* *
803984 CGTTGCGATTTTTA-TTTCGCGTTGCGATTT
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT
804014 TGTTGGTCAT
Statistics
Matches: 170, Mismatches: 32, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
59 17 0.10
60 81 0.48
61 51 0.30
62 20 0.12
63 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (57 bp):
CGTTGCGATTTTCAGATTCGCGTTGCGATTTCGGATACGCATTGCGATTTTGGATCG
Found at i:803909 original size:21 final size:20
Alignment explanation
Indices: 803859--803956 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
803849 ATTTATGTGT
* * * *
803859 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
803879 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
803900 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
803920 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
803941 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
803957 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:803951 original size:41 final size:41
Alignment explanation
Indices: 803859--804015 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
803849 ATTTATGTGT
* * *
803859 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
803900 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
803941 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
803981 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
804016 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:805909 original size:29 final size:29
Alignment explanation
Indices: 805867--805924 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
805857 TTACATAAAG
805867 TAGTCAACATCCATTGCTGAGACGATCAT
1 TAGTCAACATCCATTGCTGAGACGATCAT
805896 TAGTCAACATCCATTGCTGAGACGATCAT
1 TAGTCAACATCCATTGCTGAGACGATCAT
805925 ATAGAAGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (29 bp):
TAGTCAACATCCATTGCTGAGACGATCAT
Found at i:806302 original size:42 final size:42
Alignment explanation
Indices: 806211--806302 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 42
806201 TTAATTTTCA
806211 AATATTATATAGATTTATTTTAATTATAATATAATAATTTAAT
1 AATATTATATAGATTTATTTTAATTATAATATAATAA-TTAAT
* *
806254 ATATATTATATTATATTT-TTATT-ATTTTAATAATAATAA-TAAT
1 A-ATATTATA-TAGATTTATT-TTAATTATAAT-ATAATAATTAAT
806297 AATATT
1 AATATT
806303 TATCACAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
42 5 0.12
43 6 0.14
44 17 0.40
45 15 0.35
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (42 bp):
AATATTATATAGATTTATTTTAATTATAATATAATAATTAAT
Found at i:807440 original size:17 final size:17
Alignment explanation
Indices: 807418--807457 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
807408 AGTATGGAAT
*
807418 TATAAAA-TATAATGAAA
1 TATAAAATTA-AATAAAA
807435 TATAAAATTAAATAAAA
1 TATAAAATTAAATAAAA
807452 TATAAA
1 TATAAA
807458 TTTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TATAAAATTAAATAAAA
Found at i:807466 original size:19 final size:17
Alignment explanation
Indices: 807433--807483 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
807423 AATATAATGA
807433 AATATAAAA--TTAAAT
1 AATATAAAATTTTAAAT
*
807448 AAAATATAAATTTTTAAAT
1 --AATATAAAATTTTAAAT
*
807467 TATATAAAATTTTAAAT
1 AATATAAAATTTTAAAT
807484 TTTTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 23 0.79
19 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATAAAATTTTAAAT
Found at i:807473 original size:24 final size:25
Alignment explanation
Indices: 807439--807487 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
807429 ATGAAATATA
807439 AAATTAAATAAAA-TATAAATTTTT
1 AAATTAAATAAAATTATAAATTTTT
* *
807463 AAATTATATAAAATTTTAAATTTTT
1 AAATTAAATAAAATTATAAATTTTT
807488 TAAAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTAAATAAAATTATAAATTTTT
Found at i:807494 original size:18 final size:17
Alignment explanation
Indices: 807451--807484 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
807441 ATTAAATAAA
*
807451 ATATAAATTTTTAAATT
1 ATATAAAATTTTAAATT
807468 ATATAAAATTTTAAATT
1 ATATAAAATTTTAAATT
807485 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAAAATTTTAAATT
Found at i:807496 original size:25 final size:24
Alignment explanation
Indices: 807446--807496 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
807436 ATAAAATTAA
*
807446 ATAAAATATAAATTTTTAAATTAT
1 ATAAAATATAAATTTTTAAATAAT
*
807470 ATAAAATTTTAAATTTTTTAAA-AAT
1 ATAAAA-TATAAA-TTTTTAAATAAT
807495 AT
1 AT
807497 CATTACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 9 0.39
26 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAAAATATAAATTTTTAAATAAT
Found at i:810560 original size:27 final size:27
Alignment explanation
Indices: 810529--810623 Score: 167
Period size: 27 Copynumber: 3.6 Consensus size: 27
810519 TCTATTTACA
*
810529 AAATCATATCTCTATAGGAATGGCAAC
1 AAATCATATCTCTATAGGAATGGTAAC
810556 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
810583 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
810610 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
810624 ATTCCTACAC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
25 9 0.13
27 58 0.87
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:814359 original size:27 final size:27
Alignment explanation
Indices: 814328--814422 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
814318 TCTATTTACA
* *
814328 AAATCATATTTCTATAGGAATGGCAAC
1 AAATCATATCTCTATAGGAATGGTAAC
814355 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
814382 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
814409 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
814423 ATTCCTACAG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 9 0.14
27 56 0.86
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:822520 original size:16 final size:16
Alignment explanation
Indices: 822499--822531 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
822489 GGGAGACGTC
822499 TGAGTTCTTATAGGGT
1 TGAGTTCTTATAGGGT
822515 TGAGTTCTTATAGGGT
1 TGAGTTCTTATAGGGT
822531 T
1 T
822532 TAAACTCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.45
Consensus pattern (16 bp):
TGAGTTCTTATAGGGT
Found at i:823381 original size:64 final size:64
Alignment explanation
Indices: 823301--823432 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
823291 CATCCGATTT
* * * *
823301 AAGATACTTTTGCTTCAAC-TTCAAATGGTTTCTGAATTGAGCAAAGATGGTGACTAGTTAATGA
1 AAGATAATTTTGCTTCAACATT-AAATGATTTCTGAATTGAGCAAAGATAGTGACAAGTTAATGA
823365 AAGATAATTTTGCTTCAACATTAAATGATTTCTGAATTGAGCAAAGATAGTGACAAGTTAATGA
1 AAGATAATTTTGCTTCAACATTAAATGATTTCTGAATTGAGCAAAGATAGTGACAAGTTAATGA
823429 AAGA
1 AAGA
823433 CTGATCCCTC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 61 0.97
65 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (64 bp):
AAGATAATTTTGCTTCAACATTAAATGATTTCTGAATTGAGCAAAGATAGTGACAAGTTAATGA
Found at i:824705 original size:31 final size:30
Alignment explanation
Indices: 824664--824768 Score: 97
Period size: 31 Copynumber: 3.5 Consensus size: 30
824654 ATACATAATA
824664 ATAA-AATTTAATAAATTTAATGATTATTTT
1 ATAATAATTTAA-AAATTTAATGATTATTTT
* *
824694 ATAATAATTTAACAAATTTAATGTTTGTTTT
1 ATAATAATTTAA-AAATTTAATGATTATTTT
* * * * * *
824725 GTAATCATTTAAAAAGATTAATAATCATGTT
1 ATAATAATTTAAAAA-TTTAATGATTATTTT
824756 ATAAT-ATTTAAAA
1 ATAATAATTTAAAA
824769 GTTATCCGAC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 15 0.25
31 46 0.75
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
ATAATAATTTAAAAATTTAATGATTATTTT
Found at i:825395 original size:29 final size:29
Alignment explanation
Indices: 825324--825396 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
825314 ATTAAATATC
825324 TAAAGTTCAGTGA-TCAAATTAAAAAAAT
1 TAAAGTTCAGTGAGTCAAATTAAAAAAAT
* * *
825352 TGAAAGTAC-GCTGAGTGAAA-TAAGATAAAT
1 T-AAAGTTCAG-TGAGTCAAATTAA-AAAAAT
825382 TAAAGTTCAGTGAGT
1 TAAAGTTCAGTGAGT
825397 AAGCATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
28 2 0.06
29 23 0.64
30 11 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (29 bp):
TAAAGTTCAGTGAGTCAAATTAAAAAAAT
Found at i:829258 original size:2 final size:2
Alignment explanation
Indices: 829253--829286 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
829243 TCTCTCTCTC
* *
829253 TA TA TA TA TA TA TA TA TA TA TA GA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
829287 AGAATTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:835640 original size:32 final size:31
Alignment explanation
Indices: 835598--835681 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
835588 TTTTACGTAC
* **
835598 TAAAATGAAACAAAAAGTCAACAATGGGGTAA
1 TAAAATGAAACAAAAAGTAAAC-ACCGGGTAA
* * *
835630 TAAAAAGAAACAAAAAGTAAACGCCGGGTAT
1 TAAAATGAAACAAAAAGTAAACACCGGGTAA
835661 TAAAATGAAACAAAAAGTAAA
1 TAAAATGAAACAAAAAGTAAA
835682 TATTAAGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.56
32 20 0.44
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.14
Consensus pattern (31 bp):
TAAAATGAAACAAAAAGTAAACACCGGGTAA
Found at i:835770 original size:15 final size:15
Alignment explanation
Indices: 835748--835796 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
835738 ATACTTTAGA
835748 TACTAAACCACCCTT
1 TACTAAACCACCCTT
* ****
835763 TTCTAAACTTTTCTT
1 TACTAAACCACCCTT
835778 TACTAAACCACCCTT
1 TACTAAACCACCCTT
835793 TACT
1 TACT
835797 TCAACTACAT
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (15 bp):
TACTAAACCACCCTT
Found at i:839850 original size:12 final size:12
Alignment explanation
Indices: 839826--839880 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
839816 GAAAAGGATA
839826 AAGAACAAG-AAG
1 AAGAA-AAGAAAG
*
839838 AAGAGAAGAAAG
1 AAGAAAAGAAAG
839850 AAGAAAAG-AAG
1 AAGAAAAGAAAG
839861 AAAGAAAA-AAAG
1 -AAGAAAAGAAAG
*
839873 AAAAAAAG
1 AAGAAAAG
839881 TGTTGCCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 12 0.33
12 24 0.67
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAGAAAG
Found at i:839852 original size:15 final size:15
Alignment explanation
Indices: 839832--839874 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
839822 GATAAAGAAC
*
839832 AAGAAGAAGAGAAGA
1 AAGAAGAAAAGAAGA
839847 AAGAAGAAAAGAAGA
1 AAGAAGAAAAGAAGA
*
839862 AAGAAAAAAAGAA
1 AAGAAGAAAAGAA
839875 AAAAAGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAGAAGA
Found at i:840917 original size:14 final size:16
Alignment explanation
Indices: 840897--840937 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
840887 ATTAAAGTTT
840897 TAATGATTTTTCAT-A
1 TAATGATTTTTCATCA
*
840912 -AATGATTGTTCATCA
1 TAATGATTTTTCATCA
840927 TAATGATTTTT
1 TAATGATTTTT
840938 TGTCAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 9 0.41
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (16 bp):
TAATGATTTTTCATCA
Found at i:854358 original size:19 final size:18
Alignment explanation
Indices: 854330--854365 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
854320 TTTCACTAAT
*
854330 AGAGGAAATATTACAAAG
1 AGAGGAAATAATACAAAG
854348 AGAGAGAAATAATACAAA
1 AGAG-GAAATAATACAAA
854366 TAGCCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.06, G:0.19, T:0.14
Consensus pattern (18 bp):
AGAGGAAATAATACAAAG
Found at i:857253 original size:56 final size:55
Alignment explanation
Indices: 857139--857321 Score: 206
Period size: 56 Copynumber: 3.3 Consensus size: 55
857129 TCCTATTTTT
* * * * * *
857139 TAGATATATTCGATTTCGAGTCCCTATTTTTATACTTCTTAATGGCAA-TAATTGA
1 TAGATATACTCGATTTCGGGGCCCTATTTTTATACTTATTAATGACAACAAATT-A
* * * *
857194 TAGATATACTCGATTTCGGGGCCTATATTTTTATGCTTTTTAATAACAACAAATTA
1 TAGATATACTCGATTTCGGGGCC-CTATTTTTATACTTATTAATGACAACAAATTA
* * * *
857250 TAGATATACTCGATTTTAGGGCCCCTATTTTTATACTTATTAATGACAACAACTGA
1 TAGATATACTCGA-TTTCGGGGCCCTATTTTTATACTTATTAATGACAACAAATTA
857306 TAGATATACTCGATTT
1 TAGATATACTCGATTT
857322 TAAGGCCCAC
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
55 23 0.21
56 73 0.68
57 12 0.11
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (55 bp):
TAGATATACTCGATTTCGGGGCCCTATTTTTATACTTATTAATGACAACAAATTA
Found at i:857322 original size:56 final size:56
Alignment explanation
Indices: 857160--857329 Score: 214
Period size: 56 Copynumber: 3.0 Consensus size: 56
857150 GATTTCGAGT
* * * * **
857160 CCCTATTTTTATACTTCTTAATGGCAATAATTGATAGATATACTCGATTTCGGGGC
1 CCCTATTTTTATACTTATTAATGACAACAAATGATAGATATACTCGATTTTAGGGC
** * * * *
857216 CTATATTTTTATGCTTTTTAATAACAACAAATTATAGATATACTCGATTTTAGGGC
1 CCCTATTTTTATACTTATTAATGACAACAAATGATAGATATACTCGATTTTAGGGC
* *
857272 CCCTATTTTTATACTTATTAATGACAACAACTGATAGATATACTCGATTTTAAGGC
1 CCCTATTTTTATACTTATTAATGACAACAAATGATAGATATACTCGATTTTAGGGC
857328 CC
1 CC
857330 ACCTTGCAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (56 bp):
CCCTATTTTTATACTTATTAATGACAACAAATGATAGATATACTCGATTTTAGGGC
Found at i:858334 original size:23 final size:23
Alignment explanation
Indices: 858308--858351 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
858298 TAAAGAAAAG
858308 AAAACAAGTAACAAAAGTAGAGC
1 AAAACAAGTAACAAAAGTAGAGC
* * *
858331 AAAACATGTCACAAAGGTAGA
1 AAAACAAGTAACAAAAGTAGA
858352 ATTGTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.18, T:0.11
Consensus pattern (23 bp):
AAAACAAGTAACAAAAGTAGAGC
Found at i:859092 original size:19 final size:18
Alignment explanation
Indices: 859060--859097 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
859050 ACCCAAACAA
859060 TTTTGAAAAGTAACATTTT
1 TTTTGAAAAGTAAC-TTTT
859079 TTTTGTAAAA-TAACTTTT
1 TTTTG-AAAAGTAACTTTT
859097 T
1 T
859098 CATGATCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTTGAAAAGTAACTTTT
Found at i:860366 original size:19 final size:20
Alignment explanation
Indices: 860341--860386 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
860331 TTTAAAATTA
*
860341 AACTAAAAAAATTATAAAAT
1 AACTAAAAAAATAATAAAAT
*
860361 -ACTAAAATAATAATAAAAT
1 AACTAAAAAAATAATAAAAT
860380 AACTAAA
1 AACTAAA
860387 CTACAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AACTAAAAAAATAATAAAAT
Found at i:861691 original size:40 final size:42
Alignment explanation
Indices: 861636--861719 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
861626 CTAACAACTT
* *
861636 TTTTTTCTAGAGGTATA-TT-TATTATAAACTGGACCAAGCA
1 TTTTTCCTAGAGGTATATTTATATTATAAACTCGACCAAGCA
861676 TTTTTCCTAGAGGTATATTTATATTATAAACTCGACCAAGCA
1 TTTTTCCTAGAGGTATATTTATATTATAAACTCGACCAAGCA
861718 TT
1 TT
861720 CGTTGTTAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 16 0.40
41 2 0.05
42 22 0.55
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (42 bp):
TTTTTCCTAGAGGTATATTTATATTATAAACTCGACCAAGCA
Found at i:871962 original size:29 final size:29
Alignment explanation
Indices: 871920--872137 Score: 153
Period size: 29 Copynumber: 7.3 Consensus size: 29
871910 TTAATATTCA
*
871920 AAATAT-TTTTATTTTATTTTAAATTATT
1 AAATATATTTTATTTTATTTTAACTTATT
* * *
871948 AAATCTATTTTATTTT-TGTCCTT-ACCTA-A
1 AAATATATTTTATTTTAT-T--TTAACTTATT
**
871977 AAATATATTTTATTTTTATTTTAACTTAAA
1 AAATATATTTTA-TTTTATTTTAACTTATT
*
872007 AAATATATTTTATTCTTATCTTAACTTA--
1 AAATATATTTTATT-TTATTTTAACTTATT
*
872035 AAGATATATTTTATTTTTATCTTAACTT-TT
1 AA-ATATATTTTA-TTTTATTTTAACTTATT
*
872065 AAAAATATATCTTATTTTCATTTTAACTTATT
1 --AAATATATTTTATTTT-ATTTTAACTTATT
* ** *
872097 ACATATATATTATATTCTTAACTTAAATTATT
1 A-A-ATATATTTTATT-TTATTTTAACTTATT
872129 AAATATATT
1 AAATATATT
872138 CTAATGTGAC
Statistics
Matches: 156, Mismatches: 14, Indels: 38
0.75 0.07 0.18
Matches are distributed among these distances:
28 10 0.06
29 49 0.31
30 47 0.30
31 23 0.15
32 25 0.16
33 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.55
Consensus pattern (29 bp):
AAATATATTTTATTTTATTTTAACTTATT
Found at i:871996 original size:59 final size:59
Alignment explanation
Indices: 871919--872072 Score: 181
Period size: 59 Copynumber: 2.7 Consensus size: 59
871909 ATTAATATTC
* * * *
871919 AAAATAT-TTTTA-TTTTATTTTAAATTATTAAATCTATTTTATTTTTGTCCTT-ACCTA
1 AAAATATATTTTATTTTTATTTTAACTTATTAAATATATTTTATTCTTAT-CTTAACCTA
** *
871976 AAAATATATTTTATTTTTATTTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTA
1 AAAATATATTTTATTTTTATTTTAACTTATTAAATATATTTTATTCTTATCTTAACCTA
* * *
872035 AAGATATATTTTATTTTTATCTTAACTT-TTAAAAATAT
1 AAAATATATTTTATTTTTATTTTAACTTATTAAATATAT
872073 ATCTTATTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 7 0.09
58 15 0.18
59 60 0.73
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (59 bp):
AAAATATATTTTATTTTTATTTTAACTTATTAAATATATTTTATTCTTATCTTAACCTA
Found at i:872137 original size:30 final size:30
Alignment explanation
Indices: 872087--872165 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
872077 TATTTTCATT
* * *
872087 TTAACTTATTACATATATATTATATTCTTAAC
1 TTAAATTATTA-A-ATATATTATAATCTGAAC
* * *
872119 TTAAATTATTAAATATATTCTAATGTGACC
1 TTAAATTATTAAATATATTATAATCTGAAC
*
872149 TTAAATTATTGAATATA
1 TTAAATTATTAAATATA
872166 ATTTATCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 29 0.73
31 1 0.03
32 10 0.25
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.47
Consensus pattern (30 bp):
TTAAATTATTAAATATATTATAATCTGAAC
Found at i:872366 original size:30 final size:29
Alignment explanation
Indices: 872279--872400 Score: 97
Period size: 30 Copynumber: 4.1 Consensus size: 29
872269 TTTAAATATT
* *
872279 ATAAAAATAAAATATAAATATTTAAGTTA
1 ATAAAAATAAAATATATATTTTTAAGTTA
* * *
872308 AGGT-AAGATCAAAT-TATATCTTTGAAGTTA
1 A--TAAAAATAAAATATATAT-TTTTAAGTTA
872338 ATAAAAATTAAAATATATATTTTTAAGTTAAA
1 ATAAAAA-TAAAATATATATTTTTAAGTT--A
* * *
872370 ATAAGAATAAAA-ATATATATTTAATTTA
1 ATAAAAATAAAATATATATTTTTAAGTTA
872398 ATA
1 ATA
872401 TGCCAATTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
28 5 0.07
29 8 0.11
30 43 0.58
31 11 0.15
32 7 0.09
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (29 bp):
ATAAAAATAAAATATATATTTTTAAGTTA
Found at i:872399 original size:60 final size:59
Alignment explanation
Indices: 872279--872400 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 59
872269 TTTAAATATT
** * * *
872279 ATAAAAATAAAATATAAATATTTAAGTTAAGGTAAGATCAAATTATATCTTTGAAGTTA
1 ATAAAAATAAAATATAAATATTTAAGTTAAAATAAGATAAAAATATATATTTGAAGTTA
* * *
872338 ATAAAAATTAAAATATATATTTTTAAGTTAAAATAAGAATAAAAATATATATTT-AATTTA
1 ATAAAAA-TAAAATATAAATATTTAAGTTAAAATAAG-ATAAAAATATATATTTGAAGTTA
872398 ATA
1 ATA
872401 TGCCAATTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 7 0.13
60 33 0.62
61 13 0.25
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (59 bp):
ATAAAAATAAAATATAAATATTTAAGTTAAAATAAGATAAAAATATATATTTGAAGTTA
Found at i:878791 original size:18 final size:18
Alignment explanation
Indices: 878760--878794 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
878750 AAAGGATATT
*
878760 TGATCTTTATCTGTGAAA
1 TGATCTTTACCTGTGAAA
*
878778 TGATCTTTGCCTGTGAA
1 TGATCTTTACCTGTGAA
878795 TACAGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (18 bp):
TGATCTTTACCTGTGAAA
Found at i:886113 original size:16 final size:16
Alignment explanation
Indices: 886092--886122 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
886082 GAGCATTATT
*
886092 AATTTAATTTATAAAA
1 AATTTAAATTATAAAA
886108 AATTTAAATTATAAA
1 AATTTAAATTATAAA
886123 GGACTCAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAATTATAAAA
Done.