Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:747868 original size:23 final size:23
Alignment explanation
Indices: 747818--747862 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
747808 TGCCTATTTT
* *
747818 ATTATATAAGCGCTACTTATTAC
1 ATTATATAAGAGCTACTTAATAC
747841 ATTATATAAGAGCTACTTAATA
1 ATTATATAAGAGCTACTTAATA
747863 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGAGCTACTTAATAC
Found at i:748858 original size:2 final size:2
Alignment explanation
Indices: 748851--748879 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
748841 CATCAACAAT
748851 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
748880 CATTTTTCAT
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:754364 original size:49 final size:48
Alignment explanation
Indices: 754295--754393 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 48
754285 TAGTATTTTA
* *
754295 TATTAGTCCTCAAATTATGACCTCCACTATAAATTGATCCTTAAACTT
1 TATTAGTCCTCAAATTATGACCTCCACTATAAACTGATCATTAAACTT
754343 TATTCAGTCCTCAAATTATGACCTCCACTATAAACTGATCATTAAACTT
1 TATT-AGTCCTCAAATTATGACCTCCACTATAAACTGATCATTAAACTT
754392 TA
1 TA
754394 AAAATGTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 4 0.08
49 44 0.92
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (48 bp):
TATTAGTCCTCAAATTATGACCTCCACTATAAACTGATCATTAAACTT
Found at i:757559 original size:36 final size:35
Alignment explanation
Indices: 757515--757585 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
757505 AACATCTACC
*
757515 AAACTTTACTAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
757550 AAACATTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
757586 TTGGTTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:757584 original size:21 final size:21
Alignment explanation
Indices: 757525--757584 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
757515 AAACTTTACT
757525 AAACTTTGAAAAACATTTTTC
1 AAACTTTGAAAAACATTTTTC
**
757546 AAA----G--AAACATTTACC
1 AAACTTTGAAAAACATTTTTC
757561 AAACTTTGAAAAACATTTTTC
1 AAACTTTGAAAAACATTTTTC
757582 AAA
1 AAA
757585 GTTGGTTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 12 0.41
17 1 0.03
19 1 0.03
21 15 0.52
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
AAACTTTGAAAAACATTTTTC
Found at i:761286 original size:16 final size:17
Alignment explanation
Indices: 761255--761288 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
761245 CGTATCGCCG
*
761255 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
761272 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
761288 A
1 A
761289 TGTGAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:761753 original size:35 final size:35
Alignment explanation
Indices: 761696--761772 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
761686 CCTATTCATA
761696 TTTTCAACAAACATCTACCAAACTTTGAAAAACAT
1 TTTTCAACAAACATCTACCAAACTTTGAAAAACAT
* *
761731 TTTTCAAGGAAACATTTA-CAAACTTTGAAAAACAT
1 TTTTCAA-CAAACATCTACCAAACTTTGAAAAACAT
761766 TTTTCAA
1 TTTTCAA
761773 AGTTGGTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 31 0.79
36 8 0.21
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAACAAACATCTACCAAACTTTGAAAAACAT
Found at i:762116 original size:23 final size:23
Alignment explanation
Indices: 762090--762137 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
762080 ATAAAGTATA
* *
762090 ATAACATACTAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
762113 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
762136 AT
1 AT
762138 TGACATATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:762742 original size:199 final size:199
Alignment explanation
Indices: 762369--762857 Score: 888
Period size: 199 Copynumber: 2.4 Consensus size: 199
762359 AAAATTACAT
* * *
762369 ATTACATATTACATTGTACTTTTGGTTTTCTATGTTTTTGGGATCGACACTTTCTATATATGGAT
1 ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGAT
762434 CGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAA
66 CGACACTTTATGGTTGCACC-TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAA
*
762499 AAAGTATCGATAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATT
130 AAAGTATCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATT
762564 GAAAA
195 GAAAA
*
762569 ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGAT
1 ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGAT
762634 CGACACTTTATGGTTGCACCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAA
66 CGACACTTTATGGTTGCACCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAA
* *
762699 AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
131 AAGTATCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
762764 AAAA
196 AAAA
*
762768 ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGTT
1 ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGAT
762833 CGACACTTTATGGTTGCACCCTGTT
66 CGACACTTTATGGTTGCA-CCTGTT
762858 GGCCATATTG
Statistics
Matches: 279, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
199 192 0.69
200 87 0.31
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (199 bp):
ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGAT
CGACACTTTATGGTTGCACCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAA
AAGTATCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
AAAA
Found at i:762987 original size:18 final size:18
Alignment explanation
Indices: 762964--763024 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
762954 TCTCATTCAT
*
762964 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
762982 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
763001 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
763020 AATTA
1 AATTA
763025 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:763000 original size:19 final size:19
Alignment explanation
Indices: 762976--763024 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
762966 TTATATTCAC
762976 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
762995 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
763014 ATACAAAATTA
1 ATACAAAATTA
763025 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:764852 original size:33 final size:33
Alignment explanation
Indices: 764815--764880 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
764805 CATCTTAATA
*
764815 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
764848 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
764881 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:764939 original size:21 final size:21
Alignment explanation
Indices: 764914--764978 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
764904 CCCCTTATGC
764914 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
764935 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* * *
764956 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
764977 CT
1 CT
764979 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.18, C:0.29, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:767041 original size:24 final size:24
Alignment explanation
Indices: 767004--767056 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
766994 CCGTTCTATC
767004 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
767028 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
767052 TATTT
1 TATTT
767057 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:767218 original size:17 final size:18
Alignment explanation
Indices: 767196--767238 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
767186 ATATATCCGG
767196 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
767213 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
767233 TATCAT
1 TATCAT
767239 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:767256 original size:20 final size:19
Alignment explanation
Indices: 767201--767247 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
767191 TCCGGTATCA
767201 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
767220 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
767241 TTTTACC
1 TTTTACC
767248 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:767409 original size:20 final size:20
Alignment explanation
Indices: 767382--767428 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
767372 TCCGGTAACG
767382 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
767401 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
767422 TTTTACC
1 TTTTACC
767429 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:767472 original size:181 final size:182
Alignment explanation
Indices: 767168--767640 Score: 718
Period size: 181 Copynumber: 2.6 Consensus size: 182
767158 CGTACTTACG
* * *
767168 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
767233 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
767298 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
767349 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* *
767414 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
767479 AGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * *
767531 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACCGGTT
* * *
767595 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
767641 AATTTGGATC
Statistics
Matches: 266, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 171 0.64
182 95 0.36
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:770529 original size:59 final size:56
Alignment explanation
Indices: 770420--770639 Score: 196
Period size: 59 Copynumber: 3.8 Consensus size: 56
770410 TTATAACTAC
* * *
770420 AAGGACTAGAATA-AAAAATAGAAACTTAAAGGACCT-AAATAGTAAAAATAGAAACCTA
1 AAGGACTAAAATAGAAAAATAGAAACTT-AGGGA-CTAAAATAGT--AAATAGAAACTTA
* *
770478 GAGGACTAAAATAGCAAAAATAGAAACATAGGGACTAAAATAGATGAAATAGAAA-TTA
1 AAGGACTAAAATAG-AAAAATAGAAACTTAGGGACTAAAATAG-T-AAATAGAAACTTA
* *
770536 AAGGGACTAAAATAGATAAAATAAAAACTTAGGGGACT-AAATAGTAAATACAAACATTTA
1 AA-GGACTAAAATAGA-AAAATAGAAACTTA-GGGACTAAAATAGTAAATAGAAAC--TTA
* * *
770596 AAGGATTAAAATAGTAAAAATAGAAAGTTAAAGGACTAAAATAG
1 AAGGACTAAAATAG-AAAAATAGAAACTT-AGGGACTAAAATAG
770640 CAAAAATATA
Statistics
Matches: 135, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
57 8 0.06
58 18 0.13
59 76 0.56
60 33 0.24
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.19
Consensus pattern (56 bp):
AAGGACTAAAATAGAAAAATAGAAACTTAGGGACTAAAATAGTAAATAGAAACTTA
Found at i:770549 original size:89 final size:87
Alignment explanation
Indices: 770420--770647 Score: 227
Period size: 89 Copynumber: 2.6 Consensus size: 87
770410 TTATAACTAC
* *
770420 AAGGACTAGAATA--AAAAATAGAAACTTAAAGGACCT-AAATAGTAAAAATAGAAACCTAGAGG
1 AAGGACTAAAATAGTAAAAATAGAAACTTAAAGGA-CTAAAATAG-AAAAATAAAAACCTAGAGG
*
770482 ACTAAAATAGCAAAAATAGAAACA-T-
64 ACT-AAATAG--AAAATACAAACATTA
* * * *
770507 AGGGACTAAAATAG-ATGAAATAGAAA-TTAAAGGGACTAAAATAGATAAAATAAAAACTTAGGG
1 AAGGACTAAAATAGTA-AAAATAGAAACTTAAA-GGACTAAAATAGA-AAAATAAAAACCTAGAG
*
770570 GACTAAATAGTAAATACAAACATTTA
63 GACTAAATAGAAAATACAAACA-TTA
* *
770596 AAGGATTAAAATAGTAAAAATAGAAAGTTAAAGGACTAAAATAGCAAAAATA
1 AAGGACTAAAATAGTAAAAATAGAAACTTAAAGGACTAAAATAG-AAAAATA
770648 TACATTTAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
86 10 0.08
87 11 0.09
88 16 0.13
89 75 0.63
90 7 0.06
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (87 bp):
AAGGACTAAAATAGTAAAAATAGAAACTTAAAGGACTAAAATAGAAAAATAAAAACCTAGAGGAC
TAAATAGAAAATACAAACATTA
Found at i:770659 original size:30 final size:29
Alignment explanation
Indices: 770420--770647 Score: 207
Period size: 30 Copynumber: 7.7 Consensus size: 29
770410 TTATAACTAC
*
770420 AAGGACTAGAATA-AAAAATAGAAACTTA
1 AAGGACTAAAATAGAAAAATAGAAACTTA
*
770448 AAGGACCT-AAATAGTAAAAATAGAAACCTA
1 AAGGA-CTAAAATAG-AAAAATAGAAACTTA
* *
770478 GAGGACTAAAATAGCAAAAATAGAAACAT-
1 AAGGACTAAAATAG-AAAAATAGAAACTTA
* *
770507 AGGGACTAAAATAGATGAAATAGAAA-TTA
1 AAGGACTAAAATAGA-AAAATAGAAACTTA
*
770536 AAGGGACTAAAATAGATAAAATAAAAACTTA
1 AA-GGACTAAAATAGA-AAAATAGAAACTTA
** * *
770567 GGGGACT-AAATAG-TAAATACAAACATTTA
1 AAGGACTAAAATAGAAAAATAGAAAC--TTA
* *
770596 AAGGATTAAAATAGTAAAAATAGAAAGTTA
1 AAGGACTAAAATAG-AAAAATAGAAACTTA
770626 AAGGACTAAAATAGCAAAAATA
1 AAGGACTAAAATAG-AAAAATA
770648 TACATTTAAA
Statistics
Matches: 163, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
27 9 0.06
28 11 0.07
29 39 0.24
30 93 0.57
31 3 0.02
32 8 0.05
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (29 bp):
AAGGACTAAAATAGAAAAATAGAAACTTA
Found at i:772134 original size:3 final size:3
Alignment explanation
Indices: 772126--772176 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
772116 AAAATAACAA
772126 AAT AAT AAT AAT AAT AA- ACAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
772171 AA- AAT A
1 AAT AAT A
772177 TACAATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 3 0.07
3 41 0.91
4 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:772183 original size:15 final size:14
Alignment explanation
Indices: 772129--772192 Score: 83
Period size: 15 Copynumber: 4.4 Consensus size: 14
772119 ATAACAAAAT
772129 AATAATAATAATAA
1 AATAATAATAATAA
772143 ACATAATAATAATAA
1 A-ATAATAATAATAA
772158 TAATAATAATAATAA
1 -AATAATAATAATAA
* *
772173 AATATACAATAAAAA
1 AATA-ATAATAATAA
772188 AATAA
1 AATAA
772193 AAGACCCGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.13
15 38 0.84
16 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:772678 original size:129 final size:128
Alignment explanation
Indices: 772381--772785 Score: 409
Period size: 129 Copynumber: 3.1 Consensus size: 128
772371 AGTCGTCTAA
* * * *
772381 GGGTGACACAACTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACACTGCTCATACACAATGA
1 GGGTGACACAACTCCTACGTGATGAGAAG-TCTGGTC-GGGGATGACACGGCTCATACGCGATGA
* ** * * *
772446 AGAGTTCTTGGCCATCTTTAGTTAGGGTGATAGC-TCGGTTCCTACGCGATGAGGACGGCTGGTT
64 AGATTTC-TGGCCATCTTTAG---GAATGATAACAT-GGTTCCTACGTGATGAGGACGACTGGTT
*
772510 ATCTAA
124 ATC-AG
* * *
772516 GGGTGACACAACTCCTATGTGATGAGGAGGTCTGGTCGGTGGATGACAC-GCTCATACGTGATGA
1 GGGTGACACAACTCCTACGTGATGA-GAAGTCTGGTCGG-GGATGACACGGCTCATACGCGATGA
* * *
772580 AGATTTCTGGCCATCTTCAGGAATGATAACATGGTTCTTACGTGATGAGGACGATTGGTTATCAG
64 AGATTTCTGGCCATCTTTAGGAATGATAACATGGTTCCTACGTGATGAGGACGACTGGTTATCAG
* * * *
772645 GGGTGACACGACTCCTACGTGATGAGTAAGTCTGGTCGGGGATGACACGGTTCCTACGCGATGAG
1 GGGTGACACAACTCCTACGTGATGAG-AAGTCTGGTCGGGGATGACACGGCTCATACGCGATGAA
** * * * * *
772710 GATGGCAGGCAATCTTTAGGGAGGACGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATC
65 GATTTCTGGCCATCTTTA-GGA--ATGATAACATGGTTCCTACGTGATGAGGACGACTGGTTATC
*
772775 TG
127 AG
772777 GGGTGACAC
1 GGGTGACAC
772786 GGCTCAAACA
Statistics
Matches: 228, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
128 10 0.04
129 60 0.26
130 37 0.16
131 1 0.00
132 46 0.20
133 12 0.05
134 20 0.09
135 40 0.18
136 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (128 bp):
GGGTGACACAACTCCTACGTGATGAGAAGTCTGGTCGGGGATGACACGGCTCATACGCGATGAAG
ATTTCTGGCCATCTTTAGGAATGATAACATGGTTCCTACGTGATGAGGACGACTGGTTATCAG
Found at i:772782 original size:132 final size:128
Alignment explanation
Indices: 772381--772863 Score: 423
Period size: 132 Copynumber: 3.7 Consensus size: 128
772371 AGTCGTCTAA
* * * * ***
772381 GGGTGACACAACTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACACTGCTCATACACAATGA
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACAC-GTTCCTACGTGATG-
* ** * * * *
772446 AGA-GTTCTTGGCCATCTTTAGTTAGG-GTGATAGCTCGGTTCCTACGCGATGAGGACGGCTGGT
63 AGATG-GC-TGGCCATCTTTAG---GGAACGATAACACGGTTCCTACGTGATGAGGACGACTGGT
*
772509 TATCTAA
123 TATCT-G
* * * *
772516 GGGTGACACAACTCCTATGTGATGAGGAGGTCTGGTCGGTGGATGACACGCTCATACGTGATGAA
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGG-GGATGACACGTTCCTACGTGATG-A
** * * * * * *
772581 GATTTCTGGCCATCTTCA-GGAATGATAACATGGTTCTTACGTGATGAGGACGATTGGTTATCAG
64 GATGGCTGGCCATCTTTAGGGAACGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
* * *
772645 GGGTGACACGACTCCTACGTGATGAGTAAGTCTGGTCGGGGATGACACGGTTCCTACGCGATGAG
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACAC-GTTCCTACGTGATGA-
* * *
772710 GATGGCAGGCAATCTTTAGGGAGGACGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATC
64 GATGGCTGGCCATCTTTAGGGA--ACGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATC
772775 TG
127 TG
* ** * * * *
772777 GGGTGACACGGCTCAAACATGATAAGGAGGTCTGGTTGGGGGATGACACATTTCCTACGTGATGA
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGG-TCGGGGATGACAC-GTTCCTACGTGATGA
*
772842 GATGGTTGGCCATCTTTAGGGA
64 GATGGCTGGCCATCTTTAGGGA
772864 TTTTGGTTTC
Statistics
Matches: 290, Mismatches: 49, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
128 10 0.03
129 61 0.21
130 36 0.12
132 84 0.29
133 36 0.12
134 19 0.07
135 44 0.15
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (128 bp):
GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGTTCCTACGTGATGAGA
TGGCTGGCCATCTTTAGGGAACGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTG
Found at i:775862 original size:19 final size:20
Alignment explanation
Indices: 775819--775862 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
775809 AATCAGTATT
775819 AATGAGTTCAAGTATAAGTA
1 AATGAGTTCAAGTATAAGTA
* *
775839 GATGAGTT-AAGTATATGTA
1 AATGAGTTCAAGTATAAGTA
775858 AATGA
1 AATGA
775863 ACGAAATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (20 bp):
AATGAGTTCAAGTATAAGTA
Found at i:776067 original size:65 final size:67
Alignment explanation
Indices: 775929--776068 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 67
775919 TTTTGGTCAT
*
775929 AGGGTATCGATACCATATGAAGGGGTATTGATACCTCCTCTTGAATGAAAAATTACAGAATGTCA
1 AGGGTATCGATACCATATGAAGGGGTATCGATACCTCCTCTTGAATGAAAAATTACAGAATGTCA
*
775994 GT
66 GC
* * * *
775996 ATGGTATCGATACCATAT-AGGGGGTATCGATACC-CC-C-TGAAGATGAAAATTTCCAGAATGT
1 AGGGTATCGATACCATATGAAGGGGTATCGATACCTCCTCTTG-A-ATGAAAAATTACAGAATGT
776057 -AGGC
64 CA-GC
776061 AGGGTATC
1 AGGGTATC
776069 TATATCTCAG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
63 2 0.03
64 3 0.05
65 27 0.43
66 14 0.22
67 17 0.27
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (67 bp):
AGGGTATCGATACCATATGAAGGGGTATCGATACCTCCTCTTGAATGAAAAATTACAGAATGTCA
GC
Found at i:776631 original size:22 final size:22
Alignment explanation
Indices: 776603--776701 Score: 121
Period size: 22 Copynumber: 4.5 Consensus size: 22
776593 GAGGGTTTAT
*
776603 AGTGGTCTTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
776625 AGTGGTCCTTCGGGA-AGTATCC
1 AGTGGTCCTTCGGGACA-TATCC
* *
776647 AATGGTCCTTC-GGACGTATCC
1 AGTGGTCCTTCGGGACATATCC
**
776668 AGTGGTCCTTCGGGATGTATCC
1 AGTGGTCCTTCGGGACATATCC
*
776690 ATTGGTCCTTCG
1 AGTGGTCCTTCG
776702 AGACGTAGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.28
22 49 0.72
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.31
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATCC
Found at i:776672 original size:43 final size:43
Alignment explanation
Indices: 776605--776708 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
776595 GGGTTTATAG
* *
776605 TGGTCTTTCGGGACATATCCAGTGGTCCTTCGGGAAGTATCCAA
1 TGGTCCTTC-GGACGTATCCAGTGGTCCTTCGGGAAGTATCCAA
* *
776649 TGGTCCTTCGGACGTATCCAGTGGTCCTTCGGGATGTATCCAT
1 TGGTCCTTCGGACGTATCCAGTGGTCCTTCGGGAAGTATCCAA
776692 TGGTCCTTCGAGACGTA
1 TGGTCCTTCG-GACGTA
776709 GTGTCCTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 41 0.75
44 14 0.25
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (43 bp):
TGGTCCTTCGGACGTATCCAGTGGTCCTTCGGGAAGTATCCAA
Found at i:782376 original size:20 final size:20
Alignment explanation
Indices: 782351--782407 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
782341 TTCCATAATG
782351 TAGGCAGGGTATCTATACCA
1 TAGGCAGGGTATCTATACCA
782371 TAGGCAGGGTATCTATACCA
1 TAGGCAGGGTATCTATACCA
782391 TAGGCAGGGTATCTATA
1 TAGGCAGGGTATCTATA
782408 TCTCAGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (20 bp):
TAGGCAGGGTATCTATACCA
Found at i:782965 original size:22 final size:22
Alignment explanation
Indices: 782938--783043 Score: 178
Period size: 22 Copynumber: 4.9 Consensus size: 22
782928 GAGGGTTTAT
* *
782938 AGTGGTCCTTCGGGACATATCT
1 AGTGGTCCTTCGGGACGTATCC
782960 AGTGGTCCTTCGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
782982 AGTGGTCCTTCGGAACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
783004 AGTGGTCCTTC-GGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
783025 AGTGGTCCTTCGGGACGTA
1 AGTGGTCCTTCGGGACGTA
783044 GTGGTCATTC
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
21 20 0.25
22 59 0.75
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACGTATCC
Found at i:785031 original size:64 final size:63
Alignment explanation
Indices: 784912--785120 Score: 201
Period size: 64 Copynumber: 3.3 Consensus size: 63
784902 TTTTTCAGAG
* *
784912 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT--A-TGAAACATCGAATGC
784974 ATT
61 ATT
* * *
784977 TCATGCATCGATGCACATACCATGCA-CGATGCACTGAGGATATTATGAAAACATCGAATACATT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTATG-AAACATCGAATGCATT
* * * * * * * *
785041 TGATGCATCGATGCACCAGCCATGCATTGATGCAGTCTGGCTATTTTGAAACATTGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTATGAAACATCGAATGCATT
785105 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
785121 TAATGATCCA
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
62 2 0.02
63 10 0.08
64 75 0.62
65 34 0.28
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTATGAAACATCGAATGCATT
Found at i:789946 original size:24 final size:23
Alignment explanation
Indices: 789918--790062 Score: 69
Period size: 24 Copynumber: 6.5 Consensus size: 23
789908 CACTTAACAA
789918 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CCTTTGAATG
* *
789942 TGCATCGATTCATCATGTTG-A--
1 TGCATCGATGCATCCT-TTGAATG
* **
789963 TGCACCGATGCA--C-TT-AACAA
1 TGCATCGATGCATCCTTTGAA-TG
789983 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CCTTTGAATG
* * *
790007 TGCATCAATTCATCATGTTG-A--
1 TGCATCGATGCATCCT-TTGAATG
* *
790028 TGCACCGATGCA-CGCCTTGAATG
1 TGCATCGATGCATC-CTTTGAATG
790051 TGCATCGATGCA
1 TGCATCGATGCA
790063 CAGGGTCATG
Statistics
Matches: 89, Mismatches: 17, Indels: 31
0.65 0.12 0.23
Matches are distributed among these distances:
17 3 0.03
20 15 0.17
21 20 0.22
23 18 0.20
24 31 0.35
25 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (23 bp):
TGCATCGATGCATCCTTTGAATG
Found at i:790001 original size:65 final size:65
Alignment explanation
Indices: 789897--790040 Score: 279
Period size: 65 Copynumber: 2.2 Consensus size: 65
789887 TTTGTGCTTT
*
789897 ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGAATGTGCATCGATTCATCATGTTG
1 ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGAATGTGCATCAATTCATCATGTTG
789962 ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGAATGTGCATCAATTCATCATGTTG
1 ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGAATGTGCATCAATTCATCATGTTG
790027 ATGCACCGATGCAC
1 ATGCACCGATGCAC
790041 GCCTTGAATG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (65 bp):
ATGCACCGATGCACTTAACAATGCATCGATGCATCCCTTTGAATGTGCATCAATTCATCATGTTG
Found at i:795914 original size:17 final size:18
Alignment explanation
Indices: 795892--795925 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
795882 GATTTAAAAT
*
795892 ACAAAATGAAGT-AATTA
1 ACAAAATAAAGTCAATTA
795909 ACAAAATAAAGTCAATT
1 ACAAAATAAAGTCAATT
795926 GATTTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (18 bp):
ACAAAATAAAGTCAATTA
Found at i:796314 original size:30 final size:30
Alignment explanation
Indices: 796280--796473 Score: 114
Period size: 30 Copynumber: 6.5 Consensus size: 30
796270 TAAATGACCT
796280 AAATAGCAAAAATAGAAATCTAAGGGACTA
1 AAATAGCAAAAATAGAAATCTAAGGGACTA
* *
796310 AAATAGCAAAAACA-AAAAC-ATAGGGACTA
1 AAATAGCAAAAATAGAAATCTA-AGGGACTA
* *** **
796339 AAATAG-AAGAAATAAAAAAGAAACAGACTA
1 AAATAGCAA-AAATAGAAATCTAAGGGACTA
* *
796369 AAATAG-ATAAAATAGAAA-CTTAGGGGGCT-
1 AAATAGCA-AAAATAGAAATC-TAAGGGACTA
* * * * * *
796398 AACTAACAAATATAGACATTTAAAGGACTA
1 AAATAGCAAAAATAGAAATCTAAGGGACTA
* * *
796428 AAACATCAAAAATAGAAAGT-TAAAGGACTA
1 AAATAGCAAAAATAGAAA-TCTAAGGGACTA
*
796458 AAATAACAAAAATAGA
1 AAATAGCAAAAATAGA
796474 CATTTAAAGG
Statistics
Matches: 126, Mismatches: 28, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
28 3 0.02
29 40 0.32
30 80 0.63
31 3 0.02
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (30 bp):
AAATAGCAAAAATAGAAATCTAAGGGACTA
Found at i:796481 original size:30 final size:30
Alignment explanation
Indices: 796401--796489 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
796391 GGGGGCTAAC
*
796401 TAACAAATATAGACATTTAAAGGACTAAAA
1 TAACAAAAATAGACATTTAAAGGACTAAAA
* * * *
796431 CATCAAAAATAGAAAGTTAAAGGACTAAAA
1 TAACAAAAATAGACATTTAAAGGACTAAAA
*
796461 TAACAAAAATAGACATTTAAAGGGCTAAA
1 TAACAAAAATAGACATTTAAAGGACTAAA
796490 TAGTAATTAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.20
Consensus pattern (30 bp):
TAACAAAAATAGACATTTAAAGGACTAAAA
Found at i:796973 original size:2 final size:2
Alignment explanation
Indices: 796961--796994 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
796951 AAGAAATGCA
*
796961 AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
796995 CTCTCAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:797995 original size:3 final size:3
Alignment explanation
Indices: 797989--798025 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
797979 AAAATAAAAA
797989 AAT AAT AAT AAT AA- ACAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A
798026 TACAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:797997 original size:21 final size:22
Alignment explanation
Indices: 797955--798042 Score: 63
Period size: 24 Copynumber: 3.8 Consensus size: 22
797945 AGTGGGCCTG
*
797955 TAAAAATTAAACAAAAT-GTAAT-
1 TAAAAA-TAAA-AAAATAATAATA
797977 TAAAAATAAAAAAATAATAATAA
1 TAAAAATAAAAAAATAATAAT-A
* *
798000 TAAACATAATAATAATAATAATAA
1 TAAAAATAA-AAAAATAATAAT-A
*
798024 TATACAATAAATAAAATAA
1 TA-AAAATAAA-AAAATAA
798043 AAAAGATTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.09
21 8 0.15
22 6 0.11
23 8 0.15
24 16 0.30
25 11 0.20
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAAAATAAAAAAATAATAATA
Found at i:798010 original size:15 final size:15
Alignment explanation
Indices: 797981--798025 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
797971 TGTAATTAAA
797981 AATAA-AAAAATAAT
1 AATAATAAAAATAAT
*
797995 AATAATAAACATAAT
1 AATAATAAAAATAAT
*
798010 AATAATAATAATAAT
1 AATAATAAAAATAAT
798025 A
1 A
798026 TACAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAAAATAAT
Found at i:798978 original size:25 final size:20
Alignment explanation
Indices: 798927--798968 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
798917 AATGGATGTG
798927 TTTGTTTTATATTATGTTTA
1 TTTGTTTTATATTATGTTTA
798947 TTTGTTTTATATTATGTTTA
1 TTTGTTTTATATTATGTTTA
798967 TT
1 TT
798969 AAGGTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTGTTTTATATTATGTTTA
Found at i:800016 original size:24 final size:23
Alignment explanation
Indices: 799981--800034 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
799971 CACCAAAGCT
* * *
799981 CGTATAATTGCACTGAAGTACCG
1 CGTAGAATTGCACCGAAGTACCA
*
800004 CGTAGAATATGCACCGAAGTGCCA
1 CGTAGAAT-TGCACCGAAGTACCA
800028 CGTAGAA
1 CGTAGAA
800035 ATGTCCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTACCA
Found at i:800113 original size:23 final size:23
Alignment explanation
Indices: 799995--800115 Score: 77
Period size: 23 Copynumber: 5.3 Consensus size: 23
799985 TAATTGCACT
* *
799995 GAAGTACCGCGTAGAATATG-CACC
1 GAAGGACCACGTAGAA-ATGTC-CC
800019 GAAGTG-CCACGTAGAAATGTCCC
1 GAAG-GACCACGTAGAAATGTCCC
* * * *
800042 -AAAGACCACATAGTATTGTCCC
1 GAAGGACCACGTAGAAATGTCCC
* * * **
800064 GAAGAACCGCCTAGAAATGTCTT
1 GAAGGACCACGTAGAAATGTCCC
* *
800087 GAAGGACCATGTAGAATTGTCCC
1 GAAGGACCACGTAGAAATGTCCC
800110 GAAGGA
1 GAAGGA
800116 TAGCATAGAA
Statistics
Matches: 72, Mismatches: 21, Indels: 9
0.71 0.21 0.09
Matches are distributed among these distances:
21 1 0.01
22 16 0.22
23 41 0.57
24 14 0.19
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (23 bp):
GAAGGACCACGTAGAAATGTCCC
Found at i:801933 original size:22 final size:22
Alignment explanation
Indices: 801914--801970 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
801904 ATAAAAAAGT
801914 AAAATAAAA-ACAACATAAAATA
1 AAAATAAAATA-AACATAAAATA
*
801936 AAAATAAAATAAACATAATAATTG
1 AAAATAAAATAAACATAA-AA-TA
801960 AAAA-AAAATAA
1 AAAATAAAATAA
801971 CAGTGACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 16 0.52
23 10 0.32
24 5 0.16
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAATAAAATAAACATAAAATA
Found at i:801934 original size:16 final size:16
Alignment explanation
Indices: 801908--801953 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
801898 ATAGATATAA
801908 AAAAGTAAAATAAAAAC
1 AAAA-TAAAATAAAAAC
* *
801925 AACATAAAATAAAAAT
1 AAAATAAAATAAAAAC
801941 AAAATAAACATAA
1 AAAATAAA-ATAA
801954 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (16 bp):
AAAATAAAATAAAAAC
Found at i:801972 original size:22 final size:20
Alignment explanation
Indices: 801908--801972 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
801898 ATAGATATAA
*
801908 AAAAGTAAAATAAAAACAACAT
1 AAAA-TAAAA-AAAAATAACAT
801930 AAAATAAAAATAAAATAAACAT
1 AAAATAAAAA-AAAAT-AACAT
*
801952 AATAATTGAAAAAAAATAACA
1 AA-AA-TAAAAAAAAATAACA
801973 GTGACTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 1 0.03
21 9 0.24
22 15 0.41
23 7 0.19
24 5 0.14
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (20 bp):
AAAATAAAAAAAAATAACAT
Found at i:802055 original size:51 final size:50
Alignment explanation
Indices: 801965--802079 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
801955 AATTGAAAAA
* *
801965 AAATAACAGTGACTAAAATATAAGAAAATAAAAGTTAGTAG-TCAAATAAG
1 AAATAACAGTGACGAAAATATAAGAAAATAAAAGATAGTAGAT-AAATAAG
* *
802015 AAATAACTAGTGACGAAAATATAA-AAATTTAAATA-ATAGTAGATAAATCAG
1 AAATAAC-AGTGACGAAAATATAAGAAA-ATAAA-AGATAGTAGATAAATAAG
802066 AAATTAACAGTGAC
1 AAA-TAACAGTGAC
802080 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
50 10 0.18
51 40 0.71
52 6 0.11
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (50 bp):
AAATAACAGTGACGAAAATATAAGAAAATAAAAGATAGTAGATAAATAAG
Found at i:802374 original size:14 final size:14
Alignment explanation
Indices: 802355--802385 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
802345 TTTAAAGCAC
802355 AAACAGATATTGGA
1 AAACAGATATTGGA
802369 AAACAGATATTGGA
1 AAACAGATATTGGA
802383 AAA
1 AAA
802386 ATACGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (14 bp):
AAACAGATATTGGA
Found at i:803268 original size:16 final size:16
Alignment explanation
Indices: 803247--803277 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
803237 TAGTTGGGCC
803247 TCGGGTTGGGTCTTGG
1 TCGGGTTGGGTCTTGG
803263 TCGGGTTGGGTCTTG
1 TCGGGTTGGGTCTTG
803278 TAAACGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.48, T:0.39
Consensus pattern (16 bp):
TCGGGTTGGGTCTTGG
Found at i:803630 original size:91 final size:92
Alignment explanation
Indices: 803499--803675 Score: 275
Period size: 91 Copynumber: 1.9 Consensus size: 92
803489 TTCGTGAATC
*
803499 GAGCAAAGGTTGAACAAGCTCTTCATTATGAATTCTCTACTAGAAATGTTGGTCCCTCAAGTGAG
1 GAGCAAAGGTTGAACAAGCTCTTCATCATGAATTCTCTACTAGAAATGTTGGTCCCTCAAGTGAG
*
803564 GTGTCGCTAATTCGAAATGTCACGATT
66 GCGTCGCTAATTCGAAATGTCACGATT
* * * *
803591 GAGCCAAGGTTGAATAAGTTCTTC-TCATGAATTCTCTACTAGAAATGTTGGTCCCTCGAGTGAG
1 GAGCAAAGGTTGAACAAGCTCTTCATCATGAATTCTCTACTAGAAATGTTGGTCCCTCAAGTGAG
* *
803655 GCGTCTCTGATTCGAAATGTC
66 GCGTCGCTAATTCGAAATGTC
803676 GTGAATCTAG
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 56 0.73
92 21 0.27
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (92 bp):
GAGCAAAGGTTGAACAAGCTCTTCATCATGAATTCTCTACTAGAAATGTTGGTCCCTCAAGTGAG
GCGTCGCTAATTCGAAATGTCACGATT
Found at i:803850 original size:39 final size:39
Alignment explanation
Indices: 803733--804101 Score: 546
Period size: 39 Copynumber: 9.5 Consensus size: 39
803723 GTTTTAAGAA
* *
803733 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
803771 AAACTATCTCAAGTGAGATAAAAATCTTCTGTTTCAAGTG
1 AAACTATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGTG
* *
803811 AAACTATCTCAAGCGAGATAAAATATTATGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
803850 AAACTATCTCAAGCGAGATAAAATATTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
803889 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
803927 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
803965 AAACTATCTCAAGCGAGATAAAGTCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * *
804004 AAACTATTTCAAGCGATATAAAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * *
804043 AAACTATCTCAAGTGAGATAAAATATTTTGTTTCGTGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
804082 AAACTATCTCAAGCGAGATA
1 AAACTATCTCAAGCGAGATA
804102 CTGATCCCTA
Statistics
Matches: 302, Mismatches: 26, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
38 92 0.30
39 174 0.58
40 36 0.12
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:803981 original size:19 final size:19
Alignment explanation
Indices: 803883--803981 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 19
803873 TATTTTGTTT
803883 CGAGTGAAACTATCTCAAG
1 CGAGTGAAACTATCTCAAG
****
803902 CGAGAT-AAATCT-TCTGTTT
1 CGAG-TGAAA-CTATCTCAAG
803921 CGAGTGAAACTATCTCAAG
1 CGAGTGAAACTATCTCAAG
****
803940 CGAGAT-AAATCT-TCTGTTT
1 CGAG-TGAAA-CTATCTCAAG
803959 CGAGTGAAACTATCTCAAG
1 CGAGTGAAACTATCTCAAG
803978 CGAG
1 CGAG
803982 ATAAAGTCTT
Statistics
Matches: 56, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
18 6 0.11
19 44 0.79
20 6 0.11
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (19 bp):
CGAGTGAAACTATCTCAAG
Found at i:805617 original size:55 final size:55
Alignment explanation
Indices: 805446--805769 Score: 409
Period size: 55 Copynumber: 5.9 Consensus size: 55
805436 TACCACAATG
* * * * *
805446 GAAATTCATATACTTATTATGAATTTTTTAGTTTTGCATACAAAGAGCCCATACA
1 GAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
* * *
805501 -AAATTCATAAACTTATTATGAATTTCTTAGCTTTTTGCACACAAAGTACCCATATA
1 GAAATTCATAAACTCATTATGAATTTCTTAG--TTTTGCACACAAAGTGCCCATACA
* * * *
805557 TAAATTCAAAAACTCATTATGAATTTCTTAGTTTTGCACACAAATTTCCCATACA
1 GAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
* * *
805612 GAAATTCATAAACTCATTATGAATTTCTTAGTTTTTCACACAGAGTGTCCATAC-
1 GAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
* * * *
805666 GAAAATTCATAAAATCATTATGAATTTCTTAGTTTTTCACACAAAGTGCCAATACG
1 G-AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
* *
805722 GAAATTCATAAACTCGTTATGAATTTCTTAGTTTTTGCACACACAGTG
1 GAAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTG
805770 TCATTTGGTA
Statistics
Matches: 237, Mismatches: 26, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
54 29 0.12
55 145 0.61
56 35 0.15
57 28 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (55 bp):
GAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
Found at i:806237 original size:22 final size:20
Alignment explanation
Indices: 806185--806262 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
806175 TACATTCTGG
806185 ATCTATGGTATCGATA-TCT
1 ATCTATGGTATCGATACTCT
* *
806204 ATCTCTTAGTATCGATACTTCT
1 ATCT-ATGGTATCGATAC-TCT
*
806226 ATACTATGGTATTGATACTCT
1 AT-CTATGGTATCGATACTCT
**
806247 AT-TACAGTATCGATAC
1 ATCTATGGTATCGATAC
806263 CATTTTTGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 15 0.32
20 10 0.21
21 5 0.11
22 15 0.32
23 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (20 bp):
ATCTATGGTATCGATACTCT
Found at i:806258 original size:94 final size:95
Alignment explanation
Indices: 806117--806296 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 95
806107 CATGGTATCG
* *
806117 AGTATCGATACTTCTACACTGTGGTACCGATATTCCATCTCAATATCGATACCATTTCTACATTC
1 AGTATCGATACTTCTACACTATGGTACCGATACTCCATCTCAATATCGATACCATTTCTACATTC
* *
806182 TG-GATCTATGGTATCGATATCTATCTCTT
66 TGAAATCAATGGTATCGATATCTATCTCTT
* ** * * * *
806211 AGTATCGATACTTCTATACTATGGTATTGATACTCTAT-TACAGTATCGATACCATTTTTGCATT
1 AGTATCGATACTTCTACACTATGGTACCGATACTCCATCT-CAATATCGATACCATTTCTACATT
806275 CTGTAAATCAATGGTATCGATA
65 CTG-AAATCAATGGTATCGATA
806297 CCTTCCTCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 56 0.78
96 15 0.21
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (95 bp):
AGTATCGATACTTCTACACTATGGTACCGATACTCCATCTCAATATCGATACCATTTCTACATTC
TGAAATCAATGGTATCGATATCTATCTCTT
Found at i:806261 original size:19 final size:20
Alignment explanation
Indices: 806210--806262 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
806200 ATCTATCTCT
806210 TAGTATCGATACTTCTATAC
1 TAGTATCGATACTTCTATAC
*
806230 TATGGTATTGATAC-TCTATTAC
1 TA--GTATCGATACTTCTA-TAC
806252 -AGTATCGATAC
1 TAGTATCGATAC
806263 CATTTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 5 0.18
22 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
TAGTATCGATACTTCTATAC
Found at i:812541 original size:55 final size:55
Alignment explanation
Indices: 812466--812733 Score: 394
Period size: 55 Copynumber: 4.9 Consensus size: 55
812456 ACCACTACTG
* * * * *
812466 AAATTTATATACTTATTATGAATTTCTTAGTTTTTCACAAAAAGTGCCCATACGA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* *
812521 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATATGG
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* *
812576 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGAATACAAAGTGCCCATACGA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* * *
812631 AAATTAATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATATGA
1 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
* *
812686 AAATTCA-AAATTCATTATGAATTTCTTAGTTTTTGCACACACAGTGCC
1 AAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCC
812734 ATTTGGTAAT
Statistics
Matches: 194, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
54 21 0.11
55 173 0.89
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (55 bp):
AAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGA
Found at i:816220 original size:55 final size:55
Alignment explanation
Indices: 816135--816407 Score: 413
Period size: 55 Copynumber: 4.9 Consensus size: 55
816125 CTACCACTAC
* * *
816135 GGAAATTCATATACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGTCCATACA
1 GGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA-A
*
816191 -GAAATTCATAAACTTATTATGAATTTCTTAGCTTTTTGCACACAAAGTGCCCATAA
1 GGAAATTCATAAACTCATTATGAATTTCTTAG--TTTTGCACACAAAGTGCCCATAA
*
816247 GGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTTCCCATAA
1 GGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
* * *
816302 GGAAATTTATAAACTCATTATGAATTTCTTGGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
* *
816357 GGAAATTCATAAACTCATTATAAATTTCTTAGTTTTTGCACACACAGTGCC
1 GGAAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCC
816408 ATTTGGTAAT
Statistics
Matches: 201, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
55 132 0.66
56 18 0.09
57 51 0.25
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (55 bp):
GGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
Found at i:825030 original size:17 final size:14
Alignment explanation
Indices: 824996--825032 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
824986 AAATGCATAC
824996 ACATATCATATAAT
1 ACATATCATATAAT
*
825010 ACATATCATA-ATT
1 ACATATCATATAAT
825023 ACATA-CATAT
1 ACATATCATAT
825033 TGAACCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 4 0.19
13 7 0.33
14 10 0.48
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (14 bp):
ACATATCATATAAT
Found at i:825427 original size:40 final size:39
Alignment explanation
Indices: 825383--825461 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 39
825373 AGTACATAGA
825383 GGTTGTGCACAATGTTGTCACCACAGCTCGTATAAATCCC
1 GGTTGTGCACAATGTTGTCACCACAGCTC-TATAAATCCC
825423 GGTTGTGCACAATGTTGTCACCACAGCTCTATAAATCCC
1 GGTTGTGCACAATGTTGTCACCACAGCTCTATAAATCCC
825462 ACTAGGGGCG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 10 0.26
40 29 0.74
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (39 bp):
GGTTGTGCACAATGTTGTCACCACAGCTCTATAAATCCC
Found at i:825510 original size:18 final size:18
Alignment explanation
Indices: 825483--825551 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
825473 GTAGAATTTA
*
825483 TCCCGTAGGACCACTATG
1 TCCCGAAGGACCACTATG
*
825501 TCCCGAAGGACCACTGTG
1 TCCCGAAGGACCACTATG
* *
825519 TCCCGAACGACCAGTATG
1 TCCCGAAGGACCACTATG
*
825537 -CCTTGAAGGACCACT
1 TCC-CGAAGGACCACT
825552 GATAATCCCT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 40 0.95
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.19
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:828540 original size:30 final size:31
Alignment explanation
Indices: 828500--828568 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
828490 AAATTATCTC
828500 TTTA-TTTTTGT-TATAACTTATTAAATAT-T
1 TTTATTTTTTGTCT-TAACTTATTAAATATAT
* *
828529 TTTATTTTTTGTCTTAATTTATTAATTATAT
1 TTTATTTTTTGTCTTAACTTATTAAATATAT
*
828560 TTTGTTTTT
1 TTTATTTTT
828569 ATTTTAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.12
30 20 0.59
31 10 0.29
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (31 bp):
TTTATTTTTTGTCTTAACTTATTAAATATAT
Found at i:828690 original size:31 final size:31
Alignment explanation
Indices: 828652--828715 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
828642 ATATAATTAA
828652 ATATTTTACTATTAATTTAATATAAAAATAT
1 ATATTTTACTATTAATTTAATATAAAAATAT
* * * *
828683 ATATTTTACTATTATTTTTATTTAGAAATAT
1 ATATTTTACTATTAATTTAATATAAAAATAT
828714 AT
1 AT
828716 TATATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
ATATTTTACTATTAATTTAATATAAAAATAT
Found at i:828842 original size:36 final size:35
Alignment explanation
Indices: 828762--828882 Score: 114
Period size: 36 Copynumber: 3.6 Consensus size: 35
828752 AAAATATAGT
828762 TTTAATTTAAAATAAGAAT--AA-A-ATATA-TT-
1 TTTAATTTAAAATAAGAATAAAATATATATATTTA
*
828791 TTTAA-GTAAATATAAGAATAAAATATTATATATTTA
1 TTTAATTTAAA-ATAAGAATAAAATA-TATATATTTA
* *
828827 TTTAATTTAAAATAAGAGTAAAATATATATTTTTA
1 TTTAATTTAAAATAAGAATAAAATATATATATTTA
*
828862 TATTAAATTAATAATAA-AATA
1 T-TTAATTTAA-AATAAGAATA
828883 TTTAAATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
28 4 0.05
29 13 0.17
31 2 0.03
32 1 0.01
34 5 0.07
35 12 0.16
36 29 0.39
37 9 0.12
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (35 bp):
TTTAATTTAAAATAAGAATAAAATATATATATTTA
Found at i:828868 original size:31 final size:31
Alignment explanation
Indices: 828724--828883 Score: 123
Period size: 29 Copynumber: 5.1 Consensus size: 31
828714 ATTATATTTA
* * *
828724 ATATATTTTTAAAAGTTAATATAATAATAAAAT
1 ATATATTTTT-ATA-TTAAAATAAGAATAAAAT
* *
828757 ATA-GTTTTAAT-TTAAAATAAGAAT-AAA-
1 ATATATTTTTATATTAAAATAAGAATAAAAT
*
828784 ATATATTTTTA-AGTAAATATAAGAATAAAAT
1 ATATATTTTTATATTAAA-ATAAGAATAAAAT
* *
828815 ATTATATATTTATTTAATTTAAAATAAGAGTAAAAT
1 A-TATAT-TTT-TAT-A-TTAAAATAAGAATAAAAT
* *
828851 ATATATTTTTATATTAAATTAATAATAAAAT
1 ATATATTTTTATATTAAAATAAGAATAAAAT
828882 AT
1 AT
828884 TTAAATATAT
Statistics
Matches: 101, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
27 3 0.03
28 12 0.12
29 19 0.19
30 3 0.03
31 19 0.19
32 10 0.10
33 8 0.08
34 4 0.04
35 5 0.05
36 14 0.14
37 4 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATATTTTTATATTAAAATAAGAATAAAAT
Found at i:830626 original size:16 final size:17
Alignment explanation
Indices: 830605--830656 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 17
830595 TAAGAAATAC
830605 AAATATTTAAAAT-TTA
1 AAATATTTAAAATATTA
830621 AAATA-TTAAAATATTA
1 AAATATTTAAAATATTA
*
830637 AAA-ATTT-AAATATAA
1 AAATATTTAAAATATTA
830652 AAATA
1 AAATA
830657 CCATTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATTTAAAATATTA
Found at i:830631 original size:8 final size:8
Alignment explanation
Indices: 830605--830656 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
830595 TAAGAAATAC
830605 AAATATTTA
1 AAATA-TTA
830614 AAAT-TTA
1 AAATATTA
830621 AAATATTA
1 AAATATTA
830629 AAATATTA
1 AAATATTA
*
830637 AAA-ATTT
1 AAATATTA
*
830644 AAATATAA
1 AAATATTA
830652 AAATA
1 AAATA
830657 CCATTAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
7 13 0.34
8 21 0.55
9 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAATATTA
Found at i:830647 original size:23 final size:24
Alignment explanation
Indices: 830605--830656 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
830595 TAAGAAATAC
* *
830605 AAATATTTAAAATTTAAAATATTA
1 AAATATTAAAAATTTAAAATATAA
830629 AAATATTAAAAATTT-AAATATAA
1 AAATATTAAAAATTTAAAATATAA
830652 AAATA
1 AAATA
830657 CCATTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATTAAAAATTTAAAATATAA
Found at i:839545 original size:16 final size:14
Alignment explanation
Indices: 839516--839605 Score: 67
Period size: 15 Copynumber: 6.0 Consensus size: 14
839506 GCTTAAACTT
839516 AAAAATTAAAATATA
1 AAAAATT-AAATATA
839531 AAAATATTCAAATATTA
1 AAAA-ATT-AAATA-TA
839548 AAAAATTAAATAT-
1 AAAAATTAAATATA
* *
839561 -AAAATAAAATAAA
1 AAAAATTAAATATA
839574 TAAAAATTAAATTACTA
1 -AAAAATTAAA-TA-TA
*
839591 TACAAATTAAATATA
1 -AAAAATTAAATATA
839606 TATATGTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
12 10 0.16
14 1 0.02
15 19 0.31
16 15 0.24
17 17 0.27
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATATA
Found at i:839575 original size:31 final size:32
Alignment explanation
Indices: 839516--839575 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
839506 GCTTAAACTT
* *
839516 AAAAATTAAAATATAAAAATATTCAAATATTA
1 AAAAATTAAAATATAAAAAAAATCAAATATTA
839548 AAAAATT-AAATATAAAATAAAAT-AAATA
1 AAAAATTAAAATATAAAA-AAAATCAAATA
839576 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAATTAAAATATAAAAAAAATCAAATATTA
Found at i:839597 original size:27 final size:28
Alignment explanation
Indices: 839548--839603 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
839538 TCAAATATTA
839548 AAAAATTAAATATAAAATAAAA-TAAAT
1 AAAAATTAAATATAAAATAAAATTAAAT
**
839575 AAAAATTAAAT-TACTATACAAATTAAAT
1 AAAAATTAAATATAAAATA-AAATTAAAT
839603 A
1 A
839604 TATATATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 14 0.56
28 6 0.24
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAATTAAATATAAAATAAAATTAAAT
Found at i:839609 original size:17 final size:16
Alignment explanation
Indices: 839517--839609 Score: 58
Period size: 17 Copynumber: 6.1 Consensus size: 16
839507 CTTAAACTTA
*
839517 AAAATTAAA-ATATAA
1 AAAATTAAATATATAT
*
839532 AAATATTCAAATAT-TAA
1 AAA-ATT-AAATATATAT
839549 AAAATT--A-A-ATAT
1 AAAATTAAATATATAT
* *
839561 AAAATAAAATAAATA-
1 AAAATTAAATATATAT
839576 AAAATTAAAT-TACTAT
1 AAAATTAAATATA-TAT
839592 ACAAATTAAATATATAT
1 A-AAATTAAATATATAT
839609 A
1 A
839610 TGTTAAGAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
12 8 0.13
13 1 0.02
14 2 0.03
15 15 0.24
16 10 0.16
17 22 0.35
18 4 0.06
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTAAATATATAT
Found at i:839623 original size:24 final size:22
Alignment explanation
Indices: 839594--839656 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
839584 ATTACTATAC
839594 AAATTAAATATATATATGTTAAGA
1 AAATTAAATATATATAT-TTAA-A
* *
839618 ATATTAAAAATATTATTATTTAAA
1 AAATTAAATATA-TA-TATTTAAA
*
839642 AAAATAAATATATAT
1 AAATTAAATATATAT
839657 CATAAGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.03
23 2 0.06
24 20 0.62
25 6 0.19
26 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
AAATTAAATATATATATTTAAA
Found at i:840934 original size:14 final size:16
Alignment explanation
Indices: 840915--840946 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
840905 GTTAATTTTA
840915 TTTTT-ATATTTA-AT
1 TTTTTAATATTTATAT
840929 TTTTTAATATTTATAT
1 TTTTTAATATTTATAT
840945 TT
1 TT
840947 AAAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTAATATTTATAT
Found at i:840955 original size:21 final size:21
Alignment explanation
Indices: 840908--840974 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
840898 ACTAATAGTT
* * *
840908 AATTTTATTTTTATATTTAAT
1 AATTTAATATTTATATTTAAA
**
840929 TTTTTAATATTTATATTTAAA
1 AATTTAATATTTATATTTAAA
*
840950 AATTTAAAATATTTGTATTTAAA
1 AATTT--AATATTTATATTTAAA
840973 AA
1 AA
840975 CCAAATAAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
21 19 0.53
23 17 0.47
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
AATTTAATATTTATATTTAAA
Found at i:843602 original size:20 final size:20
Alignment explanation
Indices: 843573--843611 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
843563 ATTTCACCAC
*
843573 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
843593 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
843612 TATGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:853369 original size:35 final size:35
Alignment explanation
Indices: 853323--853392 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
853313 TAGATATTAC
853323 ATTGTACTTATCCCAGATTAATAAAATAAAAACCT
1 ATTGTACTTATCCCAGATTAATAAAATAAAAACCT
853358 ATTGTACTTATCCCAGATTAATAAAATAAAAACCT
1 ATTGTACTTATCCCAGATTAATAAAATAAAAACCT
853393 TTGGGTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (35 bp):
ATTGTACTTATCCCAGATTAATAAAATAAAAACCT
Found at i:855590 original size:4 final size:4
Alignment explanation
Indices: 855581--855638 Score: 55
Period size: 4 Copynumber: 14.0 Consensus size: 4
855571 ATGTTAGAAG
* * *
855581 AAAT AAAT AAAT AAAT AAA- ATACT AAAT AAGT CAAAT GAAAT GAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT -AAAT AAAT AAAT
855631 AAAT AAAT
1 AAAT AAAT
855639 TAATCAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
3 1 0.02
4 35 0.80
5 8 0.18
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:858101 original size:92 final size:92
Alignment explanation
Indices: 857850--858105 Score: 460
Period size: 91 Copynumber: 2.8 Consensus size: 92
857840 TAGAGCTGGA
**
857850 AAATTGTTTATTGACAAACCAGCGGTCCTTCGTCACGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTG-TTATTGAC-AACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
857915 ATATCCTTCGTTGTGAAGTTGAAATTGGG
64 ATATCCTTCGTTGTGAAGTTGAAATTGGG
*
857944 AAA-TGTTATTGACAACCAGCGGTCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1 AAATTGTTATTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
858008 ATCCTTCGTTGTGAAGTTGAAATTGGG
66 ATCCTTCGTTGTGAAGTTGAAATTGGG
858035 AAATTGTTATTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1 AAATTGTTATTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
858100 ATCCTT
66 ATCCTT
858106 TGTCTGGAGT
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
91 78 0.50
92 74 0.47
93 2 0.01
94 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (92 bp):
AAATTGTTATTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
ATCCTTCGTTGTGAAGTTGAAATTGGG
Found at i:858110 original size:21 final size:21
Alignment explanation
Indices: 858084--858126 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
858074 TGAACTTGCG
858084 TTGTCTGGAGTCCAATATCCT
1 TTGTCTGGAGTCCAATATCCT
858105 TTGTCTGGAGTCCAATATCCT
1 TTGTCTGGAGTCCAATATCCT
858126 T
1 T
858127 CGTTGTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TTGTCTGGAGTCCAATATCCT
Found at i:858230 original size:207 final size:206
Alignment explanation
Indices: 857901--858614 Score: 949
Period size: 186 Copynumber: 3.6 Consensus size: 206
857891 TGAACTTGCG
857901 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGTTATTGACAACCAGCGG
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGTTATTGACAACCAGCGG
857966 TCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
66 TCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
858031 TGGGAAATTG-TTATTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
131 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
858094 TCCAATATCCT
196 TCCAATATCCT
858105 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAA-TG-TTATTGACAACCAGC
858170 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
64 GGTCCC-TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
858235 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
128 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
858300 GAGTCCAATATCCT
193 GAGTCCAATATCCT
* * *
858314 TCGT-T---GT--GA-A------G-T-TGAAATTGGGAAATT--G---T-TTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT--GAAATTGGGAAATGTTATTGACAACCAGC
*
858358 GGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGAA
64 GGTCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
858422 ATTGGGAAATTGTATATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
129 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
858487 AGTCCAATATCCT
194 AGTCCAATATCCT
* * * * *
858500 TCGT-T---GT--GA-A------G-T-TGAAATTG-----GGAAATTGTATATTGACAACCAGCG
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGT-TATTGACAACCAGCG
* *
858545 GTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAA
65 GTCCC-TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
858610 ATTGG
129 ATTGG
858615 CTCTGGGTAA
Statistics
Matches: 485, Mismatches: 9, Indels: 48
0.89 0.02 0.09
Matches are distributed among these distances:
184 2 0.00
185 1 0.00
186 138 0.28
187 69 0.14
188 47 0.10
190 1 0.00
194 7 0.01
195 1 0.00
196 7 0.01
202 1 0.00
203 1 0.00
204 46 0.09
205 4 0.01
206 21 0.04
207 71 0.15
208 19 0.04
209 49 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (206 bp):
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGTTATTGACAACCAGCGG
TCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
TCCAATATCCT
Found at i:858266 original size:94 final size:94
Alignment explanation
Indices: 858105--858614 Score: 970
Period size: 94 Copynumber: 5.4 Consensus size: 94
858095 CCAATATCCT
858105 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858170 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
858199 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858264 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
858293 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858358 GGT-CCTTCGTCGTGAAGTTGAACTTGCG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
858386 TTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTATATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858450 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
858479 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTATATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
*
858544 GGTCCCTTCGTCGTGAAGTTGAACTTGCA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
858573 TTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGG
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
858615 CTCTGGGTAA
Statistics
Matches: 411, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 53 0.13
93 76 0.18
94 282 0.69
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCG
Found at i:858469 original size:186 final size:188
Alignment explanation
Indices: 858105--858614 Score: 970
Period size: 186 Copynumber: 2.7 Consensus size: 188
858095 CCAATATCCT
858105 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858170 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
*
858235 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
131 AATTGGGAAATTGTATATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
858293 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
858358 GGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
858421 AATTGGGAAATTGTATATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
131 AATTGGGAAATTGTATATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
858479 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTATATTGACAACCAGC
1 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
* *
858544 GGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGA
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
858609 AATTGG
131 AATTGG
858615 CTCTGGGTAA
Statistics
Matches: 316, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
186 146 0.46
187 75 0.24
188 95 0.30
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (188 bp):
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
AATTGGGAAATTGTATATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
Found at i:859403 original size:9 final size:9
Alignment explanation
Indices: 859378--859423 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
859368 TATTTTCTTT
859378 TCTTTTTTC
1 TCTTTTTTC
859387 TCTCTTTTTC
1 TCT-TTTTTC
859397 TCTTTTTTC
1 TCTTTTTTC
859406 TCTTTTTTC
1 TCTTTTTTC
*
859415 TATTTTTTC
1 TCTTTTTTC
859424 CAATTTAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
9 26 0.74
10 9 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:866596 original size:17 final size:18
Alignment explanation
Indices: 866576--866609 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
866566 AAACATGGAG
866576 AATATAAAATA-AAAACA
1 AATATAAAATATAAAACA
*
866593 AATATGAAATATAAAAC
1 AATATAAAATATAAAAC
866610 GTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (18 bp):
AATATAAAATATAAAACA
Found at i:869869 original size:4 final size:4
Alignment explanation
Indices: 869805--869834 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
869795 AAAATGTTAG
869805 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
869835 ATACTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:877905 original size:16 final size:16
Alignment explanation
Indices: 877884--877916 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
877874 TGTATGTATC
877884 TGTGTGTGGATATATG
1 TGTGTGTGGATATATG
877900 TGTGTGTGGATATATG
1 TGTGTGTGGATATATG
877916 T
1 T
877917 ATGCGTGTGA
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:0.00, G:0.36, T:0.45
Consensus pattern (16 bp):
TGTGTGTGGATATATG
Found at i:877924 original size:20 final size:19
Alignment explanation
Indices: 877876--877925 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 19
877866 GTATTGCATG
877876 TATGTATCTGTGTGTGGATA
1 TATGTATC-GTGTGTGGATA
877896 TATG--T-GTGTGTGGATA
1 TATGTATCGTGTGTGGATA
877912 TATGTATGCGTGTG
1 TATGTAT-CGTGTG
877926 AACATTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 15 0.58
18 2 0.08
20 9 0.35
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.44
Consensus pattern (19 bp):
TATGTATCGTGTGTGGATA
Found at i:879069 original size:3 final size:3
Alignment explanation
Indices: 879061--879116 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
879051 TTTGACCTTT
879061 TTA TTA TTA TT- TTAA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
879105 TTA TTA TTA TTA
1 TTA TTA TTA TTA
879117 CATGCCCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:881985 original size:16 final size:15
Alignment explanation
Indices: 881938--881993 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
881928 TAGTTGGACT
881938 GAAAATAACCTGAACC
1 GAAAATAACCT-AACC
** *
881954 GAAAGCAACCCAAACC
1 GAAAATAA-CCTAACC
881970 GAAAATAACTCTAACC
1 GAAAATAAC-CTAACC
881986 GAAAATAA
1 GAAAATAA
881994 TCCGAATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.91
17 2 0.06
ACGTcount: A:0.54, C:0.25, G:0.11, T:0.11
Consensus pattern (15 bp):
GAAAATAACCTAACC
Found at i:883012 original size:21 final size:21
Alignment explanation
Indices: 882988--883028 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
882978 GATTGCTGCC
882988 AGGGTACCGATACCCTGCTAT
1 AGGGTACCGATACCCTGCTAT
883009 AGGGTACCGATACCCTGCTA
1 AGGGTACCGATACCCTGCTA
883029 CAGTACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (21 bp):
AGGGTACCGATACCCTGCTAT
Found at i:888015 original size:18 final size:19
Alignment explanation
Indices: 887978--888015 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
887968 CATTCATGGG
*
887978 GTATCGATACCTGGAGGGTA
1 GTATCGATACC-GAAGGGTA
887998 GTATCGATACC-AAGGGTA
1 GTATCGATACCGAAGGGTA
888016 CCGATACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (19 bp):
GTATCGATACCGAAGGGTA
Found at i:888782 original size:21 final size:21
Alignment explanation
Indices: 888758--888815 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
888748 ATCCTTAAGG
*
888758 AGTGGTCCTTTGGGACATCTA
1 AGTGGTCCTTTGGGACATATA
* *
888779 AGTGGTCCTTAGGGATATATA
1 AGTGGTCCTTTGGGACATATA
*
888800 TGTGTGTCCTTTGGGA
1 AGTG-GTCCTTTGGGA
888816 TAAGTTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.36
Consensus pattern (21 bp):
AGTGGTCCTTTGGGACATATA
Found at i:895314 original size:21 final size:21
Alignment explanation
Indices: 895290--895335 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
895280 CTTTCAGGAT
* *
895290 ATATATGTAATCCTTTGGAAC
1 ATATATGCAATCCTTTAGAAC
* *
895311 ATATATGCAGTTCTTTAGAAC
1 ATATATGCAATCCTTTAGAAC
895332 ATAT
1 ATAT
895336 TTTTTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATATGCAATCCTTTAGAAC
Found at i:900469 original size:23 final size:23
Alignment explanation
Indices: 900422--900469 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
900412 AAAATTTCAG
* * **
900422 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTCAAGATCGAAATT
900445 GAGCTCGATTCAAGATCGAAATT
1 GAGCTCGATTCAAGATCGAAATT
900468 GA
1 GA
900470 TTCAAGCTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (23 bp):
GAGCTCGATTCAAGATCGAAATT
Found at i:904656 original size:15 final size:15
Alignment explanation
Indices: 904633--904670 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
904623 AATATAGCAT
904633 GACCCGAAATGACTC
1 GACCCGAAATGACTC
* *
904648 GATCCGAAATGATTC
1 GACCCGAAATGACTC
904663 GACCCGAA
1 GACCCGAA
904671 CTTGATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (15 bp):
GACCCGAAATGACTC
Found at i:905771 original size:19 final size:19
Alignment explanation
Indices: 905714--905771 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
905704 TGTATTATTT
*
905714 TTAAAATTTTAATAAAAATA
1 TTAAATTTTTAATAAAAA-A
* **
905734 TTAAATTTATAATTGAAAA
1 TTAAATTTTTAATAAAAAA
905753 -TAAATTTTTTAATAAAAAA
1 TTAAA-TTTTTAATAAAAAA
905772 AAGTATTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TTAAATTTTTAATAAAAAA
Found at i:908664 original size:21 final size:20
Alignment explanation
Indices: 908639--908677 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
908629 TAAGGCATTA
908639 AACATCATAAACAAAACAAAC
1 AACATCATAAA-AAAACAAAC
*
908660 AACATCATACAAAAACAA
1 AACATCATAAAAAAACAA
908678 CCATCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (20 bp):
AACATCATAAAAAAACAAAC
Found at i:916280 original size:16 final size:16
Alignment explanation
Indices: 916261--916312 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
916251 TATACAATTT
916261 ACATATTCATATAATC
1 ACATATTCATATAATC
*
916277 ACATAGTTCA-AT-TTC
1 ACATA-TTCATATAATC
**
916292 ACATAGACATATAATC
1 ACATATTCATATAATC
916308 ACATA
1 ACATA
916313 GATCATGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 14 0.48
17 4 0.14
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (16 bp):
ACATATTCATATAATC
Found at i:916303 original size:31 final size:30
Alignment explanation
Indices: 916255--916313 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
916245 ACCATTTATA
**
916255 CAATTTACATATTCATATAATCACATAGTT
1 CAATTTACATAGACATATAATCACATAGTT
916285 CAATTTCACATAGACATATAATCACATAG
1 CAATTT-ACATAGACATATAATCACATAG
916314 ATCATGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (30 bp):
CAATTTACATAGACATATAATCACATAGTT
Found at i:916313 original size:16 final size:16
Alignment explanation
Indices: 916268--916329 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
916258 TTTACATATT
*
916268 CATATAATCACATAGTT
1 CATATAATCACATAG-A
*
916285 CA-AT-TTCACATAGA
1 CATATAATCACATAGA
916299 CATATAATCACATAGA
1 CATATAATCACATAGA
*
916315 TCATGTAAT-ACATAG
1 -CATATAATCACATAG
916330 GGTGACATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 17 0.45
17 9 0.24
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (16 bp):
CATATAATCACATAGA
Found at i:925547 original size:44 final size:44
Alignment explanation
Indices: 925408--925565 Score: 169
Period size: 45 Copynumber: 3.5 Consensus size: 44
925398 CCAAGGATTT
* *
925408 GATTATTGTGTTGCGGAAATTAAAATCAAAGGATTAGTTCCTTTC
1 GATTATTG-GTTGTGAAAATTAAAATCAAAGGATTAGTTCCTTTC
*
925453 AATTATTGGATTGAT-AAAATTAAAATCAAAGGATTAGTTCCTTTC
1 GATTATTGG-TTG-TGAAAATTAAAATCAAAGGATTAGTTCCTTTC
* * *
925498 CATTATTGAGTTGTGAAAAAT-AAATCAAAGGATTAATTCCTTGT-
1 GATTATTG-GTTGTGAAAATTAAAATCAAAGGATTAGTTCCTT-TC
**
925542 GATTATTGGGTTGCAAAAATTAAA
1 GATTATT-GGTTGTGAAAATTAAA
925566 GTATTAATTT
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
44 37 0.39
45 58 0.60
46 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (44 bp):
GATTATTGGTTGTGAAAATTAAAATCAAAGGATTAGTTCCTTTC
Found at i:925938 original size:58 final size:57
Alignment explanation
Indices: 925784--926234 Score: 462
Period size: 58 Copynumber: 7.8 Consensus size: 57
925774 CTTAAGAATA
* * *
925784 TTGTAAGTAAAATAAATAGTTTG-ATTTATTTCCTTGAGAATCTTAAATGATTCTAACT
1 TTGTAAG-AAAATAAATTG-TTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
* * ** * * * *
925842 TTGTATG-GAATAAATAATTGAATTTATTTCCTTCAAAATCTTGAACGATTCTAACT
1 TTGTAAGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
* * * *
925898 TTGTAACGAAAATAAATAGTTGAATTTATTTTCTTGAAAATCTTAAATGATTTTAACT
1 TTGTAA-GAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
* *
925956 TTGTCACGAAAATAAATTGTTGAATTTGTTTTCTTGAGAATCTTGAATGATTCTAACT
1 TTGT-AAGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
** **
926014 TCATAAGAAAAATAAATTGTCCAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
1 TTGTAAG-AAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
** * * * *
926072 TCATAAGAAAAATAAATTGTCT-AATTTATTTTCTTGAGAATCATGGATTATTCTATCT
1 TTGTAAG-AAAATAAATTGT-TGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
* * * * *
926130 TT-TAAAAGAAATCAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCT-ATT
1 TTGTAAGA-AAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
* **
926186 TTGTTAAAGAAAATAAATTGTTAAATTTATTTTCTCAAGAATCTTGAAT
1 TTG-T-AAGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAAT
926235 AAAGAAATAA
Statistics
Matches: 336, Mismatches: 46, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
55 3 0.01
56 49 0.15
57 44 0.13
58 236 0.70
59 4 0.01
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (57 bp):
TTGTAAGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTGAATGATTCTAACT
Found at i:926258 original size:43 final size:44
Alignment explanation
Indices: 926190--926273 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
926180 TCTATTTTGT
*
926190 TAAAGAAAATAAATTGTTAAATTTATTTTCTCAAGAATCTTGAA
1 TAAAGAAAATAAATTGATAAATTTATTTTCTCAAGAATCTTGAA
* * * *
926234 TAAAG-AAATAAATTGATGATTTTATTTTCTTATGAATCTT
1 TAAAGAAAATAAATTGATAAATTTATTTTCTCAAGAATCTT
926274 TAATGATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 30 0.86
44 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (44 bp):
TAAAGAAAATAAATTGATAAATTTATTTTCTCAAGAATCTTGAA
Found at i:926314 original size:101 final size:101
Alignment explanation
Indices: 926134--926319 Score: 232
Period size: 101 Copynumber: 1.8 Consensus size: 101
926124 CTATCTTTTA
* * * *
926134 AAAGAAATCAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTTGTTAAAGAAAA
1 AAAGAAATAAATTGATAAATTTATTTTCTTGAGAATCTTAAATGATTATATTTTGTAAAAGAAAA
* *
926199 TAAATTGTTAAATTTATTTTCTCAAGAATCTTGAAT
66 TAAATCGTCAAATTTATTTTCTCAAGAATCTTGAAT
* * * * *
926235 AAAGAAATAAATTGATGATTTTATTTTCTT-ATGAATCTTTAATGATTATGTCTTT-TAAAAGGA
1 AAAGAAATAAATTGATAAATTTATTTTCTTGA-GAATCTTAAATGATTATAT-TTTGTAAAAGAA
*
926298 AATAAATCGTCGAATTTATTTT
64 AATAAATCGTCAAATTTATTTT
926320 TTGATTTGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
100 1 0.01
101 67 0.94
102 3 0.04
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (101 bp):
AAAGAAATAAATTGATAAATTTATTTTCTTGAGAATCTTAAATGATTATATTTTGTAAAAGAAAA
TAAATCGTCAAATTTATTTTCTCAAGAATCTTGAAT
Found at i:926341 original size:38 final size:39
Alignment explanation
Indices: 926290--926475 Score: 216
Period size: 39 Copynumber: 4.8 Consensus size: 39
926280 TTATGTCTTT
*
926290 TAAAAGGAAATAAATCGTCGAATTTATTTT-TTGATTTG
1 TAAAAGGAAATAAATCGTTGAATTTATTTTCTTGATTTG
* * * *
926328 TAAAAGGAAATAAATTGTTGGATTT-TATT-TAGTATTTTG
1 TAAAAGGAAATAAATCGTTGAATTTATTTTCTTG-A-TTTG
* ** * *
926367 GAAAAGGAAATAAATTATTGAATTTATTTTCTTGGTTTA
1 TAAAAGGAAATAAATCGTTGAATTTATTTTCTTGATTTG
* *
926406 TAAAAGTAAATAAATCGTTGAATTTATTTTCTTGTTTTG
1 TAAAAGGAAATAAATCGTTGAATTTATTTTCTTGATTTG
*
926445 TAAAAGGAAATAAATCGTTCAATTTATTTTC
1 TAAAAGGAAATAAATCGTTGAATTTATTTTC
926476 CAATGAGTCT
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
37 5 0.04
38 23 0.19
39 91 0.73
40 3 0.02
41 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (39 bp):
TAAAAGGAAATAAATCGTTGAATTTATTTTCTTGATTTG
Found at i:926625 original size:39 final size:37
Alignment explanation
Indices: 926509--926644 Score: 107
Period size: 39 Copynumber: 3.6 Consensus size: 37
926499 TATGTAAAGG
* *
926509 GAAATAAATCGTTTGATTAATTTTCCTATTTTGTAAAAA
1 GAAATAAATCGTTGGATTTATTTTCCTA-TTT-TAAAAA
** * ** *
926548 GAAATAACCCGTTGGACTTATTTTCCCGTTTT---AG
1 GAAATAAATCGTTGGATTTATTTTCCTATTTTAAAAA
*
926582 GAAATAAATTGTTGGATTTATTTTCCTATTTCATAAAAA
1 GAAATAAATCGTTGGATTTATTTTCCTATTT--TAAAAA
* * *
926621 GAAATAAATCATTGAATTAATTTT
1 GAAATAAATCGTTGGATTTATTTT
926645 TTTGGAATCT
Statistics
Matches: 73, Mismatches: 19, Indels: 10
0.72 0.19 0.10
Matches are distributed among these distances:
34 26 0.36
36 1 0.01
37 1 0.01
38 3 0.04
39 42 0.58
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (37 bp):
GAAATAAATCGTTGGATTTATTTTCCTATTTTAAAAA
Found at i:926644 original size:73 final size:73
Alignment explanation
Indices: 926508--926644 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
926498 ATATGTAAAG
* ** * * *
926508 GGAAATAAATCGTTTGATTAATTTTCCTATTTTGTAAAAAGAAATAACCCGTTGGACTTATTTTC
1 GGAAATAAATCGTTGGATTAATTTTCCTATTTCATAAAAAGAAATAAACCATTGGAATTATTTTC
926573 CCGTTTTA
66 CCGTTTTA
* * *
926581 GGAAATAAATTGTTGGATTTATTTTCCTATTTCATAAAAAGAAATAAATCATT-GAATTAATTTT
1 GGAAATAAATCGTTGGATTAATTTTCCTATTTCATAAAAAGAAATAAACCATTGGAATT-ATTTT
926645 TTTGGAATCT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 4 0.07
73 50 0.93
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (73 bp):
GGAAATAAATCGTTGGATTAATTTTCCTATTTCATAAAAAGAAATAAACCATTGGAATTATTTTC
CCGTTTTA
Found at i:929315 original size:2 final size:2
Alignment explanation
Indices: 929310--929666 Score: 140
Period size: 2 Copynumber: 188.0 Consensus size: 2
929300 GGTTCTTTTT
* * *
929310 TA TA TA -A TA TA CA -A TA TA T- TC TA TA TA T- TA T- TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
929347 T- TG TA TA T- TA TA GTA TT TA TA TA GTA TA TGA TA AA TA TGA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA T-A TA
* *
929389 TA GTC T- TA TA TA T- TA TA GTA T- TA TA TA TA T- TA TA GTA TT
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
*
929428 TA TA TA GTA TA TGA TA TA TA TA -A TA TA GTC T- TA TA TA T- TA
1 TA TA TA -TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
929468 TA TA GTA TA GTA T- TC TA TA T- TA TA T- TA TA -A TA TA TA T- TA
1 TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
929507 TA TA T- TA TA TA T- TA TA GTA TA TA TC TA T- TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
929546 T- TA TA TA GTA T- TA TA TA T- TA TA GTG TA TA TT TA TA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
929586 TA GCA TA TT TA T- TA T- TA TA TA T- TA TA TA GT- TA TA TA T- TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
929625 TA TA TA T- TA TG TA T- TA T- TA TA TT TA GTA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
929663 TA TA
1 TA TA
929667 ATTACATTTT
Statistics
Matches: 273, Mismatches: 27, Indels: 110
0.67 0.07 0.27
Matches are distributed among these distances:
1 37 0.14
2 205 0.75
3 31 0.11
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (2 bp):
TA
Found at i:929405 original size:5 final size:5
Alignment explanation
Indices: 929397--929760 Score: 118
Period size: 5 Copynumber: 68.4 Consensus size: 5
929387 TATAGTCTTA
* * *
929397 TATAT TATAG TATTAT ATATAT TATAG TAT-T TATAT AGTATAT GATAT
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT --TATAT TATAT
* *
929445 ATATAA TATAGT CT-TA- TATAT TATAT AGTATAG TAT-T CTATAT TATAT
1 -TATAT TATA-T -TATAT TATAT TATAT --TATAT TATAT -TATAT TATAT
929493 TATAAT ATATAT TATA- TAT-T ATATAT TATAGT ATATAT CTATTAT TATA-
1 TAT-AT -TATAT TATAT TATAT -TATAT TATA-T -TATAT -TA-TAT TATAT
*
929542 TATAT TATA- TAGTATT ATATAT TATAGT GTATATT TATAT TATAT AGCATAT
1 TATAT TATAT TA-TA-T -TATAT TATA-T -TATA-T TATAT TATAT --TATAT
*
929594 T-TAT TAT-T ATATAT TATA- TAGT-T ATATAT TATA- TATAT TAT-G
1 TATAT TATAT -TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT
* *
929636 TATTAT TATAT T-TAG TAT-T ATATAT TATA- TA-AT TACATTT TATAT
1 TA-TAT TATAT TATAT TATAT -TATAT TATAT TATAT T--ATAT TATAT
* *
929681 T-TAT TATAT ACTAGTAT TATAT TATAA TATTAT TATGT TATAT TATTAT
1 TATAT TATAT --TA-TAT TATAT TATAT TA-TAT TATAT TATAT TA-TAT
*
929730 TATTAT TATTAT TATTAT TATTAT TTTAT TA
1 TA-TAT TA-TAT TA-TAT TA-TAT TATAT TA
929761 ATTTTTATTT
Statistics
Matches: 279, Mismatches: 26, Indels: 108
0.68 0.06 0.26
Matches are distributed among these distances:
3 2 0.01
4 37 0.13
5 128 0.46
6 70 0.25
7 37 0.13
8 5 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:929540 original size:3 final size:3
Alignment explanation
Indices: 929485--929760 Score: 104
Period size: 3 Copynumber: 90.7 Consensus size: 3
929475 TAGTATTCTA
* *
929485 TAT TA- TAT TA- TAA TAT ATAT TAT ATAT TAT ATAT TA- TAG TAT ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT -TAT TAT TAT TAT -TAT
*
929531 CTAT TAT TA- TAT ATAT TAT ATAG TAT TAT ATAT TA- TAGT GTA- TAT
1 -TAT TAT TAT TAT -TAT TAT -TAT TAT TAT -TAT TAT TA-T -TAT TAT
* *
929576 T-T ATAT TAT ATAG CA- TAT TTAT TAT TAT ATAT TAT ATAGT TAT ATAT
1 TAT -TAT TAT -TAT TAT TAT -TAT TAT TAT -TAT TAT -TA-T TAT -TAT
* *
929623 TA- TAT ATAT TAT GTAT TAT TA- TATT TAG TAT TAT ATAT TA- TAT AAT
1 TAT TAT -TAT TAT -TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT
* * * *
929669 TA- CAT T-T TA- TATT TAT TAT ATAC TAG TAT TA- TAT TA- TAA TAT
1 TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
*
929711 TAT TA- TGT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
929756 TAT TA
1 TAT TA
929761 ATTTTTATTT
Statistics
Matches: 212, Mismatches: 20, Indels: 82
0.68 0.06 0.26
Matches are distributed among these distances:
2 34 0.16
3 121 0.57
4 54 0.25
5 3 0.01
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:929629 original size:7 final size:7
Alignment explanation
Indices: 929323--929753 Score: 248
Period size: 7 Copynumber: 59.3 Consensus size: 7
929313 ATAATATACA
929323 ATATATT
1 ATATATT
*
929330 CTATA-T
1 ATATATT
929336 AT-TATT
1 ATATATT
*
929342 TTATATT
1 ATATATT
*
929349 GTATATT
1 ATATATT
929356 ATAGTATTT
1 ATA-TA-TT
*
929365 ATATAGT
1 ATATATT
929372 ATATGA-T
1 ATAT-ATT
*
929379 AAATATGAT
1 ATATAT--T
*
929388 ATAGTCTT
1 ATA-TATT
929396 ATATATT
1 ATATATT
929403 ATAGTATTAT
1 ATA-TA-T-T
929413 ATATATT
1 ATATATT
929420 ATAGTATTT
1 ATA-TA-TT
*
929429 ATATAGT
1 ATATATT
929436 ATATGATAT
1 ATAT-AT-T
*
929445 ATATAAT
1 ATATATT
*
929452 ATAGTCTT
1 ATA-TATT
929460 ATATATT
1 ATATATT
*
929467 ATATAGT
1 ATATATT
929474 ATAGTATT
1 ATA-TATT
*
929482 CTATATT
1 ATATATT
929489 ATATTATAAT
1 ATA-TAT--T
929499 ATATATT
1 ATATATT
929506 ATATATT
1 ATATATT
929513 ATATATT
1 ATATATT
929520 ATAGTATAT
1 ATA-TAT-T
*
929529 ATCTATT
1 ATATATT
929536 AT-TA-T
1 ATATATT
929541 ATATATT
1 ATATATT
*
929548 ATATAGT
1 ATATATT
929555 AT-TATAT
1 ATATAT-T
*
929562 ATTATAGT
1 A-TATATT
*
929570 GTATATT
1 ATATATT
929577 -TATATT
1 ATATATT
**
929583 ATATAGC
1 ATATATT
929590 ATAT-TT
1 ATATATT
929596 AT-TATT
1 ATATATT
929602 ATATATT
1 ATATATT
929609 ATATAGTT
1 ATATA-TT
929617 ATATATTAT
1 ATATA-T-T
929626 ATATATT
1 ATATATT
*
929633 ATGTATT
1 ATATATT
929640 ATTATATT
1 A-TATATT
929648 -TAGTATT
1 ATA-TATT
929655 ATATATT
1 ATATATT
929662 ATATAATT
1 ATAT-ATT
* *
929670 ACATTTT
1 ATATATT
929677 ATAT-TT
1 ATATATT
929683 AT-TA-T
1 ATATATT
*
929688 ATACTAGT
1 ATA-TATT
929696 ATTATATT
1 A-TATATT
929704 ATAATATT
1 AT-ATATT
*
929712 ATTATGTT
1 A-TATATT
929720 ATATTATT
1 ATA-TATT
929728 AT-TATT
1 ATATATT
929734 AT-TATT
1 ATATATT
929740 AT-TATT
1 ATATATT
929746 AT-TATT
1 ATATATT
929752 AT
1 AT
929754 TTTATTAATT
Statistics
Matches: 340, Mismatches: 39, Indels: 91
0.72 0.08 0.19
Matches are distributed among these distances:
5 10 0.03
6 53 0.16
7 146 0.43
8 83 0.24
9 38 0.11
10 10 0.03
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (7 bp):
ATATATT
Found at i:929700 original size:22 final size:21
Alignment explanation
Indices: 929323--929753 Score: 229
Period size: 22 Copynumber: 19.9 Consensus size: 21
929313 ATAATATACA
*
929323 ATATATTCTATA-TATTAT-T
1 ATATATTATATATTATTATAT
* * *
929342 TTATATTGTATATTATAGTATTT
1 ATATATTATATATTAT--TATAT
* * *
929365 ATATAGTATATGATAAATATGAT
1 ATATATTATAT-ATTATTAT-AT
*
929388 ATAGTCTTATATATTATAGTATTAT
1 ATA-TATTATATATTAT--TA-TAT
929413 ATATATTATAGTA-T-TTATAT
1 ATATATTATA-TATTATTATAT
*
929433 AGTATATGATATA-TA-TA-AT
1 A-TATATTATATATTATTATAT
*
929452 ATAGTCTTATATATTA-TATAGT
1 ATA-TATTATATATTATTATA-T
*
929474 ATAGTATTCTATATTATATTATAAT
1 ATA-TATTATATA-T-TATTAT-AT
929499 ATATATTATATATTA-TATAT
1 ATATATTATATATTATTATAT
*
929519 -TATAGTATATATCTATTATTAT
1 ATATATTATATAT-TATTA-TAT
*
929541 ATATATTATATAGTATTATAT
1 ATATATTATATATTATTATAT
929562 ATTATAGTGTATAT-TTA-TAT-T
1 A-TATA-T-TATATATTATTATAT
**
929583 ATATAGCATAT-TTATTAT-T
1 ATATATTATATATTATTATAT
929602 ATATATTATATAGTTATATATTAT
1 ATATATTATATA-TTAT-TA-TAT
*
929626 ATATATTATGTATTATTATAT
1 ATATATTATATATTATTATAT
*
929647 TTAGTATTATATATTA-TATA-
1 ATA-TATTATATATTATTATAT
* *
929667 ATTACATTTTATATTTATTATAT
1 A-TATATTATATA-TTATTATAT
929690 ACTAGTATTATATTATAATATTATTAT
1 A-TA-TATTATA-TAT--TATTA-TAT
*
929717 GTTATATTAT-TATTATTAT-T
1 -ATATATTATATATTATTATAT
929737 AT-TATTAT-TATTATTAT
1 ATATATTATATATTATTAT
929754 TTTATTAATT
Statistics
Matches: 329, Mismatches: 38, Indels: 91
0.72 0.08 0.20
Matches are distributed among these distances:
18 24 0.07
19 45 0.14
20 32 0.10
21 41 0.12
22 59 0.18
23 40 0.12
24 52 0.16
25 18 0.05
26 13 0.04
27 5 0.02
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
ATATATTATATATTATTATAT
Found at i:929727 original size:29 final size:27
Alignment explanation
Indices: 929498--929759 Score: 135
Period size: 29 Copynumber: 9.5 Consensus size: 27
929488 TATATTATAA
929498 TATATATTATATATTATATATTA-TAGTAT
1 TATATATTAT-TATT-TATATTATTA-TAT
* *
929527 ATATCTATTATTATATATATTATATAGTAT
1 -TATATATTATTATTTATATTAT-TA-TAT
*
929557 TATATATTA-TAGTGTATA-T-TTATAT
1 TATATATTATTA-TTTATATTATTATAT
**
929582 TATATAGCA-TATTTATTATTA-TATAT
1 TATATATTATTATTTA-TATTATTATAT
*
929608 TATATAGTTA-TATATTATATATATTAT-G
1 TATATA-TTATTAT-TTATAT-TATTATAT
929636 TAT-TATTA-TATTTAGTATTA-TATAT
1 TATATATTATTATTTA-TATTATTATAT
*
929661 TATATAATTA-CATTTTATATTTATTATA-
1 TATAT-ATTATTA-TTTATA-TTATTATAT
*
929689 TACTAGTATTA-TATTATAATATTATTATGT
1 TA-TA-TATTATTATT-T-ATATTATTATAT
929719 TATATTATTATTA-TTATTATTATTATTAT
1 TATA-TATTATTATTTA-TATTATTA-TAT
929748 TAT-TATT-TTATT
1 TATATATTATTATT
929760 AATTTTTATT
Statistics
Matches: 190, Mismatches: 16, Indels: 55
0.73 0.06 0.21
Matches are distributed among these distances:
24 6 0.03
25 22 0.12
26 27 0.14
27 23 0.12
28 38 0.20
29 51 0.27
30 23 0.12
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
TATATATTATTATTTATATTATTATAT
Found at i:929754 original size:24 final size:25
Alignment explanation
Indices: 929490--929769 Score: 134
Period size: 26 Copynumber: 11.3 Consensus size: 25
929480 TTCTATATTA
*
929490 TATTA-TAATATATATTATATATTAT
1 TATTATTATTATATATTAT-TATTAT
*
929515 ATATTA-TAGTATATATCTATTATTA-
1 -TATTATTATTATATAT-TATTATTAT
929540 TATATATTA-TATAGTATTATATATTA-
1 TAT-TATTATTATA-TATTAT-TATTAT
**
929566 TAGTGTA-TATT-TATATTATATAGCA-
1 TA-T-TATTATTATATATTAT-TATTAT
929591 TATTTATTATTATATATTA-TA-TAGT
1 TA-TTATTATTATATATTATTATTA-T
929616 TATATATTA-TATATATTATGTATTATT
1 TAT-TATTATTATATATTAT-TATTA-T
* *
929643 ATATTTAGTATTATATATTA-TATAAT
1 -TA-TTATTATTATATATTATTATTAT
* *
929669 TA-CATT-TTATAT-TTATTATATAC
1 TATTATTATTATATATTATTAT-TAT
* *
929692 TAGTATTA-TATTATAATATTATTA-
1 TATTATTATTA-TATATTATTATTAT
*
929716 TGTTA-TATTAT-TATTATTATTAT
1 TATTATTATTATATATTATTATTAT
929739 TATTATTATTAT-TATT-TTATTAAT
1 TATTATTATTATATATTATTATT-AT
*
929763 TTTTATT
1 TATTATT
929770 TTCAGTTTTC
Statistics
Matches: 206, Mismatches: 20, Indels: 58
0.73 0.07 0.20
Matches are distributed among these distances:
21 3 0.01
22 19 0.09
23 18 0.09
24 45 0.22
25 40 0.19
26 51 0.25
27 14 0.07
28 6 0.03
29 10 0.05
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATTATTATATATTATTATTAT
Found at i:930844 original size:20 final size:19
Alignment explanation
Indices: 930816--930878 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
930806 TGGTCCTTTA
*
930816 ATTTAAATTTTCTTTTAATT
1 ATTTTAATTTT-TTTTAATT
*
930836 ATTTTAATTTATTTTTATTT
1 ATTTTAATTT-TTTTTAATT
*
930856 A-TTTAATTTTTATTTTATT
1 ATTTTAATTTTT-TTTAATT
930875 ATTT
1 ATTT
930879 CACATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.06
19 14 0.39
20 19 0.53
21 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTAATTTTTTTTAATT
Found at i:930849 original size:10 final size:10
Alignment explanation
Indices: 930828--930864 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
930818 TTAAATTTTC
930828 TTTTAA-TTA
1 TTTTAATTTA
930837 TTTTAATTTA
1 TTTTAATTTA
*
930847 TTTTTATTTA
1 TTTTAATTTA
930857 -TTTAATTT
1 TTTTAATTT
930865 TTATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 13 0.52
10 12 0.48
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:930860 original size:19 final size:19
Alignment explanation
Indices: 930828--930878 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
930818 TTAAATTTTC
930828 TTTTAATTATTTTAATTTAT-
1 TTTT-ATTA-TTTAATTTATA
*
930848 TTTTATTTATTTAATTTTTA
1 TTTTA-TTATTTAATTTATA
930868 TTTTATTATTT
1 TTTTATTATTT
930879 CACATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTATTTAATTTATA
Found at i:930864 original size:15 final size:15
Alignment explanation
Indices: 930829--930870 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
930819 TAAATTTTCT
* *
930829 TTTAATTATT-TTAA
1 TTTAATTTTTATTTA
930843 TTT-ATTTTTATTTA
1 TTTAATTTTTATTTA
930857 TTTAATTTTTATTT
1 TTTAATTTTTATTT
930871 TATTATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.21
14 9 0.38
15 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTAATTTTTATTTA
Done.