Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_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: 3453450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:758769 original size:24 final size:24
Alignment explanation
Indices: 758738--758784 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
758728 AGTTTTTATA
758738 AAAGC-TTTCACTTTTTACTTTTC
1 AAAGCTTTTCACTTTTTACTTTTC
* *
758761 AAAGTCTTTTCATTTTTTTCTTTT
1 AAAG-CTTTTCACTTTTTACTTTT
758785 ATTTTCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 1 0.05
25 15 0.75
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (24 bp):
AAAGCTTTTCACTTTTTACTTTTC
Found at i:760957 original size:28 final size:29
Alignment explanation
Indices: 760897--760958 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
760887 TCAAAATAAT
*
760897 TAAAAACAACAAATAATAAAAATATTAAA
1 TAAAAACAACAAATAATAAAAATATAAAA
*
760926 -AAAAACAACCAAA-AATAGAAATA-AAAA
1 TAAAAACAA-CAAATAATAAAAATATAAAA
760953 TAAAAA
1 TAAAAA
760959 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 3 0.10
28 22 0.76
29 4 0.14
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.15
Consensus pattern (29 bp):
TAAAAACAACAAATAATAAAAATATAAAA
Found at i:762486 original size:42 final size:42
Alignment explanation
Indices: 762373--762486 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
762363 ACCCGAAATT
* * * * *
762373 CTTATGGATGGCCCGAAGGACTT-TTTATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAATCATCATGCTCGAAACA
* * * *
762414 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTGGAAACA
1 CTTATAGATGGCCCGAAGGACTTAATCATCATGCTCGAAACA
*
762456 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTAATCATCA
762487 AGAAAACCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 20 0.34
42 37 0.64
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTATAGATGGCCCGAAGGACTTAATCATCATGCTCGAAACA
Found at i:762572 original size:39 final size:39
Alignment explanation
Indices: 762518--762685 Score: 264
Period size: 39 Copynumber: 4.3 Consensus size: 39
762508 TTAGTTTCTT
* *
762518 ATAAAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
762557 ATAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
* *
762596 ACAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
* * *
762635 AAAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGTGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
762674 ATAAAATCTTCT
1 ATAAAATCTTCT
762686 TTAAAACAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (39 bp):
ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
Found at i:764705 original size:65 final size:63
Alignment explanation
Indices: 764575--764791 Score: 206
Period size: 65 Copynumber: 3.4 Consensus size: 63
764565 ACACCCTAAT
* * * * *
764575 TCGAATGATTTTTGTGTACTGATGCACA-TCCATGCATCGATGCACTCTTGATTTTAATTAAACA
1 TCGAATGACTTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGATTTT--TTAAACA
* * * *
764639 TCGAATGGCTTTGGTGTACCGATGCA-AGTACCTTGCACCGATGCACTCCATGTATTTTTTAAAC
1 TCGAATGACTTTAGTGTACCGATGCACAG-ACCATGCATCGATGCACTCC-TG-ATTTTTTAAAC
764703 A
63 A
* * * * *
764704 TCGAATGATTTTAGTGTATCGATGCACAGACCATGCATTGATGCACTCCTGGCTCTTTTGAAACA
1 TCGAATGACTTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCCT-GAT-TTTTTAAACA
*
764769 TCGAATGTA-ATTAGTGTACCGAT
1 TCGAATG-ACTTTAGTGTACCGAT
764792 TCACCCCTAG
Statistics
Matches: 126, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
63 1 0.01
64 24 0.19
65 91 0.72
66 5 0.04
67 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (63 bp):
TCGAATGACTTTAGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGATTTTTTAAACA
Found at i:770631 original size:43 final size:43
Alignment explanation
Indices: 770564--770660 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
770554 TTTTGTGCTC
* *
770564 TATGCATCGATACACTAAAGAGTGCACCGATGCATCCCTTGAA
1 TATGCATCGATACACCAAACAGTGCACCGATGCATCCCTTGAA
* * * *
770607 TATGCATCGATACACCCATCAGTGCACTGATGCATTCCTTGAA
1 TATGCATCGATACACCAAACAGTGCACCGATGCATCCCTTGAA
*
770650 TGTGCATCGAT
1 TATGCATCGAT
770661 GCACTCTGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TATGCATCGATACACCAAACAGTGCACCGATGCATCCCTTGAA
Found at i:770661 original size:23 final size:23
Alignment explanation
Indices: 770585--770663 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 23
770575 ACACTAAAGA
*
770585 GTGCACCGATGCATCCCTTGAAT
1 GTGCATCGATGCATCCCTTGAAT
* * * *
770608 ATGCATCGATACA-CCCAT-CA-
1 GTGCATCGATGCATCCCTTGAAT
*
770628 GTGCA-CTGATGCATTCCTTGAAT
1 GTGCATC-GATGCATCCCTTGAAT
770651 GTGCATCGATGCA
1 GTGCATCGATGCA
770664 CTCTGCTGCG
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
19 1 0.02
20 9 0.22
21 4 0.10
22 5 0.12
23 21 0.51
24 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCATCCCTTGAAT
Found at i:772900 original size:13 final size:14
Alignment explanation
Indices: 772869--772901 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
772859 AGGGGGAGTA
772869 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
772883 A-TTTCAAAAATT-
1 ATTTTCAAAAATTG
772895 ATTTTCA
1 ATTTTCA
772902 TGGAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 16 0.89
14 1 0.06
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:773370 original size:64 final size:62
Alignment explanation
Indices: 773243--773461 Score: 233
Period size: 64 Copynumber: 3.4 Consensus size: 62
773233 ACACCCTAAT
* * * * *
773243 TCGAATGATTTTTGTGTACCGATGCACATCCATGCATCGATGCACTCTTGATTTTAATTAAACA
1 TCGAATGACTTTAGTGTACCGATGCAAATCCATGCATCGATGCACTCATGATTTT--TGAAACA
* * * * *
773307 TCGAATGGCTTTGGTGTGCCGATGCAAATGCCATACACCGATGCACTCATGTATTTTTGAAACA
1 TCGAATGACTTTAGTGTACCGATGCAAAT-CCATGCATCGATGCACTCATG-ATTTTTGAAACA
* * *
773371 TCGAATGATTTTAGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGATCTTTTGAAACA
1 TCGAATGACTTTAGTGTACCGATGCA-AATCCATGCATCGATGCACTCAT-GAT-TTTTGAAACA
*
773436 TCGAATGTA-ATTAGTGTACCGATGCA
1 TCGAATG-ACTTTAGTGTACCGATGCA
773462 CCCCTAGTGT
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
64 71 0.54
65 54 0.41
66 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (62 bp):
TCGAATGACTTTAGTGTACCGATGCAAATCCATGCATCGATGCACTCATGATTTTTGAAACA
Found at i:775511 original size:65 final size:65
Alignment explanation
Indices: 775438--775602 Score: 212
Period size: 65 Copynumber: 2.6 Consensus size: 65
775428 ACCCAATTTA
* * *
775438 ATTG-AACATCAAATGGCTTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCATGTG-T
1 ATTGAAACATCGAATGGATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCC-TG-GCT
775501 -T
64 CT
*
775502 ATTGAAACATCGAAT-GATTTTAGTGAACCGATGCACAAACCATGCATCGATGCACTCCTGGCTC
1 ATTGAAACATCGAATGGATTTT-GTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTC
775566 T
65 T
* * *
775567 ATTGAAACATCGAATGTAATTAGTGTACCGATGCAC
1 ATTGAAACATCGAATGGATTTTGTGTACCGATGCAC
775603 CCCTAGTGTA
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 12 0.14
65 72 0.82
66 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (65 bp):
ATTGAAACATCGAATGGATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTCT
Found at i:778502 original size:43 final size:43
Alignment explanation
Indices: 778396--778492 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
778386 TGCACAATGC
* * *
778396 ATCGATACACTA-GAGAGTGTACCGATGCATCCCTTGAATATGA
1 ATCGATACACTATGA-AATGCACCAATGCATCCCTTGAATATGA
* * *
778439 ATCGATACACTATGAAATGCACCAATGCATTCCTTGAATGTGC
1 ATCGATACACTATGAAATGCACCAATGCATCCCTTGAATATGA
*
778482 ATCGATGCACT
1 ATCGATACACT
778493 CTACTATGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCGATACACTATGAAATGCACCAATGCATCCCTTGAATATGA
Found at i:778810 original size:54 final size:54
Alignment explanation
Indices: 778728--778836 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
778718 ATCCTAATTT
*
778728 TCAAGGTAATATTTCAAAAACCCCTGTTTTATTGATTTTTGAACTTAGGACTAG
1 TCAAGGTAATATTTCAAAAACCCCTGTTTTAATGATTTTTGAACTTAGGACTAG
778782 TCAAGGTAATATTTCAAAAACCCCTGTTTTAATGATTTTTGAACTTAGGACTAG
1 TCAAGGTAATATTTCAAAAACCCCTGTTTTAATGATTTTTGAACTTAGGACTAG
778836 T
1 T
778837 TTTGATTAGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (54 bp):
TCAAGGTAATATTTCAAAAACCCCTGTTTTAATGATTTTTGAACTTAGGACTAG
Found at i:781523 original size:197 final size:199
Alignment explanation
Indices: 781302--781699 Score: 773
Period size: 197 Copynumber: 2.0 Consensus size: 199
781292 CTTCTGGCTC
781302 TTTTGAAACATCGATTGTAATTAGTGTACCAATGCACCCCTAGTCTACCGATGCACTAAGTCTTA
1 TTTTGAAACATCGATTGTAATTAGTGTACCAATGCACCCCTAGTCTACCGATGCACTAAGTCTTA
781367 TAACTGTAGAAAAAATTGAATTTTACACATAGTGTATCGATGCACCTTGGC-TGCATCGATGCAT
66 TAACTGTAGAAAAAATTGAATTTTACACATAGTGTATCGATGCACCTTGGCATGCATCGATGCAT
781431 ACACGCTCTCAACTGTTTTA-TTTTTTTCACACAAAAACGGCTCTATTGACTCCACCAATGATCC
131 ACACGCTCTCAACTGTTTTATTTTTTTTCACACAAAAACGGCTCTATTGACTCCACCAATGATCC
781495 CCAA
196 CCAA
781499 TTTTGAAACATCGATTGTAATTAGTGTACCAATGCACCCCTAGTCTACCGATGCACTAAGTCTTA
1 TTTTGAAACATCGATTGTAATTAGTGTACCAATGCACCCCTAGTCTACCGATGCACTAAGTCTTA
781564 TAACTGTAGAAAAAATTGAATTTTACACATAGTGTATCGATGCACCTTGGCTATGCATCGATGCA
66 TAACTGTAGAAAAAATTGAATTTTACACATAGTGTATCGATGCACCTTGGC-ATGCATCGATGCA
781629 TACACGCTCTCAACTGTTTTATTTTTTTTCACACAAAAACGGCTCTATTGACTCCACCAATGATC
130 TACACGCTCTCAACTGTTTTATTTTTTTTCACACAAAAACGGCTCTATTGACTCCACCAATGATC
781694 CCCAA
195 CCCAA
781699 T
1 T
781700 ATTCAAAAGT
Statistics
Matches: 198, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
197 116 0.59
199 33 0.17
200 49 0.25
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (199 bp):
TTTTGAAACATCGATTGTAATTAGTGTACCAATGCACCCCTAGTCTACCGATGCACTAAGTCTTA
TAACTGTAGAAAAAATTGAATTTTACACATAGTGTATCGATGCACCTTGGCATGCATCGATGCAT
ACACGCTCTCAACTGTTTTATTTTTTTTCACACAAAAACGGCTCTATTGACTCCACCAATGATCC
CCAA
Found at i:789242 original size:34 final size:34
Alignment explanation
Indices: 789203--789268 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
789193 ACTGTAGCAG
789203 TTAAGTTCGAAATTTTTGTGCATCGATACACTTT
1 TTAAGTTCGAAATTTTTGTGCATCGATACACTTT
* *
789237 TTAAGTTCGAATTTTTTGTGCATCGGTACACT
1 TTAAGTTCGAAATTTTTGTGCATCGATACACT
789269 GTTCACGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (34 bp):
TTAAGTTCGAAATTTTTGTGCATCGATACACTTT
Found at i:790856 original size:13 final size:13
Alignment explanation
Indices: 790827--790875 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
790817 TAGTTGACCC
790827 GACCCGA-CCGTT
1 GACCCGACCCGTT
790839 GACCCGACCCGTT
1 GACCCGACCCGTT
*
790852 AACCCGACCCGTT
1 GACCCGACCCGTT
790865 GACCCGACCCG
1 GACCCGACCCG
790876 ACCGTTGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 7 0.21
13 27 0.79
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:790882 original size:17 final size:17
Alignment explanation
Indices: 790805--790885 Score: 79
Period size: 17 Copynumber: 5.2 Consensus size: 17
790795 GACCGGTCAC
**
790805 GACCCGACCCGATAGTT
1 GACCCGACCCGACCGTT
790822 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
790839 GACCCGA--C--CCGTT
1 GACCCGACCCGACCGTT
*
790852 AACCCGA--C--CCGTT
1 GACCCGACCCGACCGTT
790865 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
790882 GACC
1 GACC
790886 GTTGACCGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
13 23 0.41
15 2 0.04
17 31 0.55
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:790887 original size:7 final size:7
Alignment explanation
Indices: 790875--790921 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
790865 GACCCGACCC
790875 GACCGTT
1 GACCGTT
790882 GACCGTT
1 GACCGTT
790889 GACCGTT
1 GACCGTT
790896 GACCGTT
1 GACCGTT
790903 GACCGTT
1 GACCGTT
790910 GACCGTT
1 GACCGTT
790917 GACCG
1 GACCG
790922 GTGCTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:798132 original size:13 final size:13
Alignment explanation
Indices: 798103--798151 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
798093 TAGTTGACCC
798103 GACCCGA-CCGTT
1 GACCCGACCCGTT
798115 GACCCGACCCGTT
1 GACCCGACCCGTT
*
798128 AACCCGACCCGTT
1 GACCCGACCCGTT
798141 GACCCGACCCG
1 GACCCGACCCG
798152 ACCGTTGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 7 0.21
13 27 0.79
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:798158 original size:17 final size:17
Alignment explanation
Indices: 798081--798161 Score: 79
Period size: 17 Copynumber: 5.2 Consensus size: 17
798071 GACCGGTCAC
**
798081 GACCCGACCCGATAGTT
1 GACCCGACCCGACCGTT
798098 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
798115 GACCCGA--C--CCGTT
1 GACCCGACCCGACCGTT
*
798128 AACCCGA--C--CCGTT
1 GACCCGACCCGACCGTT
798141 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
798158 GACC
1 GACC
798162 GTTGACCGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
13 23 0.41
15 2 0.04
17 31 0.55
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:798163 original size:7 final size:7
Alignment explanation
Indices: 798151--798197 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
798141 GACCCGACCC
798151 GACCGTT
1 GACCGTT
798158 GACCGTT
1 GACCGTT
798165 GACCGTT
1 GACCGTT
798172 GACCGTT
1 GACCGTT
798179 GACCGTT
1 GACCGTT
798186 GACCGTT
1 GACCGTT
798193 GACCG
1 GACCG
798198 GTGCTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:806796 original size:15 final size:15
Alignment explanation
Indices: 806776--806846 Score: 67
Period size: 16 Copynumber: 4.8 Consensus size: 15
806766 AATTTAATCC
806776 TTATTTTTAATTTAA
1 TTATTTTTAATTTAA
* *
806791 TTA-TTTTAGTAT-A
1 TTATTTTTAATTTAA
806804 -TATTTTTAATTTAA
1 TTATTTTTAATTTAA
*
806818 TTATTTTTTAAATGTAA
1 TTA-TTTTT-AATTTAA
*
806835 TTCTTTTTAATT
1 TTATTTTTAATT
806847 ATTTTAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
12 2 0.05
13 8 0.18
14 8 0.18
15 8 0.18
16 10 0.23
17 8 0.18
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATTTTTAATTTAA
Found at i:814528 original size:27 final size:27
Alignment explanation
Indices: 814471--814694 Score: 132
Period size: 27 Copynumber: 8.3 Consensus size: 27
814461 TCACCCAGAT
* *
814471 GGATGAAATAC-GAGCATCA-CCCGGAA
1 GGATGAAATACTGTGCATCATCTC-GAA
* *
814497 GGATGAAATATTGTGCATCATCTTGAA
1 GGATGAAATACTGTGCATCATCTCGAA
* * * * * *
814524 TGATGGAATACTATGTATCACCCCGAA
1 GGATGAAATACTGTGCATCATCTCGAA
* * * * *
814551 AGATGGAATGCAGTGCATCATC-CTAAA
1 GGATGAAATACTGTGCATCATCTC-GAA
* * *
814578 TGATGAAATA-TGATGCATTATCTGGAA
1 GGATGAAATACTG-TGCATCATCTCGAA
* *
814605 GGATGAAATACGGTGCATCATCTCAAA
1 GGATGAAATACTGTGCATCATCTCGAA
* * *
814632 GGATGAAATATTGTGCATCACCTCAAA
1 GGATGAAATACTGTGCATCATCTCGAA
* * * * * *
814659 GGAGGGAATACAGTGCATAACCCCGAA
1 GGATGAAATACTGTGCATCATCTCGAA
814686 GGATGAAAT
1 GGATGAAAT
814695 CTATATAGTT
Statistics
Matches: 149, Mismatches: 43, Indels: 11
0.73 0.21 0.05
Matches are distributed among these distances:
26 12 0.08
27 135 0.91
28 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
GGATGAAATACTGTGCATCATCTCGAA
Found at i:814799 original size:17 final size:17
Alignment explanation
Indices: 814779--814827 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
814769 TAAGCATCTA
*
814779 TAACATTTAGTAACATG
1 TAACATTTAATAACATG
*
814796 TAACATTTAATAACTTG
1 TAACATTTAATAACATG
*
814813 T-ACATTCAATAACAT
1 TAACATTTAATAACAT
814828 AATACAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (17 bp):
TAACATTTAATAACATG
Found at i:818505 original size:24 final size:24
Alignment explanation
Indices: 818432--818505 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
818422 TGAATGTTTT
* * *
818432 ATCTGATTTTTGTTCTGATTTCTG
1 ATCTGAATTCTGTTCTGATTTATG
* * *
818456 AGCTGGATTCTGTTCTGATATATG
1 ATCTGAATTCTGTTCTGATTTATG
818480 ATCTGAATTCTGTTCTGATTTATG
1 ATCTGAATTCTGTTCTGATTTATG
818504 AT
1 AT
818506 TTCTGTTTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (24 bp):
ATCTGAATTCTGTTCTGATTTATG
Found at i:819888 original size:29 final size:30
Alignment explanation
Indices: 819819--819889 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
819809 TTTAATGACC
*
819819 CAATGGTATAATTGAAACGAAAATCAAAGTT
1 CAATGGTATAATTGAAAC-AAAATAAAAGTT
* * * * *
819850 TAGTGCTATAATTGGAA-AAATTAAAAGTT
1 CAATGGTATAATTGAAACAAAATAAAAGTT
819879 CAATGGTATAA
1 CAATGGTATAA
819890 ACGATACAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 18 0.58
31 13 0.42
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (30 bp):
CAATGGTATAATTGAAACAAAATAAAAGTT
Found at i:823713 original size:104 final size:105
Alignment explanation
Indices: 823504--823698 Score: 338
Period size: 104 Copynumber: 1.9 Consensus size: 105
823494 CTTCTCATTT
* * *
823504 TTCTGGTGAGACGGGTCAGGCCACTGTGAATGTAGATGTTATTTCTCTGGGAGCAGCAGTTCAGC
1 TTCTGGTGAGACGGGTCAGGCCACTGTGAATGCAAATGTTAGTTCTCTGGGAGCAGCAGTTCAGC
*
823569 AAGAGGTAGCTGGTGCAACCTTAGTTAGTACAACTGAGGA
66 AAGAGGTAGCTGGTGCAACCTCAGTTAGTACAACTGAGGA
*
823609 TTCTGGTGAGACGGGTCAGGCTACTGTG-ATGCAAATGTTAGTTCTCTGGGAGCAGCAGTTCAGC
1 TTCTGGTGAGACGGGTCAGGCCACTGTGAATGCAAATGTTAGTTCTCTGGGAGCAGCAGTTCAGC
823673 AAGAGGTAGCTGGTGCAACCTCAGTT
66 AAGAGGTAGCTGGTGCAACCTCAGTT
823699 GGTGCAGGTG
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
104 58 0.68
105 27 0.32
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (105 bp):
TTCTGGTGAGACGGGTCAGGCCACTGTGAATGCAAATGTTAGTTCTCTGGGAGCAGCAGTTCAGC
AAGAGGTAGCTGGTGCAACCTCAGTTAGTACAACTGAGGA
Found at i:827882 original size:261 final size:261
Alignment explanation
Indices: 827473--828481 Score: 1184
Period size: 261 Copynumber: 3.8 Consensus size: 261
827463 TTGGAAAGCG
* * * * * *
827473 TTATGTAAATCTTCCAAAGATTTTGCCTCGACAACAGGTAATTTGGATTTGATATCCCCATGATC
1 TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATC
* * *
827538 CTG-AGTTTTCTCAATCATACTAGGAACAATCACTTCCTCTACATCAACCCCTTCATGAAGTTGC
66 TTGCAG-TTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
827602 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTC
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTC
*
827667 GGTCTTAGTATAGCCTGAAGAAGGA-GGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAAA
195 GGTCTTTGTATAGCCTGAAGAA-GATGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAAA
827731 ACT
259 ACT
* * **
827734 TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAGTTTTGCTTT-ATAATCTGAATGAT
1 TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGAT-ATCTCCATGAT
* * * *
827798 CTTGCAGTTTCTCAATCATACTCGGAACAATTACATCCTCAACATCAACTCCTTCATGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
*
827863 TTAAAAGCCATATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTC
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTC
* * * * * * **
827928 TGTATTTGTATAGCCTGAAGAAAACGGCAGCTCAGCTGGACTAGATTCTGGAGCATGACGAAATG
195 GGTCTTTGTATAGCCTGAAGAAGATGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAAAA
827993 CT
260 CT
* * * * *
827995 TTATGTATATCCTCCAGAGATCTTGCCTCAACTATAGGTAACTCTGATTTGATATCTCCATGATT
1 TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGA-T
* *
828060 CTT-CGGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
* * *
828124 TTAAAAGCCAAATCAATATCTTCTGCTGATCGTGCTTCAAGAATAGGAAGCACCACATTATTGTC
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTA-----
* ** * * * * *
828189 GGTCTTCGAATCTTTTGATAATTCCTTCCTAAAGTCAAAAGATTGCAGCACCTCAACCGGATTAG
190 -GTC-TCG-GTC-TTTG-T-A-T--AGCCTGAAG----AAGA-TG--GCAGCTCAGCTGGACTAG
** *
828254 ATTCTGCTGCTTGTTGAAAATA-T
239 ATTCTGGAGCTTGATGAAAA-ACT
** * * **
828277 TTATGTATATCCTCCAGAGATCTTGTTTCGACAACAGGTAGTTTTGCTTT-ATTATCTGTATGAT
1 TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGA-TATCTCCATGAT
* * *
828341 CTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCCTCAACATGAACCCCTTCGTGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
* * * *
828406 TTAAAAGCCAAATCAATATCTTCTGCTGATTTTACTTCAAGAACAGGCAGCAGCACATTGGTCTC
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTC
828471 GGTCTTTGTAT
195 GGTCTTTGTAT
828482 CTTTTGATGA
Statistics
Matches: 632, Mismatches: 87, Indels: 49
0.82 0.11 0.06
Matches are distributed among these distances:
260 3 0.00
261 390 0.62
262 8 0.01
267 3 0.00
268 2 0.00
269 1 0.00
270 5 0.01
271 2 0.00
272 2 0.00
273 5 0.01
274 2 0.00
275 9 0.01
276 3 0.00
279 3 0.00
280 1 0.00
281 5 0.01
282 188 0.30
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (261 bp):
TTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATC
TTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGCT
TAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCG
GTCTTTGTATAGCCTGAAGAAGATGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAAAAC
T
Found at i:828475 original size:282 final size:279
Alignment explanation
Indices: 827953--831226 Score: 3345
Period size: 282 Copynumber: 11.8 Consensus size: 279
827943 TGAAGAAAAC
* * * * * **
827953 GGCAGCTCAGCTGGACTAGATTCTGGAGCATGACGAAATGCTTTATGTATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATTC-AGAGCTTGATGAAA-AATTTATGTATATCCTCCAGAGATCT
* * * * * * *
828018 TGCCTCAACTATAGGTAACTCTGATTTGATATCTCCATGATTCTT-CGGTTTCTCAATCATACTT
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGA-TCTTGCAGTTTCTCAATCATACTC
* *
828082 GGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
** * * * * * *
828147 TGCTGATCGTGCTTCAAGAATAGGAAGCACCACATTATTGTCGGTCTTCGAATCTTTTGATAATT
193 TGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATT
** * * ** * *
828212 CCTTCCTAAAGTCAAAAGATTGC
258 TGTTCTTTAAG-CTGAAGAATGT
* * **** * * * *
828235 AGCACCTCAACCGGATTAGATTCTGCTGCTTGTTGAAAATATTTATGTATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATTCAG-AGCTTGATGAAAA-ATTTATGTATATCCTCCAGAGATCT
** * * ** *
828300 TGTTTCGACAACAGGTAGTTTTGCTTT-ATTATCTGTATGATCTTGCAGTTTCTCAATCATACTT
64 TGCCTCGACAACAGGTAATTTTGATTTGA-TATCTCCATGATCTTGCAGTTTCTCAATCATACTC
* *
828364 GGAACAATTACTTCCTCAACATGAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
* * * *
828429 TGCTGATTTTACTTCAAGAACAGGCAGCAGCACATTGGTCTCGGTCTTTGTATCTTTTGATGATT
193 TGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATT
828494 TGTTCTTTAAGCCTGAAGAATGT
258 TGTTCTTTAAG-CTGAAGAATGT
* *
828517 GGAAGCTCAGGTTGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATGTCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATT-CAGAGCTTGATGAAAAA-TTTATGTATATCCTCCAGAGATCT
* * * * *
828582 TGCTTCGACAACAGGTAGTTTTGCTTT-ATTATCTGCATGATCTTGCAGTTTCTCAATCATACTT
64 TGCCTCGACAACAGGTAATTTTGATTTGA-TATCTCCATGATCTTGCAGTTTCTCAATCATACTC
* * *
828646 GGAACAATTACTTCCTCAACATCAACCCCTTCGTAAAGTTGCTTAAATGCCAAATCAATATCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
* *
828711 TGCTG-TTTTGGCTTCAAGAACAGGCTGCAGCC-CATTGGTCTCGGTCTTTGTAA-CTTTTGATG
193 TGCTGATTTT-GCTTCAAGAACAGGCAGCA-CCACATTAGTCTCGGTCTTTG-AATCTTTTGATG
828773 ATTTGTTCTTTAAGCCTGAAGAATGT
255 ATTTGTTCTTTAAG-CTGAAGAATGT
* * * *
828799 GGCAGCTCAGGTTTACTAGAATCCGGAGCTTGATGAAAAACTTTATGTATATCCTCCATAGATCT
1 GGCAGCTCAGGTTGACTAG-ATTCAGAGCTTGATGAAAAA-TTTATGTATATCCTCCAGAGATCT
* * *
828864 TGCCTCGACAACAGGTAATTTTAATTTGATATCTCCATGATCCTGCGGTTTCTCAATCATACTCG
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCTTGCAGTTTCTCAATCATACTCG
* * *
828929 GAACAATCACTTCCTCTACATCAACCCTTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
129 GAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
* * * * * *
828994 GCTGATCTTGCTTCAAGAATAGGCAGAACCACATTAGT-T---TC--TG--T-ATTCG-T-A-TA
194 GCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATTT
* *
829047 G--C------CTGAAGAAGGC
259 GTTCTTTAAGCTGAAGAATGT
* * * * ** *
829060 GGCAGCTCAGCTGGACTAAATTCTGGAGCTTGATGAAATGCTTTATGTATATCCTCCAGAGTTCT
1 GGCAGCTCAGGTTGACTAGATTC-AGAGCTTGATGAAA-AATTTATGTATATCCTCCAGAGATCT
* * * * *
829125 TGCCTCAACTATAGGTAATTTTGATTTGATATCTCCATGATCCTT-CGGTTTCTCAATCATACTT
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGAT-CTTGCAGTTTCTCAATCATACTC
* * * *
829189 GGAAGAATCACCTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
** * * * * * * *
829254 TGCTGATCGTGCTTCAAGAATAGGAAGCACCATATTATTGTCGGTCTTCGAATCTTTTGATAATT
193 TGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATT
** * * * * *
829319 CCTTCCTAAAGTCGGAAGATTGC
258 TGTTCTTTAAG-CTGAAGAATGT
* * **** * * * * * *
829342 AGCACCTCAACCGGATTAGATTCTGGTGCTTGTTGAAAATTTTTATGTATATCCTCCAGAAATCT
1 GGCAGCTCAGGTTGACTAGATTC-AGAGCTTGATGAAAA-ATTTATGTATATCCTCCAGAGATCT
** * ** * *
829407 TGTTTCAACAACAGGTAGCTTT-ACTTT-ATTATC-CGTATAATCTTGCAGTTTCTCAATCATAC
64 TGCCTCGACAACAGGTAATTTTGA-TTTGA-TATCTC-CATGATCTTGCAGTTTCTCAATCATAC
*
829469 TCGGAACAATTACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCT
126 TCGGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCT
*** * *
829534 TCTGCTGATTTTGCTTCAAGAACAGGCAGTGGCACATTGGTCTCGGTCTTTGTATCTTTTGATGA
191 TCTGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGA
829599 TTTGTTCTTTAAGCCTGAAGAATGT
256 TTTGTTCTTTAAG-CTGAAGAATGT
* * *
829624 GGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATAGATCT
1 GGCAGCTCAGGTTGACTAG-ATTCAGAGCTTGATGAAAAA-TTTATGTATATCCTCCAGAGATCT
*
829689 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTTCTCAATCATACTCG
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCTTGCAGTTTCTCAATCATACTCG
* *
829754 GAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
129 GAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
** * * * *
829819 GCTGATTTCACTTCAAGAACAGGCAGCACCACATTCGTATTGGTCTTTGTATCTTTTGATGATTT
194 GCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATTT
829884 GTTCTTTAAGCATGAAGAATGT
259 GTTCTTTAAGC-TGAAGAATGT
* * * *
829906 GGAAGCTCAGGTTGACTGGATTCCAGAGGTTGATGAATAACTTTATGTATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATT-CAGAGCTTGATGAA-AAATTTATGTATATCCTCCAGAGATCT
* ** ** * *
829971 TGCCTCGACAACGGGTAATTTTTCTTT-ATCATCTGTATAATCTTGCAGTTTCTCAATCATACTT
64 TGCCTCGACAACAGGTAATTTTGATTTGAT-ATCTCCATGATCTTGCAGTTTCTCAATCATACTC
* * *
830035 GGAACAATTACTTCTTCAACATCAACCCCTTCGTGAAGTTGCTTAAACGCCAAATCAATATCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
830100 TGCTGATTTTGCTTCAAGAACAGGCAGCAGCC-CATT-GATCTCGGTCTTTGTAA-CTTTTGATG
193 TGCTGATTTTGCTTCAAGAACAGGCAGCA-CCACATTAG-TCTCGGTCTTTG-AATCTTTTGATG
830162 ATTTGTTCTTTAAGCCTGAAGAATGT
255 ATTTGTTCTTTAAG-CTGAAGAATGT
* * *
830188 GGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATAGATCT
1 GGCAGCTCAGGTTGACTAG-ATTCAGAGCTTGATGAAAAA-TTTATGTATATCCTCCAGAGATCT
*
830253 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTTCTCAATCATACTCG
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCTTGCAGTTTCTCAATCATACTCG
* *
830318 GAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
129 GAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
** * * * *
830383 GCTGATTTCACTTCAAGAACAGGCAGCACCACATTCGTATTGGTCTTTGTATCTTTTGATGATTT
194 GCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATTT
830448 GTTCTTTAAGCATGAAGAATGT
259 GTTCTTTAAGC-TGAAGAATGT
* * * *
830470 GGAAGCTCAGGTTGACTGGATTCCAGAGGTTGATGAATAACTTTATGTATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATT-CAGAGCTTGATGAA-AAATTTATGTATATCCTCCAGAGATCT
* ** ** *
830535 TGCCTCGACAACGGGTAATTTTTCTTT-ATCATCTGTATAATCTTGCAGTTTCTCAATCATACTC
64 TGCCTCGACAACAGGTAATTTTGATTTGAT-ATCTCCATGATCTTGCAGTTTCTCAATCATACTC
* * * * * * *
830599 GGAAGAATTACTTCCTCAATATCGACCCCTTCGTGAAGTTGGTTAAAAGTCAAATCAATAACTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
* * ** * *
830664 TGCTGATCTTGCTTCAAGAACAGGTAATACCACATCAGTCTCAG-C-------CTTTT--T-A-T
193 TGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATT
* *
830717 AG--C------CTGAAGAAGGCT
258 TGTTCTTTAAGCTGAAGAATG-T
* * * * * * * **
830732 -GCTGGTCAGCTGGACTAGATTCTGGAACTTGTTGAAATGCTTTATGTATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATTC-AGAGCTTGATGAAA-AATTTATGTATATCCTCCAGAGATCT
* * * * *
830796 TACCTCGACTACGGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTTCTCAATCATACTTG
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCTTGCAGTTTCTCAATCATACTCG
* * * *
830861 GAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGCTTGAAAGCCAAATTAATATCTTCC
129 GAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCT
* * ** * *
830926 GCTGATCTTGCTTCAAGAACAGGAAGCACCATGTTA-T-TC--TC----AGTC-TTTG-T-A-TA
194 GCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATTT
*
830979 G--C------CTGAAGAAGGT
259 GTTCTTTAAGCTGAAGAATGT
* * * * * ** *
830992 GGCAGCTCAGCTGGACTAGATTCCGGAGATTGTTGAAACGCTTTATATATATCCTCCAGAGATCT
1 GGCAGCTCAGGTTGACTAGATT-CAGAGCTTGATGAAA-AATTTATGTATATCCTCCAGAGATCT
* * * *
831057 TGCCTCGACAACGGGTAATTTTGATTTGTTAGCT-GATTGATCTTGCAGTTTCTCAATCATACTC
64 TGCCTCGACAACAGGTAATTTTGATTTGATATCTCCA-TGATCTTGCAGTTTCTCAATCATACTC
* * *
831121 GGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGCTTAAAAGCCATATCAATGTCTTC
128 GGAACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
* *
831186 TGCTGATTTTGCTTCAAGAACAGGCAACACTACATTAGTCT
193 TGCTGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCT
831227 GAGTCTTCAT
Statistics
Matches: 2555, Mismatches: 357, Indels: 179
0.83 0.12 0.06
Matches are distributed among these distances:
258 1 0.00
259 2 0.00
260 11 0.00
261 622 0.24
262 9 0.00
263 1 0.00
265 2 0.00
267 1 0.00
268 2 0.00
269 1 0.00
270 7 0.00
271 3 0.00
272 3 0.00
273 4 0.00
274 5 0.00
275 1 0.00
276 2 0.00
278 2 0.00
281 37 0.01
282 1810 0.71
283 29 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (279 bp):
GGCAGCTCAGGTTGACTAGATTCAGAGCTTGATGAAAAATTTATGTATATCCTCCAGAGATCTTG
CCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCTTGCAGTTTCTCAATCATACTCGGA
ACAATCACTTCCTCAACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGC
TGATTTTGCTTCAAGAACAGGCAGCACCACATTAGTCTCGGTCTTTGAATCTTTTGATGATTTGT
TCTTTAAGCTGAAGAATGT
Found at i:829010 original size:564 final size:561
Alignment explanation
Indices: 827939--831211 Score: 3689
Period size: 564 Copynumber: 5.9 Consensus size: 561
827929 GTATTTGTAT
*** ** * * **
827939 AGCCTGAAGAAAACGGCAGCTCAGCTGGACTAGATTCTGGAGCATGACGAAATGCTTTATGTATA
1 AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
* * * * * * * *
828004 TCCTCCAGAGATCTTGCCTCAACTATAGGTAACTCTGATTTGATATCTCCATGATTCTTCGGTTT
66 TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
828069 CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
131 CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
* * * * * *
828134 AATCAATATCTTCTGCTGATCGTGCTTCAAGAATAGGAAGCACCACATTATTGTCGGTCTTCG-A
196 AATCAATATCTTCTGCTGTTTG-GCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTGTA
* ** * * * ** * ** * * * * * **
828198 ATCTTTTGATAATTCCTTCCTAAAGTCAAAAGATTGCAGCACCTCAACCGGATTAGATTCTGCTG
260 A-CTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGAG
* ** * *
828263 CTTGTTGAAAATA-TTTATGTATATCCTCCAGAGATCTTGTTTCGACAACAGGTAGTTTTGCTTT
324 CTTGATGAAAA-ACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTT
* * *
828327 ATTATCTGTATGATCTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCCTCAACATGAACCC
388 A-TATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCC
*
828392 CTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTACTTCAAGAACAGGCAGC
452 CTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGC
828457 AGCACATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTA
517 AGCACATTGGTCTCGGTCTTTGTA-CTTTTGATGATTTGTTCTTTA
* * * *
828503 AGCCTGAAGAATGTGGAAGCTCAGGTTGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATG
1 AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
* * * * *
828568 TCCTCCAGAGATCTTGCTTCGACAACAGGTAGTTTTGCTTT-ATTATCTGCATGATCTTGCAGTT
66 TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGA-TATCTCCATGATCCTGCAGTT
* * * * *
828632 TCTCAATCATACTTGGAACAATTACTTCCTCAACATCAACCCCTTCGTAAAGTTGCTTAAATGCC
130 TCTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCC
** * *
828697 AAATCAATATCTTCTGCTGTTTTGGCTTCAAGAACAGGCTGCAGCC-CATTGGTCTCGGTCTTTG
195 AAATCAATATCTTCTGCTG-TTTGGCTTCAAGAACAGGAAGCA-CCACATTAGTATCGGTCTTTG
* ** *
828761 TAACTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGGTTTACTAGAATCCGGA
258 TAACTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGA
* *
828826 GCTTGATGAAAAACTTTATGTATATCCTCCATAGATCTTGCCTCGACAACAGGTAATTTTAATTT
323 GCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTT
** * * * * *
828891 GATATCTCCATGATCCTGCGGTTTCTCAATCATACTCGGAACAATCACTTCCTCTACATCAACCC
388 -ATATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCC
* * * * *
828956 TTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAATAGGCAGA
452 CTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGC
* * *
829021 ACCACATTAGT-T---TC--TGTA--TTCG-T-A---------T-
517 AGCACATTGGTCTCGGTCTTTGTACTTTTGATGATTTGTTCTTTA
* * * ** **
829046 AGCCTGAAGAAGGCGGCAGCTCAGCTGGACTAAATTCTGGAGCTTGATGAAATGCTTTATGTATA
1 AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
* * * * * *
829111 TCCTCCAGAGTTCTTGCCTCAACTATAGGTAATTTTGATTTGATATCTCCATGATCCTTCGGTTT
66 TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
* *
829176 CTCAATCATACTTGGAAGAATCACCTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
131 CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
* * * * * * *
829241 AATCAATATCTTCTGCTGATCGTGCTTCAAGAATAGGAAGCACCATATTATTGTCGGTCTTCG-A
196 AATCAATATCTTCTGCTGTTTG-GCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTGTA
* ** * * * * * ** * * * * * *
829305 ATCTTTTGATAATTCCTTCCTAAAGTCGGAAGATTGCAGCACCTCAACCGGATTAGATTCTGGTG
260 A-CTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGAG
* ** * ** * **
829370 CTTGTTGAAAATTTTTATGTATATCCTCCAGAAATCTTGTTTCAACAACAGGTAGCTTTACTTTA
324 CTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTTA
*
829435 TTATCCGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCCC
389 -TATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCCC
**
829500 TTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGTG
453 TTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCA
829565 GCACATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTA
518 GCACATTGGTCTCGGTCTTTGTA-CTTTTGATGATTTGTTCTTTA
* ** *
829610 AGCCTGAAGAATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATA
1 AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
*
829675 TCCTCCATAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
66 TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
* * *
829740 CTCAATCATACTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCA
131 CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
** * * *
829805 AATCAATATCTTCTGCTGATTTCACTTCAAGAACAGGCAGCACCACATTCGTATTGGTCTTTGTA
196 AATCAATATCTTCTGCTG-TTTGGCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTGTA
* * * * * * * *
829870 TCTTTTGATGATTTGTTCTTTAAGCATGAAGAATGTGGAAGCTCAGGTTGACTGGATTCCAGAGG
260 ACTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGAGC
* * *
829935 TTGATGAATAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACGGGTAATTTTTCTTTAT
325 TTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTTAT
* *
830000 CATCTGTATAATCTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCTTCAACATCAACCCCT
390 -ATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCCCT
*
830065 TCGTGAAGTTGCTTAAACGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCAG
454 TCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCAG
* *
830130 CCCATTGATCTCGGTCTTTGTAACTTTTGATGATTTGTTCTTTA
519 CACATTGGTCTCGGTCTTTGT-ACTTTTGATGATTTGTTCTTTA
* ** *
830174 AGCCTGAAGAATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATA
1 AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
*
830239 TCCTCCATAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
66 TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
* * *
830304 CTCAATCATACTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCA
131 CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
** * * *
830369 AATCAATATCTTCTGCTGATTTCACTTCAAGAACAGGCAGCACCACATTCGTATTGGTCTTTGTA
196 AATCAATATCTTCTGCTG-TTTGGCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTGTA
* * * * * * * *
830434 TCTTTTGATGATTTGTTCTTTAAGCATGAAGAATGTGGAAGCTCAGGTTGACTGGATTCCAGAGG
260 ACTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGAGC
* * *
830499 TTGATGAATAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACGGGTAATTTTTCTTTAT
325 TTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTTAT
* * *
830564 CATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAAGAATTACTTCCTCAATATCGACCCCT
390 -ATCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCCCT
* * * * * ** *
830629 TCGTGAAGTTGGTTAAAAGTCAAATCAATAACTTCTGCTGATCTTGCTTCAAGAACAGGTAATAC
454 TCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCAG
** *
830694 CACATCAGTCTCAG-C------CTTTT--T-A---------T-
519 CACATTGGTCTCGGTCTTTGTACTTTTGATGATTTGTTCTTTA
* * * ** * * **
830717 AGCCTGAAGAAGGCT-GCTGGTCAGCTGGACTAGATTCTGGAACTTGTTGAAATGCTTTATGTAT
1 AGCCTGAAGAATG-TGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTAT
* * *
830781 ATCCTCCAGAGATCTTACCTCGACTACGGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTT
65 ATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTT
* *
830846 TCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGCTTGAAAGCC
130 TCTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCC
* * ** *
830911 AAATTAATATCTTCCGCTGATCTT-GCTTCAAGAACAGGAAGCACCATGTTA-T-TC--TC--AG
195 AAATCAATATCTTCTGCTG-T-TTGGCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTG
*
830969 T--C-TTTG-T-A---------T-AGCCTGAAGAAGGTGGCAGCTCAGCTGGACTAGATTCCGGA
258 TAACTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGA
* * ** * *
831019 GATTGTTGAAACGCTTTATATATATCCTCCAGAGATCTTGCCTCGACAACGGGTAATTTTGA-TT
323 GCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTT-ACTT
* * * *
831083 TGTTAGCTG-ATTGATCTTGCAGTTTCTCAATCATACTCGGAACAATCACTTCCTCAACATCAAC
387 T-ATATCTGTA-TAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAAC
* * *
831147 CCCTTCATGAAGTTGCTTAAAAGCCATATCAATGTCTTCTGCTGATTTTGCTTCAAGAACAGGCA
450 CCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCA
831212 ACACTACATT
Statistics
Matches: 2337, Mismatches: 331, Indels: 124
0.84 0.12 0.04
Matches are distributed among these distances:
521 1 0.00
522 200 0.09
523 2 0.00
532 1 0.00
533 1 0.00
534 4 0.00
535 1 0.00
537 2 0.00
539 2 0.00
541 1 0.00
542 8 0.00
543 641 0.27
544 7 0.00
547 2 0.00
549 4 0.00
552 3 0.00
553 3 0.00
554 3 0.00
555 3 0.00
556 5 0.00
558 4 0.00
560 2 0.00
563 6 0.00
564 1421 0.61
565 10 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (561 bp):
AGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCAGAGCTTGATGAAAAACTTTATGTATA
TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTT
CTCAATCATACTTGGAACAATCACTTCCTCAACATCGACCCCTTCATGAAGTTGCTTAAAAGCCA
AATCAATATCTTCTGCTGTTTGGCTTCAAGAACAGGAAGCACCACATTAGTATCGGTCTTTGTAA
CTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGATTCCGGAGCT
TGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTACTTTATA
TCTGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATCAACCCCTTC
GTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCAGCA
CATTGGTCTCGGTCTTTGTACTTTTGATGATTTGTTCTTTA
Found at i:829311 original size:825 final size:823
Alignment explanation
Indices: 828276--831211 Score: 3659
Period size: 825 Copynumber: 3.6 Consensus size: 823
828266 GTTGAAAATA
** * * **
828276 TTTATGTATATCCTCCAGAGATCTTGTTTCGACAACAGGTAGTTTTGCTTTATTATCTGTATGAT
1 TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTA-TATCTCCATGAT
* * *
828341 CTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCCTCAACATGAACCCCTTCGTGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
* * * * * *
828406 TTAAAAGCCAAATCAATATCTTCTGCTGATTTTACTTCAAGAACAGGCAGCAGCACATTGGTCTC
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGAAGCACCATATT-ATCTC
* * * * *
828471 GGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGAAGCTCAGGTTGACTAG
194 GGTCTTCGAATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAG
* * *
828536 ATTCCAGAGCTTGATGAAAAACTTTATGTATGTCCTCCAGAGATCTTGCTTCGACAACAGGTAGT
259 ATTCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAAT
* *
828601 TTTGCTTTATTATCTGCATGATCTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCCTCAAC
324 TTTGATTTATTATCTGCATGATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAAC
* *
828666 ATCAACCCCTTCGTAAAGTTGCTTAAATGCCAAATCAATATCTTCTGCTG-TTTTGGCTTCAAGA
389 ATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTT-GCTTCAAGA
* *
828730 ACAGGCTGCAGCCCATTGGTCTCGGTCTTTGTAACTTTTGATGATTTGTTCTTTAAGCCTGAAGA
453 ACAGGCAGCAGCCCATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGAAGA
*
828795 ATGTGGCAGCTCAGGTTTACTAGAATCCGGAGCTTGATGAAAAACTTTATGTATATCCTCCATAG
518 ATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATAG
*
828860 ATCTTGCCTCGACAACAGGTAATTTTAATTTGATATCTCCATGATCCTGCGGTTTCTCAATCATA
583 ATCTTGCCTCGACAACAGGTAATTTTAATTTGATATCTCCATGATCCTGCAGTTTCTCAATCATA
* * * * *
828925 CTCGGAACAATCACTTCCTCTACATCAACCCTTTCATGAAGTTGCTTAAAAGCCAAATCAATATC
648 CTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATC
* *
828990 TTCTGCTGATCTTGCTTCAAGAATAGGCAGAACCACATTAGTTTCTGTATTCGTATAGCCTGAAG
713 TTCTGCTGATCTTGCTTCAAGAACAGGCAGAACCACATTAGTTTCTGTATTTGTATAGCCTGAAG
*
829055 AAGGCGGCAGCTCAGCTGGACTAAATTCTGGAGCTTGATGAAATGC
778 AAGGCGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAATGC
* * * *
829101 TTTATGTATATCCTCCAGAGTTCTTGCCTCAACTATAGGTAATTTTGATTTGATATCTCCATGAT
1 TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTT-ATATCTCCATGAT
* * * *
829166 CCTT-CGGTTTCTCAATCATACTTGGAAGAATCACCTCCTCAACATCGACCCCTTCATGAAGTTG
65 -CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTG
* * *
829230 CTTAAAAGCCAAATCAATATCTTCTGCTGATCGTGCTTCAAGAATAGGAAGCACCATATTATTGT
129 CTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGAAGCACCATATTA-TCT
* ** * * * * * ** * * * *
829295 CGGTCTTCGAATCTTTTGATAATTCCTTCCTAAAGTCGGAAGATTGCAGCACCTCAACCGGATTA
193 CGGTCTTCGAATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTA
** * * ** * ** * *
829360 GATTCTGGTGCTTGTTGAAAATTTTTATGTATATCCTCCAGAAATCTTGTTTCAACAACAGGTAG
258 GATTCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAA
* * * *
829425 CTTT-ACTTTATTATCCGTATAATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCA
323 TTTTGA-TTTATTATCTGCATGATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCA
829489 ACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAG
387 ACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAG
** *
829554 AACAGGCAGTGGCACATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGAAG
452 AACAGGCAGCAGCCCATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGAAG
829619 AATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATA
517 AATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATA
*
829684 GATCTTGCCTCGACAACAGGTAATTTTGATTTGATATCTCCATGATCCTGCAGTTTCTCAATCAT
582 GATCTTGCCTCGACAACAGGTAATTTTAATTTGATATCTCCATGATCCTGCAGTTTCTCAATCAT
829749 ACTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATAT
647 ACTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATAT
* *
829814 CTTCTGCTGAT-TTCACTTCAAGAACAGGCAGCACCACATTCGTATTGGTCTTTGTATCTTTTGA
712 CTTCTGCTGATCTT-GCTTCAAGAACAGGCAGAACCACA-T--TA---G----T-T-TC---TG-
* * * * * * * * ** *
829878 TGATTTGTTCTTTAAGCATGAAGAATGTGGAAGCTCAGGTTGACTGGATTCCAGAGGTTGATG-A
760 T-ATTTG---TAT-AGCCTGAAGAAGGCGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAA
*
829942 ATAAC
820 AT-GC
* ** ** *
829947 TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACGGGTAATTTTTCTTTATCATCTGTATAAT
1 TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTAT-ATCTCCATGAT
* * *
830012 CTTGCAGTTTCTCAATCATACTTGGAACAATTACTTCTTCAACATCAACCCCTTCGTGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
* * * *
830077 TTAAACGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACAGGCAGCAGCCCAT-TGATCT
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGAAGCA--CCATATTATCT
* * **
830141 CGGTCTTTGTAA-CTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGGTTTACT
193 CGGTCTTCG-AATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACT
* *
830205 AGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATAGATCTTGCCTCGACAACAGGTA
257 AGATTCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTA
* * *
830270 ATTTTGATTTGA-TATCTCCATGATCCTGCAGTTTCTCAATCATACTCGGAACAATAACTTCCTC
322 ATTTTGATTT-ATTATCTGCATGATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTC
* **
830334 AACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTCACTTCAA
386 AACATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAA
* * * *
830399 GAACAGGCAGCA-CCACATTCGTATTGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCATGA
451 GAACAGGCAGCAGCC-CATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGA
* * * * * *
830463 AGAATGTGGAAGCTCAGGTTGACTGGATTCCAGAGGTTGATGAATAACTTTATGTATATCCTCCA
515 AGAATGTGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCA
* * ** ** * *
830528 GAGATCTTGCCTCGACAACGGGTAATTTTTCTTT-ATCATCTGTATAATCTTGCAGTTTCTCAAT
580 TAGATCTTGCCTCGACAACAGGTAATTTTAATTTGAT-ATCTCCATGATCCTGCAGTTTCTCAAT
* * * * *
830592 CATACTCGGAAGAATTACTTCCTCAATATCGACCCCTTCGTGAAGTTGGTTAAAAGTCAAATCAA
644 CATACTCGGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAA
* * * * * ** *
830657 TAACTTCTGCTGATCTTGCTTCAAGAACAGGTA-ATACCACATCAGTCTCAGCCTTTTTATAGCC
709 TATCTTCTGCTGATCTTGCTTCAAGAACAGGCAGA-ACCACATTAGTTTCTGTATTTGTATAGCC
* * * * *
830721 TGAAGAAGGCTGCTGGTCAGCTGGACTAGATTCTGGAACTTGTTGAAATGC
773 TGAAGAAGGCGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAATGC
* * *
830772 TTTATGTATATCCTCCAGAGATCTTACCTCGACTACGGGTAATTTTGATTTGATATCTCCATGAT
1 TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTT-ATATCTCCATGAT
*
830837 CCTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
65 CTTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGC
* * * *
830902 TTGAAAGCCAAATTAATATCTTCCGCTGATCTTGCTTCAAGAACAGGAAGCACCATGTTA--T--
130 TTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGAAGCACCATATTATCTCG
* *
830963 -TC-TC-AGTC-TTTG-T-A---------T-AGCCTGAAGAAGGTGGCAGCTCAGCTGGACTAGA
195 GTCTTCGAATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGA
* * * ** * *
831012 TTCCGGAGATTGTTGAAACGCTTTATATATATCCTCCAGAGATCTTGCCTCGACAACGGGTAATT
260 TTCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATT
* * *
831077 TTGATTTGTTAGCTG-ATTGATCTTGCAGTTTCTCAATCATACTCGGAACAATCACTTCCTCAAC
325 TTGATTTATTATCTGCA-TGATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAAC
* * *
831141 ATCAACCCCTTCATGAAGTTGCTTAAAAGCCATATCAATGTCTTCTGCTGATTTTGCTTCAAGAA
389 ATCAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAA
831206 CAGGCA
454 CAGGCA
831212 ACACTACATT
Statistics
Matches: 1811, Mismatches: 255, Indels: 111
0.83 0.12 0.05
Matches are distributed among these distances:
803 1 0.00
804 207 0.11
805 1 0.00
814 1 0.00
815 1 0.00
816 5 0.00
817 1 0.00
818 1 0.00
819 2 0.00
822 1 0.00
823 4 0.00
824 4 0.00
825 853 0.47
826 16 0.01
828 2 0.00
829 3 0.00
831 2 0.00
834 2 0.00
835 1 0.00
836 2 0.00
837 2 0.00
840 3 0.00
841 1 0.00
842 4 0.00
843 1 0.00
845 14 0.01
846 664 0.37
847 8 0.00
848 4 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (823 bp):
TTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTATATCTCCATGATC
TTGCAGTTTCTCAATCATACTTGGAACAATCACTTCCTCAACATCAACCCCTTCATGAAGTTGCT
TAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACAGGAAGCACCATATTATCTCGG
TCTTCGAATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATGTGGCAGCTCAGCTGGACTAGAT
TCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTT
TGATTTATTATCTGCATGATCTTGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACAT
CAACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATTTTGCTTCAAGAACA
GGCAGCAGCCCATTGGTCTCGGTCTTTGTATCTTTTGATGATTTGTTCTTTAAGCCTGAAGAATG
TGGCAGCTCAGGTTTACTAGAATCCAGAGCTTGATGAAAAACTTTATGTATATCCTCCATAGATC
TTGCCTCGACAACAGGTAATTTTAATTTGATATCTCCATGATCCTGCAGTTTCTCAATCATACTC
GGAACAATAACTTCCTCAACATCGACCCCTTCGTGAAGTTGCTTAAAAGCCAAATCAATATCTTC
TGCTGATCTTGCTTCAAGAACAGGCAGAACCACATTAGTTTCTGTATTTGTATAGCCTGAAGAAG
GCGGCAGCTCAGCTGGACTAGATTCTGGAGCTTGATGAAATGC
Found at i:834987 original size:10 final size:9
Alignment explanation
Indices: 834972--835004 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
834962 TTAGTCTTTA
834972 AATTTTTTT
1 AATTTTTTT
834981 AATTTTTTT
1 AATTTTTTT
834990 AATTTTTTT
1 AATTTTTTT
834999 AATTTT
1 AATTTT
835005 ATACTTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:835917 original size:2 final size:2
Alignment explanation
Indices: 835910--835981 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
835900 AAAACAACTT
835910 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA 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
835951 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835982 GAGATATGAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:836948 original size:2 final size:2
Alignment explanation
Indices: 836941--837004 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
836931 ATCCTAACCC
*
836941 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
836983 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
837005 GAAATAATCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:837798 original size:59 final size:59
Alignment explanation
Indices: 837735--837846 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
837725 CTTCCCATTT
* *
837735 CATTTTAGCACACGAAGTGCCTTAT-TCGAAAATCCATAACATTAGTATGATTTTATTAC
1 CATTTTAGCACACGAAATGCCCTATGT-GAAAATCCATAACATTAGTATGATTTTATTAC
* *
837794 CATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTT
1 CATTTTAGCACACGAAATGCCCTATGTGAAAATCCATAACATTAGTATGATTT
837847 CCTTATCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 47 0.98
60 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (59 bp):
CATTTTAGCACACGAAATGCCCTATGTGAAAATCCATAACATTAGTATGATTTTATTAC
Found at i:837862 original size:59 final size:59
Alignment explanation
Indices: 837735--837863 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
837725 CTTCCCATTT
* * * *
837735 CATTTTAGCACACGAAGTGCCTTATTCGAAAATCCATAACATTAGTATGATTTTATTAC
1 CATTGTAGCACACGAAATGCCCTATTCGAAAATCCATAACATTAGTATGATTTCATTAC
* * * *
837794 CATTTTAGCACATGAAATGCCCTATGT-GAAAATCCATACCATTAGTATGATTTCCTTATC
1 CATTGTAGCACACGAAATGCCCTAT-TCGAAAATCCATAACATTAGTATGATTTCATTA-C
837854 CA-TGTAGCAC
1 CATTGTAGCAC
837864 CCTTAGTGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
59 57 0.93
60 4 0.07
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (59 bp):
CATTGTAGCACACGAAATGCCCTATTCGAAAATCCATAACATTAGTATGATTTCATTAC
Found at i:837921 original size:59 final size:58
Alignment explanation
Indices: 837837--838099 Score: 262
Period size: 58 Copynumber: 4.5 Consensus size: 58
837827 CCATACCATT
* * * * ** *
837837 AGTATGATTTCCTTATCCATGTAGCACCCTTAGTGCTTTATCTGGAAAT-TCATACACTC
1 AGTATGATTTCCTTAT-CATTTAGCACACTCAATGCTCCATATGGAAATCT-ATACACTC
* * * * * ***
837896 AGTATGATTCCCTTACCATTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATTTTC
1 AGTATGATTTCCTTATCA-TTTAGCACACT-CAATGCTCC-ATATGGAAATCTATACACTC
* * * *
837955 AATATTATTTCCTTATCATTTATCACACTCAATGATCCATATGGAAATCTATACACTC
1 AGTATGATTTCCTTATCATTTAGCACACTCAATGCTCCATATGGAAATCTATACACTC
*
838013 AGTATGATTTCCTTATCATTTAGCACACTCAATGCTTCATATGGAAATCTATACACTC
1 AGTATGATTTCCTTATCATTTAGCACACTCAATGCTCCATATGGAAATCTATACACTC
*
838071 AGTATGATTTCCTTATTATTTTAGCACAC
1 AGTATGATTTCCTTATCA-TTTAGCACAC
838100 AAAGTGCCAT
Statistics
Matches: 167, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
58 100 0.60
59 67 0.40
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (58 bp):
AGTATGATTTCCTTATCATTTAGCACACTCAATGCTCCATATGGAAATCTATACACTC
Found at i:837965 original size:118 final size:117
Alignment explanation
Indices: 837790--838039 Score: 290
Period size: 118 Copynumber: 2.1 Consensus size: 117
837780 TATGATTTTA
* * *
837790 TTACCATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTTCCTTATCC
1 TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATTAATATGATTTCCTTAT-C
* * * * ** *
837855 ATGTAGCACCCTTAGTGCTTTATCTGGAAAT-TCATACACTCAGTATGATTCCC
65 ATGTAGCACACTCAATGATCCATATGGAAATCT-ATACACTCAGTATGATTCCC
* ** *
837908 TTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATA-TTTTCAATATTATTTCCTTATC
1 TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATT-AATATGATTTCCTTATC
* * *
837972 ATTTATCACACTCAATGATCCATATGGAAATCTATACACTCAGTATGATTTCC
65 ATGTAGCACACTCAATGATCCATATGGAAATCTATACACTCAGTATGATTCCC
*
838025 TTATCA-TTTAGCACA
1 TTACCATTTTAGCACA
838040 CTCAATGCTT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
116 9 0.08
117 49 0.44
118 54 0.48
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (117 bp):
TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATTAATATGATTTCCTTATCA
TGTAGCACACTCAATGATCCATATGGAAATCTATACACTCAGTATGATTCCC
Found at i:838099 original size:117 final size:117
Alignment explanation
Indices: 837790--838099 Score: 297
Period size: 117 Copynumber: 2.6 Consensus size: 117
837780 TATGATTTTA
* * * * *
837790 TTACCATTTTAGCACATGAAATGCCCTATGTGAAAATCCATAC-CATTAGTATGATTTCCTTATC
1 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATACAC-TCAATATGATTTCCTTAT-
* * * * * ** *
837854 CATGTAGCACCCTTAGTGCTTTATCTGGAAATTCATACACTCAGTATGATTCCC
64 CATTTAGCACACTCAATGATCCATATGGAAATTCATACACTCAGTATGATTCCC
* *** *
837908 TTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATTATTTCCTTATCA
1 TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATACACTCAATATGATTTCCTTATCA
* *
837973 TTTATCACACTCAATGATCCATATGGAAA-TCTATACACTCAGTATGATTTCC
66 TTTAGCACACTCAATGATCCATATGGAAATTC-ATACACTCAGTATGATTCCC
* * * * *
838025 TTATCA-TTTAGCACACT-CAATG-CTTCATATGGAAATCTATACACTCAGTATGATTTCCTTAT
1 TTACCATTTTAGCACA-TAAAATGCCCT-ATATGGAAATCCATACACTCAATATGATTTCCTTAT
*
838087 TATTTTAGCACAC
64 CA-TTTAGCACAC
838100 AAAGTGCCAT
Statistics
Matches: 157, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
115 2 0.01
116 45 0.29
117 56 0.36
118 54 0.34
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (117 bp):
TTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATACACTCAATATGATTTCCTTATCA
TTTAGCACACTCAATGATCCATATGGAAATTCATACACTCAGTATGATTCCC
Found at i:838542 original size:17 final size:18
Alignment explanation
Indices: 838503--838544 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
838493 TCTTAAGGGG
* *
838503 GTGCATCGATACACTACCT
1 GTGCATCGACACACTA-CA
838522 GTGCATCGACACACT-CA
1 GTGCATCGACACACTACA
838539 GTGCAT
1 GTGCAT
838545 TCGATGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (18 bp):
GTGCATCGACACACTACA
Found at i:844549 original size:17 final size:18
Alignment explanation
Indices: 844516--844549 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
844506 TATTCTGATA
844516 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
844534 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
844550 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:845021 original size:117 final size:116
Alignment explanation
Indices: 844754--845076 Score: 382
Period size: 117 Copynumber: 2.7 Consensus size: 116
844744 CCATAACATT
** * * * *
844754 AGTATGATTTTGTTACCATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATT-AGTAT
1 AGTATGATTTCCTTACCA-TTTAGCACATAAAATGCCCTATATGGAAATCCATA-TATTCAGTAT
* * ** *
844818 GATTTCCTTATCCTTGTAGCACCCTTAGTGCTTTATCTGGAAATTCATACACTC
64 GATTTCCTTATCATT-TAGCACACTTAGTGCTCCATATGGAAATTCATACACTC
* * * *
844872 AGTATGATTCCCTTACCATTATAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATG
1 AGTATGATTTCCTTACCATT-TAGCACATAAAATGCCCTATATGGAAATCCATATATTCAGTATG
844937 ATTTCCTTATCATTTAGCACACTTAGTGCTCCATATGGAAA-TCTATACACTC
65 ATTTCCTTATCATTTAGCACACTTAGTGCTCCATATGGAAATTC-ATACACTC
* * *
844989 AGTATGATTTCCTTATCATTTAGCACACTAAAATGCTCC-ATATGGAAATCTATATACTCAGTAT
1 AGTATGATTTCCTTACCATTTAGCACA-TAAAATGC-CCTATATGGAAATCCATATATTCAGTAT
*
845053 GATTTCTTTATCATTTTAGCACAC
64 GATTTCCTTATCA-TTTAGCACAC
845077 AAAGTGCCAT
Statistics
Matches: 177, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
116 9 0.05
117 93 0.53
118 75 0.42
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (116 bp):
AGTATGATTTCCTTACCATTTAGCACATAAAATGCCCTATATGGAAATCCATATATTCAGTATGA
TTTCCTTATCATTTAGCACACTTAGTGCTCCATATGGAAATTCATACACTC
Found at i:845101 original size:59 final size:57
Alignment explanation
Indices: 844706--845084 Score: 259
Period size: 59 Copynumber: 6.5 Consensus size: 57
844696 ATATGCTTCC
* * * *
844706 CCTT-TCATTTTAGCACACGAAGTGCCC-TATTCGAAAATCCATA-ACATTAGTATGATTT
1 CCTTATCA-TTTAGCACACAAAGTGCCCATA-T-GGAAATCTATACAC-TCAGTATGATTT
** * * * *
844764 TGTTACCATTTTAGCACATGAAA-TGCCC-TATGTGAAAATCCATAC-CATTAGTATGATTT
1 CCTTATCA-TTTAGCACA-CAAAGTGCCCATATG-G-AAATCTATACAC-TCAGTATGATTT
* * ** ** * *
844823 CCTTATCCTTGTAGCACCCTTAGTGCTTTATCTGGAAAT-TCATACACTCAGTATGATTC
1 CCTTATCATT-TAGCACACAAAGTGC-CCATATGGAAATCT-ATACACTCAGTATGATTT
* * * * * *** *
844882 CCTTACCATTATAGCACATAAAATGCCCTATCTGGAAATCCATATTTTCAATATGATTT
1 CCTTATCATT-TAGCACACAAAGTGCCC-ATATGGAAATCTATACACTCAGTATGATTT
**
844941 CCTTATCATTTAGCACACTTAGTGCTCCATATGGAAATCTATACACTCAGTATGATTT
1 CCTTATCATTTAGCACACAAAGTGC-CCATATGGAAATCTATACACTCAGTATGATTT
* *
844999 CCTTATCATTTAGCACACTAAAATGCTCCATATGGAAATCTATATACTCAGTATGATTT
1 CCTTATCATTTAGCACAC-AAAGTGC-CCATATGGAAATCTATACACTCAGTATGATTT
*
845058 CTTTATCATTTTAGCACACAAAGTGCC
1 CCTTATCA-TTTAGCACACAAAGTGCC
845085 ATTCGGTAAT
Statistics
Matches: 252, Mismatches: 53, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.00
58 60 0.24
59 174 0.69
60 14 0.06
61 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (57 bp):
CCTTATCATTTAGCACACAAAGTGCCCATATGGAAATCTATACACTCAGTATGATTT
Found at i:848805 original size:18 final size:18
Alignment explanation
Indices: 848779--848825 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
848769 CCAAGGGTAT
*
848779 TTCAATCATTTCATCCAA
1 TTCATTCATTTCATCCAA
* **
848797 TTCATTCATTCCATTTAA
1 TTCATTCATTTCATCCAA
848815 TTCATTC-TTTC
1 TTCATTCATTTC
848826 CATTTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCATTCATTTCATCCAA
Found at i:848826 original size:18 final size:18
Alignment explanation
Indices: 848795--848831 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
848785 CATTTCATCC
848795 AATTCATTCATTCCATTT
1 AATTCATTCATTCCATTT
*
848813 AATTCATTCTTTCCATTT
1 AATTCATTCATTCCATTT
848831 A
1 A
848832 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTCATTCATTCCATTT
Found at i:851408 original size:30 final size:29
Alignment explanation
Indices: 851373--851439 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
851363 AATAGTAGTA
851373 TTAGTATTTTAATATATATTTTTAATT-TTT
1 TTAGTATTTTAATATA-ATTTTT-ATTGTTT
* *
851403 TTAGTAATTTAATTTAATTTTTATTGTTT
1 TTAGTATTTTAATATAATTTTTATTGTTT
851432 TTA-TATTT
1 TTAGTATTT
851440 AATTTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.21
29 12 0.36
30 14 0.42
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (29 bp):
TTAGTATTTTAATATAATTTTTATTGTTT
Found at i:851418 original size:22 final size:21
Alignment explanation
Indices: 851393--851447 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
851383 AATATATATT
851393 TTTAATTTTTTTAGTAATTTA-A
1 TTTAATTTTTTT-GT-ATTTATA
*
851415 TTTAATTTTTATTGTTTTTATA
1 TTTAATTTTT-TTGTATTTATA
851437 TTTAATTTTTT
1 TTTAATTTTTT
851448 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 23 0.77
23 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTAATTTTTTTGTATTTATA
Found at i:851484 original size:18 final size:19
Alignment explanation
Indices: 851449--851500 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
851439 TAATTTTTTA
*
851449 AAATTTT-AAATATTATTT
1 AAATTTTAAAATATAATTT
851467 AAATTTTAAAATA-AATTT
1 AAATTTTAAAATATAATTT
** *
851485 ATTTTTTAAAAAATAA
1 AAATTTTAAAATATAA
851501 ATAAGCCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATTTTAAAATATAATTT
Found at i:856310 original size:23 final size:23
Alignment explanation
Indices: 856280--856325 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
856270 TTGAACACCC
856280 TTACTCGTTTCCTTACATGGCGT
1 TTACTCGTTTCCTTACATGGCGT
856303 TTACTCGTTTCCTTACATGGCGT
1 TTACTCGTTTCCTTACATGGCGT
856326 GTGCTCGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.43
Consensus pattern (23 bp):
TTACTCGTTTCCTTACATGGCGT
Found at i:856332 original size:23 final size:23
Alignment explanation
Indices: 856281--856332 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
856271 TGAACACCCT
*
856281 TACTCGTTTCCTTACATGGCGTT
1 TACTCGTTTCCTTACATGGCGTG
856304 TACTCGTTTCCTTACATGGCGTG
1 TACTCGTTTCCTTACATGGCGTG
*
856327 TGCTCG
1 TACTCG
856333 CTACCCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (23 bp):
TACTCGTTTCCTTACATGGCGTG
Found at i:857913 original size:28 final size:28
Alignment explanation
Indices: 857881--857950 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
857871 AAAGCCAACC
857881 TGAAACACATTACCTCCCCAAATTAACA
1 TGAAACACATTACCTCCCCAAATTAACA
* *
857909 TGAAACACATTACCTTCCCAAATTAACC
1 TGAAACACATTACCTCCCCAAATTAACA
* *
857937 TAAAACACTTTACC
1 TGAAACACATTACC
857951 AAGTCAACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.24
Consensus pattern (28 bp):
TGAAACACATTACCTCCCCAAATTAACA
Found at i:859698 original size:209 final size:208
Alignment explanation
Indices: 859297--859720 Score: 776
Period size: 209 Copynumber: 2.0 Consensus size: 208
859287 GCTATGTTAT
859297 TTATTTCGAATTAACTACTAACCTTTATTTTATTGCATATTAATCACTGAGATTTATTTATTGCT
1 TTATTTCGAATTAACTACTAACCTTTATTTTATTGCATATTAATCACTGAGATTTATTTATTGCT
859362 GATATCCGATTCGACCTCGTGGTTACCCGATATGGGGTACGATTTACATTATGGTCTGGACTCTA
66 GATATCCGATTCGACCTCGTGGTTACCCGATATGGGGTACGATTTACATTATGGTCTGGACTCTA
859427 TTAACATCTAACTACTAACCATTAACTGCTAACTTGTTATTTATTTATTATATATTTATTTTATG
131 TTAACATCTAACTACTAACCATTAACTGCTAACTTGTTATTTATTTATTATATA-TTATTTTATG
859492 TTCAATCATGTACG
195 TTCAATCATGTACG
859506 TTATTTCGAATTAACTACTAACCTTTATTTTATTGCATATTAATCACTGAGATTTATTTATTGCT
1 TTATTTCGAATTAACTACTAACCTTTATTTTATTGCATATTAATCACTGAGATTTATTTATTGCT
859571 GATATCCGATTCGACCTCGTGGTTACCCGATATGGGGTACGATTTACATTATTATGGTCTGGACT
66 GATATCCGATTCGACCTCGTGGTTACCCGATATGGGGTACGATTTAC---ATTATGGTCTGGACT
859636 CTATTAACATCTAACTACTAACCATTAACTGCTAACTTGTTATTTATTTATTTATATATTTTATT
128 CTATTAACATCTAACTACTAACCATTAACTGCTAACTTGTTATTTATTTA-TTATATA--TTATT
859701 TTATGTTCAAATCATGTACG
190 TTATGTTC-AATCATGTACG
859721 ACCTTGCGAC
Statistics
Matches: 209, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
209 112 0.54
212 65 0.31
213 7 0.03
214 14 0.07
215 11 0.05
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (208 bp):
TTATTTCGAATTAACTACTAACCTTTATTTTATTGCATATTAATCACTGAGATTTATTTATTGCT
GATATCCGATTCGACCTCGTGGTTACCCGATATGGGGTACGATTTACATTATGGTCTGGACTCTA
TTAACATCTAACTACTAACCATTAACTGCTAACTTGTTATTTATTTATTATATATTATTTTATGT
TCAATCATGTACG
Found at i:859961 original size:14 final size:14
Alignment explanation
Indices: 859871--859963 Score: 51
Period size: 14 Copynumber: 6.5 Consensus size: 14
859861 TTCTTATTTA
* *
859871 TTTAATTTCAGCCC
1 TTTAATTTTAGTCC
* * *
859885 TTTAATTTCATTAC
1 TTTAATTTTAGTCC
* *
859899 TTTAATTTTCTGTCT
1 TTTAATTTT-AGTCC
* * *
859914 TTTTATTTTTGACC
1 TTTAATTTTAGTCC
* * *
859928 TTCATTTTTCAGTAC
1 TTTAATTTT-AGTCC
859943 TTTAATTTTAGTCC
1 TTTAATTTTAGTCC
859957 TTTAATT
1 TTTAATT
859964 ATTGCATTTT
Statistics
Matches: 57, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
14 39 0.68
15 18 0.32
ACGTcount: A:0.20, C:0.16, G:0.05, T:0.58
Consensus pattern (14 bp):
TTTAATTTTAGTCC
Found at i:861380 original size:291 final size:291
Alignment explanation
Indices: 860856--861439 Score: 1159
Period size: 291 Copynumber: 2.0 Consensus size: 291
860846 AGTAATCTGA
860856 GTTGGCCCTCGCCTAAATGCTCAAGGGACCATATCGATTATTCGATTCAATAACTGGTTAAAATC
1 GTTGGCCCTCGCCTAAATGCTCAAGGGACCATATCGATTATTCGATTCAATAACTGGTTAAAATC
860921 AAGTAAGATTAATATTAGAGCCTACATTTTTAGGTTTATGCCTCTATGTCCTTTAATTATTCATA
66 AAGTAAGATTAATATTAGAGCCTACATTTTTAGGTTTATGCCTCTATGTCCTTTAATTATTCATA
860986 ATTTGACACTTTAAACTATAGAAAGCCTTAATCTACTCTTAGTAAATAGGGTTAATAATAAACTA
131 ATTTGACACTTTAAACTATAGAAAGCCTTAATCTACTCTTAGTAAATAGGGTTAATAATAAACTA
861051 TTTGATTGTATCATGTTCTAAAACCTAAGGCAATGTTCACTTGTTAGGGAATCAATATTATATCT
196 TTTGATTGTATCATGTTCTAAAACCTAAGGCAATGTTCACTTGTTAGGGAATCAATATTATATCT
861116 CCCGTAAGTATTACTCAGGGGGTGACTACTG
261 CCCGTAAGTATTACTCAGGGGGTGACTACTG
861147 GTTGGCCCTCGCCTAAATGCTCAAGGGACCATATCGATTATTCGATTCAATAACTGGTTAAAATC
1 GTTGGCCCTCGCCTAAATGCTCAAGGGACCATATCGATTATTCGATTCAATAACTGGTTAAAATC
861212 AAGTAAGATTAATATTAGAGCCTACATTTTTAGGTTTATGCCTCTATGTCCTTTAATTATTCATA
66 AAGTAAGATTAATATTAGAGCCTACATTTTTAGGTTTATGCCTCTATGTCCTTTAATTATTCATA
*
861277 ATTTGACACTTTAAACTATAGAAAGCCTTAATCTACTCTTAGTAAATAGGGTTAATAATAAACTG
131 ATTTGACACTTTAAACTATAGAAAGCCTTAATCTACTCTTAGTAAATAGGGTTAATAATAAACTA
861342 TTTGATTGTATCATGTTCTAAAACCTAAGGCAATGTTCACTTGTTAGGGAATCAATATTATATCT
196 TTTGATTGTATCATGTTCTAAAACCTAAGGCAATGTTCACTTGTTAGGGAATCAATATTATATCT
861407 CCCGTAAGTATTACTCAGGGGGTGACTACTG
261 CCCGTAAGTATTACTCAGGGGGTGACTACTG
861438 GT
1 GT
861440 ATTTCCCGAA
Statistics
Matches: 292, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 292 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (291 bp):
GTTGGCCCTCGCCTAAATGCTCAAGGGACCATATCGATTATTCGATTCAATAACTGGTTAAAATC
AAGTAAGATTAATATTAGAGCCTACATTTTTAGGTTTATGCCTCTATGTCCTTTAATTATTCATA
ATTTGACACTTTAAACTATAGAAAGCCTTAATCTACTCTTAGTAAATAGGGTTAATAATAAACTA
TTTGATTGTATCATGTTCTAAAACCTAAGGCAATGTTCACTTGTTAGGGAATCAATATTATATCT
CCCGTAAGTATTACTCAGGGGGTGACTACTG
Found at i:862588 original size:54 final size:54
Alignment explanation
Indices: 862530--862779 Score: 324
Period size: 54 Copynumber: 4.6 Consensus size: 54
862520 CCAAACAATA
* **
862530 TGATGTTTTCAAATGAATCTTT-AAAGAAGTTAAGTTTGATTTTCAGGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
* * * * ***
862584 TGATGTATTCAAATGAATTTTGAAAGAATCTAAGCCTAATTTTTACATGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
* * * *
862638 TGATGTTTTCAAATAAATGTTT-AAAGGAGCTAAGCCTGATTGTCAGGGGTTTGT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
* *
862692 TGGTGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
862746 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAG
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAG
862780 ACAATAGAAC
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
53 6 0.04
54 156 0.95
55 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
Found at i:863231 original size:118 final size:118
Alignment explanation
Indices: 863022--863527 Score: 689
Period size: 118 Copynumber: 4.3 Consensus size: 118
863012 ACCAGTTAAA
* *
863022 ATTTCTAATGGAAGGGTTCATAATGAGAAAAACTCATCCGATGAGGGATAAGAAGTTCATAATGA
1 ATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
* * *
863087 GAATAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATCAAC
66 GAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * *
863140 ATTTCTGATGGAAGGGTTCGTAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGG
1 ATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
* * * *
863205 GAAAAACTTATTCAACCTTAGCTCGATTCCATCATAAAAGGAGGTGGATCAAC
66 GAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* *
863258 ATTTCTAA-GGAAGGGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGATGTTCATAATGA
1 ATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
* *
863322 GAAGAACTTGTTCAACATTTCA-CTTGATTCCATCACAGAAGGAGGTGGATCAAC
66 GAAGAACTTGTTCAAC-CTT-AGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * * *
863376 ATTTCCAATGGAAGAGTTCGTAATGAAAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
1 ATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
* * * *
863441 GAAGAACGTT-TTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTAGATCATC
66 GAAGAAC-TTGTTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
* * *
863494 ATTT-TCAAT-GAAGAAGTTCCTAATGAGAAAAACT
1 ATTTCT-AATGGAAG-GGTTCATAATGAGAAGAACT
863528 TGTTCAACAT
Statistics
Matches: 343, Mismatches: 38, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
117 70 0.20
118 206 0.60
119 65 0.19
120 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (118 bp):
ATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAAC
Found at i:863512 original size:79 final size:80
Alignment explanation
Indices: 863424--863606 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
863414 CGATGAGGGA
**
863424 GAAGAAGTTCATAATGAGAAGAACGTT-TTCAAC-CTTGGTTCGATTCCATCACAGAAGGAGGTA
1 GAAGAAGTTCATAATGAGAAGAAC-TTGTTCAACACTTCATTCGATTCCATCACA-AAGGAGGTA
* *
863487 GATCATCATTTTCAAT-
64 GATCAACATTTCCAATG
* * * *
863503 GAAGAAGTTCCTAATGAGAAAAACTTGTTCAACATTTCATTCGATTCCATCACAAAGGAGGTGGA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACACTTCATTCGATTCCATCACAAAGGAGGTAGA
863568 TCAACATTTCCAATG
66 TCAACATTTCCAATG
* *
863583 GAAG-GGTTCGTAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
863607 CATCCGACGA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 67 0.74
80 21 0.23
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (80 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACACTTCATTCGATTCCATCACAAAGGAGGTAGA
TCAACATTTCCAATG
Found at i:863658 original size:197 final size:198
Alignment explanation
Indices: 863305--863731 Score: 680
Period size: 197 Copynumber: 2.2 Consensus size: 198
863295 TGATGAGGGA
*
863305 GAAGATGTTCATAATGAGAAGAACTTGTTCAACATTTCACTTGATTCCATCACAGAAGGAGGTGG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTCACTTGATTCCATCACAGAAGGAGGTGG
*
863370 ATCAACATTTCCAATGGAAGAGTTCGTAATGAAAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
66 ATCAACATTTCCAATGGAAGAGTTCGTAATGAAAAGAACTCATCCGACGAGGGAGAAGAAGTTCA
* * *
863435 TAATGAGAAGAACGTTTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTAGATCATCATTTTC
131 TAATGAGAACAACGTTTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTAGATCAGCATTTCC
863500 AAT
196 AAT
* *
863503 GAAGAAGTTCCTAATGAGAAAAACTTGTTCAACATTTCA-TTCGATTCCATCACA-AAGGAGGTG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTCACTT-GATTCCATCACAGAAGGAGGTG
* * *
863566 GATCAACATTTCCAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGACGAGGGAGAAGAATTTC
65 GATCAACATTTCCAATGGAAGAGTTCGTAATGAAAAGAACTCATCCGACGAGGGAGAAGAAGTTC
* * * * *
863631 ATAATGAGAACAAC-TTATTCCACCTTGGTTTGATTCCATCATAGAAGGAGGTGGATCAGCCTTT
130 ATAATGAGAACAACGTT-TTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTAGATCAGCATTT
863695 CCAAT
194 CCAAT
863700 GAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAA
863732 ACCTTGACTC
Statistics
Matches: 210, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
196 2 0.01
197 160 0.76
198 48 0.23
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (198 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTCACTTGATTCCATCACAGAAGGAGGTGG
ATCAACATTTCCAATGGAAGAGTTCGTAATGAAAAGAACTCATCCGACGAGGGAGAAGAAGTTCA
TAATGAGAACAACGTTTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTAGATCAGCATTTCC
AAT
Found at i:866746 original size:121 final size:121
Alignment explanation
Indices: 866532--866772 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
866522 TAGGGAATCA
866532 ATAGTATAGTCCCCGTCATCATGCTCTGGGGGCTACCACTGTCGATTCCCGAAGTAGAGCGACAT
1 ATAGTATAGTCCCCGTCATCATGCTCTGGGGGCTACCACTGTCGATTCCCGAAGTAGAGCGACAT
*
866597 CATTTTCAAGACTGAATCATGATTTCAAAAATTCTAAGGCAATGTTCGATTATTGC
66 CATTTTCAAGACTGAATCATGATTTCAAAAATTCTAAGGCAATGTTCGACTATTGC
866653 ATAGTATAGTCCCCGTCATCATGCTCTGGGGGCTACCACTGTCGATTCCCGAAGTAGAGCGACAT
1 ATAGTATAGTCCCCGTCATCATGCTCTGGGGGCTACCACTGTCGATTCCCGAAGTAGAGCGACAT
866718 CATTTTCAAGACTGAATCATGATTTCAAAAATTCTAAGGCAATGTTCGACTATTG
66 CATTTTCAAGACTGAATCATGATTTCAAAAATTCTAAGGCAATGTTCGACTATTG
866773 AGCATAATAA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (121 bp):
ATAGTATAGTCCCCGTCATCATGCTCTGGGGGCTACCACTGTCGATTCCCGAAGTAGAGCGACAT
CATTTTCAAGACTGAATCATGATTTCAAAAATTCTAAGGCAATGTTCGACTATTGC
Found at i:867562 original size:2 final size:2
Alignment explanation
Indices: 867518--867542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
867508 TGTATACTTT
867518 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
867543 TAGGCGTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:868480 original size:30 final size:29
Alignment explanation
Indices: 868441--868503 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
868431 ATTTCCTTAT
*
868441 TCTAAAATACATTTATATCATTGTACTTTA
1 TCTAAAATACATTTATATCATTCTA-TTTA
* *
868471 TCTAGAATACCTTTATATCATTCTATTTA
1 TCTAAAATACATTTATATCATTCTATTTA
868500 TCTA
1 TCTA
868504 TATCCTACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (29 bp):
TCTAAAATACATTTATATCATTCTATTTA
Found at i:872991 original size:42 final size:42
Alignment explanation
Indices: 872928--873026 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
872918 CAATTACGGC
* *
872928 GTTTATTACAAAAACACCGCTAAAGTGCATGACTATTGCGGT
1 GTTTATTACAAAAACACCGCTAAAGTACATGACTATTGCAGT
* * *
872970 GTTTATTACAAAAATATCGCTAATGTACATGACTATTGCAGT
1 GTTTATTACAAAAACACCGCTAAAGTACATGACTATTGCAGT
873012 GTTTATTACAAAAAC
1 GTTTATTACAAAAAC
873027 GTCGCCTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (42 bp):
GTTTATTACAAAAACACCGCTAAAGTACATGACTATTGCAGT
Found at i:875187 original size:62 final size:62
Alignment explanation
Indices: 875081--875206 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
875071 CTCAAGAATG
* * * * **
875081 GTCAATGGTTGACTCTACTGGGGAGTCAGAAATAAGAAAGGTTGACTTCTCTTCATGAGGAA
1 GTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAAGTTGACTTCTCTTCACAAGGAA
875143 GTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAAGTTGACTTCTCTTCACAAGGAA
1 GTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAAGTTGACTTCTCTTCACAAGGAA
875205 GT
1 GT
875207 AACAAACTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (62 bp):
GTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAAGTTGACTTCTCTTCACAAGGAA
Found at i:875879 original size:111 final size:112
Alignment explanation
Indices: 875685--875909 Score: 434
Period size: 111 Copynumber: 2.0 Consensus size: 112
875675 CCACATCTAA
875685 TCAGATTTCGAACAAATCTATTTTTACCACATCCTGTTGAGACGTTTAACAACAGCCCATCGTTC
1 TCAGATTTCGAACAAATCTATTTTTACCACATCCTGTTGAGACGTTTAACAACAGCCCATCGTTC
875750 AACCTTAGTTGGCTCCACTAGTTTCTTTAAAATTTTAT-CCCATTCT
66 AACCTTAGTTGGCTCCACTAGTTTCTTTAAAATTTTATACCCATTCT
875796 TCAGATTTCGAACAAATCTATTTTTACCACATCCTGTTGAGACGTTTAACAACAGCCCATCGTTC
1 TCAGATTTCGAACAAATCTATTTTTACCACATCCTGTTGAGACGTTTAACAACAGCCCATCGTTC
875861 AACCTTAGTTGGCTCCACTAGTTTCTTTAAAATTTTATCACCCATTCT
66 AACCTTAGTTGGCTCCACTAGTTTCTTTAAAATTTTAT-ACCCATTCT
875909 T
1 T
875910 GTATGATGGA
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
111 103 0.92
113 9 0.08
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (112 bp):
TCAGATTTCGAACAAATCTATTTTTACCACATCCTGTTGAGACGTTTAACAACAGCCCATCGTTC
AACCTTAGTTGGCTCCACTAGTTTCTTTAAAATTTTATACCCATTCT
Found at i:876465 original size:40 final size:40
Alignment explanation
Indices: 876411--876508 Score: 144
Period size: 40 Copynumber: 2.4 Consensus size: 40
876401 TTCAAAATGC
876411 CCCCAACATTTATTTCTTACTGATATGAGCTTTT-AACAGTG
1 CCCCAACA-TTATTTCTTACTGATATGAG-TTTTCAACAGTG
* * *
876452 CCCCAATATTATTTCATATTGATATGAGTTTTCAACAGTG
1 CCCCAACATTATTTCTTACTGATATGAGTTTTCAACAGTG
876492 CCCCAACATTATTTCTT
1 CCCCAACATTATTTCTT
876509 GCTGGTACAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.08
40 40 0.78
41 7 0.14
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (40 bp):
CCCCAACATTATTTCTTACTGATATGAGTTTTCAACAGTG
Found at i:882215 original size:179 final size:179
Alignment explanation
Indices: 881915--882273 Score: 718
Period size: 179 Copynumber: 2.0 Consensus size: 179
881905 TAATATTGAT
881915 ACATTAGAATCCCACTATATTTTCGTGTGCTTTAGGAAAACGTTCAGGAACCTTTATACATAATA
1 ACATTAGAATCCCACTATATTTTCGTGTGCTTTAGGAAAACGTTCAGGAACCTTTATACATAATA
881980 ATTCTAAATTCAGATTTACTGCGAGTGATTCCATTACCCAAACAATCAGGGGTATTCAGGAATAT
66 ATTCTAAATTCAGATTTACTGCGAGTGATTCCATTACCCAAACAATCAGGGGTATTCAGGAATAT
882045 ACTTTAAATTCATAGGATTTCAGCCCAATTGAACCAATGAGATATTCAG
131 ACTTTAAATTCATAGGATTTCAGCCCAATTGAACCAATGAGATATTCAG
882094 ACATTAGAATCCCACTATATTTTCGTGTGCTTTAGGAAAACGTTCAGGAACCTTTATACATAATA
1 ACATTAGAATCCCACTATATTTTCGTGTGCTTTAGGAAAACGTTCAGGAACCTTTATACATAATA
882159 ATTCTAAATTCAGATTTACTGCGAGTGATTCCATTACCCAAACAATCAGGGGTATTCAGGAATAT
66 ATTCTAAATTCAGATTTACTGCGAGTGATTCCATTACCCAAACAATCAGGGGTATTCAGGAATAT
882224 ACTTTAAATTCATAGGATTTCAGCCCAATTGAACCAATGAGATATTCAG
131 ACTTTAAATTCATAGGATTTCAGCCCAATTGAACCAATGAGATATTCAG
882273 A
1 A
882274 ATTTGTTTTT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 180 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (179 bp):
ACATTAGAATCCCACTATATTTTCGTGTGCTTTAGGAAAACGTTCAGGAACCTTTATACATAATA
ATTCTAAATTCAGATTTACTGCGAGTGATTCCATTACCCAAACAATCAGGGGTATTCAGGAATAT
ACTTTAAATTCATAGGATTTCAGCCCAATTGAACCAATGAGATATTCAG
Found at i:883247 original size:18 final size:18
Alignment explanation
Indices: 883224--883258 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
883214 TTCCATCCGG
*
883224 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
883242 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
883259 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:884616 original size:14 final size:14
Alignment explanation
Indices: 884616--884706 Score: 82
Period size: 14 Copynumber: 6.4 Consensus size: 14
884606 TCAAACGGCT
884616 CGGCTCAGCTCAAA
1 CGGCTCAGCTCAAA
884630 CGGCTCGGCTCAGCTCAAA
1 CGG--C---TCAGCTCAAA
*
884649 CGGCTCGGCT----
1 CGGCTCAGCTCAAA
884659 CGGCTCAGCTCAAA
1 CGGCTCAGCTCAAA
*
884673 CGGCTCGGCTCAAA
1 CGGCTCAGCTCAAA
*
884687 CGGCTCGGCTCAAA
1 CGGCTCAGCTCAAA
884701 CGGCTC
1 CGGCTC
884707 CTCATGCTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
10 9 0.14
14 41 0.63
16 1 0.02
17 1 0.02
19 13 0.20
ACGTcount: A:0.20, C:0.37, G:0.27, T:0.15
Consensus pattern (14 bp):
CGGCTCAGCTCAAA
Found at i:884697 original size:19 final size:19
Alignment explanation
Indices: 884592--884684 Score: 141
Period size: 19 Copynumber: 4.6 Consensus size: 19
884582 CTAGGCGGCT
884592 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
884611 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
884630 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
884649 CGGCTCGGCTCGGCTCAGCTCAAA
1 -----CGGCTCGGCTCAGCTCAAA
884673 CGGCTCGGCTCA
1 CGGCTCGGCTCA
884685 AACGGCTCGG
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
19 50 0.72
24 19 0.28
ACGTcount: A:0.18, C:0.38, G:0.28, T:0.16
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:888325 original size:3 final size:3
Alignment explanation
Indices: 888317--888356 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
888307 TTTTTATATT
* *
888317 TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTG TTA TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
888357 AAGTCGTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:889173 original size:24 final size:22
Alignment explanation
Indices: 889143--889190 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
889133 ATATTGAATA
*
889143 TTTAAAATATATTTATTAATATTT
1 TTTAAAATATA-ATA-TAATATTT
889167 TTTAAAATATAATATAATATTT
1 TTTAAAATATAATATAATATTT
889189 TT
1 TT
889191 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 2 0.09
24 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAAATATAATATAATATTT
Found at i:897746 original size:27 final size:28
Alignment explanation
Indices: 897716--897783 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
897706 AGAATTATAG
*
897716 AAATACCTTTAAAGTGTAAAATGACC-A
1 AAATACCTCTAAAGTGTAAAATGACCTA
* * *
897743 AAATGCCCCTAAAGTGTAAAATGGCCTA
1 AAATACCTCTAAAGTGTAAAATGACCTA
*
897771 AAGTACCTCTAAA
1 AAATACCTCTAAA
897784 CCCTAGAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (28 bp):
AAATACCTCTAAAGTGTAAAATGACCTA
Found at i:901295 original size:13 final size:13
Alignment explanation
Indices: 901279--901318 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
901269 CTGCCGAGCC
901279 GAGCCAAGCCGTT
1 GAGCCAAGCCGTT
*
901292 GAGCCGAGCCGTT
1 GAGCCAAGCCGTT
*
901305 GA-CCAAGCAGTT
1 GAGCCAAGCCGTT
901317 GA
1 GA
901319 CCGTTGACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (13 bp):
GAGCCAAGCCGTT
Found at i:901319 original size:12 final size:12
Alignment explanation
Indices: 901282--901320 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
901272 CCGAGCCGAG
901282 CCAAGCCGTTGA
1 CCAAGCCGTTGA
*
901294 GCCGAGCCGTTGA
1 -CCAAGCCGTTGA
*
901307 CCAAGCAGTTGA
1 CCAAGCCGTTGA
901319 CC
1 CC
901321 GTTGACTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (12 bp):
CCAAGCCGTTGA
Found at i:905736 original size:12 final size:12
Alignment explanation
Indices: 905719--905747 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
905709 TGACTAATAA
905719 GTTACTTTATGT
1 GTTACTTTATGT
905731 GTTACTTTATGT
1 GTTACTTTATGT
905743 GTTAC
1 GTTAC
905748 CCTTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.55
Consensus pattern (12 bp):
GTTACTTTATGT
Found at i:907391 original size:200 final size:202
Alignment explanation
Indices: 907029--907430 Score: 774
Period size: 200 Copynumber: 2.0 Consensus size: 202
907019 TACCATTCTA
907029 GAGAGTATCAATACTCACATGCCAGTATCGAGATTGGTACCTTGGTATCGATACCAATAATGTAT
1 GAGAGTATCAATACTCACATGCCAGTATCGAGATTGGTACCTTGGTATCGATACCAATAATGTAT
907094 TTTGGAATGATGGTATCGATACTGGCTACTGGTTTCGAGACTGAGGAGTAGTTTTTGACAAAATT
66 TTTGGAATGATGGTATCGATACTGGCTACTGGTTTCGAGACTGAGGAGTAGTTTTTGACAAAATT
907159 GAATGTTTTTTGAGTTTTGAAAACTATTGTAAATTATATGATGACTC-AAAACACTTAAGAAT-T
131 GAATGTTTTTTGAGTTTTGAAAACTATTGTAAATTATATGATGACTCAAAAACACTTAAGAATAT
907222 TTTTCAC
196 TTTTCAC
907229 GAGAGTATCAATACTCACATGCCAGTATCGAGATTGGTACCTTGGTATCGATACCAATAATGTAT
1 GAGAGTATCAATACTCACATGCCAGTATCGAGATTGGTACCTTGGTATCGATACCAATAATGTAT
907294 TTTGGAATGATGGTATCGATACTGGCTACTGGTTTCGAGACTGAGGAGTAGTTTTTGACAAAATT
66 TTTGGAATGATGGTATCGATACTGGCTACTGGTTTCGAGACTGAGGAGTAGTTTTTGACAAAATT
907359 GAATG-TTTTTGAGTTTTGAAAACTATTTGTAAATTATATGATGACTCAAAAACACTTAAGAATA
131 GAATGTTTTTTGAGTTTTGAAAACTA-TTGTAAATTATATGATGACTCAAAAACACTTAAGAATA
907423 TTTTTCAC
195 TTTTTCAC
907431 AATTAAAAAT
Statistics
Matches: 199, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
199 20 0.10
200 156 0.78
201 15 0.08
202 8 0.04
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (202 bp):
GAGAGTATCAATACTCACATGCCAGTATCGAGATTGGTACCTTGGTATCGATACCAATAATGTAT
TTTGGAATGATGGTATCGATACTGGCTACTGGTTTCGAGACTGAGGAGTAGTTTTTGACAAAATT
GAATGTTTTTTGAGTTTTGAAAACTATTGTAAATTATATGATGACTCAAAAACACTTAAGAATAT
TTTTCAC
Found at i:909162 original size:12 final size:11
Alignment explanation
Indices: 909150--909200 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
909140 AAATAAAAAG
*
909150 ATTTCAAAGAA
1 ATTTAAAAGAA
*
909161 GATTAAAAAGAA
1 -ATTTAAAAGAA
909173 ATTTAAAAAGAA
1 ATTT-AAAAGAA
909185 AGTTTAAAAGAA
1 A-TTTAAAAGAA
909197 ATTT
1 ATTT
909201 CAATATGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 6 0.18
12 25 0.74
13 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (11 bp):
ATTTAAAAGAA
Found at i:909182 original size:24 final size:24
Alignment explanation
Indices: 909155--909200 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
909145 AAAAGATTTC
909155 AAAG-AAGATTAAAAAGAAATTTAA
1 AAAGAAAG-TTAAAAAGAAATTTAA
*
909179 AAAGAAAGTTTAAAAGAAATTT
1 AAAGAAAGTTAAAAAGAAATTT
909201 CAATATGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (24 bp):
AAAGAAAGTTAAAAAGAAATTTAA
Found at i:909190 original size:13 final size:12
Alignment explanation
Indices: 909163--909200 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
909153 TCAAAGAAGA
909163 TTAAAAAGAAAT
1 TTAAAAAGAAAT
909175 TTAAAAAGAAAGT
1 TTAAAAAGAAA-T
909188 TT-AAAAGAAAT
1 TTAAAAAGAAAT
909199 TT
1 TT
909201 CAATATGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.12
12 19 0.76
13 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (12 bp):
TTAAAAAGAAAT
Found at i:911840 original size:33 final size:33
Alignment explanation
Indices: 911737--911841 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
911727 TTTTTTTCTC
* * *
911737 ACTGTTCGAAACAAAATTATACTGTTGTTTTTT
1 ACTGTTCGAACCAAAATTGTAATGTTGTTTTTT
* * * *
911770 ACGGTTCGAACCAAAATTGTATTGTTGCTTTTC
1 ACTGTTCGAACCAAAATTGTAATGTTGTTTTTT
* * *
911803 ACTGTTCGAACCAAAATTGCAATGCTATTTTTT
1 ACTGTTCGAACCAAAATTGTAATGTTGTTTTTT
911836 ACTGTT
1 ACTGTT
911842 GGAATAGTGC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
ACTGTTCGAACCAAAATTGTAATGTTGTTTTTT
Found at i:913336 original size:16 final size:16
Alignment explanation
Indices: 913315--913345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
913305 CGGCTTGAAA
*
913315 GAAAATTAAAGAAAAC
1 GAAAATAAAAGAAAAC
913331 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
913346 GAATTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (16 bp):
GAAAATAAAAGAAAAC
Found at i:915404 original size:11 final size:11
Alignment explanation
Indices: 915383--915438 Score: 85
Period size: 11 Copynumber: 5.0 Consensus size: 11
915373 TTAACCAAAT
915383 CCGACCCGTTGA
1 CCGA-CCGTTGA
915395 CCGACCGTTGA
1 CCGACCGTTGA
915406 CCGACCGTTGA
1 CCGACCGTTGA
*
915417 CCGACCTTTGA
1 CCGACCGTTGA
*
915428 CCAACCGTTGA
1 CCGACCGTTGA
915439 TTTTTGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
11 37 0.90
12 4 0.10
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.20
Consensus pattern (11 bp):
CCGACCGTTGA
Found at i:920565 original size:22 final size:23
Alignment explanation
Indices: 920528--920570 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
920518 ATGTCATAAC
*
920528 TATTTTTTAAAAAAACAATTAAA
1 TATTATTTAAAAAAACAATTAAA
920551 TATTATTT-AAAAAACAATTA
1 TATTATTTAAAAAAACAATTA
920571 TGATTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (23 bp):
TATTATTTAAAAAAACAATTAAA
Found at i:923040 original size:3 final size:3
Alignment explanation
Indices: 923032--923089 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
923022 TAACATGTAA
* **
923032 AAT AAT AAT AAT AA- AATT AGT AAAT AAT AAT AAT AAT AAT CGT AAT
1 AAT AAT AAT AAT AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT
923078 AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AA
923090 AAAGACTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:923080 original size:25 final size:23
Alignment explanation
Indices: 923029--923089 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 23
923019 ATGTAACATG
*
923029 TAAAATAATAATAATAAAATTAG
1 TAAAATAATAATAATAAAATTAA
923052 T-AAATAATAATAATAATAATCGTAA
1 TAAAATAATAATAATAA-AAT--TAA
923077 TAAAATAA-AATAA
1 TAAAATAATAATAA
923090 AAAGACTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 15 0.45
23 4 0.12
25 8 0.24
26 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (23 bp):
TAAAATAATAATAATAAAATTAA
Found at i:924537 original size:16 final size:16
Alignment explanation
Indices: 924455--924574 Score: 98
Period size: 16 Copynumber: 7.6 Consensus size: 16
924445 CAATTTGACC
*
924455 GAACCGAAAATAA-CT
1 GAACCGAAATTAACCT
* * *
924470 TAATCGAAATTAACCC
1 GAACCGAAATTAACCT
* *
924486 GAATCAAAATTAACCT
1 GAACCGAAATTAACCT
*
924502 GAATCGAAATTAACCT
1 GAACCGAAATTAACCT
*
924518 GAACCGAAATTAACAT
1 GAACCGAAATTAACCT
* ** **
924534 GAACTGAAAGAAAATT
1 GAACCGAAATTAACCT
*
924550 GAACCGAAATTAACCC
1 GAACCGAAATTAACCT
*
924566 AAACCGAAA
1 GAACCGAAA
924575 GCTACACGAA
Statistics
Matches: 82, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
15 10 0.12
16 72 0.88
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (16 bp):
GAACCGAAATTAACCT
Found at i:924606 original size:16 final size:16
Alignment explanation
Indices: 924550--924606 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
924540 AAAGAAAATT
**
924550 GAACCGAAATTAACCC
1 GAACCGAAAGCAACCC
* * *
924566 AAACCGAAAGCTACAC
1 GAACCGAAAGCAACCC
**
924582 GAATTGAAAGCAACCC
1 GAACCGAAAGCAACCC
924598 GAACCGAAA
1 GAACCGAAA
924607 AATACACCAA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (16 bp):
GAACCGAAAGCAACCC
Found at i:924625 original size:33 final size:32
Alignment explanation
Indices: 924561--924638 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
924551 AACCGAAATT
* ** *
924561 AACCCAAACCGAAAGCTACACGAATTGAAAGC
1 AACCCGAACCGAAAAATACACAAATTGAAAGC
924593 AACCCGAACCGAAAAATACACCAAATTGAAAGC
1 AACCCGAACCGAAAAATACA-CAAATTGAAAGC
924626 AA-CCGAACC-AAAA
1 AACCCGAACCGAAAA
924639 GCAATTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 4 0.10
32 24 0.59
33 13 0.32
ACGTcount: A:0.51, C:0.28, G:0.13, T:0.08
Consensus pattern (32 bp):
AACCCGAACCGAAAAATACACAAATTGAAAGC
Found at i:924757 original size:20 final size:20
Alignment explanation
Indices: 924732--924770 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
924722 CTTATGTTAC
*
924732 TTATAATAAAAATATTAGAT
1 TTATAATAAAAATAATAGAT
*
924752 TTATAATAGAAATAATAGA
1 TTATAATAAAAATAATAGA
924771 AAACAACTAA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
TTATAATAAAAATAATAGAT
Found at i:927308 original size:29 final size:29
Alignment explanation
Indices: 927251--927427 Score: 124
Period size: 29 Copynumber: 6.0 Consensus size: 29
927241 CATTTTACAG
* * *
927251 AAATAGCACCCCTTTTCGAATTAATTCCCA
1 AAATAGCA-CCATTATCAAATTAATTCCCA
927281 AAATAGCACCCATTAT-AAATTAATTCCCA
1 AAATAGCA-CCATTATCAAATTAATTCCCA
* * ** *
927310 GAATAGCAACAAAATCGAATTAATTCCCA
1 AAATAGCACCATTATCAAATTAATTCCCA
* * * ** *
927339 GAATAGCACCTTTTTCGGAAAAAAATTACCA
1 AAATAGCACCATTATC--AAATTAATTCCCA
**
927370 AAATAGCACCCATT-TTGAATTAATTCCCA
1 AAATAGCA-CCATTATCAAATTAATTCCCA
* **
927399 GAATAGCACCAAAATCAAATTAATTCCCA
1 AAATAGCACCATTATCAAATTAATTCCCA
927428 GAATGTCACC
Statistics
Matches: 113, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
28 7 0.06
29 71 0.63
30 14 0.12
31 17 0.15
32 4 0.04
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (29 bp):
AAATAGCACCATTATCAAATTAATTCCCA
Found at i:927428 original size:29 final size:29
Alignment explanation
Indices: 927269--927431 Score: 139
Period size: 29 Copynumber: 5.6 Consensus size: 29
927259 CCCCTTTTCG
* *
927269 AATTAATTCCCAAAATAGCACCCATTAT-A
1 AATTAATTCCCAGAATAGCA-CCAATATCA
* * *
927298 AATTAATTCCCAGAATAGCAACAAAATCG
1 AATTAATTCCCAGAATAGCACCAATATCA
** *
927327 AATTAATTCCCAGAATAGCACCTTTTTCGGA
1 AATTAATTCCCAGAATAGCACCAATATC--A
** * * * * **
927358 AAAAAATTACCAAAATAGCACCCATTTTG
1 AATTAATTCCCAGAATAGCACCAATATCA
*
927387 AATTAATTCCCAGAATAGCACCAAAATCA
1 AATTAATTCCCAGAATAGCACCAATATCA
927416 AATTAATTCCCAGAAT
1 AATTAATTCCCAGAAT
927432 GTCACCGATC
Statistics
Matches: 103, Mismatches: 28, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
28 4 0.04
29 78 0.76
31 21 0.20
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (29 bp):
AATTAATTCCCAGAATAGCACCAATATCA
Found at i:927477 original size:18 final size:17
Alignment explanation
Indices: 927454--927521 Score: 82
Period size: 18 Copynumber: 3.8 Consensus size: 17
927444 CGGTCAACGT
* *
927454 TCAACGGATTGGGTCGAG
1 TCAACGG-TCGGGTCGGG
927472 TCAACGGGTCGGGTCGGG
1 TCAAC-GGTCGGGTCGGG
927490 TCAACAGGTCGGGTCGGG
1 TCAAC-GGTCGGGTCGGG
927508 TCAACGGGTCGGGT
1 TCAAC-GGTCGGGT
927522 TGTGACCGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 43 0.96
19 2 0.04
ACGTcount: A:0.16, C:0.21, G:0.44, T:0.19
Consensus pattern (17 bp):
TCAACGGTCGGGTCGGG
Found at i:934641 original size:30 final size:29
Alignment explanation
Indices: 934616--934788 Score: 152
Period size: 29 Copynumber: 5.9 Consensus size: 29
934606 TAGCACATCT
934616 TTTTGAATTAATTCCCA-AGATAGCACCCA
1 TTTTGAATTAATTCCCAGA-ATAGCACCCA
*
934645 TTTTGAATTAATTCCCAGAATAGCACCAA
1 TTTTGAATTAATTCCCAGAATAGCACCCA
** * *
934674 AATTGAATTAATTCCCAGAATATCA-CCT
1 TTTTGAATTAATTCCCAGAATAGCACCCA
* ** * *
934702 TTTTAAAAAAAAATTACCAAAATAGCACCCA
1 TTTT--GAATTAATTCCCAGAATAGCACCCA
* * *
934733 TTTCGAATTAATTCCCAGAATAACACCAA
1 TTTTGAATTAATTCCCAGAATAGCACCCA
** * *
934762 AATCGAATTAATTCCCAGAATATCACC
1 TTTTGAATTAATTCCCAGAATAGCACC
934789 GGTAAACGGT
Statistics
Matches: 114, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
28 3 0.03
29 90 0.79
30 16 0.14
31 5 0.04
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (29 bp):
TTTTGAATTAATTCCCAGAATAGCACCCA
Found at i:934784 original size:88 final size:88
Alignment explanation
Indices: 934625--934788 Score: 283
Period size: 88 Copynumber: 1.9 Consensus size: 88
934615 TTTTTGAATT
* * * * *
934625 AATTCCCAAGATAGCACCCATTTTGAATTAATTCCCAGAATAGCACCAAAATTGAATTAATTCCC
1 AATTACCAAAATAGCACCCATTTCGAATTAATTCCCAGAATAACACCAAAATCGAATTAATTCCC
934690 AGAATATCACCTTTTTAAAAAAA
66 AGAATATCACCTTTTTAAAAAAA
934713 AATTACCAAAATAGCACCCATTTCGAATTAATTCCCAGAATAACACCAAAATCGAATTAATTCCC
1 AATTACCAAAATAGCACCCATTTCGAATTAATTCCCAGAATAACACCAAAATCGAATTAATTCCC
934778 AGAATATCACC
66 AGAATATCACC
934789 GGTAAACGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (88 bp):
AATTACCAAAATAGCACCCATTTCGAATTAATTCCCAGAATAACACCAAAATCGAATTAATTCCC
AGAATATCACCTTTTTAAAAAAA
Found at i:934827 original size:18 final size:18
Alignment explanation
Indices: 934806--934853 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
934796 GGTCAACGGC
934806 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
*
934824 CGGGTCGGGTCAGGTCAA
1 CGGGTCGGGTCGGGTCAA
*
934842 CGGATCGGGTCG
1 CGGGTCGGGTCG
934854 TGACCGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.12, C:0.23, G:0.48, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:934829 original size:13 final size:13
Alignment explanation
Indices: 934811--934835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934801 ACGGCCGGGT
934811 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
934824 CGGGTCGGGTCA
1 CGGGTCGGGTCA
934836 GGTCAACGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:935716 original size:13 final size:13
Alignment explanation
Indices: 935698--935722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
935688 CAACTCATTG
935698 ACTTTGACCGTTA
1 ACTTTGACCGTTA
935711 ACTTTGACCGTT
1 ACTTTGACCGTT
935723 GATCGTTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (13 bp):
ACTTTGACCGTTA
Found at i:935729 original size:20 final size:20
Alignment explanation
Indices: 935701--935739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
935691 CTCATTGACT
935701 TTGACCGTTAACTTTGACCG
1 TTGACCGTTAACTTTGACCG
* *
935721 TTGATCGTTGACTTTGACC
1 TTGACCGTTAACTTTGACC
935740 AAAAAGTTAA
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:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGACCGTTAACTTTGACCG
Found at i:936653 original size:26 final size:26
Alignment explanation
Indices: 936624--936674 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
936614 GGATTTATAG
*
936624 AAATGCTCTAAAGTGAAAAATGACCA
1 AAATGCCCTAAAGTGAAAAATGACCA
* *
936650 AAATGCCCTAAAGTGTAAAGTGACC
1 AAATGCCCTAAAGTGAAAAATGACC
936675 TAAAGTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (26 bp):
AAATGCCCTAAAGTGAAAAATGACCA
Found at i:939114 original size:17 final size:17
Alignment explanation
Indices: 939092--939133 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
939082 TCCGATAATC
939092 ACCCGACCTGAAAATTG
1 ACCCGACCTGAAAATTG
* *
939109 ACCCGACCTGATACTTG
1 ACCCGACCTGAAAATTG
939126 ACCCGACC
1 ACCCGACC
939134 CAATTTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.38, G:0.17, T:0.17
Consensus pattern (17 bp):
ACCCGACCTGAAAATTG
Found at i:940802 original size:2 final size:2
Alignment explanation
Indices: 940795--940843 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
940785 ATCTATCCCC
940795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
940836 AT AT AT AT
1 AT AT AT AT
940844 TCATTTTGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:943118 original size:60 final size:59
Alignment explanation
Indices: 942976--943111 Score: 164
Period size: 60 Copynumber: 2.3 Consensus size: 59
942966 ATATGAATAG
* * *** *
942976 TCAGATGATCATTTTATAACTTTTAATAGTCGGGAAACTCAACAAAGCAATGTCCTATAG
1 TCAGAGGATCA-TTTATAACTTTTAATAGTCGGGAAACTCAACAAAACAACACCCTATAA
* * * *
943036 TCGGGGGACTAATTTATAACTTTTAATAGTCGGGAGACTCAACAAAACAACACCCTATAA
1 TCAGAGGA-TCATTTATAACTTTTAATAGTCGGGAAACTCAACAAAACAACACCCTATAA
943096 TCAGAGGATCATTTAT
1 TCAGAGGATCATTTAT
943112 GTACTTTACC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 7 0.11
60 53 0.85
61 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (59 bp):
TCAGAGGATCATTTATAACTTTTAATAGTCGGGAAACTCAACAAAACAACACCCTATAA
Found at i:943739 original size:328 final size:329
Alignment explanation
Indices: 943143--943801 Score: 1277
Period size: 328 Copynumber: 2.0 Consensus size: 329
943133 GACCGGAGTA
943143 GATAAGTTCCAACAACTGCAAATCTGCAATCCTATATGGACATAAGTGTAGGGACGTAGTCTTTA
1 GATAAGTTCCAACAACTGCAAATCTGCAATCCTATATGGACATAAGTGTAGGGACGTAGTCTTTA
943208 AGGATCCTCGAAATACATTGAACGATTAAACAAATTCATCTGCACCGAGTAAGAGTAAAGTATAG
66 AGGATCCTCGAAATACATTGAACGATTAAACAAATTCATCTGCACCGAGTAAGAGTAAAGTATAG
943273 CAAAGTAAAGGCTAGGATTCGCACCCTGAGCTAATTCCTTTGCTTCTTGAACTGCATCATCAACC
131 CAAAGTAAAGGCTAGGATTCGCACCCTGAGCTAATTCCTTTGCTTCTTGAACTGCATCATCAACC
943338 CTCTTCAAATACCTGCTTTCACACAATAATCTATCAAACCCAAATTTATATTTTTGAAAAAACTT
196 CTCTTCAAATACCTGCTTTCACACAATAATCTATCAAACCCAAATTTATATTTTTGAAAAAACTT
943403 GCATACATTCATATTTGTACCACATTCAGCATT-TTTAAACTGAAAGATACCAGT-GAACAGGTC
261 GCATACATTCATATTTGTACCACATTCAGCATTGTTTAAACTGAAAGATACCAGTAGAACAGGTC
943466 TAGG
326 TAGG
943470 GATAAGTTCCAACAACTGCAAATCTGCAATCCTATATGGACATAAGTGTAGGGACGTAGTCTTTA
1 GATAAGTTCCAACAACTGCAAATCTGCAATCCTATATGGACATAAGTGTAGGGACGTAGTCTTTA
943535 AGGATCCTCGAAATACATTGAACGATTAAACAAATTCATCTGCACCGAGTAAGAGTAAAGTAATA
66 AGGATCCTCGAAATACATTGAACGATTAAACAAATTCATCTGCACCGAGTAAGAGTAAAGT-ATA
943600 GCAAAGTAAAGGCTAGGATTCGCACCCTGAGCTAATTCCTTTGCTTCTTGAACTGCATCATCAAC
130 GCAAAGTAAAGGCTAGGATTCGCACCCTGAGCTAATTCCTTTGCTTCTTGAACTGCATCATCAAC
943665 CCTCTTCAAATACCTGCTTTCACACAATAATCTATCAAACCCAAATTTATATTTTTGAAAAAACT
195 CCTCTTCAAATACCTGCTTTCACACAATAATCTATCAAACCCAAATTTATATTTTTGAAAAAACT
943730 TGCATACATTCATATTTGTACCACATTCAGCATTGTTTAAACTGAAAGATACCAGTCAAGAACAG
260 TGCATACATTCATATTTGTACCACATTCAGCATTGTTTAAACTGAAAGATACCAGT--AGAACAG
943795 GTCTAGG
323 GTCTAGG
943802 CTGCAAAGTG
Statistics
Matches: 327, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
327 126 0.39
328 167 0.51
329 21 0.06
332 13 0.04
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (329 bp):
GATAAGTTCCAACAACTGCAAATCTGCAATCCTATATGGACATAAGTGTAGGGACGTAGTCTTTA
AGGATCCTCGAAATACATTGAACGATTAAACAAATTCATCTGCACCGAGTAAGAGTAAAGTATAG
CAAAGTAAAGGCTAGGATTCGCACCCTGAGCTAATTCCTTTGCTTCTTGAACTGCATCATCAACC
CTCTTCAAATACCTGCTTTCACACAATAATCTATCAAACCCAAATTTATATTTTTGAAAAAACTT
GCATACATTCATATTTGTACCACATTCAGCATTGTTTAAACTGAAAGATACCAGTAGAACAGGTC
TAGG
Found at i:944434 original size:2 final size:2
Alignment explanation
Indices: 944427--944452 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
944417 ATATTCGTAT
944427 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
944453 GTTAGTATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:946213 original size:28 final size:28
Alignment explanation
Indices: 946181--946251 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
946171 TCCATGAATG
*
946181 CATGCATGTATGTATGCAT-AATGTAGAA
1 CATGCATGTATGTATG-ATGAATGTACAA
* *
946209 CATGCATGTATGTATGATGTATGTACTA
1 CATGCATGTATGTATGATGAATGTACAA
946237 CATGCATGTATGTAT
1 CATGCATGTATGTAT
946252 ATACGTACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (28 bp):
CATGCATGTATGTATGATGAATGTACAA
Found at i:946263 original size:22 final size:21
Alignment explanation
Indices: 946225--946285 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
946215 TGTATGTATG
*
946225 ATGTATGTACTACATGCATGT
1 ATGTATATACTACATGCATGT
946246 ATGTATATACGTACATGCATGT
1 ATGTATATAC-TACATGCATGT
*
946268 A--TATACACATACATGCAT
1 ATGTATATAC-TACATGCAT
946286 ACATACACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.42
21 9 0.25
22 12 0.33
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (21 bp):
ATGTATATACTACATGCATGT
Found at i:946500 original size:19 final size:20
Alignment explanation
Indices: 946476--946522 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
946466 TAAATTTCAG
946476 TATTTAAAATTAATG-AATT
1 TATTTAAAATTAATGAAATT
**
946495 TATTTATGATTAATGAAAATT
1 TATTTAAAATTAATG-AAATT
946516 TATTTAA
1 TATTTAA
946523 CACTTCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (20 bp):
TATTTAAAATTAATGAAATT
Found at i:949559 original size:36 final size:35
Alignment explanation
Indices: 949507--949604 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 35
949497 AACACATTCA
* * *
949507 TCAATTGCATTCTAAACCCCCAAATTCAAAAATGCT
1 TCAATTACATTATAAA-CCCCAAATTCAAAAATACT
* *
949543 TCAATTACATTATAAACCTCAAATTCCAAAATACT
1 TCAATTACATTATAAACCCCAAATTCAAAAATACT
* ** *
949578 TCAATTACGTGCTCAACCCCAAATTCA
1 TCAATTACATTATAAACCCCAAATTCA
949605 TAATTCATGC
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 37 0.73
36 14 0.27
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.29
Consensus pattern (35 bp):
TCAATTACATTATAAACCCCAAATTCAAAAATACT
Found at i:950415 original size:152 final size:150
Alignment explanation
Indices: 950095--950395 Score: 500
Period size: 152 Copynumber: 2.0 Consensus size: 150
950085 AAATTATTTA
* *
950095 AATTAAAATCAAATAATATTATAATATTACAAATATTTATAATTAAATTTAAATAGAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATTACAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* * *
950160 AATTCAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAGAAATTTTGAGTC
66 AA-T-AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTCGAGTC
950225 AACTATTTTATAAATTGAATTG
129 AACTATTTTATAAATTGAATTG
*
950247 AATTAGAATCAAATAATATTATAATATTATAAATATTTATAATTAAATTTAAACAGAAACTC-AA
1 AATTAGAATCAAATAATATTATAATATTACAAATATTTATAATTAAATTTAAACAGAAACTCAAA
950311 AA-AATT-AATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCA
66 AATAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCG-AAAAAATTCGAGTCA
950374 ACTATTTTATAAATTGAATTG
130 ACTATTTTATAAATTGAATTG
950395 A
1 A
950396 GTATTTAGGT
Statistics
Matches: 142, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
147 41 0.29
148 38 0.27
151 4 0.03
152 59 0.42
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (150 bp):
AATTAGAATCAAATAATATTATAATATTACAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTCGAGTCAA
CTATTTTATAAATTGAATTG
Found at i:950587 original size:35 final size:34
Alignment explanation
Indices: 950529--950624 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 34
950519 AATGGATTAT
* * *
950529 GAATTTGGGGTTGAGCATGTAATTGAAGTAGTTTG
1 GAATTT-GGGTTTAGAATGTAATTGAAGCAGTTTG
* *
950564 GAATTTGAGGTTTAGAATATAATTGAAGCATTTTG
1 GAATTTG-GGTTTAGAATGTAATTGAAGCAGTTTG
950599 GAATTTGGAGTTTAGAATGTAATTGA
1 GAATTTGG-GTTTAGAATGTAATTGA
950625 TGATTGTGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 2 0.04
35 51 0.96
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.39
Consensus pattern (34 bp):
GAATTTGGGTTTAGAATGTAATTGAAGCAGTTTG
Found at i:951764 original size:30 final size:30
Alignment explanation
Indices: 951728--951798 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
951718 TCATTCGCAC
*
951728 GGATATCCACCACAAGGTTACCCT-CATCAG
1 GGATATCCACCACAAGGCTACCCTCCA-CAG
951758 GGATATCCACCACAAGGCTACCCTCCACAG
1 GGATATCCACCACAAGGCTACCCTCCACAG
951788 GGATATCCACC
1 GGATATCCACC
951799 TGCTGGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (30 bp):
GGATATCCACCACAAGGCTACCCTCCACAG
Found at i:952105 original size:15 final size:15
Alignment explanation
Indices: 952085--952122 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
952075 GGAATTTACA
952085 GGACATGGTTCACAG
1 GGACATGGTTCACAG
* *
952100 GGACATAGTTCACAT
1 GGACATGGTTCACAG
952115 GGACATGG
1 GGACATGG
952123 CGTGGGAGGA
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:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (15 bp):
GGACATGGTTCACAG
Found at i:956940 original size:17 final size:17
Alignment explanation
Indices: 956918--956951 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
956908 AAAGTATATT
956918 ATAATCAAGAGCTTGAA
1 ATAATCAAGAGCTTGAA
956935 ATAATCAAGAGCTTGAA
1 ATAATCAAGAGCTTGAA
956952 TGCAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
ATAATCAAGAGCTTGAA
Found at i:958287 original size:18 final size:17
Alignment explanation
Indices: 958261--958294 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
958251 TTTAGATTAC
958261 AAAAACCTCAAAATCCTT
1 AAAAACCTC-AAATCCTT
*
958279 AAAATCCTCAAATCCT
1 AAAAACCTCAAATCCT
958295 AACACTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAACCTCAAATCCTT
Found at i:958770 original size:22 final size:22
Alignment explanation
Indices: 958734--958815 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
958724 AAAAAATGTA
*
958734 AATGGGTATTGATACCCCTATG
1 AATGGGTATCGATACCCCTATG
*
958756 AATGGGTATCCATA-CCC----
1 AATGGGTATCGATACCCCTATG
*
958773 --TGGGTACCGATACCCCTATG
1 AATGGGTATCGATACCCCTATG
*
958793 AATGGGTATCAATACCCCTATG
1 AATGGGTATCGATACCCCTATG
958815 A
1 A
958816 CTGCTCAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.21
16 3 0.06
21 3 0.06
22 31 0.66
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (22 bp):
AATGGGTATCGATACCCCTATG
Found at i:958882 original size:32 final size:33
Alignment explanation
Indices: 958841--958903 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
958831 ATGCAAAAAG
*
958841 GGTACCGATACCCCTA-TGGGTATCCATACTCA
1 GGTACCGATACCCCTACTGGGTATCAATACTCA
958873 GGTACCGATACCCCTATCTGGGTATCAATAC
1 GGTACCGATACCCCTA-CTGGGTATCAATAC
958904 CCCCTGGCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 16 0.57
34 12 0.43
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (33 bp):
GGTACCGATACCCCTACTGGGTATCAATACTCA
Found at i:960509 original size:64 final size:63
Alignment explanation
Indices: 960441--960598 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 63
960431 GCACTAAGTA
* * ***
960441 TGCATCGATGCATAAAATGCAATCGATGTTTGA-AAATAGCCTGAGTGAATCGATGCACGGCTTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-AGCC-GAGTGAATCGATGCACGGAGAG
* * * * *
960505 TGCATCGATGCATCAAATACATTCGATGTTTTCATAAAATCCGAGTGCATCGATGCATGGAGAG
1 TGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAAGCCGAGTGAATCGATGCACGGAGAG
* *
960569 TGCATCGGTGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATAAAATGCATTCGATGTT
960599 CAATTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
63 2 0.03
64 67 0.85
65 7 0.09
66 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTCATAAAAGCCGAGTGAATCGATGCACGGAGAG
Found at i:968912 original size:18 final size:19
Alignment explanation
Indices: 968867--968913 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
968857 GGACACTTAG
*
968867 TGCATCGATGCACTAAGTA
1 TGCATCGATGCACTAAGAA
968886 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
968903 TGCAATCGATG
1 TGC-ATCGATG
968914 TTTGAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 10 0.38
19 12 0.46
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:968954 original size:64 final size:63
Alignment explanation
Indices: 968886--969043 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 63
968876 GCACTAAGTA
* * ***
968886 TGCATCGATGCATAAAATGCAATCGATGTTTGA-AAATAGCCTGAGTGAATCGATGCATGGCTTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-AGCC-GAGTGAATCGATGCATGGAGAG
* * * *
968950 TGCATCGATACATCAAATGCATTCGATGCTTTCATAAAATCCGAGTGCATCGATGCATGGAGAG
1 TGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAAGCCGAGTGAATCGATGCATGGAGAG
* *
969014 TGCATCGGTGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATAAAATGCATTCGATGTT
969044 CAATTTATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
63 2 0.03
64 68 0.85
65 7 0.09
66 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTCATAAAAGCCGAGTGAATCGATGCATGGAGAG
Found at i:969082 original size:20 final size:20
Alignment explanation
Indices: 969054--969092 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
969044 CAATTTATTA
*
969054 ATTGGTGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
*
969074 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
969093 CCTTTGAAAA
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:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:971577 original size:18 final size:18
Alignment explanation
Indices: 971554--971590 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
971544 CAATAATTGG
971554 TAACAATTGATATCTTTT
1 TAACAATTGATATCTTTT
*
971572 TAACAATTGGTATCTTTT
1 TAACAATTGATATCTTTT
971590 T
1 T
971591 CATTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (18 bp):
TAACAATTGATATCTTTT
Done.