Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 54
Found at i:6197152 original size:43 final size:43
Alignment explanation
Indices: 6197090--6197209 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
6197080 ACGAAGGGGC
* * *
6197090 CATCCACGATTTGAACTCCACGACGGAGGATATCATACCCACG
1 CATCCACGATTTCAACTCCACGACAGAGGATATCATACCCACA
* * *
6197133 GATCCACGATTTCAACTCCACGACAGAGGATATCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACAGAGGATATCATACCCACA
* * * * *
6197176 CAACCACGATTTCAAATTCACAACAAAGGATATC
1 CATCCACGATTTCAACTCCACGACAGAGGATATC
6197210 GTGCCAACTC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACAGAGGATATCATACCCACA
Found at i:6197664 original size:37 final size:36
Alignment explanation
Indices: 6197605--6197693 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 36
6197595 TTGATCGCCT
* * *
6197605 TTGAGATTAATTCTCTCGAAACAAGGGGTCGTCTCTC
1 TTGAGACTAATT-TCTCAAAACAAAGGGTCGTCTCTC
** *
6197642 TTGAGACTAATTTACTCAAAACAAAGTTTTGTCTCTC
1 TTGAGACTAATTT-CTCAAAACAAAGGGTCGTCTCTC
6197679 TTGAGAC-AATTTCTC
1 TTGAGACTAATTTCTC
6197694 TTGAAACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.07
36 6 0.13
37 36 0.80
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (36 bp):
TTGAGACTAATTTCTCAAAACAAAGGGTCGTCTCTC
Found at i:6197701 original size:37 final size:36
Alignment explanation
Indices: 6197635--6197773 Score: 149
Period size: 36 Copynumber: 3.9 Consensus size: 36
6197625 ACAAGGGGTC
* **
6197635 GTCTCTCTTGAGACTAATTT-ACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AATTTCCCTTGAAACAAA-TTTT
*
6197672 GTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTT
* * *
6197708 ATCTCTTTTGAGACAGTTTCCCTTGAAACAAA-TTT
1 GTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTT
* * *
6197743 -TCTCTCTTGAGATAGTTTCCCTTGAATCAAA
1 GTCTCTCTTGAGACAATTTCCCTTGAAACAAA
6197774 ACATTTAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
34 28 0.31
35 3 0.03
36 37 0.41
37 23 0.25
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (36 bp):
GTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTT
Found at i:6197898 original size:42 final size:37
Alignment explanation
Indices: 6197796--6197988 Score: 230
Period size: 37 Copynumber: 5.1 Consensus size: 37
6197786 GTTTTACATT
* *
6197796 AAACAAA-TTTCGTCTC-CATTGAGACAGTTTCTTTTG
1 AAACAAAGTTTTGTCTCTC-TTGAGACAGTTTCTCTTG
* * *
6197832 GAACCAAGTTTTGTCTCTCTTGAGACAGTTTCTCATG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
6197869 AAACAAATTTTGTTTGTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA----GTTT-TGTCTCTCTTGAGACAGTTTCTCTTG
* *
6197911 AAACAAA-TTGTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
6197947 AAACAAAGTTTTGTCTCTCTTGAGACAGATTCTTTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
6197984 AAACA
1 AAACA
6197989 CCAAACTTTG
Statistics
Matches: 135, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
36 37 0.27
37 61 0.45
38 1 0.01
41 4 0.03
42 32 0.24
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (37 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:6198088 original size:72 final size:67
Alignment explanation
Indices: 6197937--6198089 Score: 173
Period size: 67 Copynumber: 2.2 Consensus size: 67
6197927 TCTTGAGACA
* * * * ** *
6197937 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTTTTGAAACACCAAACTTTGAAT
1 GTTTCTCTTGAAACAAAGTTTTGCCTCCCTTGAGACAGATTCTCTTGAAACAAAAAACTTTGAAA
6198002 AT
66 AT
*
6198004 GTTTCTCTTGAAACAAATTTTTGCCTCCCTTGAGACA-ATTTCTCTTGAAACAAAAAAAACATCT
1 GTTTCTCTTGAAACAAAGTTTTGCCTCCCTTGAGACAGA-TTCTCTTGAAAC---AAAAA-A-CT
6198068 TTGAAAAT
60 TTGAAAAT
6198076 GTTTCTCTTGAAAC
1 GTTTCTCTTGAAAC
6198090 GCCAAACCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
66 1 0.01
67 44 0.61
70 3 0.04
71 1 0.01
72 23 0.32
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (67 bp):
GTTTCTCTTGAAACAAAGTTTTGCCTCCCTTGAGACAGATTCTCTTGAAACAAAAAACTTTGAAA
AT
Found at i:6198453 original size:18 final size:20
Alignment explanation
Indices: 6198427--6198467 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
6198417 AAAATATTTA
6198427 TTTATTTATGATTATT-ATT
1 TTTATTTATGATTATTAATT
*
6198446 TTTA-TTATTATTATTAATT
1 TTTATTTATGATTATTAATT
6198465 TTT
1 TTT
6198468 TTCTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTATTTATGATTATTAATT
Found at i:6199884 original size:8 final size:8
Alignment explanation
Indices: 6199878--6200005 Score: 51
Period size: 9 Copynumber: 14.9 Consensus size: 8
6199868 TTAACTATTT
6199878 TTTTATTTA
1 TTTT-TTTA
*
6199887 TTTATTATA
1 TTT-TTTTA
*
6199896 TTTTTTTC
1 TTTTTTTA
6199904 TGTTTTTTA
1 T-TTTTTTA
*
6199913 CTTTTGTTTTG
1 --TTT-TTTTA
6199924 TTTTATTTCA
1 TTTT-TTT-A
* **
6199934 TCTTTTCC
1 TTTTTTTA
6199942 TTTATTTTA
1 TTT-TTTTA
*
6199951 TTTCTTTA
1 TTTTTTTA
6199959 TTTATTTTA
1 TTT-TTTTA
*
6199968 TTTTATT-
1 TTTTTTTA
*
6199975 CTTTTTTA
1 TTTTTTTA
*
6199983 TTTTATTA
1 TTTTTTTA
**
6199991 TTTTACTA
1 TTTTTTTA
6199999 TTTTTTT
1 TTTTTTT
6200006 TATTCATTTT
Statistics
Matches: 87, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
7 5 0.06
8 35 0.40
9 36 0.41
10 6 0.07
11 5 0.06
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6199952 original size:5 final size:5
Alignment explanation
Indices: 6199942--6199989 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
6199932 CATCTTTTCC
*
6199942 TTTAT TTTAT TTCTTT ATTTAT TTTAT TTTAT TCTT-T TTTAT TTTAT
1 TTTAT TTTAT TT-TAT -TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT
6199989 T
1 T
6199990 ATTTTACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 2 0.05
5 27 0.73
6 6 0.16
7 2 0.05
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:6199962 original size:17 final size:16
Alignment explanation
Indices: 6199873--6200015 Score: 64
Period size: 17 Copynumber: 8.6 Consensus size: 16
6199863 AATTTTTAAC
6199873 TATTT-TTTTATTTATT
1 TATTTATTTTATTT-TT
6199889 TATTATATTTT-TTTCTGT
1 TATT-TATTTTATTT-T-T
* * *
6199907 TTTTTACTTTTGTTTTG
1 TATTTA-TTTTATTTTT
*
6199924 T-TTTATTTCATCTTTT
1 TATTTATTTTAT-TTTT
**
6199940 CCTTTATTTTATTTCTT
1 TATTTATTTTATTT-TT
6199957 TATTTATTTTA--TTT
1 TATTTATTTTATTTTT
*
6199971 TATTCTTTTTTATTTTAT
1 TATT-TATTTTATTTT-T
*
6199989 TATTTTACTATT-TTTTT
1 TA-TTTA-TTTTATTTTT
*
6200006 TATTCATTTT
1 TATTTATTTT
6200016 TACAATTTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
14 6 0.06
15 14 0.14
16 16 0.16
17 33 0.34
18 21 0.21
19 8 0.08
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TATTTATTTTATTTTT
Found at i:6199983 original size:15 final size:15
Alignment explanation
Indices: 6199963--6199994 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6199953 TCTTTATTTA
*
6199963 TTTTATTTTATTCTT
1 TTTTATTTTATTATT
6199978 TTTTATTTTATTATT
1 TTTTATTTTATTATT
6199993 TT
1 TT
6199995 ACTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTATTATT
Found at i:6199984 original size:32 final size:35
Alignment explanation
Indices: 6199942--6200017 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
6199932 CATCTTTTCC
* *
6199942 TTTATTTTATT-TCTTTATTTATTTTATTTTATTCTTT
1 TTTATTTTATTAT-TTTA-CTA-TTTATTTTATTCATT
*
6199979 TTTATTTTATTATTTTACTATTTTTTTTATTCATT
1 TTTATTTTATTATTTTACTATTTATTTTATTCATT
6200014 TTTA
1 TTTA
6200018 CAATTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 17 0.49
36 2 0.06
37 15 0.43
38 1 0.03
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTATTTTATTATTTTACTATTTATTTTATTCATT
Found at i:6199986 original size:37 final size:35
Alignment explanation
Indices: 6199942--6200017 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 35
6199932 CATCTTTTCC
* *
6199942 TTTATTTTATT-TCTTTATTTATTTTATTTTATTCTTT
1 TTTATTTTATTAT-TTTA-CTATTTT-TTTTATTCATT
6199979 TTTATTTTATTATTTTACTATTTTTTTTATTCATT
1 TTTATTTTATTATTTTACTATTTTTTTTATTCATT
6200014 TTTA
1 TTTA
6200018 CAATTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 14 0.39
36 6 0.17
37 15 0.42
38 1 0.03
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTATTTTATTATTTTACTATTTTTTTTATTCATT
Found at i:6200006 original size:20 final size:20
Alignment explanation
Indices: 6199957--6200027 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
6199947 TTTATTTCTT
*
6199957 TATTTATTTTATT-TTATT-C
1 TATTTTTTTTATTATT-TTAC
*
6199976 TTTTTTATTTTATTATTTTAC
1 TATTTT-TTTTATTATTTTAC
6199997 TATTTTTTTTATTCATTTTTAC
1 TATTTTTTTTATT-A-TTTTAC
*
6200019 AATTTTTTT
1 TATTTTTTT
6200028 CTTCTTTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.09
20 16 0.37
21 9 0.21
22 14 0.33
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTTTTATTATTTTAC
Found at i:6200014 original size:21 final size:21
Alignment explanation
Indices: 6199978--6200027 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
6199968 TTTTATTCTT
*
6199978 TTTTATTTTATTA-TTTTACTA
1 TTTT-TTTTATTATTTTTACAA
6199999 TTTTTTTTATTCATTTTTACAA
1 TTTTTTTTATT-ATTTTTACAA
6200021 TTTTTTT
1 TTTTTTT
6200028 CTTCTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 14 0.54
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTTTTATTATTTTTACAA
Found at i:6201304 original size:25 final size:24
Alignment explanation
Indices: 6201269--6201321 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6201259 AAAATATTTT
*
6201269 AAAA-TTTAAATTATACAAGTATAA
1 AAAATTTTAAA-TATAAAAGTATAA
* *
6201293 AAAATTTTAAATATAAAATTATTA
1 AAAATTTTAAATATAAAAGTATAA
6201317 AAAAT
1 AAAAT
6201322 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATTTTAAATATAAAAGTATAA
Found at i:6201326 original size:16 final size:16
Alignment explanation
Indices: 6201292--6201329 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6201282 TACAAGTATA
*
6201292 AAAAATT-TTAAATAT
1 AAAAATTATTAAAAAT
6201307 -AAAATTATTAAAAAT
1 AAAAATTATTAAAAAT
6201322 AAAAATTA
1 AAAAATTA
6201330 AATTACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 6 0.30
15 7 0.35
16 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATTATTAAAAAT
Found at i:6201332 original size:21 final size:23
Alignment explanation
Indices: 6201290--6201350 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
6201280 TATACAAGTA
* *
6201290 TAAAAAATTTTAAATATAAAATTA-
1 TAAAAAA--TTAAAAATTAAATTAC
*
6201314 TTAAAAA-TAAAAATTAAATTAC
1 TAAAAAATTAAAAATTAAATTAC
6201336 TAAAAAATTAAAAAT
1 TAAAAAATTAAAAAT
6201351 ATTTATATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 12 0.39
22 6 0.19
23 7 0.23
24 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAAAATTAAAAATTAAATTAC
Found at i:6208885 original size:17 final size:17
Alignment explanation
Indices: 6208863--6208905 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6208853 AATTAAGAGT
*
6208863 TAGTTTAATAAATAGAC
1 TAGTTTAATAAATAAAC
* * *
6208880 TAGTTTGATGATTAAAC
1 TAGTTTAATAAATAAAC
6208897 TAGTTTAAT
1 TAGTTTAAT
6208906 TAACTAACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (17 bp):
TAGTTTAATAAATAAAC
Found at i:6212591 original size:17 final size:17
Alignment explanation
Indices: 6212569--6212669 Score: 76
Period size: 17 Copynumber: 5.9 Consensus size: 17
6212559 AATTAAGAGT
*
6212569 TAGTTTAATAAATGGAC
1 TAGTTTAATAAATGAAC
* *
6212586 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
6212603 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
6212620 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
* ** *
6212638 TAGATGCATAAATGAAG
1 TAGTTTAATAAATGAAC
* *
6212655 TAGCTTACTAAATGA
1 TAGTTTAATAAATGA
6212670 TTTAAATATG
Statistics
Matches: 64, Mismatches: 19, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
17 50 0.78
18 14 0.22
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.35
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:6212634 original size:18 final size:18
Alignment explanation
Indices: 6212596--6212639 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6212586 TAGTTTGATG
*
6212596 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
6212613 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
6212630 CAATGAACTA
1 -AATGAACTA
6212640 GATGCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:6212720 original size:18 final size:17
Alignment explanation
Indices: 6212698--6212743 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
6212688 AAATACTTCC
6212698 CTTAAATGAACTAG-ATG
1 CTTAAATGAACT-GCATG
6212715 CTTTAAATGCAA-TGCATG
1 C-TTAAATG-AACTGCATG
6212733 CTTAAATGAAC
1 CTTAAATGAAC
6212744 ATCACACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 9 0.36
18 12 0.48
19 2 0.08
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (17 bp):
CTTAAATGAACTGCATG
Found at i:6220951 original size:11 final size:11
Alignment explanation
Indices: 6220935--6220982 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
6220925 TACAAACTAA
6220935 TAATAACAAAC
1 TAATAACAAAC
*
6220946 TAATAACAAGC
1 TAATAACAAAC
*
6220957 TAATAAAAAAC
1 TAATAACAAAC
*
6220968 -CATAACAAAC
1 TAATAACAAAC
6220978 TAATA
1 TAATA
6220983 GCACTCTAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (11 bp):
TAATAACAAAC
Found at i:6222468 original size:11 final size:11
Alignment explanation
Indices: 6222452--6222497 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
6222442 CCAACAAACC
6222452 ATAACAAACTA
1 ATAACAAACTA
*
6222463 ATAACAAGCTA
1 ATAACAAACTA
*
6222474 ATAACAAAC-C
1 ATAACAAACTA
6222484 ATAACAAACTA
1 ATAACAAACTA
6222495 ATA
1 ATA
6222498 GCACTCTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:6222487 original size:21 final size:22
Alignment explanation
Indices: 6222444--6222497 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
6222434 CCAAGTAACC
*
6222444 AACAAAC-CATAACAAACTAAT
1 AACAAACTAATAACAAACTAAT
* *
6222465 AACAAGCTAATAACAAAC-CAT
1 AACAAACTAATAACAAACTAAT
6222486 AACAAACTAATA
1 AACAAACTAATA
6222498 GCACTCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.61, C:0.22, G:0.02, T:0.15
Consensus pattern (22 bp):
AACAAACTAATAACAAACTAAT
Found at i:6226961 original size:16 final size:16
Alignment explanation
Indices: 6226936--6226966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6226926 CTTGTTTATA
*
6226936 TATATTTACCTATATT
1 TATATATACCTATATT
6226952 TATATATACCTATAT
1 TATATATACCTATAT
6226967 ACATAGTTTT
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:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATACCTATATT
Found at i:6227066 original size:2 final size:2
Alignment explanation
Indices: 6226994--6227050 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
6226984 GTTTCACTAT
6226994 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
6227036 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
6227051 CTTTCTTTAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6229040 original size:20 final size:20
Alignment explanation
Indices: 6229015--6229064 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
6229005 CATTTTAGTG
6229015 TCGATACTCCTTCATGAGTA
1 TCGATACTCCTTCATGAGTA
6229035 TCGATACTCCTTCATGAGTA
1 TCGATACTCCTTCATGAGTA
6229055 TCGATACTCC
1 TCGATACTCC
6229065 CAATCCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (20 bp):
TCGATACTCCTTCATGAGTA
Found at i:6229545 original size:19 final size:20
Alignment explanation
Indices: 6229510--6229547 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6229500 ACCTTGTCCT
6229510 AAAAGGATTTCAACAAATTC
1 AAAAGGATTTCAACAAATTC
*
6229530 AAAAGG-TTTGAACAAATT
1 AAAAGGATTTCAACAAATT
6229548 AGTGAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AAAAGGATTTCAACAAATTC
Found at i:6233627 original size:19 final size:20
Alignment explanation
Indices: 6233589--6233627 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6233579 TTTTTTTTTG
*
6233589 TTTCTATTTTCTAAAATCAT
1 TTTCTAATTTCTAAAATCAT
*
6233609 TTTCTAATTT-TATAATCAT
1 TTTCTAATTTCTAAAATCAT
6233628 ACACGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTCTAATTTCTAAAATCAT
Found at i:6243446 original size:21 final size:21
Alignment explanation
Indices: 6243379--6243448 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
6243369 TCATTTTATG
* *
6243379 AAAAGGTTAAGCCCTTTCATC
1 AAAAGGTTAAGTCCTTTAATC
* ** * *
6243400 AAAATGAGAAGTCTTTTAATT
1 AAAAGGTTAAGTCCTTTAATC
6243421 AAAAGGTTAAGTCCTTTAATC
1 AAAAGGTTAAGTCCTTTAATC
*
6243442 GAAAGGT
1 AAAAGGT
6243449 CTTAACCTTT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (21 bp):
AAAAGGTTAAGTCCTTTAATC
Found at i:6246903 original size:24 final size:24
Alignment explanation
Indices: 6246858--6246907 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6246848 TGGTGGTTGG
6246858 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
6246882 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
6246906 TT
1 TT
6246908 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:6254880 original size:19 final size:18
Alignment explanation
Indices: 6254858--6254935 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 18
6254848 AAATTTTGGC
*
6254858 TTTTTTGGCTCTTTTTTTG
1 TTTTTTTGC-CTTTTTTTG
6254877 TTTTTTTGCC-TTTTTT-
1 TTTTTTTGCCTTTTTTTG
6254893 TTTTTTTGCC-TTTTTTG
1 TTTTTTTGCCTTTTTTTG
**
6254910 TTTTTTTTGTTTTTTTTTG
1 -TTTTTTTGCCTTTTTTTG
6254929 TTTTTTT
1 TTTTTTT
6254936 TGAAAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.30
17 6 0.11
18 16 0.30
19 15 0.28
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTTTTTGCCTTTTTTTG
Found at i:6254915 original size:9 final size:9
Alignment explanation
Indices: 6254869--6254937 Score: 72
Period size: 9 Copynumber: 7.9 Consensus size: 9
6254859 TTTTTGGCTC
6254869 TTTTTTTG-
1 TTTTTTTGT
6254877 TTTTTTTG-
1 TTTTTTTGT
**
6254885 CCTTTTT-T
1 TTTTTTTGT
*
6254893 TTTTTTTGC
1 TTTTTTTGT
*
6254902 CTTTTTTGT
1 TTTTTTTGT
6254911 TTTTTTTGTT
1 TTTTTTTG-T
6254921 TTTTTTTGT
1 TTTTTTTGT
6254930 TTTTTTTG
1 TTTTTTTG
6254938 AAAAAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
8 18 0.36
9 23 0.46
10 9 0.18
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:6255722 original size:14 final size:14
Alignment explanation
Indices: 6255703--6255736 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6255693 ACCCCTTAAT
6255703 TCCTAATAAAATAA
1 TCCTAATAAAATAA
**
6255717 TCCTAATAATCTAA
1 TCCTAATAAAATAA
6255731 TCCTAA
1 TCCTAA
6255737 AAGATAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
TCCTAATAAAATAA
Found at i:6258154 original size:24 final size:24
Alignment explanation
Indices: 6258109--6258158 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6258099 TGGTGGTTGG
6258109 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
6258133 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
6258157 TT
1 TT
6258159 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:6261447 original size:27 final size:27
Alignment explanation
Indices: 6261390--6261449 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
6261380 AGAGTGTTGT
* * *
6261390 TGAAGAATCATCGACTGGGAGTGGGGA
1 TGAAGAATCATCCACTAGGAATGGGGA
* * *
6261417 TGAAGAATCATCCCCTAGGAATGGTGC
1 TGAAGAATCATCCACTAGGAATGGGGA
6261444 TGAAGA
1 TGAAGA
6261450 TACTGGTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (27 bp):
TGAAGAATCATCCACTAGGAATGGGGA
Found at i:6272737 original size:26 final size:26
Alignment explanation
Indices: 6272702--6272771 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
6272692 CAAACACAAT
6272702 TCATAA-CATAAATTGAATC-AATCAA
1 TCATAATCATAAATTGAATCAAAT-AA
* *
6272727 TCATAATCAT-AGTCTGAATCAAATAG
1 TCATAATCATAAAT-TGAATCAAATAA
* *
6272753 TGATAATCATAAAATGAAT
1 TCATAATCATAAATTGAAT
6272772 GTTATGCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
25 8 0.22
26 24 0.67
27 4 0.11
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (26 bp):
TCATAATCATAAATTGAATCAAATAA
Found at i:6275951 original size:69 final size:69
Alignment explanation
Indices: 6275825--6275960 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 69
6275815 GACGATGGCG
* *
6275825 AGGCTTAAGGGAAAGGCTCGTGATCTTGTTACCTTTATACATAGCAACCGGCAGCGGCGGAGGCA
1 AGGCTTAAGGGAAAGGCTCGTGATCTTGTTACCTTTACACATAGCAACCGGCAGCGGCAGAGGCA
6275890 AGTT
66 AGTT
* *
6275894 AGGCTTAAGGGAACA-GCTTGTGATCTTGTTACC-TT-CACATAG-AACAGTCGGCGGCGGCAGA
1 AGGCTTAAGGGAA-AGGCTCGTGATCTTGTTACCTTTACACATAGCAAC---CGGCAGCGGCAGA
6275955 GGCAAG
62 GGCAAG
6275961 AGAGAGGCGG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
66 3 0.05
67 6 0.10
68 2 0.03
69 47 0.80
70 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (69 bp):
AGGCTTAAGGGAAAGGCTCGTGATCTTGTTACCTTTACACATAGCAACCGGCAGCGGCAGAGGCA
AGTT
Found at i:6276766 original size:2 final size:2
Alignment explanation
Indices: 6276759--6276783 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6276749 AGAAGACCTT
6276759 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
6276784 GTGAACCCTT
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:6277832 original size:31 final size:31
Alignment explanation
Indices: 6277794--6277853 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6277784 AAGCTTTGAC
6277794 ATGTACTAGAACCAGAAGGAAACAGTTAGAT
1 ATGTACTAGAACCAGAAGGAAACAGTTAGAT
*
6277825 ATGTACTAGAACCAGAAGGCAACAGTTAG
1 ATGTACTAGAACCAGAAGGAAACAGTTAG
6277854 GTAGGGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (31 bp):
ATGTACTAGAACCAGAAGGAAACAGTTAGAT
Found at i:6279140 original size:22 final size:22
Alignment explanation
Indices: 6279096--6279141 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6279086 ACATGCCGAG
* * *
6279096 AAATAGAAATTAACATAATGAA
1 AAATAGAAATAAACAGAACGAA
*
6279118 AAATAGAAATAAATAGAACGAA
1 AAATAGAAATAAACAGAACGAA
6279140 AA
1 AA
6279142 CAAATCACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.17
Consensus pattern (22 bp):
AAATAGAAATAAACAGAACGAA
Found at i:6280451 original size:21 final size:21
Alignment explanation
Indices: 6280394--6280452 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
6280384 ACAATGATAA
* *
6280394 ATAACAC-ATATAATAAATTT
1 ATAACACTATATAATATATGT
6280414 ATAACACTATATAATATATGT
1 ATAACACTATATAATATATGT
*
6280435 ATAATACTATATAATATA
1 ATAACACTATATAATATA
6280453 AATATAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAACACTATATAATATATGT
Found at i:6280458 original size:21 final size:21
Alignment explanation
Indices: 6280394--6280459 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6280384 ACAATGATAA
*
6280394 ATAACAC-ATATAATA-AATTT
1 ATAACACTATATAATATAA-AT
**
6280414 ATAACACTATATAATATATGT
1 ATAACACTATATAATATAAAT
*
6280435 ATAATACTATATAATATAAAT
1 ATAACACTATATAATATAAAT
6280456 ATAA
1 ATAA
6280460 ATATAATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 7 0.18
21 31 0.79
22 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAACACTATATAATATAAAT
Found at i:6281323 original size:5 final size:5
Alignment explanation
Indices: 6280559--6281306 Score: 1329
Period size: 5 Copynumber: 150.6 Consensus size: 5
6280549 AATAAGTCAC
6280559 ATAAT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280608 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
6280658 ATAAC ATAAT ATAAT ATAAT ATAAT ATAAT ATAAC ATAAC ATAAC ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280708 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280757 AAATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 --ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280809 ATAAT ATAAT ATAAT ATATAT ATAAT ATAAT ATAAT AT-AT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280859 ATAAT ATAAT ATAAT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6280908 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATATAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT
6280959 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281009 ATAAT AT-AT ATAAT ATAAT AT-AT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281057 ATAAT ATAATAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT AT-A-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281109 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281159 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281209 ATAAT AT-AT AT-AT ATAAT A-AAT AT-AT AT-AT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281254 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6281304 ATA
1 ATA
6281307 TAAACAATAT
Statistics
Matches: 724, Mismatches: 4, Indels: 30
0.96 0.01 0.04
Matches are distributed among these distances:
4 44 0.06
5 659 0.91
6 12 0.02
7 9 0.01
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:6293380 original size:21 final size:21
Alignment explanation
Indices: 6293354--6293412 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
6293344 TAAATAACAC
** *
6293354 ATATAATAAATGTATAATATT
1 ATATAATAAACATATAATACT
*
6293375 ATATAATATACATATAATACT
1 ATATAATAAACATATAATACT
6293396 ATATAATATAA-ATATAA
1 ATATAATA-AACATATAA
6293413 ATATAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATAATAAACATATAATACT
Found at i:6293383 original size:5 final size:5
Alignment explanation
Indices: 6293366--6293422 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
6293356 ATAATAAATG
*
6293366 TATAA TATTA TATAA TATACA TATAA TACT-A TATAA TATAAA TATAAA
1 TATAA TATAA TATAA TATA-A TATAA TA-TAA TATAA TAT-AA TAT-AA
6293414 TATAA TATA
1 TATAA TATA
6293423 TACAATGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 1 0.02
5 28 0.61
6 17 0.37
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:6293393 original size:32 final size:34
Alignment explanation
Indices: 6293343--6293436 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 34
6293333 AACAACAATG
* *
6293343 ATAAATAACACATATAATAAATGTATAATAT-TAT
1 ATAAAT-ATACATATAATAAATGTATAATATAAAT
* *
6293377 AT-AATATACATATAAT-ACTATATAATATAAAT
1 ATAAATATACATATAATAAATGTATAATATAAAT
6293409 ATAAATATA-ATAT-ATACAATGGTATAAT
1 ATAAATATACATATAATA-AAT-GTATAAT
6293437 GTATGCACAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
31 12 0.24
32 18 0.37
33 11 0.22
34 8 0.16
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (34 bp):
ATAAATATACATATAATAAATGTATAATATAAAT
Found at i:6293544 original size:27 final size:27
Alignment explanation
Indices: 6293492--6293544 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6293482 CGTATATACC
*
6293492 ATATAATATAAATAAGTCACATAATAA
1 ATATAATATAAATAAGTCACAAAATAA
*
6293519 ATATAATATAATATAA-TCATAAAATA
1 ATATAATATAA-ATAAGTCACAAAATA
6293545 TGTTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATAATATAAATAAGTCACAAAATAA
Found at i:6297232 original size:21 final size:19
Alignment explanation
Indices: 6297208--6297257 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
6297198 TTTTATGATT
*
6297208 TTTTAAAATTATAATATTAA
1 TTTTAAAATTATAA-AATAA
**
6297228 GTTTTAAAAAAATAAAATAA
1 -TTTTAAAATTATAAAATAA
6297248 TTTTAAAATT
1 TTTTAAAATT
6297258 TTTATACGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 8 0.33
20 4 0.17
21 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTAAAATTATAAAATAA
Found at i:6299222 original size:29 final size:30
Alignment explanation
Indices: 6299165--6299234 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
6299155 AAATTACAAT
* **
6299165 TTTAGTCCCTAAACTTTTCAAAGTTTATAC
1 TTTAGTCACTAAACTTTTCAAAACTTATAC
*
6299195 TTTAGTCACTAAAC-TTTCAAAACTTATAT
1 TTTAGTCACTAAACTTTTCAAAACTTATAC
6299224 TTTAGTCACTA
1 TTTAGTCACTA
6299235 GACAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 23 0.64
30 13 0.36
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.43
Consensus pattern (30 bp):
TTTAGTCACTAAACTTTTCAAAACTTATAC
Found at i:6313723 original size:30 final size:29
Alignment explanation
Indices: 6313687--6313763 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
6313677 TAAAATATAT
6313687 AACTTTTAAAAATTACACTTTTGATCC-CTA
1 AACTTTTAAAAATTACACTTTTG--CCACTA
** *
6313717 AACTTTTTAAAGTTTATACTTTTGCCACTA
1 AAC-TTTTAAAAATTACACTTTTGCCACTA
* *
6313747 AACTTTCAAAACTTACA
1 AACTTTTAAAAATTACA
6313764 TATTAGTCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 12 0.32
30 9 0.24
31 17 0.45
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (29 bp):
AACTTTTAAAAATTACACTTTTGCCACTA
Found at i:6320133 original size:26 final size:25
Alignment explanation
Indices: 6320103--6320152 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6320093 AATCCAAAAT
6320103 ATTTAATTTAAATT-AATTAAATAAAG
1 ATTTAA-TTAAATTGAATT-AATAAAG
*
6320129 ATTTAATTAATTTGAATTAATAAA
1 ATTTAATTAAATTGAATTAATAAA
6320153 ATCCCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTAATTAAATTGAATTAATAAAG
Found at i:6324602 original size:35 final size:36
Alignment explanation
Indices: 6324554--6324627 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
6324544 GATAAATCTT
6324554 CATGGTGTATCGATACTGA-AGT-GATAGTATCGGTAC
1 CATGGTGTATCGATACT-ATAGTGGA-AGTATCGGTAC
*
6324590 CATGG-GTATCGATACTATTGTGGAAGTATCGGTAC
1 CATGGTGTATCGATACTATAGTGGAAGTATCGGTAC
6324625 CAT
1 CAT
6324628 TCTTGAGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
34 1 0.03
35 27 0.77
36 7 0.20
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (36 bp):
CATGGTGTATCGATACTATAGTGGAAGTATCGGTAC
Found at i:6325417 original size:22 final size:22
Alignment explanation
Indices: 6325389--6325430 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6325379 GTCGAGGGTT
*
6325389 CATAGGTCTTTCAGGACATATA
1 CATAGGTCCTTCAGGACATATA
*
6325411 CATAGGTCCTTCGGGACATA
1 CATAGGTCCTTCAGGACATA
6325431 CATGATGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (22 bp):
CATAGGTCCTTCAGGACATATA
Found at i:6333162 original size:25 final size:25
Alignment explanation
Indices: 6333132--6333180 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6333122 AAAAGCTTCA
6333132 TCAAACATTTCTCAAAATTCTTTCT
1 TCAAACATTTCTCAAAATTCTTTCT
* **
6333157 TCAAACATTTTTTGAAATTCTTTC
1 TCAAACATTTCTCAAAATTCTTTC
6333181 ATTATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (25 bp):
TCAAACATTTCTCAAAATTCTTTCT
Found at i:6334998 original size:3 final size:3
Alignment explanation
Indices: 6334985--6335058 Score: 132
Period size: 3 Copynumber: 24.7 Consensus size: 3
6334975 TTGTCTGGTC
6334985 TAT TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6335031 TAT TAT TAT TAT TAT TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6335059 CATTTGTATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6335069 original size:6 final size:5
Alignment explanation
Indices: 6334994--6335080 Score: 57
Period size: 6 Copynumber: 15.4 Consensus size: 5
6334984 CTATTCATTA
6334994 TTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 TTATT -TTATT -TTATT -TTATT -TTATT -TTATT -TTATT -TTATT -TTATT
* **
6335047 ATATT ATTATT ACATT TGTATT TTATT TTATT TT
1 TTATT -TTATT TTATT T-TATT TTATT TTATT TT
6335081 GTAGGCCTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
5 18 0.25
6 55 0.75
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (5 bp):
TTATT
Found at i:6336386 original size:2 final size:2
Alignment explanation
Indices: 6336381--6336429 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6336371 TGCGTATAGT
6336381 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
6336423 TA TA TA T
1 TA TA TA T
6336430 CATTGTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6337260 original size:27 final size:26
Alignment explanation
Indices: 6337230--6337281 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
6337220 TTGAAAACCC
6337230 AAAACCGAATTAAATTATATAATTTAA
1 AAAACCGAATTAAATTATAT-ATTTAA
6337257 AAAACCGAATTAAATTATATATTTA
1 AAAACCGAATTAAATTATATATTTA
6337282 TTTTTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (26 bp):
AAAACCGAATTAAATTATATATTTAA
Found at i:6340112 original size:25 final size:25
Alignment explanation
Indices: 6340083--6340160 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
6340073 AAAAAAATTA
6340083 TATTAACTTATTAAATATATTTTAT
1 TATTAACTTATTAAATATATTTTAT
*
6340108 TATTAACTTAATTTAAAAATATTTTTAT
1 TATTAACTT-A-TTAAATATA-TTTTAT
* **
6340136 T-TTAAATTTAAAAAATATATTTTAT
1 TATT-AACTTATTAAATATATTTTAT
6340161 GTTAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 15 0.34
26 7 0.16
27 11 0.25
28 11 0.25
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTAACTTATTAAATATATTTTAT
Found at i:6340130 original size:22 final size:23
Alignment explanation
Indices: 6340105--6340149 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6340095 AAATATATTT
6340105 TATTATTAACTT-AATTTAAAAA
1 TATTATTAACTTAAATTTAAAAA
* **
6340127 TATTTTTATTTTAAATTTAAAAA
1 TATTATTAACTTAAATTTAAAAA
6340150 ATATATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATTAACTTAAATTTAAAAA
Found at i:6340165 original size:25 final size:23
Alignment explanation
Indices: 6340117--6340167 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
6340107 TTATTAACTT
*
6340117 AATTTAAAAATATTTTTATTTTA
1 AATTTAAAAATATTTTTATGTTA
6340140 AATTTAAAAAATATATTTTATGTTA
1 AATTT-AAAAATAT-TTTTATGTTA
6340165 AAT
1 AAT
6340168 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTAAAAATATTTTTATGTTA
Found at i:6340244 original size:22 final size:24
Alignment explanation
Indices: 6340193--6340270 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
6340183 TAAGAATAAG
*
6340193 AATATATAATAATTTAAAGTAATAATAT
1 AATATAT-AT-ATTTAAAGT--TAAAAT
* *
6340221 AATATATTTA-TTAAA-TTAAGAT
1 AATATATATATTTAAAGTTAAAAT
*
6340243 AAAATATATATTTAAAGTTAAAAT
1 AATATATATATTTAAAGTTAAAAT
6340267 AATA
1 AATA
6340271 ACAAAATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 13 0.31
23 5 0.12
24 10 0.24
25 5 0.12
26 1 0.02
27 1 0.02
28 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
AATATATATATTTAAAGTTAAAAT
Found at i:6340263 original size:24 final size:24
Alignment explanation
Indices: 6340204--6340268 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
6340194 ATATATAATA
*
6340204 ATTTAAAG-TAATAATATAATATAT
1 ATTTAAAGTTAA-AATAAAATATAT
* *
6340228 TTATTAAA-TTAAGATAAAATATAT
1 AT-TTAAAGTTAAAATAAAATATAT
6340252 ATTTAAAGTTAAAATAA
1 ATTTAAAGTTAAAATAA
6340269 TAACAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.15
24 20 0.61
25 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (24 bp):
ATTTAAAGTTAAAATAAAATATAT
Found at i:6340311 original size:31 final size:30
Alignment explanation
Indices: 6340177--6340370 Score: 117
Period size: 26 Copynumber: 6.7 Consensus size: 30
6340167 TATTTTGAAT
* *
6340177 TTAAAATAAGAATAAGAATATATA-AT-AAT
1 TTAAAATAAGAATAA-AATATATATTTAAAG
* * *
6340206 TTAAAGTAATAAT-ATA-ATATATTT--A-
1 TTAAAATAAGAATAAAATATATATTTAAAG
*
6340231 TTAAATTAAG-ATAAAATATATATTTAAAG
1 TTAAAATAAGAATAAAATATATATTTAAAG
* * *
6340260 TTAAAATAATAACAAAATATATTTTTAAAAG
1 TTAAAATAAGAATAAAATATATATTT-AAAG
* *
6340291 TTTAGATAAGAATAATATATATATATTTTAAA-
1 TTAAAATAAGAATAA-A-ATATATA-TTTAAAG
*
6340323 TTAAATTAA-AATAAAATAT-T-TTTAAA-
1 TTAAAATAAGAATAAAATATATATTTAAAG
** *
6340349 TTAAGTTAATAATAAAATATAT
1 TTAAAATAAGAATAAAATATAT
6340371 TTAGGTCTTG
Statistics
Matches: 132, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
24 2 0.02
25 10 0.08
26 28 0.21
27 12 0.09
28 4 0.03
29 23 0.17
30 14 0.11
31 20 0.15
32 7 0.05
33 9 0.07
34 3 0.02
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (30 bp):
TTAAAATAAGAATAAAATATATATTTAAAG
Found at i:6340345 original size:26 final size:27
Alignment explanation
Indices: 6340164--6340373 Score: 104
Period size: 29 Copynumber: 7.4 Consensus size: 27
6340154 ATTTTATGTT
* * * *
6340164 AAATATTTTGAATTTAAAATAAGAATA
1 AAATATTTTTAAATTAAATTAATAATA
** * *
6340191 AGAATATATAATAATTTAAAGTAATAATA
1 A-AATAT-TTTTAAATTAAATTAATAATA
* * *
6340220 TAATATATTT--ATTAAATTAA-GATA
1 AAATATTTTTAAATTAAATTAATAATA
* *
6340244 AAATATATATTTAAAGTTAAAATAATAACAA
1 AAATAT-T-TTTAAA-TTAAATTAATAA-TA
**
6340275 AATATATTTTTAAAAGTTTAGATAAGAATAATA
1 AA-ATATTTTT-AAA--TTA-A-ATTAATAATA
*
6340308 TATATATATTTTAAATTAAATTAA-AATA
1 -AAATAT-TTTTAAATTAAATTAATAATA
*
6340336 AAATATTTTTAAATTAAGTTAATAATA
1 AAATATTTTTAAATTAAATTAATAATA
*
6340363 AAATATATTTA
1 AAATATTTTTA
6340374 GGTCTTGTTT
Statistics
Matches: 140, Mismatches: 26, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
24 8 0.06
25 8 0.06
26 18 0.13
27 21 0.15
28 15 0.11
29 27 0.19
30 5 0.04
31 10 0.07
32 7 0.05
33 9 0.06
34 12 0.09
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATATTTTTAAATTAAATTAATAATA
Found at i:6340355 original size:63 final size:60
Alignment explanation
Indices: 6340246--6340370 Score: 139
Period size: 63 Copynumber: 2.0 Consensus size: 60
6340236 TTAAGATAAA
*
6340246 ATATATATTTAAAGTTAAAATAATAACAAAATATATTTTTAAAAGTTTAGATAAGAATAATAT
1 ATATATATTTAAAGTTAAAATAATAACAAAATATATTTTAAAAAG-TTA-ATAAGAA-AATAT
* * *
6340309 ATATATATTTTAAA-TTAAATTAA-AATAAAATAT-TTTTAAATTAAGTTAATAATAAAATAT
1 ATATATA-TTTAAAGTTAAAATAATAACAAAATATATTTTAAA--AAGTTAATAAGAAAATAT
6340369 AT
1 AT
6340371 TTAGGTCTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
60 7 0.13
61 12 0.22
62 12 0.22
63 18 0.33
64 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (60 bp):
ATATATATTTAAAGTTAAAATAATAACAAAATATATTTTAAAAAGTTAATAAGAAAATAT
Found at i:6340373 original size:27 final size:27
Alignment explanation
Indices: 6340164--6340373 Score: 115
Period size: 27 Copynumber: 7.4 Consensus size: 27
6340154 ATTTTATGTT
* * *
6340164 AAATAT-TTTGAATTTAAAATAAGAATA
1 AAATATATTT-AAATTAAATTAATAATA
* * *
6340191 AGAATATATAATAATTTAAAGTAATAATA
1 A-AATATAT-TTAAATTAAATTAATAATA
*
6340220 TAATATATTT--ATTAAATTAAGATAA-A
1 AAATATATTTAAATTAAATT-A-ATAATA
* * *
6340246 ATATATATTTAAAGTTAAAATAATAACA
1 AAATATATTTAAA-TTAAATTAATAATA
**
6340274 AAATATATTTTTAAAAGTTTAGATAAGAATAATA
1 AAATATA--TTT-AAA--TTA-A-ATTAATAATA
*
6340308 TATATATATTTTAAATTAAATTAA-AATA
1 -AAATATA-TTTAAATTAAATTAATAATA
* *
6340336 AAATATTTTTAAATTAAGTTAATAATA
1 AAATATATTTAAATTAAATTAATAATA
6340363 AAATATATTTA
1 AAATATATTTA
6340374 GGTCTTGTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
25 6 0.04
26 24 0.17
27 29 0.20
28 25 0.17
29 25 0.17
30 5 0.03
31 6 0.04
32 3 0.02
33 4 0.03
34 12 0.08
35 6 0.04
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATATATTTAAATTAAATTAATAATA
Found at i:6344407 original size:20 final size:20
Alignment explanation
Indices: 6344379--6344436 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
6344369 GAATAGTACC
* *
6344379 GTATGAATAGTATCGATAAT
1 GTATAAATAGTACCGATAAT
*
6344399 GTATAAATAGTACCGATATT
1 GTATAAATAGTACCGATAAT
* * *
6344419 GTGTGAACAGTACCGATA
1 GTATAAATAGTACCGATA
6344437 CTAAAAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
GTATAAATAGTACCGATAAT
Found at i:6346197 original size:20 final size:21
Alignment explanation
Indices: 6346154--6346223 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 21
6346144 TAGGATAAGG
* ** *
6346154 GTATCGATATTAGGCCCTTCA
1 GTATCGATACTACACCCTTGA
6346175 GTATCGATACTA-ACCCTTGA
1 GTATCGATACTACACCCTTGA
6346195 GTA-CTGATAC-ACACCCTTG-
1 GTATC-GATACTACACCCTTGA
*
6346214 GTATCAATAC
1 GTATCGATAC
6346224 CATAAATGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 9 0.21
20 22 0.52
21 11 0.26
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (21 bp):
GTATCGATACTACACCCTTGA
Found at i:6347627 original size:11 final size:11
Alignment explanation
Indices: 6347613--6347642 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6347603 CTTCAAGGAT
*
6347613 AAATCGATTAA
1 AAATCAATTAA
6347624 AAATCAATTAA
1 AAATCAATTAA
6347635 AAATCAAT
1 AAATCAAT
6347643 GATCAGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (11 bp):
AAATCAATTAA
Found at i:6348239 original size:22 final size:20
Alignment explanation
Indices: 6348189--6348233 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
6348179 ACAAGTGATA
6348189 TATGTAAATATGAAATGCTC
1 TATGTAAATATGAAATGCTC
6348209 TATGTAAATATGAAATGCTC
1 TATGTAAATATGAAATGCTC
6348229 TATGT
1 TATGT
6348234 GTAAATGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (20 bp):
TATGTAAATATGAAATGCTC
Found at i:6348458 original size:24 final size:24
Alignment explanation
Indices: 6348429--6348486 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
6348419 TTCGGGATAT
6348429 TTCTACGTGGTCCTTCAGGACAAA
1 TTCTACGTGGTCCTTCAGGACAAA
* *
6348453 TTCTACGCGGTCCTTCAGGATAAA
1 TTCTACGTGGTCCTTCAGGACAAA
6348477 TTCTACGTGG
1 TTCTACGTGG
6348487 CACTTTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCAGGACAAA
Found at i:6349701 original size:19 final size:19
Alignment explanation
Indices: 6349677--6349714 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6349667 ATCGATATCA
*
6349677 AAATAGGTTACTGTAATCT
1 AAATAGGTTACTGGAATCT
6349696 AAATAGGTTACTGGAATCT
1 AAATAGGTTACTGGAATCT
6349715 GAATCGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
AAATAGGTTACTGGAATCT
Found at i:6350022 original size:20 final size:21
Alignment explanation
Indices: 6349997--6350048 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6349987 TTTTCCCAAT
*
6349997 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
6350017 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
6350038 TCGCAATGCGA
1 TCGCAATGCGA
6350049 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:6350062 original size:20 final size:20
Alignment explanation
Indices: 6350037--6350090 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6350027 AATTGGGAAA
6350037 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
6350057 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
6350077 ATCGCAATGCGATA
1 ATCGCAATGCGATA
6350091 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:6350135 original size:20 final size:20
Alignment explanation
Indices: 6350112--6350151 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6350102 AAACGAGATA
*
6350112 CTGACTTTTGCAACGCGATT
1 CTGACTTTCGCAACGCGATT
6350132 CTGACTTTCGCAACGCGATT
1 CTGACTTTCGCAACGCGATT
6350152 TACATAGCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
CTGACTTTCGCAACGCGATT
Found at i:6350696 original size:20 final size:20
Alignment explanation
Indices: 6350668--6350734 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 20
6350658 TTCGAGAATG
6350668 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGCGGAAATA
** *
6350688 ACTATCGCAACG-AGAAATA
1 AAAATCGCAACGCGGAAATA
**
6350707 AAAATCGCAACGC-GAAACC
1 AAAATCGCAACGCGGAAATA
6350726 AAAATCGCA
1 AAAATCGCA
6350735 TTGCGATTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACGCGGAAATA
Found at i:6350733 original size:38 final size:38
Alignment explanation
Indices: 6350660--6350734 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
6350650 GGAATAGTTT
* * *
6350660 CGAGAATGAAAATCGCAACGCGGAAATAACTATCGCAA
1 CGAGAATAAAAATCGCAACGCGGAAACAACAATCGCAA
6350698 CGAGAAATAAAAATCGCAACGC-GAAACCAA-AATCGCA
1 CGAG-AATAAAAATCGCAACGCGGAAA-CAACAATCGCA
6350735 TTGCGATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 14 0.44
39 18 0.56
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.11
Consensus pattern (38 bp):
CGAGAATAAAAATCGCAACGCGGAAACAACAATCGCAA
Found at i:6350765 original size:19 final size:19
Alignment explanation
Indices: 6350730--6350913 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
6350720 GAAACCAAAA
*
6350730 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
6350748 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
6350767 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
6350786 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
6350806 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* * **
6350822 T-G-GTCGTGATAGTCATT
1 TCGCGTTGCGATTTTCATT
6350839 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
6350853 TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
*
6350873 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
6350892 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
6350912 TC
1 TC
6350914 AACCAATAGA
Statistics
Matches: 135, Mismatches: 17, Indels: 27
0.75 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 11 0.08
19 49 0.36
20 49 0.36
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6350799 original size:39 final size:38
Alignment explanation
Indices: 6350730--6350913 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
6350720 GAAACCAAAA
*
6350730 TCGCATTGCGA-TTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
6350767 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * * **
6350806 TCGCGTTGCGATTGTC---T-G-GTCGTGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
6350839 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCA-TT
* *
6350873 TCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
6350912 TC
1 TC
6350914 AACCAATAGA
Statistics
Matches: 121, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
31 3 0.02
33 33 0.27
34 13 0.11
35 1 0.01
36 3 0.02
37 10 0.08
38 10 0.08
39 33 0.27
40 15 0.12
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:6350905 original size:20 final size:20
Alignment explanation
Indices: 6350853--6350911 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6350843 GTTGCGATTC
** *
6350853 TCTCGTTGCGATAGTCATTT
1 TCTCGTTGCGATTCTCATTA
*
6350873 TCGCGTTGCGATTCTCATTA
1 TCTCGTTGCGATTCTCATTA
*
6350893 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTCTCATT
6350912 TCAACCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (20 bp):
TCTCGTTGCGATTCTCATTA
Found at i:6352969 original size:42 final size:42
Alignment explanation
Indices: 6352909--6353031 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
6352899 GCCCGACTCG
* * *
6352909 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
6352951 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
6352993 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
6353032 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:6352989 original size:21 final size:21
Alignment explanation
Indices: 6352965--6353031 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6352955 TCATTCCTCG
6352965 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
6352986 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
6353007 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
6353028 AGAG
1 AGAG
6353032 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:6354539 original size:19 final size:19
Alignment explanation
Indices: 6354517--6354666 Score: 87
Period size: 19 Copynumber: 8.7 Consensus size: 19
6354507 CGAAATTAAA
6354517 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
6354536 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
6354551 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
6354569 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
6354583 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
6354602 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
6354617 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
6354635 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
6354654 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
6354667 GGACATTAGA
Statistics
Matches: 95, Mismatches: 21, Indels: 30
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 55 0.58
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:6354563 original size:33 final size:32
Alignment explanation
Indices: 6354521--6354647 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
6354511 ATTAAATTCG
6354521 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
6354554 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
6354587 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
6354620 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
6354648 AGTAATTTCG
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:6354610 original size:66 final size:66
Alignment explanation
Indices: 6354514--6354646 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
6354504 ACGCGAAATT
*
6354514 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
6354579 G
66 G
*
6354580 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
6354645 G
66 G
6354646 A
1 A
6354647 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:6356949 original size:12 final size:12
Alignment explanation
Indices: 6356932--6356956 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6356922 TCTTCGAGGA
6356932 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6356944 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6356956 C
1 C
6356957 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6357165 original size:24 final size:24
Alignment explanation
Indices: 6357131--6357184 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6357121 CTGAAACATC
* *
6357131 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
6357155 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
6357179 ATCAAA
1 ATCAAA
6357185 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:6358271 original size:20 final size:20
Alignment explanation
Indices: 6358246--6358303 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
6358236 ATTCATTTGA
6358246 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
6358266 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
6358286 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
6358304 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:6358346 original size:14 final size:14
Alignment explanation
Indices: 6358327--6358380 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
6358317 GAAAATCGCA
6358327 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
6358341 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
6358358 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
6358374 TTGCGAT
1 TTGCGAT
6358381 AACCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:6358346 original size:33 final size:33
Alignment explanation
Indices: 6358309--6358379 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
6358299 AAAATCGCAA
6358309 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
6358342 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
6358375 TGCGA
1 TGCGA
6358380 TAACCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:6358380 original size:33 final size:33
Alignment explanation
Indices: 6358322--6358399 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
6358312 GAAATGAAAA
***
6358322 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
6358355 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
*
6358388 TCGCGTTGCGAT
1 TCGCATTGCGAT
6358400 AGCCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAACCATT
Found at i:6358506 original size:14 final size:14
Alignment explanation
Indices: 6358487--6358523 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6358477 CATCAATTAA
6358487 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
6358501 ACAAATCATCTTTT
1 ACAAATCAACATTT
6358515 ACAAATCAA
1 ACAAATCAA
6358524 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:6359309 original size:10 final size:9
Alignment explanation
Indices: 6359284--6359311 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6359274 TATGAACACC
6359284 TTTAAAAAA
1 TTTAAAAAA
6359293 TTTAAAAAA
1 TTTAAAAAA
6359302 TTTAAAAAA
1 TTTAAAAAA
6359311 T
1 T
6359312 AAACACTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:6360425 original size:19 final size:19
Alignment explanation
Indices: 6360400--6360485 Score: 102
Period size: 19 Copynumber: 4.5 Consensus size: 19
6360390 CGAAACTTAA
6360400 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAC
* *
6360419 TATCGCAACGCGGAAATGGC
1 AATCGCAACGC-GAAATGAC
* ** *
6360439 TATCGCAATACGAAATGAA
1 AATCGCAACGCGAAATGAC
6360458 AATCGCAACGCGAAATGA-
1 AATCGCAACGCGAAATGAC
6360476 AATCGCAACG
1 AATCGCAACG
6360486 ACAAAATCGC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
18 10 0.18
19 31 0.54
20 16 0.28
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:6360444 original size:39 final size:38
Alignment explanation
Indices: 6360401--6360474 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
6360391 GAAACTTAAA
* **
6360401 ATCGCAACGCGAAATGACTATCGCAACGCGGAAATGGCT
1 ATCGCAACACGAAATGAAAATCGCAACGC-GAAATGGCT
*
6360440 ATCGCAATACGAAATGAAAATCGCAACGCGAAATG
1 ATCGCAACACGAAATGAAAATCGCAACGCGAAATG
6360475 AAATCGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 6 0.19
39 25 0.81
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (38 bp):
ATCGCAACACGAAATGAAAATCGCAACGCGAAATGGCT
Found at i:6360533 original size:19 final size:19
Alignment explanation
Indices: 6360511--6360592 Score: 95
Period size: 18 Copynumber: 4.6 Consensus size: 19
6360501 GAAACACAAA
6360511 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6360530 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
6360548 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
6360564 T--CATTGCGATTTTCGTT
1 TCGCATTGCGATTTTCATT
6360581 TCGCATTGCGAT
1 TCGCATTGCGAT
6360593 AGCCATTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 2 0.04
17 2 0.04
18 20 0.37
19 19 0.35
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:6360618 original size:51 final size:50
Alignment explanation
Indices: 6360514--6360619 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 50
6360504 ACACAAATCG
* ** *
6360514 CATTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATGCCATTTCGCATTGCGA-TTAGT
* *
6360565 CATTGCGATTTTCGTTTCGCATTGCGATAGCCATTTTCGCGTTGCGA-TAGT
1 CATTGCGATTTTCATTTCGCATTGCGAT-GCCA-TTTCGCATTGCGATTAGT
6360616 CATT
1 CATT
6360620 TTCGTGTTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 33 0.70
52 2 0.04
53 12 0.26
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (50 bp):
CATTGCGATTTTCATTTCGCATTGCGATGCCATTTCGCATTGCGATTAGT
Found at i:6360628 original size:20 final size:20
Alignment explanation
Indices: 6360579--6360631 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6360569 GCGATTTTCG
*
6360579 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
6360599 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
*
6360619 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
6360632 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:6361139 original size:18 final size:18
Alignment explanation
Indices: 6361113--6361157 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6361103 GTCGATCAGA
*
6361113 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
6361131 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
6361149 TGATGGCTC
1 TGATGGCTC
6361158 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:6362501 original size:20 final size:20
Alignment explanation
Indices: 6362476--6362513 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6362466 AATAGTTTCT
6362476 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
6362496 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
6362514 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:6363037 original size:20 final size:21
Alignment explanation
Indices: 6363008--6363071 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 21
6362998 GATTATGTAT
6363008 TATC-GCGTTGCGAAAGTCAG
1 TATCTGCGTTGCGAAAGTCAG
*
6363028 TAT-TGCGTTGCGAAAGTAAG
1 TATCTGCGTTGCGAAAGTCAG
* *
6363048 TATCT-TGTTGCGATAGTCAG
1 TATCTGCGTTGCGAAAGTCAG
6363068 TATC
1 TATC
6363072 GCATTACGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
TATCTGCGTTGCGAAAGTCAG
Found at i:6363094 original size:21 final size:21
Alignment explanation
Indices: 6363070--6363162 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 21
6363060 ATAGTCAGTA
*
6363070 TCGCATTACGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
6363091 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
6363111 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
6363132 TCGCGTTTCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
6363152 TCGCATTGCGA
1 TCGCATTGCGA
6363163 ATTGGGAAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 31 0.56
21 24 0.44
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:6363114 original size:20 final size:20
Alignment explanation
Indices: 6363089--6363162 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
6363079 GATTTTCCCA
*
6363089 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
6363109 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
* *
6363130 ATTCGCGTTTCGATTTACTT
1 ATTCGCATTGCGATTTACTT
6363150 ATTCGCATTGCGA
1 ATTCGCATTGCGA
6363163 ATTGGGAAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:6363159 original size:41 final size:41
Alignment explanation
Indices: 6363070--6363162 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
6363060 ATAGTCAGTA
*
6363070 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
6363111 TCGCATTGCGATTTTCCCAATTCGCGTTTCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
6363152 TCGCATTGCGA
1 TCGCATTGCGA
6363163 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:6363476 original size:18 final size:18
Alignment explanation
Indices: 6363436--6363476 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6363426 CATATATATA
* *
6363436 ATATATAATTTTGAAAGC
1 ATATATAATTTCGAAAAC
*
6363454 TTATATAATTTCGAAAAC
1 ATATATAATTTCGAAAAC
6363472 ATATA
1 ATATA
6363477 CGTAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (18 bp):
ATATATAATTTCGAAAAC
Found at i:6364797 original size:29 final size:28
Alignment explanation
Indices: 6364733--6364798 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 28
6364723 TCAATTAAAT
6364733 CCATGTTTCTTTATAAAATTGATTATTTG
1 CCATGTTT-TTTATAAAATTGATTATTTG
* *
6364762 --ATGTTTTTTATTAAATTGATTTTTATG
1 CCATGTTTTTTATAAAATTGATTATT-TG
6364789 CCATGTTTTT
1 CCATGTTTTT
6364799 ATTTATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 16 0.50
27 8 0.25
29 8 0.25
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (28 bp):
CCATGTTTTTTATAAAATTGATTATTTG
Found at i:6366105 original size:29 final size:29
Alignment explanation
Indices: 6366057--6366131 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
6366047 AACATGACGT
* **
6366057 GGATATAATCCCATGTAGAGTTAA-AACAG
1 GGATATAATCCCATGCAGAGACAAGAA-AG
* *
6366086 GGATAAAATCCCTTGCAGAGACAAGAAAG
1 GGATATAATCCCATGCAGAGACAAGAAAG
6366115 GGATATAATCCCATGCA
1 GGATATAATCCCATGCA
6366132 AAATTAGGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (29 bp):
GGATATAATCCCATGCAGAGACAAGAAAG
Found at i:6367465 original size:111 final size:112
Alignment explanation
Indices: 6367216--6367504 Score: 422
Period size: 111 Copynumber: 2.6 Consensus size: 112
6367206 AAATTTTATC
*
6367216 GGTTTTGTCATTTTTTTACCTGTTATATTGTAAAGTATCGAT-CATTTTTTATAAAAAGGATCGA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACA-TTTTTAT-AAAAGGATCGA
* * * *
6367280 TATTTTCAATATATCAGGTAAATTTTACCGGTTTTGTCATAATGAATCT
64 TACTTTCAACATATCACGTAAATTTTACCGGTTTTGTCATAATGAAACT
* * * *
6367329 GGATTTGTCATACTTTTACCTGTTATATTGTAACGTATTGATACATTTTTATAAAAGGATCGATA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAGGATCGATA
*
6367394 CTTTCAACATATCCCGTAAATTTTA-CGGTTTTGTCATAATGAAACT
66 CTTTCAACATATCACGTAAATTTTACCGGTTTTGTCATAATGAAACT
* * *
6367440 GGTTTTTTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTAT-AAAGTATCGATA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAGGATCGATA
6367504 C
66 C
6367505 ATTATAGGCG
Statistics
Matches: 158, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
110 12 0.08
111 66 0.42
112 34 0.22
113 44 0.28
114 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (112 bp):
GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAGGATCGATA
CTTTCAACATATCACGTAAATTTTACCGGTTTTGTCATAATGAAACT
Found at i:6367778 original size:21 final size:23
Alignment explanation
Indices: 6367751--6367800 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
6367741 ACATATTTTA
* *
6367751 TTATATAAACGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
6367774 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
6367797 TTAT
1 TTAT
6367801 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:6367881 original size:87 final size:87
Alignment explanation
Indices: 6367735--6367941 Score: 360
Period size: 87 Copynumber: 2.4 Consensus size: 87
6367725 ACAAATTAAA
* * * * *
6367735 TAATTAACATATTTTATTATATAAACGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAACCGATACCTAATATGTTA
6367800 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*
6367822 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAACCGATACTTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAACCGATACCTAATATGTTA
6367887 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
6367909 TAATTAACCTATTTTATTATATAAGCGCTACCT
1 TAATTAACCTATTTTATTATATAAGCGCTACCT
6367942 CTGTGGAAAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAACCGATACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:6368438 original size:112 final size:112
Alignment explanation
Indices: 6368256--6368728 Score: 745
Period size: 112 Copynumber: 4.2 Consensus size: 112
6368246 AACTTTCAAC
*
6368256 AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAG-ATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
6368321 TTTTTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
65 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
* *
6368369 AAAGTATCGAT-CCTTTTTATAAAAAGAATCGATACTTTCAATATATCAGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAG-ATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* * *
6368433 TTTTTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTCATATTGT
65 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
* * * *
6368481 AAAGTATCGAT-CTTTTTTATAAAAATGATCAATACTTTCAACATATTAGATAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAA-GATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
6368545 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
65 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
**
6368593 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCCGTAAATTTTACCGG-
1 AAAGTATCGATACATTTTTATAAAAA-GATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
6368657 TTTGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGT
65 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
6368705 AAAGTATCGATACATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
6368729 GTAACGATAC
Statistics
Matches: 333, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
112 276 0.83
113 57 0.17
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (112 bp):
AAAGTATCGATACATTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTT
TTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
Found at i:6369075 original size:23 final size:23
Alignment explanation
Indices: 6369040--6369090 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6369030 CCAGTAATTA
** *
6369040 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAACGAT
*
6369063 ACCTATTACATTATATAAGCGAT
1 ACCTATTACATTATATAAACGAT
6369086 ACCTA
1 ACCTA
6369091 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGAT
Found at i:6369136 original size:87 final size:87
Alignment explanation
Indices: 6368985--6369144 Score: 275
Period size: 87 Copynumber: 1.8 Consensus size: 87
6368975 AACATATTTT
** * *
6368985 ATTATATAAGCTCTACCTAATATGTTATTGTGTTTGATAATGTTTCCAGTAATTAACCTATTTTA
1 ATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACATATTTTA
6369050 TTATATAAACGCTACCTATTAC
66 TTATATAAACGCTACCTATTAC
*
6369072 ATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACATTTTTTA
1 ATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACATATTTTA
6369137 TTATATAA
66 TTATATAA
6369145 GCGATAACTC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (87 bp):
ATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACATATTTTA
TTATATAAACGCTACCTATTAC
Found at i:6369670 original size:112 final size:113
Alignment explanation
Indices: 6369469--6369941 Score: 756
Period size: 112 Copynumber: 4.2 Consensus size: 113
6369459 AACTTTCAAC
* * *
6369469 AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGTT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
6369534 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGATTTGTCATATTTTTACCTGTCATATTGT
*
6369582 AAAGTATCGAT-CCTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
6369646 TTTTTCATAATGAAACTGGATTTGTCATATTTTTACCTGTCATATTGT
66 TTTGTCATAATGAAACTGGATTTGTCATATTTTTACCTGTCATATTGT
* * * **
6369694 AAAGTATCGAT-CTTTTTTATAAAAATGATCGATACTTTCAACATATTAAATAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
6369758 TTTGTCATAATGAAACT-GATTTTGTCATATTTTTACATGTTATATTGT
66 TTTGTCATAATGAAACTGGA-TTTGTCATATTTTTACCTGTCATATTGT
*
6369806 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAAATTTTACCGG-
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
6369870 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTCATATTAT
66 TTTGTCATAATGAAACTGGATTTGTCATATTTTTACCTGTCATATTGT
6369918 AAAGTATCGATACATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
6369942 GTAACGATAC
Statistics
Matches: 332, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
111 2 0.01
112 272 0.82
113 58 0.17
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTGTCATAATGAAACTGGATTTGTCATATTTTTACCTGTCATATTGT
Found at i:6369957 original size:18 final size:19
Alignment explanation
Indices: 6369914--6369954 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
6369904 ACCTGTCATA
*
6369914 TTATAAAGTATCGATACATTT
1 TTATAAAGTAACGATAC--TT
6369935 TTATAAAGTAACGATACTT
1 TTATAAAGTAACGATACTT
6369954 T
1 T
6369955 ATAGGCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
21 16 0.84
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATAAAGTAACGATACTT
Found at i:6370247 original size:23 final size:23
Alignment explanation
Indices: 6370197--6370241 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6370187 AACATATTTT
* *
6370197 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
6370220 ATTATATAAGTACTACCTAATA
1 ATTATATAAGCACTACCTAATA
6370242 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:6370310 original size:23 final size:23
Alignment explanation
Indices: 6370275--6370325 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
6370265 CCAGTAATTA
** *
6370275 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGAT
6370298 ACCTATTACATTATATAAGCGAT
1 ACCTATTACATTATATAAGCGAT
6370321 ACCTA
1 ACCTA
6370326 ATATGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGAT
Found at i:6370328 original size:87 final size:87
Alignment explanation
Indices: 6370182--6370440 Score: 448
Period size: 87 Copynumber: 3.0 Consensus size: 87
6370172 ACAAATTAAA
* *
6370182 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAG-TACTACCTAATATGTT
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGA-TACCTAATATGTT
6370246 ATTGTGTTTGATAATGTTTCCAG
65 ATTGTGTTTGATAATGTTTCCAG
*
6370269 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGCTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
6370334 TTGTGTTTGATAATGTTTCCAG
66 TTGTGTTTGATAATGTTTCCAG
* *
6370356 TAATTAACCTATTTTATTATATAAGCTCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
*
6370421 TTGTGCTTGATAATGTTTCC
66 TTGTGTTTGATAATGTTTCC
6370441 GGTTAAATGA
Statistics
Matches: 164, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
87 163 0.99
88 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
TTGTGTTTGATAATGTTTCCAG
Done.