Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_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: 3855360
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2745 characters in sequence are not A, C, G, or T
File 5 of 17
Found at i:894424 original size:13 final size:13
Alignment explanation
Indices: 894406--894442 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
894396 TTAATTGGGA
894406 AAATTTAAAATTT
1 AAATTTAAAATTT
894419 AAATTTAAAATTT
1 AAATTTAAAATTT
894432 AAATTTAAAAT
1 AAATTTAAAAT
894443 ATTCAATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:894597 original size:9 final size:10
Alignment explanation
Indices: 894592--894681 Score: 64
Period size: 10 Copynumber: 8.6 Consensus size: 10
894582 GGAAAAAATT
894592 ATAAAAATAA
1 ATAAAAATAA
894602 ATAAAAATAA
1 ATAAAAATAA
894612 ATAAACAAATAA
1 AT-AA-AAATAA
894624 A-AATAAATCAA
1 ATAA-AAAT-AA
894635 AGTAAAAAT--
1 A-TAAAAATAA
894644 ATAAAAATACAA
1 ATAAAAAT--AA
894656 ATAAAAATATA
1 ATAAAAATA-A
894667 A-AAGAAATAA
1 ATAA-AAATAA
894677 A-AAAA
1 ATAAAA
894682 TATTATATAA
Statistics
Matches: 68, Mismatches: 1, Indels: 23
0.74 0.01 0.25
Matches are distributed among these distances:
8 7 0.10
9 3 0.04
10 25 0.37
11 12 0.18
12 19 0.28
13 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:894601 original size:6 final size:6
Alignment explanation
Indices: 894592--894679 Score: 53
Period size: 6 Copynumber: 15.2 Consensus size: 6
894582 GGAAAAAATT
* *
894592 ATAAAA AT--AA ATAAAA ATAAATA A-ACAA ATAAAA AT--AA ATCAAA
1 ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA
* * * *
894636 GTAAAAA TATAAAA ATACAA ATAAAA ATATAA A-AGAA ATAAAA A
1 AT-AAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
894680 AATATTATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
4 8 0.13
5 6 0.10
6 39 0.62
7 9 0.14
8 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:894607 original size:18 final size:18
Alignment explanation
Indices: 894585--894679 Score: 81
Period size: 18 Copynumber: 5.3 Consensus size: 18
894575 AAAAAAAGGA
894585 AAAAATTATAAAAATAAAT
1 AAAAA-TATAAAAATAAAT
*
894604 AAAAATA-AATAAACAAAT
1 AAAAATATAA-AAATAAAT
** *
894622 AAAAATA-AATCA-AAGT
1 AAAAATATAAAAATAAAT
894638 AAAAATATAAAAATACAAAT
1 AAAAATATAAAAAT--AAAT
*
894658 AAAAATAT-AAAAGAAAT
1 AAAAATATAAAAATAAAT
894675 AAAAA
1 AAAAA
894680 AATATTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
16 10 0.16
17 15 0.24
18 18 0.29
19 9 0.14
20 11 0.17
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATATAAAAATAAAT
Found at i:894615 original size:14 final size:14
Alignment explanation
Indices: 894592--894681 Score: 73
Period size: 14 Copynumber: 6.4 Consensus size: 14
894582 GGAAAAAATT
894592 ATAAAAATAAATAA
1 ATAAAAATAAATAA
*
894606 A-AATAAATAAACAA
1 ATAA-AAATAAATAA
894620 ATAAAAATAAATCAA
1 ATAAAAATAAAT-AA
894635 AGTAAAAATATAA-AA
1 A-TAAAAATA-AATAA
*
894650 ATACAAAT-AA-AA
1 ATAAAAATAAATAA
*
894662 ATATAAAAGAAATAA
1 ATA-AAAATAAATAA
894677 A-AAAA
1 ATAAAA
894682 TATTATATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
12 7 0.11
13 8 0.13
14 27 0.43
15 11 0.17
16 8 0.13
17 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:894640 original size:24 final size:21
Alignment explanation
Indices: 894594--894681 Score: 69
Period size: 21 Copynumber: 4.1 Consensus size: 21
894584 AAAAAATTAT
894594 AAAAATAAATAA-AAATAAATA
1 AAAAATAAA-AATAAATAAATA
894615 AACAAATAAAAATAAATCAAAGTA
1 AA-AAATAAAAATAAAT-AAA-TA
*
894639 AAAATATAAAAAT--ACAAAT-
1 AAAA-ATAAAAATAAATAAATA
*
894658 AAAAATATAAAAGAAATAAA-A
1 AAAAATA-AAAATAAATAAATA
894679 AAA
1 AAA
894682 TATTATATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
18 3 0.05
19 8 0.15
20 1 0.02
21 14 0.25
22 12 0.22
23 5 0.09
24 12 0.22
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAATAAATA
Found at i:894656 original size:36 final size:32
Alignment explanation
Indices: 894596--894681 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 32
894586 AAAATTATAA
*
894596 AAATAAATAAAAATAAATAAACAAATAAAAAT
1 AAATAAATAAAAATAAAAAAACAAATAAAAAT
894628 AAATCAAAGTAAAAATATAAAAATACAAATAAAAAT
1 AAAT-AAA-TAAAAATA-AAAAA-ACAAATAAAAAT
*
894664 --ATAAA-AGAAATAAAAAAA
1 AAATAAATAAAAATAAAAAAA
894682 TATTATATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
29 1 0.02
30 5 0.10
31 6 0.12
32 4 0.08
33 6 0.12
34 10 0.21
35 4 0.08
36 12 0.25
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.17
Consensus pattern (32 bp):
AAATAAATAAAAATAAAAAAACAAATAAAAAT
Found at i:894698 original size:20 final size:20
Alignment explanation
Indices: 894676--894712 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
894666 AAAAGAAATA
894676 AAAAAATAT-TATATAAACC
1 AAAAAATATATATATAAACC
*
894695 AAAAAGTATATATATAAA
1 AAAAAATATATATATAAA
894713 ATGAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAAATATATATATAAACC
Found at i:895958 original size:16 final size:19
Alignment explanation
Indices: 895940--895978 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
895930 AAAAATAAAA
*
895940 ATAAAATATAT-ATATAAT
1 ATAAACTATATAATATAAT
895958 ATAAACTATATAATAT-AT
1 ATAAACTATATAATATAAT
895976 ATA
1 ATA
895979 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAACTATATAATATAAT
Found at i:896074 original size:36 final size:35
Alignment explanation
Indices: 895960--896337 Score: 311
Period size: 36 Copynumber: 10.6 Consensus size: 35
895950 TATATAATAT
* *
895960 AAACTATATAATATAT-ATATTTCAAAAAT-ATTTTT
1 AAACTATATATTATATAAT-TTTCAAAAATGA-TTTA
* *
895995 AAACTATATATTATAT--TTTT-AAAAAAGTTTTCA
1 AAACTATATATTATATAATTTTCAAAAATGATTT-A
*
896028 AAACTATATATTATATAGTTTTCAAAAATGATTT-
1 AAACTATATATTATATAATTTTCAAAAATGATTTA
* *
896062 AAA--A-ATATTATATAAGTTTCAAAAAATGTTTTTA
1 AAACTATATATTATATAATTTTC-AAAAATG-ATTTA
*
896096 AAACTATATATTATATAAATTTTCAAAAATGTTTTAA
1 AAACTATATATTATAT-AATTTTCAAAAATGATTT-A
*
896133 AAACTATATATTATATAAATTTTCAAAAATGTTTTAA
1 AAACTATATATTATAT-AATTTTCAAAAATGATTT-A
896170 AAACTATATATTATATATATTTTC-AAAATGATTTCA
1 AAACTATATATTATATA-ATTTTCAAAAATGATTT-A
896206 AAACTATATATTATATATATTTTC-AAAA-GCATTTTCAA
1 AAACTATATATTATATA-ATTTTCAAAAATG-A-TTT--A
* *
896244 AAACTATACATTATATATGTTTTC-AAAAT-ATTTCA
1 AAACTATATATTATATA-ATTTTCAAAAATGATTT-A
* * *
896279 AAACTATATAATATATATATATTC-AAAAT-ATTTTCG
1 AAACTATATATTATATA-ATTTTCAAAAATGA-TTT-A
*
896315 AAACTATATAGTATATATATTTT
1 AAACTATATATTATATA-ATTTT
896338 AGAAAACTGT
Statistics
Matches: 301, Mismatches: 23, Indels: 37
0.83 0.06 0.10
Matches are distributed among these distances:
31 14 0.05
32 16 0.05
33 22 0.07
34 7 0.02
35 47 0.16
36 82 0.27
37 80 0.27
38 33 0.11
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATAATTTTCAAAAATGATTTA
Found at i:896109 original size:37 final size:36
Alignment explanation
Indices: 895960--896350 Score: 355
Period size: 37 Copynumber: 10.9 Consensus size: 36
895950 TATATAATAT
* * *
895960 AAACTATATAATATAT-ATATTTCAAAAATATTTT-T
1 AAACTATATATTATATAAT-TTTCAAAAATGTTTTAA
* *
895995 AAACTATATATTATAT--TTTT-AAAAAAGTTTTCA
1 AAACTATATATTATATAATTTTCAAAAATGTTTTAA
* *
896028 AAACTATATATTATATAGTTTTCAAAAATGATTT--
1 AAACTATATATTATATAATTTTCAAAAATGTTTTAA
* *
896062 AAA--A-ATATTATATAAGTTTCAAAAAATGTTTTTA
1 AAACTATATATTATATAATTTTC-AAAAATGTTTTAA
896096 AAACTATATATTATATAAATTTTCAAAAATGTTTTAA
1 AAACTATATATTATAT-AATTTTCAAAAATGTTTTAA
896133 AAACTATATATTATATAAATTTTCAAAAATGTTTTAA
1 AAACTATATATTATAT-AATTTTCAAAAATGTTTTAA
* *
896170 AAACTATATATTATATATATTTTC-AAAATGATTTCA
1 AAACTATATATTATATA-ATTTTCAAAAATGTTTTAA
*
896206 AAACTATATATTATATATATTTTCAAAAGCAT-TTTCAA
1 AAACTATATATTATATA-ATTTTCAAAA--ATGTTTTAA
* * * *
896244 AAACTATACATTATATATGTTTTC-AAAAT-ATTTCA
1 AAACTATATATTATATA-ATTTTCAAAAATGTTTTAA
* * * **
896279 AAACTATATAATATATATATATTC-AAAATATTTTCG
1 AAACTATATATTATATA-ATTTTCAAAAATGTTTTAA
*
896315 AAACTATATAGTATATATATTTT-AGAAAACTGTTTT
1 AAACTATATATTATATA-ATTTTCA-AAAA-TGTTTT
896351 CTAAAAATTA
Statistics
Matches: 307, Mismatches: 30, Indels: 35
0.83 0.08 0.09
Matches are distributed among these distances:
31 14 0.05
32 20 0.07
33 19 0.06
34 7 0.02
35 49 0.16
36 70 0.23
37 90 0.29
38 36 0.12
39 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (36 bp):
AAACTATATATTATATAATTTTCAAAAATGTTTTAA
Found at i:896374 original size:18 final size:19
Alignment explanation
Indices: 896347--896382 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
896337 TAGAAAACTG
896347 TTTTCTAAAAATTATATTT
1 TTTTCTAAAAATTATATTT
896366 TTTTC-AAAAATTATATT
1 TTTTCTAAAAATTATATT
896383 ATATTACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTCTAAAAATTATATTT
Found at i:896702 original size:12 final size:13
Alignment explanation
Indices: 896685--896713 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
896675 TTAATTGTGA
896685 AAAATTAAAA-TT
1 AAAATTAAAATTT
896697 AAAATTAAAATTT
1 AAAATTAAAATTT
896710 AAAA
1 AAAA
896714 ATTCAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:896928 original size:22 final size:22
Alignment explanation
Indices: 896886--896929 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
896876 GACATAAAAA
*
896886 CAAAAAAATAAATCAAAGAAAT
1 CAAAAAAATAAATAAAAGAAAT
*
896908 CAAAGAAATAAA-AAAATGAAAT
1 CAAAAAAATAAATAAAA-GAAAT
896930 AATTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (22 bp):
CAAAAAAATAAATAAAAGAAAT
Found at i:897047 original size:15 final size:15
Alignment explanation
Indices: 897027--897068 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
897017 AATAATACTA
897027 ATAATAACTAA-AAAT
1 ATAATAA-TAATAAAT
897042 ATAATAATAATAAAT
1 ATAATAATAATAAAT
*
897057 AAAATAA-AATAA
1 ATAATAATAATAA
897069 GACTTAGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:897051 original size:21 final size:20
Alignment explanation
Indices: 897025--897068 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
897015 TAAATAATAC
*
897025 TAATAATAACTAAAAATATAA
1 TAATAATAAAT-AAAATATAA
*
897046 TAATAATAAATAAAATAAAA
1 TAATAATAAATAAAATATAA
897066 TAA
1 TAA
897069 GACTTAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
TAATAATAAATAAAATATAA
Found at i:897832 original size:39 final size:38
Alignment explanation
Indices: 897769--898094 Score: 324
Period size: 39 Copynumber: 8.4 Consensus size: 38
897759 ACTGTTGATG
* * * *
897769 TATATTTTCAAAAATATTTGAAAAAACCCATATAACATA
1 TATATTTTCAAAAATGTTTTAAAAAA-CTATATAATATA
* * *
897808 TATATTTTCAAAGATGTTTTAAAAAAACCATATATTATA
1 TATATTTTCAAAAATGTTTT-AAAAAACTATATAATATA
897847 TATATTTTCAAAATAT-TTTT-AAAAACTATATAATATA
1 TATATTTTCAAAA-ATGTTTTAAAAAACTATATAATATA
897884 TAAATATTTTCAAAAATGTTTTTAAAAAACTATATAATATA
1 T--ATATTTTCAAAAATG-TTTTAAAAAACTATATAATATA
* *
897925 TATATTTTCAAAAATGTTTTTTAAAAACTATATATTATA
1 TATATTTTCAAAAATG-TTTTAAAAAACTATATAATATA
* * * *
897964 TATGTTTTCTAAAATG-TTTAAAAAATTAT-TTAT-TA
1 TATATTTTCAAAAATGTTTTAAAAAACTATATAATATA
*
897999 CATAGTTTTCAAAAATGTTTT-AAAAACTATATATATTATA
1 TATA-TTTTCAAAAATGTTTTAAAAAACTATATA-A-TATA
*
898039 TATATTTTTTTC-AAAATGTTTTAAAAAACAATATATTATATA
1 TATA---TTTTCAAAAATGTTTTAAAAAAC--TATATAATATA
*
898081 TGTATTTTCAAAAA
1 TATATTTTCAAAAA
898095 CCATTTGCAA
Statistics
Matches: 243, Mismatches: 25, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
35 4 0.02
36 21 0.09
37 31 0.13
38 3 0.01
39 111 0.46
40 21 0.09
41 28 0.12
42 18 0.07
43 1 0.00
44 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (38 bp):
TATATTTTCAAAAATGTTTTAAAAAACTATATAATATA
Found at i:897926 original size:117 final size:110
Alignment explanation
Indices: 897770--898094 Score: 364
Period size: 117 Copynumber: 2.8 Consensus size: 110
897760 CTGTTGATGT
* * * *
897770 ATATTTTCAAAAATATTTGAAAAAACCCATATAACATATATATTTTCAAAGATGTTTTAAAAAAA
1 ATATTTTCAAAAATGTTTTAAAAAA-CTATATAATATATATATTTTCAAA-ATGTTTT-AAAAAA
* * *
897835 CCATATATTATATATATTTTCAAAATATTTTTAAAAACTATATAATATATAA
63 CAATATATTATATATATTTTCAAAA-ATGTTTAAAAAAT-TAT-ATAT-TAA
*
897887 ATATTTTCAAAAATGTTTTTAAAAAACTATATAATATATATATTTTCAAAAATGTTTTTTAAAAA
1 ATATTTTCAAAAATG-TTTTAAAAAACTATATAATATATATATTTTC-AAAATG-TTTTAAAAAA
* * * * *
897952 CTATATATTATATATGTTTTCTAAAATGTTTAAAAAATTATTTATTAC
63 CAATATATTATATATATTTTCAAAAATGTTTAAAAAATTATATATTAA
898000 ATAGTTTTCAAAAATGTTTT-AAAAACTATATATATTATATATATTTTTTTCAAAATGTTTTAAA
1 ATA-TTTTCAAAAATGTTTTAAAAAACTATATA-A-TATATATA---TTTTCAAAATGTTTTAAA
898064 AAACAATATATTATATATGTATTTTCAAAAA
60 AAACAATATATTATATA--TATTTTCAAAAA
898095 CCATTTGCAA
Statistics
Matches: 181, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
112 12 0.07
113 10 0.06
114 23 0.13
115 25 0.14
116 17 0.09
117 78 0.43
118 16 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (110 bp):
ATATTTTCAAAAATGTTTTAAAAAACTATATAATATATATATTTTCAAAATGTTTTAAAAAACAA
TATATTATATATATTTTCAAAAATGTTTAAAAAATTATATATTAA
Found at i:901541 original size:56 final size:56
Alignment explanation
Indices: 901436--901543 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
901426 CATTCATAAG
* ** *
901436 TGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGCTAA
1 TGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGAATTCGATGCATCGCTAA
*
901492 TGCATCGATGCA-TCCTTTTAAAATAAAAACATCGAATGTAATTCG-TGCATCG
1 TGCATCGATGCATTCC-TTTAAAAGAAAAACATCGAATG-AATTCGATGCATCG
901544 ATGCATAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 3 0.07
56 39 0.87
57 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (56 bp):
TGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGAATTCGATGCATCGCTAA
Found at i:901560 original size:64 final size:64
Alignment explanation
Indices: 901492--901637 Score: 186
Period size: 64 Copynumber: 2.3 Consensus size: 64
901482 GCATCGCTAA
* * *
901492 TGCATCGATGCATCCTTTTA-AAATAAAAACATCGAATGTAATTCGTGCATCGATGCATAAGTAG
1 TGCATCGATGCATCCTTTTATAAAT-AAAACATCGAATGCAATTCATGCATCGATGCACAAGTAG
** * * * *
901556 TGCATCGATGCATCCCGTTATTAATGAAACATCGAATGCATTTTATGCATCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTTATAAATAAAACATCGAATGCAATTCATGCATCGATGCACAAGTAG
901620 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
901638 CATTAAAAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 64 0.93
65 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATCCTTTTATAAATAAAACATCGAATGCAATTCATGCATCGATGCACAAGTAG
Found at i:902345 original size:30 final size:30
Alignment explanation
Indices: 902311--902374 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
902301 AAGGAACATA
*
902311 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
902341 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
902371 TGGA
1 TGGA
902375 CAGGTCCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:922495 original size:153 final size:149
Alignment explanation
Indices: 922338--922805 Score: 398
Period size: 152 Copynumber: 3.0 Consensus size: 149
922328 GGAAATTATA
922338 AAAAATTAACGAACTAAATTGAAAAATAAAAAAATTGTACATATGTATTCTACAATGATTTAGGA
1 AAAAATTAA-GAACTAAATTGAAAAA-AAAAAAATTG-ACATATGTATTCTACAATG-TTTAGGA
*
922403 GCATGTGGTTCAAATATGATAAAAACGAACTTAAAATAAAGGATGAATTGAATAAATAAGGAAAT
62 GCATGTGGTTCAAAT-TGATAAAAACGAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAT
922468 TATAAAAAATTGA-GACTAAATTG
126 TATAAAAAATTGAGGACTAAATTG
* * ** * *
922491 AAAAA-T-AGAA--AATTTGGTATCAAAAAAGGAATTGAAAGTACATGTATTCTAAAATGGTTTA
1 AAAAATTAAGAACTAAATT-G-A-AAAAAAAAAAATTGACA-T--ATGTATTCTACAAT-GTTTA
* * * * * *
922552 GGAGCATATCGTTCAAACTGGGTAAAAAAGAATTTAAAATAAAGGATGAATT-AGAGAAATAAGG
59 GGAGCATGTGGTTCAAA-TTGATAAAAACGAACTTAAAATAAAGGATGAATTGA-AGAAATAAGG
*
922616 AAATTATAAAAAATTAAGGACTAAATTG
122 AAATTATAAAAAATTGAGGACTAAATTG
* ** * *
922644 AAAAATATAA-AACTTATCATCCAAAAGAGGAATTAAAA--GCACATATGTATTCTACGATTGTT
1 AAAAAT-TAAGAAC-TA-AATTGAAAA-A--AA-AAAAATTG-ACATATGTATTCTAC-AATGTT
* * * * *
922706 TAAGAGCATGTGGTTCAAATTTGATGAAAAATCAAACTTAAAATCAATGATAAATTGAAGAAATA
57 TAGGAGCATGTGGTTCAAA-TTGAT-AAAAA-CGAACTTAAAATAAAGGATGAATTGAAGAAATA
*
922771 A-GAAATTATAAAAAACTGATGGACTAAATTG
119 AGGAAATTATAAAAAATTGA-GGACTAAATTG
922802 AAAA
1 AAAA
922806 TAGAAAATTT
Statistics
Matches: 249, Mismatches: 39, Indels: 49
0.74 0.12 0.15
Matches are distributed among these distances:
148 4 0.02
149 3 0.01
150 13 0.05
151 5 0.02
152 87 0.35
153 22 0.09
155 3 0.01
156 35 0.14
157 25 0.10
158 44 0.18
159 6 0.02
160 2 0.01
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (149 bp):
AAAAATTAAGAACTAAATTGAAAAAAAAAAAATTGACATATGTATTCTACAATGTTTAGGAGCAT
GTGGTTCAAATTGATAAAAACGAACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAATTATAA
AAAATTGAGGACTAAATTG
Found at i:922846 original size:157 final size:155
Alignment explanation
Indices: 922374--922928 Score: 633
Period size: 157 Copynumber: 3.6 Consensus size: 155
922364 TAAAAAAATT
* * * *
922374 GTACATATGTATTCTACAATGATTTAGGAGCATGTGGTTCAAATATGATAAAAACGAACTTAAAA
1 GTACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGATAAAAACAAACTTAAAA
* *
922439 TAAAGGATGAATTGAATAAATAAGGAAATTATAAAAAATTGA-GACTAAATTGAAAAATAGAAAA
66 TAAAGGATAAATTGAAGAAATAAGGAAATTATAAAAAA-TGAGGACTAAATTGAAAAATAGAAAA
*
922503 TTTGGTATCAAAAA-AGGAATTGAAA
130 TTTGTTATCAAAAAGAGGAATTGAAA
** * * * * * *
922528 GTAC--ATGTATTCTAAAATGGTTTAGGAGCATATCGTTCAAACTGGGTAAAAA-AGAATTTAAA
1 GTACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGATAAAAACA-AACTTAAA
* * *
922590 ATAAAGGATGAATT-AGAGAAATAAGGAAATTATAAAAAATTAAGGACTAAATTGAAAAATATAA
65 ATAAAGGATAAATTGA-AGAAATAAGGAAATTATAAAAAA-TGAGGACTAAATTGAAAAATAGAA
* * * * *
922654 AACTTATCATCCAAAAGAGGAATTAAAA
128 AATTTGTTATCAAAAAGAGGAATTGAAA
* * *
922682 GCACATATGTATTCTACGATTGTTTAAGAGCATGTGGTTCAAATTTGATGAAAAATCAAACTTAA
1 GTACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGAT-AAAAA-CAAACTTAA
* *
922747 AATCAATGATAAATTGAAGAAATAA-GAAATTATAAAAAACTGATGGACTAAATTG-AAAATAGA
64 AATAAAGGATAAATTGAAGAAATAAGGAAATTATAAAAAA-TGA-GGACTAAATTGAAAAATAGA
922810 AAATTTGTTATCAAAAAGAGGAATTGAAA
127 AAATTTGTTATCAAAAAGAGGAATTGAAA
* * * * *
922839 GTACATATTTATTTTACGATGGTTTATGAGCATGTAGTTCAAATTTGGA-AAAAAAAATGACTTA
1 GTACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTT-GATAAAAACAA--ACTTA
* *
922903 AAATAAAAGATAAATTGAAGGAATAA
63 AAATAAAGGATAAATTGAAGAAATAA
922929 TAAAATCATG
Statistics
Matches: 336, Mismatches: 51, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
151 1 0.00
152 86 0.26
153 30 0.09
154 17 0.05
155 2 0.01
156 39 0.12
157 120 0.36
158 39 0.12
159 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (155 bp):
GTACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGATAAAAACAAACTTAAAA
TAAAGGATAAATTGAAGAAATAAGGAAATTATAAAAAATGAGGACTAAATTGAAAAATAGAAAAT
TTGTTATCAAAAAGAGGAATTGAAA
Found at i:925268 original size:19 final size:19
Alignment explanation
Indices: 925226--925268 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
925216 ATTATTTATT
925226 AATTATTATTTTTTAACAA
1 AATTATTATTTTTTAACAA
* *
925245 CATTATTCA-TTTTTAATAA
1 AATTATT-ATTTTTTAACAA
925264 AATTA
1 AATTA
925269 GAATTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTATTATTTTTTAACAA
Found at i:928925 original size:23 final size:23
Alignment explanation
Indices: 928899--928944 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
928889 AATTAAATGG
928899 AAAGTAATGTATTAGTTATATTT
1 AAAGTAATGTATTAGTTATATTT
*
928922 AAAGTTATGTATTAGTTATATTT
1 AAAGTAATGTATTAGTTATATTT
928945 CCTTCTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
AAAGTAATGTATTAGTTATATTT
Found at i:932208 original size:14 final size:14
Alignment explanation
Indices: 932191--932217 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
932181 ACCCCTTAAA
932191 CCAAACACCAAACC
1 CCAAACACCAAACC
932205 CCAAACACCAAAC
1 CCAAACACCAAAC
932218 AAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (14 bp):
CCAAACACCAAACC
Found at i:934634 original size:35 final size:35
Alignment explanation
Indices: 934587--934672 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
934577 AAAACAGTCA
* * *
934587 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
934622 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
934657 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
934673 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:934666 original size:21 final size:21
Alignment explanation
Indices: 934641--934683 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
934631 TTCTAAACCC
934641 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
934662 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
934683 T
1 T
934684 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:935499 original size:127 final size:127
Alignment explanation
Indices: 935291--935525 Score: 368
Period size: 127 Copynumber: 1.9 Consensus size: 127
935281 TTTCTTCTAA
*
935291 TAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACCATGTCAGATCCTGA
1 TAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACCATGTCAGATCCTGA
*
935356 TTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATGATAGCATATATAAATAAT
66 ATAAATGATTAATTTATTAAATTTTATTT-ATTTAGGACCAAATGATAGCATATATAAATAAT
* * * *
935419 TAGGTGGT-ACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGATCCT-
1 TAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAAC-CATGTCAGATCCTG
935482 AAT-AATGATTAATTTTATTAAATTTTATTTATTTAGGACCAAAT
65 AATAAATGATTAA-TTTATTAAATTTTATTTATTTAGGACCAAAT
935526 TGATTATATA
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
126 23 0.23
127 56 0.57
128 20 0.20
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (127 bp):
TAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACCATGTCAGATCCTGA
ATAAATGATTAATTTATTAAATTTTATTTATTTAGGACCAAATGATAGCATATATAAATAAT
Found at i:936905 original size:17 final size:17
Alignment explanation
Indices: 936885--936924 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
936875 ATATAATAAG
*
936885 AGAAAAT-AATTTAAAAA
1 AGAAAATGAAATT-AAAA
936902 AGAAAATGAAATTAAAA
1 AGAAAATGAAATTAAAA
936919 AGAAAA
1 AGAAAA
936925 AAAATTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
AGAAAATGAAATTAAAA
Found at i:936926 original size:19 final size:18
Alignment explanation
Indices: 936869--936930 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
936859 ATATCAAGGT
*
936869 AAAA-AAATATAATAAGAG
1 AAAATAAAT-TAAAAAGAG
*
936887 AAAATAATTTAAAAA-AG
1 AAAATAAATTAAAAAGAG
936904 AAAATGAAATTAAAAAGA-
1 AAAAT-AAATTAAAAAGAG
936922 AAAA-AAATT
1 AAAATAAATT
936931 GTTTTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 5 0.13
17 7 0.18
18 22 0.58
19 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAAATAAATTAAAAAGAG
Found at i:937125 original size:18 final size:19
Alignment explanation
Indices: 937058--937125 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 19
937048 TAGAAATTAT
*
937058 AATTAAAAAGATAAAA-GA
1 AATTAAAAAGAGAAAATGA
* *
937076 TA-TAATAAGAGAAAAT-A
1 AATTAAAAAGAGAAAATGA
*
937093 ATTTAAAAA-AGAAAATGA
1 AATTAAAAAGAGAAAATGA
937111 AATTAAAAAGA-AAAA
1 AATTAAAAAGAGAAAA
937126 AAACCAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 19 0.49
18 19 0.49
19 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (19 bp):
AATTAAAAAGAGAAAATGA
Found at i:938043 original size:24 final size:24
Alignment explanation
Indices: 938009--938058 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
937999 TAAAGATGTT
*
938009 TAAAATGTTTAAGTCAATTAGCTA
1 TAAAATATTTAAGTCAATTAGCTA
*
938033 TAAAATATTTAAGTCAATTTGCTA
1 TAAAATATTTAAGTCAATTAGCTA
938057 TA
1 TA
938059 TTAAAAGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (24 bp):
TAAAATATTTAAGTCAATTAGCTA
Found at i:939455 original size:2 final size:2
Alignment explanation
Indices: 939448--939478 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
939438 AAAACATCGA
939448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
939479 CATACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:941831 original size:130 final size:130
Alignment explanation
Indices: 941598--941857 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
941588 GATGTTAGTG
941598 TTATTGAGTAAGGATTATCCGGATATATCCAATGTAGTGATTAGGCACCTTGAATGCTAGTTGGA
1 TTATTGAGTAAGGATTATCCGGATATATCCAATGTAGTGATTAGGCACCTTGAATGCTAGTTGGA
941663 AATTATCTCGATGCTATGTGACCCTGACACGACCCGAGTACTCTAGAGGAGTAGATTAGCTGGGC
66 AATTATCTCGATGCTATGTGACCCTGACACGACCCGAGTACTCTAGAGGAGTAGATTAGCTGGGC
941728 TTATTGAGTAAGGATTATCCGGATATATCCAATGTAGTGATTAGGCACCTTGAATGCTAGTTGGA
1 TTATTGAGTAAGGATTATCCGGATATATCCAATGTAGTGATTAGGCACCTTGAATGCTAGTTGGA
941793 AATTATCTCGATGCTATGTGACCCTGACACGACCCGAGTACTCTAGAGGAGTAGATTAGCTGGGC
66 AATTATCTCGATGCTATGTGACCCTGACACGACCCGAGTACTCTAGAGGAGTAGATTAGCTGGGC
941858 GAGGTACCAA
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (130 bp):
TTATTGAGTAAGGATTATCCGGATATATCCAATGTAGTGATTAGGCACCTTGAATGCTAGTTGGA
AATTATCTCGATGCTATGTGACCCTGACACGACCCGAGTACTCTAGAGGAGTAGATTAGCTGGGC
Found at i:945210 original size:51 final size:51
Alignment explanation
Indices: 945106--945216 Score: 116
Period size: 51 Copynumber: 2.2 Consensus size: 51
945096 ACCCTTAGTA
* * ** * *
945106 GTAAAGCGCGCCCCCTGAACCGCGCTATATGTTGATTTGGCGCCACGTGGG
1 GTAAAGCGCGCCCCCTGAACCACGCTATATGATGACATGGCGACACATGGG
* * *
945157 GTAAGGCGCGCCCCCTGCACCACGCTATATGATGACATGG-GATACATGTGG
1 GTAAAGCGCGCCCCCTGAACCACGCTATATGATGACATGGCGACACATG-GG
*
945208 GTATAGCGC
1 GTAAAGCGC
945217 AGATCAGGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 5 0.10
51 43 0.90
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (51 bp):
GTAAAGCGCGCCCCCTGAACCACGCTATATGATGACATGGCGACACATGGG
Found at i:945385 original size:10 final size:10
Alignment explanation
Indices: 945370--945409 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
945360 TTCGTTACAC
945370 CAAATTCTCT
1 CAAATTCTCT
945380 CAAATTCTCT
1 CAAATTCTCT
*
945390 CAAATACTCT
1 CAAATTCTCT
* *
945400 TATATTCTCT
1 CAAATTCTCT
945410 GTTTAAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:945485 original size:17 final size:18
Alignment explanation
Indices: 945448--945486 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
945438 ATATTTTGTA
945448 TTTAATTTAATTAAGTAT
1 TTTAATTTAATTAAGTAT
*
945466 TTTAATTTATTTAA-TAT
1 TTTAATTTAATTAAGTAT
945483 TTTA
1 TTTA
945487 CTTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAATTTAATTAAGTAT
Found at i:948270 original size:48 final size:48
Alignment explanation
Indices: 948199--948296 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
948189 GAAGCCAATC
948199 TTGAACCTTATCAGGGTCTTTGTTATTACCTATGGGGGGAAACTCAAA
1 TTGAACCTTATCAGGGTCTTTGTTATTACCTATGGGGGGAAACTCAAA
948247 TTGAACCTTATCAGGGTCTTTGTTATTACCTATGGGGGGAAACTCAAA
1 TTGAACCTTATCAGGGTCTTTGTTATTACCTATGGGGGGAAACTCAAA
948295 TT
1 TT
948297 CGTATACCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (48 bp):
TTGAACCTTATCAGGGTCTTTGTTATTACCTATGGGGGGAAACTCAAA
Found at i:951472 original size:23 final size:23
Alignment explanation
Indices: 951442--951522 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
951432 TTAAAATGTT
*
951442 TAAGTCAATTAACTATATTAAAA
1 TAAGTCAATTAGCTATATTAAAA
*
951465 TAAGTCAAATAGCTATA--AAATA
1 TAAGTCAATTAGCTATATTAAA-A
*
951487 TTTAAGTCAATTTGCTATATTAAAA
1 --TAAGTCAATTAGCTATATTAAAA
* *
951512 GAGGTCAATTA
1 TAAGTCAATTA
951523 TTTGTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.07
22 1 0.02
23 23 0.50
24 15 0.33
25 1 0.02
26 3 0.07
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.35
Consensus pattern (23 bp):
TAAGTCAATTAGCTATATTAAAA
Found at i:951505 original size:47 final size:47
Alignment explanation
Indices: 951433--951647 Score: 322
Period size: 47 Copynumber: 4.6 Consensus size: 47
951423 TAAAGATGTT
* ** * * * ** *
951433 TAAAATGTTTAAGTCAATTAACTATATTAAAATAAGTCAAATAGCTA
1 TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
951480 TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
1 TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
*
951527 TAAAATATTGAAGTCAATTTGCTATATTAAAAGAGGCTCAATTATTTG
1 TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGG-TCAATTATTTG
*
951575 TAAAATATTGAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
1 TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
951622 TAAAATATTTAAGTCAATTTGCTATA
1 TAAAATATTTAAGTCAATTTGCTATA
951648 AAATATTTAA
Statistics
Matches: 156, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 109 0.70
48 47 0.30
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (47 bp):
TAAAATATTTAAGTCAATTTGCTATATTAAAAGAGGTCAATTATTTG
Found at i:951544 original size:24 final size:24
Alignment explanation
Indices: 951478--951671 Score: 88
Period size: 24 Copynumber: 8.2 Consensus size: 24
951468 GTCAAATAGC
*
951478 TATAAAATATTTAAGTCAATTTGCT
1 TATAAAATATTGAAGTCAATTTG-T
* *
951503 ATATTAAA-A--GAGGTCAATTAT-T
1 -TATAAAATATTGAAGTCAATT-TGT
*
951525 TGTAAAATATTGAAGTCAATTTGCT
1 TATAAAATATTGAAGTCAATTTG-T
* *
951550 ATATTAAA-A--GAGGCTCAATTAT-T
1 -TATAAAATATTGAAG-TCAATT-TGT
*
951573 TGTAAAATATTGAAGTCAATTTGCT
1 TATAAAATATTGAAGTCAATTTG-T
* *
951598 ATATTAAA-A--GAGGTCAATTAT-T
1 -TATAAAATATTGAAGTCAATT-TGT
* * *
951620 TGTAAAATATTTAAGTCAATTTGC
1 TATAAAATATTGAAGTCAATTTGT
* *
951644 TATAAAATATTTAAGTCAATTTGC
1 TATAAAATATTGAAGTCAATTTGT
951668 TATA
1 TATA
951672 TTAACAGAGG
Statistics
Matches: 127, Mismatches: 21, Indels: 42
0.67 0.11 0.22
Matches are distributed among these distances:
21 10 0.08
22 9 0.07
23 25 0.20
24 58 0.46
25 9 0.07
26 16 0.13
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (24 bp):
TATAAAATATTGAAGTCAATTTGT
Found at i:952041 original size:22 final size:22
Alignment explanation
Indices: 952016--952094 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
952006 TTAACAGAAG
*
952016 TGCCTTAGCATTGATACTAAAG
1 TGCCTTAGCATTGATACTAAAA
*
952038 TGCCTCAGC-TCTGATAC-AGAAA
1 TGCCTTAGCAT-TGATACTA-AAA
* * *
952060 TGCATTAACACTGATACTAAAA
1 TGCCTTAGCATTGATACTAAAA
952082 TGCCTTAGCATTG
1 TGCCTTAGCATTG
952095 CTGGGGATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
22 41 0.93
23 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (22 bp):
TGCCTTAGCATTGATACTAAAA
Found at i:953582 original size:21 final size:21
Alignment explanation
Indices: 953558--953612 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
953548 TTTATGAGGA
953558 GGGTATCGATACTTCTTCAAG
1 GGGTATCGATACTTCTTCAAG
* * * *
953579 GGGTATCAATA-ATGTTCGAG
1 GGGTATCGATACTTCTTCAAG
*
953599 TGGTATCGATACTT
1 GGGTATCGATACTT
953613 GGAATTTTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (21 bp):
GGGTATCGATACTTCTTCAAG
Found at i:954662 original size:20 final size:20
Alignment explanation
Indices: 954637--954687 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
954627 TTGTTCAAGG
*
954637 AGTATCGATACCAAATGAGC
1 AGTATCGATACCAAAGGAGC
954657 AGTATCGATACCAAAGGAGC
1 AGTATCGATACCAAAGGAGC
954677 AGTATCGATAC
1 AGTATCGATAC
954688 TGAGGGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (20 bp):
AGTATCGATACCAAAGGAGC
Found at i:955670 original size:28 final size:28
Alignment explanation
Indices: 955628--955730 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
955618 ACCTTAAGGA
* *
955628 GTGGACCTTTGGGACAAATGTGTTATAT
1 GTGGTCCTTCGGGACAAATGTGTTATAT
* *
955656 GTGGTCATTCGGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACAAATGTGTTATAT
* *
955684 GTGGTCCTTCGGGATATATGTGTTATAT
1 GTGGTCCTTCGGGACAAATGTGTTATAT
*
955712 GTGGTCCTTCGGGAAAAAT
1 GTGGTCCTTCGGGACAAAT
955731 CCTATGTGCC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (28 bp):
GTGGTCCTTCGGGACAAATGTGTTATAT
Found at i:957431 original size:2 final size:2
Alignment explanation
Indices: 957424--957458 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
957414 TTATCAATTA
*
957424 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
957459 AATAGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957680 original size:17 final size:16
Alignment explanation
Indices: 957638--957682 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
957628 ATAAAAAATA
957638 TTTTA-ATTTTAATTT
1 TTTTATATTTTAATTT
957653 TTTTGATTATTTTAACTTT
1 TTTT-A-TATTTTAA-TTT
957672 TTTTATATTTT
1 TTTTATATTTT
957683 TTATATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 6 0.23
18 8 0.31
19 7 0.27
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTATATTTTAATTT
Found at i:957871 original size:56 final size:58
Alignment explanation
Indices: 957780--957895 Score: 173
Period size: 56 Copynumber: 2.0 Consensus size: 58
957770 TTATTAGTAA
* * *
957780 TAGCTTTTTAAATAAAAAGTACAAAATATATCAAG-A-ATATAAAATATTTTTACATG
1 TAGCATTTTAAATAAAAAGTACAAAATATATCAAGAACAAAAAAAATATTTTTACATG
* *
957836 TAGCATTTTAATTAAAAAGTACAAAATATATCAAGAACAAAAAAAATATTTTTAGATG
1 TAGCATTTTAAATAAAAAGTACAAAATATATCAAGAACAAAAAAAATATTTTTACATG
957894 TA
1 TA
957896 ATATTGTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 33 0.62
57 1 0.02
58 19 0.36
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.34
Consensus pattern (58 bp):
TAGCATTTTAAATAAAAAGTACAAAATATATCAAGAACAAAAAAAATATTTTTACATG
Found at i:957979 original size:20 final size:19
Alignment explanation
Indices: 957947--958037 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 19
957937 AGAAATCAAA
957947 ATTAAAAGA-AAATAATATAT
1 ATTAAAA-ATAAATAA-ATAT
*
957967 ATTAAAAATAAATAAA-AG
1 ATTAAAAATAAATAAATAT
*
957985 A-TACAAAT-AA-AAA-AT
1 ATTAAAAATAAATAAATAT
*
958000 A--AAAGAT-AATAATATAT
1 ATTAAAAATAAATAA-ATAT
958017 ATTAAAAATAAATAAA-AT
1 ATTAAAAATAAATAAATAT
958035 ATT
1 ATT
958038 TTTTTTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
14 6 0.10
15 7 0.12
16 3 0.05
17 9 0.16
18 7 0.12
19 8 0.14
20 18 0.31
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (19 bp):
ATTAAAAATAAATAAATAT
Found at i:958003 original size:50 final size:50
Alignment explanation
Indices: 957939--958033 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
957929 TATTAGTTAG
* *
957939 AAATCAAAATTAAAAGAAAATAATATATATTAAAAATAAATAAAAGATAC
1 AAATAAAAAATAAAAGAAAATAATATATATTAAAAATAAATAAAAGATAC
*
957989 AAATAAAAAATAAAAGATAATAATATATATTAAAAATAAATAAAA
1 AAATAAAAAATAAAAGAAAATAATATATATTAAAAATAAATAAAA
958034 TATTTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (50 bp):
AAATAAAAAATAAAAGAAAATAATATATATTAAAAATAAATAAAAGATAC
Found at i:958219 original size:20 final size:20
Alignment explanation
Indices: 958194--958233 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
958184 ACATTTGATA
958194 TAGATCAATCTCAGATGTAT
1 TAGATCAATCTCAGATGTAT
* *
958214 TAGATCGATCTTAGATGTAT
1 TAGATCAATCTCAGATGTAT
958234 AATATTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
TAGATCAATCTCAGATGTAT
Found at i:959505 original size:29 final size:29
Alignment explanation
Indices: 959453--959510 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
959443 GTGTTGGTCG
**
959453 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCCGCGACCTAC
* *
959482 TAGGTCGCCATGTCTTCCCCGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCCGCGACCTAC
959511 AAGAGATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.38, G:0.26, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCCGCGACCTAC
Found at i:959598 original size:20 final size:20
Alignment explanation
Indices: 959569--959620 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
959559 CCATCCGACC
*
959569 GAGGCTATCCGAGAGCATCA
1 GAGGCCATCCGAGAGCATCA
*
959589 GAGGCCATCCGAGAGCATCC
1 GAGGCCATCCGAGAGCATCA
959609 GAGGCCATCCGA
1 GAGGCCATCCGA
959621 ACGAGCTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.12
Consensus pattern (20 bp):
GAGGCCATCCGAGAGCATCA
Found at i:959645 original size:33 final size:33
Alignment explanation
Indices: 959598--959691 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
959588 AGAGGCCATC
* *
959598 CGAGAGCATCCGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAGCCGAACGAGCTATG
*
959631 CGAGGGCATCCGAGGGCAGCCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAGCCGAACGAGCTATG
* * *
959664 CGAGGGAATCCGAGGGCAGCCGAGCGAG
1 CGAGGGCATCCGAGGCCAGCCGAACGAG
959692 GGTAGGTCGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.38, T:0.09
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCAGCCGAACGAGCTATG
Found at i:959646 original size:10 final size:10
Alignment explanation
Indices: 959547--959687 Score: 75
Period size: 10 Copynumber: 13.1 Consensus size: 10
959537 CCAACACGCT
959547 GGGCATCCGA
1 GGGCATCCGA
*
959557 GGCCATCCGA
1 GGGCATCCGA
959567 CCGAGGCTATCCGA
1 --G-GGC-ATCCGA
* *
959581 GAGCATCAGA
1 GGGCATCCGA
*
959591 GGCCATCCGA
1 GGGCATCCGA
*
959601 GAGCATCCGA
1 GGGCATCCGA
*
959611 GGCCATCCGAA
1 GGGCATCCG-A
* *
959622 CGAGCTATGCGA
1 -GGGC-ATCCGA
959634 GGGCATCCGA
1 GGGCATCCGA
*
959644 GGGCAGCCGAA
1 GGGCATCCG-A
* *
959655 CGAGCTATGCGA
1 -GGGC-ATCCGA
*
959667 GGGAATCCGA
1 GGGCATCCGA
*
959677 GGGCAGCCGA
1 GGGCATCCGA
959687 G
1 G
959688 CGAGGGTAGG
Statistics
Matches: 96, Mismatches: 25, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
10 63 0.66
11 9 0.09
12 9 0.09
13 9 0.09
14 6 0.06
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:959776 original size:29 final size:29
Alignment explanation
Indices: 959695--959779 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
959685 GAGCGAGGGT
*
959695 AGGTCGCCCGGAGTGCATGGCAACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
959724 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* *
959753 AGGTCGCCCGGAGGGCATGACGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
959780 TGTGTTGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.22, C:0.31, G:0.34, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:959884 original size:29 final size:29
Alignment explanation
Indices: 959838--959894 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
959828 GAGCAAGGGT
959838 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
959867 AGGTCGCCCGGAAG-GCATGGCGACCTAC
1 AGGTCGCCCGG-AGTGCATGGCGACCTAC
959895 GGCCAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:965766 original size:25 final size:24
Alignment explanation
Indices: 965738--965816 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
965728 ACAATACAAC
965738 AAAAAAATTAAAAAAACTAAATAAT
1 AAAAAAATT-AAAAAACTAAATAAT
* * * * *
965763 AAAAATATTCGAACAATTAAGTAAT
1 AAAAAAATT-AAAAAACTAAATAAT
* *
965788 -AAAAAATTAAGAAACGAAATAAAT
1 AAAAAAATTAAAAAACTAAAT-AAT
965812 AAAAA
1 AAAAA
965817 GTAAATAATT
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 6 0.15
24 10 0.26
25 23 0.59
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAAAAATTAAAAAACTAAATAAT
Found at i:966360 original size:21 final size:21
Alignment explanation
Indices: 966332--966384 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
966322 CAGTGGCACA
966332 TGAAATGGTTGTGGTGCCATC
1 TGAAATGGTTGTGGTGCCATC
* *
966353 TGATATGGTTGTGGTGCCATT
1 TGAAATGGTTGTGGTGCCATC
966374 TGAAATGGTTG
1 TGAAATGGTTG
966385 CGGAATGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.09, G:0.34, T:0.38
Consensus pattern (21 bp):
TGAAATGGTTGTGGTGCCATC
Found at i:968089 original size:14 final size:14
Alignment explanation
Indices: 968070--968111 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
968060 TTATAACTGT
968070 AAAATTAATAAAAA
1 AAAATTAATAAAAA
*
968084 AAAATTAATATAATA
1 AAAATTAATA-AAAA
*
968099 AAATTTAATAAAA
1 AAAATTAATAAAA
968112 TAATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTAATAAAAA
Found at i:970761 original size:40 final size:42
Alignment explanation
Indices: 970717--970797 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 42
970707 TCACCCCAAG
970717 ACATGAAATTTAAATTAGGTCCTAATC-ACTTG-TAAAAAAA
1 ACATGAAATTTAAATTAGGTCCTAATCAACTTGATAAAAAAA
970757 ACATGAAATTTAAATTAGGTCCTAATCAACTTGATAAAAAA
1 ACATGAAATTTAAATTAGGTCCTAATCAACTTGATAAAAAA
970798 GTAAAACTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 27 0.69
41 5 0.13
42 7 0.18
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (42 bp):
ACATGAAATTTAAATTAGGTCCTAATCAACTTGATAAAAAAA
Found at i:971966 original size:50 final size:50
Alignment explanation
Indices: 971882--971981 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
971872 CCTTTTATCA
971882 TTTGAGGGCGCTGTCGAGAACTAATATTTGTTTAGAAGA-AAATATAAAAT
1 TTTGAGGGCGCTGTCGAGAACTAATATTTGTTTAGAA-ACAAATATAAAAT
* *
971932 TTTGTAGGG-GCTGTCGAGCACTAATGTTTGTTTAGAAACAAATATAAAAT
1 TTTG-AGGGCGCTGTCGAGAACTAATATTTGTTTAGAAACAAATATAAAAT
971982 AATATCTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 41 0.89
51 4 0.09
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (50 bp):
TTTGAGGGCGCTGTCGAGAACTAATATTTGTTTAGAAACAAATATAAAAT
Found at i:979737 original size:125 final size:125
Alignment explanation
Indices: 979503--979752 Score: 484
Period size: 125 Copynumber: 2.0 Consensus size: 125
979493 TATACTATGC
979503 ACATCATTCAAGTCATTAACAACCTCATTTGTCATACAATTACGTGCATTCGAAATTTAATATAT
1 ACATCATTCAAGTCATTAACAACCTCATTTGTCATACAATTACGTGCATTCGAAATTTAATATAT
979568 TTTTTTTTAAATACATATTTGAAAAAAACAATTAATAAAATTTCTAAAATACATAAAAAA
66 TTTTTTTTAAATACATATTTGAAAAAAACAATTAATAAAATTTCTAAAATACATAAAAAA
979628 ACATCATTCAAGTCATTAACAACCTCATTTGTCATACAATTACGTGCATTCGAAATTTAATATA-
1 ACATCATTCAAGTCATTAACAACCTCATTTGTCATACAATTACGTGCATTCGAAATTTAATATAT
979692 TTTTTTTTAAATACATATTTGAAAAAAACAATTAATAAAATTTTCTAAAATACATAAAAAA
66 TTTTTTTTAAATACATATTTGAAAAAAACAATTAATAAAA-TTTCTAAAATACATAAAAAA
979753 TTACATAATT
Statistics
Matches: 124, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
124 40 0.32
125 84 0.68
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (125 bp):
ACATCATTCAAGTCATTAACAACCTCATTTGTCATACAATTACGTGCATTCGAAATTTAATATAT
TTTTTTTTAAATACATATTTGAAAAAAACAATTAATAAAATTTCTAAAATACATAAAAAA
Found at i:985805 original size:24 final size:24
Alignment explanation
Indices: 985778--985823 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
985768 TAGATGTATG
985778 TTTATATCCTTAACGTATGTTTTT
1 TTTATATCCTTAACGTATGTTTTT
* *
985802 TTTATGTCCTTAATGTATGTTT
1 TTTATATCCTTAACGTATGTTT
985824 ATGGTTCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.59
Consensus pattern (24 bp):
TTTATATCCTTAACGTATGTTTTT
Found at i:985864 original size:35 final size:35
Alignment explanation
Indices: 985801--985935 Score: 184
Period size: 35 Copynumber: 3.9 Consensus size: 35
985791 CGTATGTTTT
*
985801 TTTTATGTCCTTAATGT-ATGTTTATGGTTCGTTG
1 TTTTATATCCTTAATGTAATGTTTATGGTTCGTTG
**
985835 TTTTATATCCTTAATGTAATGTTTATGGTTTATTG
1 TTTTATATCCTTAATGTAATGTTTATGGTTCGTTG
* *
985870 TTTTTATGTTCTTAATGTAATGTTTATGGTTCGTTG
1 -TTTTATATCCTTAATGTAATGTTTATGGTTCGTTG
*
985906 TTTT-TATTCATTAATGTAATGTTTATGGTT
1 TTTTATA-TCCTTAATGTAATGTTTATGGTT
985936 GAGGATTTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.19
35 40 0.45
36 31 0.35
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (35 bp):
TTTTATATCCTTAATGTAATGTTTATGGTTCGTTG
Found at i:985884 original size:36 final size:36
Alignment explanation
Indices: 985800--985935 Score: 206
Period size: 36 Copynumber: 3.9 Consensus size: 36
985790 ACGTATGTTT
985800 TTTTTATGTCCTTAATGT-ATGTTTATGGTTCGTTG
1 TTTTTATGTCCTTAATGTAATGTTTATGGTTCGTTG
* **
985835 -TTTTATATCCTTAATGTAATGTTTATGGTTTATTG
1 TTTTTATGTCCTTAATGTAATGTTTATGGTTCGTTG
*
985870 TTTTTATGTTCTTAATGTAATGTTTATGGTTCGTTG
1 TTTTTATGTCCTTAATGTAATGTTTATGGTTCGTTG
*
985906 TTTTTAT-TCATTAATGTAATGTTTATGGTT
1 TTTTTATGTCCTTAATGTAATGTTTATGGTT
985936 GAGGATTTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
34 16 0.18
35 36 0.40
36 38 0.42
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (36 bp):
TTTTTATGTCCTTAATGTAATGTTTATGGTTCGTTG
Found at i:985920 original size:71 final size:70
Alignment explanation
Indices: 985800--985935 Score: 229
Period size: 71 Copynumber: 1.9 Consensus size: 70
985790 ACGTATGTTT
*
985800 TTTTTATGTCCTTAATGTATGTTTATGGTTCGTTGTTTTATATCCTTAATGTAATGTTTATGGTT
1 TTTTTATGTCCTTAATGTATGTTTATGGTTCGTTGTTTTATATCATTAATGTAATGTTTATGGTT
985865 TATTG
66 TATTG
*
985870 TTTTTATGTTCTTAATGTAATGTTTATGGTTCGTTGTTTT-TATTCATTAATGTAATGTTTATGG
1 TTTTTATGTCCTTAATGT-ATGTTTATGGTTCGTTGTTTTATA-TCATTAATGTAATGTTTATGG
985934 TT
64 TT
985936 GAGGATTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
70 19 0.31
71 43 0.69
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (70 bp):
TTTTTATGTCCTTAATGTATGTTTATGGTTCGTTGTTTTATATCATTAATGTAATGTTTATGGTT
TATTG
Found at i:985969 original size:25 final size:26
Alignment explanation
Indices: 985916--985982 Score: 127
Period size: 25 Copynumber: 2.6 Consensus size: 26
985906 TTTTTATTCA
985916 TTAATGTAATGTTTATGGTTGAGGAT
1 TTAATGTAATGTTTATGGTTGAGGAT
985942 TTAATGTAATGTTTATGG-TGAGGAT
1 TTAATGTAATGTTTATGGTTGAGGAT
985967 TTAATGTAATGTTTAT
1 TTAATGTAATGTTTAT
985983 AGTAAATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 23 0.56
26 18 0.44
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (26 bp):
TTAATGTAATGTTTATGGTTGAGGAT
Found at i:986669 original size:14 final size:15
Alignment explanation
Indices: 986650--986687 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
986640 CTCCATTCCA
986650 ATATATTTGTATATAT
1 ATATATTTG-ATATAT
986666 ATATATTTG-TATAT
1 ATATATTTGATATAT
*
986680 ATTTATTT
1 ATATATTT
986688 TAACACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
ATATATTTGATATAT
Found at i:986671 original size:16 final size:16
Alignment explanation
Indices: 986650--986681 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
986640 CTCCATTCCA
986650 ATATATTTGTATATAT
1 ATATATTTGTATATAT
986666 ATATATTTGTATATAT
1 ATATATTTGTATATAT
986682 TTATTTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
ATATATTTGTATATAT
Found at i:986742 original size:8 final size:8
Alignment explanation
Indices: 986706--986757 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
986696 AACAACTCAT
*
986706 ACTCTCAA
1 ACTCTAAA
* *
986714 ACTATCAA
1 ACTCTAAA
*
986722 ACTCTAAT
1 ACTCTAAA
*
986730 TCTCTAAA
1 ACTCTAAA
986738 ACTCTAAA
1 ACTCTAAA
*
986746 ACTCTGAA
1 ACTCTAAA
986754 ACTC
1 ACTC
986758 ACAAAATGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (8 bp):
ACTCTAAA
Found at i:990444 original size:14 final size:14
Alignment explanation
Indices: 990425--990451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
990415 CCATGATTAC
990425 AAGTTTACAATTTA
1 AAGTTTACAATTTA
990439 AAGTTTACAATTT
1 AAGTTTACAATTT
990452 GTTTTCGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
AAGTTTACAATTTA
Found at i:991023 original size:21 final size:22
Alignment explanation
Indices: 990991--991031 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
990981 ACATATTGAC
990991 TTTAATTTTTTTAAAATTATAT
1 TTTAATTTTTTTAAAATTATAT
991013 TTTAA-TTTTTTAAAATTAT
1 TTTAATTTTTTTAAAATTAT
991032 TTGAGCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAATTTTTTTAAAATTATAT
Found at i:991218 original size:16 final size:16
Alignment explanation
Indices: 991199--991254 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
991189 TAACCCTTTA
991199 ATTTATTTGGTAAAAT
1 ATTTATTTGGTAAAAT
* *
991215 ATTTATATTATTGTTAAAT
1 A-TT-TATT-TGGTAAAAT
991234 -TTTATTTGGTAAAAT
1 ATTTATTTGGTAAAAT
991249 ATTTAT
1 ATTTAT
991255 ACTATTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 7 0.22
16 10 0.31
17 4 0.12
18 4 0.12
19 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
ATTTATTTGGTAAAAT
Found at i:991224 original size:34 final size:34
Alignment explanation
Indices: 991186--991255 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
991176 GCTTATTTTT
*
991186 TATTAACCCTTTAA-TTTATTTGGTAAAATATTTA
1 TATT-ACCCTTAAATTTTATTTGGTAAAATATTTA
***
991220 TATTATTGTTAAATTTTATTTGGTAAAATATTTA
1 TATTACCCTTAAATTTTATTTGGTAAAATATTTA
991254 TA
1 TA
991256 CTATTGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 5 0.16
34 26 0.84
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (34 bp):
TATTACCCTTAAATTTTATTTGGTAAAATATTTA
Found at i:991261 original size:34 final size:34
Alignment explanation
Indices: 991198--991271 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
991188 TTAACCCTTT
*
991198 AATTTATTTGGTAAAATATTTATATTATTGTTAA
1 AATTTATTTGGTAAAATATTTATACTATTGTTAA
*
991232 ATTTTATTTGGTAAAATATTTATACTATTGTTAA
1 AATTTATTTGGTAAAATATTTATACTATTGTTAA
991266 AATTTA
1 AATTTA
991272 AATTGAGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (34 bp):
AATTTATTTGGTAAAATATTTATACTATTGTTAA
Found at i:991268 original size:20 final size:19
Alignment explanation
Indices: 991209--991268 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
991199 ATTTATTTGG
991209 TAAAATATTTATATTATTGT
1 TAAAATATTTATA-TATTGT
*
991229 T--AA-ATTT-TAT-TTGG
1 TAAAATATTTATATATTGT
991243 TAAAATATTTATACTATTGT
1 TAAAATATTTATA-TATTGT
991263 TAAAAT
1 TAAAAT
991269 TTAAATTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 4 0.12
17 8 0.25
18 4 0.12
19 1 0.03
20 10 0.31
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
TAAAATATTTATATATTGT
Found at i:991290 original size:35 final size:34
Alignment explanation
Indices: 991205--991287 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
991195 TTTAATTTAT
* * * *
991205 TTGGTAAAATATTTATATTATTGTTAAATTTTAT
1 TTGGCAAAATATTTATACTATTGTTAAATTTAAA
*
991239 TTGGTAAAATATTTATACTATTGTTAAAATTTAAA
1 TTGGCAAAATATTTATACTATTGTT-AAATTTAAA
991274 TTGAGCAAAATATT
1 TTG-GCAAAATATT
991288 ATAAGTCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 24 0.56
35 10 0.23
36 9 0.21
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (34 bp):
TTGGCAAAATATTTATACTATTGTTAAATTTAAA
Found at i:991855 original size:31 final size:31
Alignment explanation
Indices: 991810--991918 Score: 148
Period size: 31 Copynumber: 3.5 Consensus size: 31
991800 TAGTTACATC
* * *
991810 GGGGACCATGTTGCAAACGGACTAAATGTTG
1 GGGGAACATATTGCAAACGAACTAAATGTTG
*
991841 GGGGAACATATTGCAAATGAACTAAATGTTG
1 GGGGAACATATTGCAAACGAACTAAATGTTG
* *
991872 GGGGACCATATTGCCAACGAACTAAATGTTG
1 GGGGAACATATTGCAAACGAACTAAATGTTG
991903 GGGG-ACTATATTGCAA
1 GGGGAAC-ATATTGCAA
991919 GTTTTAAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 67 0.99
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (31 bp):
GGGGAACATATTGCAAACGAACTAAATGTTG
Found at i:995893 original size:3 final size:3
Alignment explanation
Indices: 995885--995952 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
995875 TATGTAAAAT
* *
995885 TAA TAA TAA TAGT TAA TAA TAA TTAA TAA TAA TAAA TAA TAA AAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA
* * *
995933 -AA AAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
995953 ATATAAATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 2 0.04
3 42 0.81
4 8 0.15
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:995900 original size:13 final size:12
Alignment explanation
Indices: 995883--995926 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 12
995873 AATATGTAAA
995883 ATTAATAATAAT
1 ATTAATAATAAT
995895 AGTTAATAAT-A-
1 A-TTAATAATAAT
995906 ATTAATAATAAT
1 ATTAATAATAAT
995918 A--AATAATAA
1 ATTAATAATAA
995927 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 16 0.55
11 2 0.07
12 3 0.10
13 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:995903 original size:10 final size:10
Alignment explanation
Indices: 995888--995926 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
995878 GTAAAATTAA
*
995888 TAATAATAGT
1 TAATAATAAT
995898 TAATAATAAT
1 TAATAATAAT
995908 TAATAATAAT
1 TAATAATAAT
*
995918 AAATAATAA
1 TAATAATAA
995927 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TAATAATAAT
Found at i:995924 original size:23 final size:22
Alignment explanation
Indices: 995879--995948 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
995869 ATGTAATATG
**
995879 TAAAATTAATAATAATAGTTAA
1 TAAAATTAATAATAATAAATAA
995901 TAATAATTAATAATAATAAATAA
1 TAA-AATTAATAATAATAAATAA
* *
995924 TAAAAATAA-AAAAATAAA-AA
1 TAAAATTAATAATAATAAATAA
995944 TAAAA
1 TAAAA
995949 ATAAATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.16
21 8 0.19
22 8 0.19
23 20 0.47
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (22 bp):
TAAAATTAATAATAATAAATAA
Found at i:995931 original size:13 final size:13
Alignment explanation
Indices: 995902--995966 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
995892 AATAGTTAAT
* *
995902 AATAATTAATAAT
1 AATAAATAATAAA
995915 AATAAATAATAAA
1 AATAAATAATAAA
*
995928 AATAAAAAAATAAA
1 AAT-AAATAATAAA
995942 AATAAA-AATAAA
1 AATAAATAATAAA
*
995954 TATAAAT-ATAAA
1 AATAAATAATAAA
995966 A
1 A
995967 GACCCGGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
12 16 0.36
13 17 0.38
14 12 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:995941 original size:14 final size:15
Alignment explanation
Indices: 995902--995966 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 15
995892 AATAGTTAAT
*
995902 AATAATTAATAATAATA
1 AATAA-TAAAAATAA-A
995919 AATAATAAAAATAAA
1 AATAATAAAAATAAA
995934 AA-AATAAAAATAAA
1 AATAATAAAAATAAA
995948 AATAAATATAAATATAAA
1 AAT-AATA-AAA-ATAAA
995966 A
1 A
995967 GACCCGGACA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 14 0.33
15 3 0.07
16 12 0.28
17 8 0.19
18 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:995945 original size:20 final size:21
Alignment explanation
Indices: 995909--995966 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 21
995899 AATAATAATT
995909 AATAATAATAAATAATAAAAATAA
1 AATAATAA-AAATAA-AAAAAT-A
*
995933 AAAAATAAAAAT--AAAAATA
1 AATAATAAAAATAAAAAAATA
*
995952 AAT-ATAAATATAAAA
1 AATAATAAAAATAAAA
995967 GACCCGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 7 0.24
19 3 0.10
20 8 0.28
23 4 0.14
24 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AATAATAAAAATAAAAAAATA
Found at i:995953 original size:6 final size:6
Alignment explanation
Indices: 995909--995966 Score: 62
Period size: 6 Copynumber: 9.2 Consensus size: 6
995899 AATAATAATT
* *
995909 AATAAT AATAAA TAATAAA AATAAAAA AATAAA AATAAA AATAAA TATAAA
1 AATAAA AATAAA -AATAAA AAT--AAA AATAAA AATAAA AATAAA AATAAA
*
995960 TATAAA A
1 AATAAA A
995967 GACCCGGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 34 0.74
7 6 0.13
8 6 0.13
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:996382 original size:141 final size:141
Alignment explanation
Indices: 996193--996454 Score: 400
Period size: 141 Copynumber: 1.9 Consensus size: 141
996183 CTGGTCAAGG
* ** *
996193 GATGACACGGCTCATACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
996258 TACGTGATGAGGACGACTGATTAT-CTAAGGTTGACACGGCTCCTACGTGATGAGGAAGTCTAGT
66 TACGTGATGAGGACGACTGATTATCCTAAGGTTGACAC-GCTCCTACGTGATGAGGAAGTCTAGT
996322 CGTCTAAGGGTA
130 CGTCTAAGGGTA
* * * *
996334 GATGACATGGTTCATACATGATGAAGAACTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
* * * *
996399 TACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTCTCCTACGTGATGAGGA
66 TACGTGATGAGGACGACTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGA
996455 GATCTGGTCA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
141 96 0.89
142 12 0.11
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (141 bp):
GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
TACGTGATGAGGACGACTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGAAGTCTAGTC
GTCTAAGGGTA
Found at i:997440 original size:24 final size:24
Alignment explanation
Indices: 997413--997459 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
997403 TCCTTTATTT
*
997413 ATTTTTTCTTCTTTTTCATTTTTC
1 ATTTTTTCTTCATTTTCATTTTTC
* *
997437 ATTTTTTTTTCATTTTCCTTTTT
1 ATTTTTTCTTCATTTTCATTTTT
997460 TTTTTAAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTTTTCTTCATTTTCATTTTTC
Found at i:997444 original size:17 final size:16
Alignment explanation
Indices: 997415--997462 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
997405 CTTTATTTAT
*
997415 TTTTTCTTCTTTTTCA
1 TTTTTCTTTTTTTTCA
997431 TTTTTCATTTTTTTTTCA
1 TTTTTC--TTTTTTTTCA
*
997449 TTTTCCTTTTTTTT
1 TTTTTCTTTTTTTT
997463 TTAAGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTTTTTTCA
Found at i:997463 original size:17 final size:18
Alignment explanation
Indices: 997424--997463 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
997414 TTTTTTCTTC
997424 TTTTTCATTTTTCATTTT
1 TTTTTCATTTTTCATTTT
*
997442 TTTTTCA-TTTTCCTTTT
1 TTTTTCATTTTTCATTTT
997459 TTTTT
1 TTTTT
997464 TAAGTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCATTTTTCATTTT
Found at i:997464 original size:18 final size:18
Alignment explanation
Indices: 997424--997463 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
997414 TTTTTTCTTC
*
997424 TTTTTCATTTTTCATTTT
1 TTTTTCATTTTCCATTTT
997442 TTTTTCATTTTCC-TTTT
1 TTTTTCATTTTCCATTTT
997459 TTTTT
1 TTTTT
997464 TAAGTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCATTTTCCATTTT
Found at i:1007315 original size:9 final size:9
Alignment explanation
Indices: 1007298--1007330 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1007288 AAATAATAAT
*
1007298 AAAATAAAC
1 AAAACAAAC
1007307 AAAACAAAC
1 AAAACAAAC
1007316 AAAACAAAC
1 AAAACAAAC
1007325 AAAACA
1 AAAACA
1007331 GTTAGTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAACAAAC
Found at i:1008435 original size:16 final size:18
Alignment explanation
Indices: 1008409--1008447 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1008399 AAACGTCTTT
*
1008409 CAAAAACAATTT-TAAGA
1 CAAAAAAAATTTATAAGA
1008426 -AAAAAAAATTTATAAGA
1 CAAAAAAAATTTATAAGA
1008443 CAAAA
1 CAAAA
1008448 TTTTGGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 5 0.26
18 4 0.21
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (18 bp):
CAAAAAAAATTTATAAGA
Found at i:1010962 original size:3 final size:3
Alignment explanation
Indices: 1010954--1011015 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
1010944 TATGTAACAT
* *
1010954 TAA TAA TAA TAGT TAA TAA TAA TTAA TAA TAA TAAA TAA TAA AAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA
* *
1011002 -AA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA
1011016 ATATAAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1010969 original size:13 final size:12
Alignment explanation
Indices: 1010952--1010995 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 12
1010942 AATATGTAAC
1010952 ATTAATAATAAT
1 ATTAATAATAAT
1010964 AGTTAATAAT-A-
1 A-TTAATAATAAT
1010975 ATTAATAATAAT
1 ATTAATAATAAT
1010987 A--AATAATAA
1 ATTAATAATAA
1010996 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 16 0.55
11 2 0.07
12 3 0.10
13 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:1010972 original size:10 final size:10
Alignment explanation
Indices: 1010957--1010995 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
1010947 GTAACATTAA
*
1010957 TAATAATAGT
1 TAATAATAAT
1010967 TAATAATAAT
1 TAATAATAAT
1010977 TAATAATAAT
1 TAATAATAAT
*
1010987 AAATAATAA
1 TAATAATAA
1010996 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TAATAATAAT
Found at i:1011000 original size:13 final size:13
Alignment explanation
Indices: 1010971--1011028 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
1010961 AATAGTTAAT
* *
1010971 AATAATTAATAAT
1 AATAAATAATAAA
1010984 AATAAATAATAAA
1 AATAAATAATAAA
*
1010997 AATAAAAAAATAAA
1 AAT-AAATAATAAA
1011011 AATAAAT-ATAAA
1 AATAAATAATAAA
*
1011023 TATAAA
1 AATAAA
1011029 AGACCCGGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.26
13 17 0.44
14 12 0.31
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:1011010 original size:14 final size:15
Alignment explanation
Indices: 1010971--1011021 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
1010961 AATAGTTAAT
*
1010971 AATAATTAATAATAATA
1 AATAA-TAAAAATAA-A
1010988 AATAATAAAAATAAA
1 AATAATAAAAATAAA
1011003 AA-AATAAAAATAAA
1 AATAATAAAAATAAA
*
1011017 TATAA
1 AATAA
1011022 ATATAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
16 8 0.26
17 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:1011016 original size:6 final size:6
Alignment explanation
Indices: 1010978--1011029 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
1010968 AATAATAATT
* * *
1010978 AATAAT AATAAA TAATAAA AATAAAAA AATAAA AATAAA TATAAA TATAAA
1 AATAAA AATAAA -AATAAA AAT--AAA AATAAA AATAAA AATAAA AATAAA
1011029 A
1 A
1011030 GACCCGGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 28 0.70
7 6 0.15
8 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAA
Found at i:1011018 original size:24 final size:24
Alignment explanation
Indices: 1010981--1011029 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1010971 AATAATTAAT
1010981 AATAATAAATAATAAAAATAAAAA
1 AATAATAAATAATAAAAATAAAAA
* *
1011005 AATAA-AAATAAATATAAATATAAA
1 AATAATAAAT-AATAAAAATAAAAA
1011029 A
1 A
1011030 GACCCGGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (24 bp):
AATAATAAATAATAAAAATAAAAA
Found at i:1012345 original size:31 final size:31
Alignment explanation
Indices: 1012310--1012387 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
1012300 CAGTTACGTC
1012310 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
* *
1012341 GGGGACCATATTACAAACGGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
**
1012372 GGGGACTGTATTGCAA
1 GGGGACCATATTGCAA
1012388 GTTTTAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:1012686 original size:31 final size:31
Alignment explanation
Indices: 1012651--1012726 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
1012641 TTACGTCGGG
1012651 GACCATATTGCAAACAGACTAAATGTTGGGA
1 GACCATATTGCAAACAGACTAAATGTTGGGA
* *
1012682 GACCATATTGCAAACGGACTAAATGTTGGGG
1 GACCATATTGCAAACAGACTAAATGTTGGGA
1012713 GACCATATTGCAAA
1 GACCATATTGCAAA
1012727 TTTTAAAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (31 bp):
GACCATATTGCAAACAGACTAAATGTTGGGA
Found at i:1020553 original size:8 final size:8
Alignment explanation
Indices: 1020542--1020600 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
1020532 AGACAAAGGC
*
1020542 AAATTTAT
1 AAATATAT
1020550 AAATATAT
1 AAATATAT
*
1020558 ATATATAT
1 AAATATAT
*
1020566 ATATATAT
1 AAATATAT
*
1020574 ATATATAT
1 AAATATAT
*
1020582 ATATATAT
1 AAATATAT
*
1020590 ATATATAT
1 AAATATAT
1020598 AAA
1 AAA
1020601 CTTAATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATATAT
Found at i:1020559 original size:2 final size:2
Alignment explanation
Indices: 1020547--1020598 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1020537 AAGGCAAATT
*
1020547 TA TA AA 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
1020589 TA TA TA TA TA
1 TA TA TA TA TA
1020599 AACTTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1021661 original size:18 final size:18
Alignment explanation
Indices: 1021634--1021669 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1021624 TTAAAAATCT
* *
1021634 GTTATTTTTTATTTTTTG
1 GTTATATTTTATTATTTG
1021652 GTTATATTTTATTATTTG
1 GTTATATTTTATTATTTG
1021670 ATATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (18 bp):
GTTATATTTTATTATTTG
Found at i:1025499 original size:21 final size:21
Alignment explanation
Indices: 1025466--1025505 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1025456 GAAAAATAAT
* *
1025466 ATAATTAATATTTTATTTTAA
1 ATAATTAACATTTAATTTTAA
*
1025487 ATAATTTACATTTAATTTT
1 ATAATTAACATTTAATTTT
1025506 TTAATTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATAATTAACATTTAATTTTAA
Found at i:1027392 original size:18 final size:19
Alignment explanation
Indices: 1027357--1027392 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1027347 TAAATTATTT
*
1027357 AAATTTTATTTTATAACTC
1 AAATTTTATTTTAAAACTC
1027376 AAATTTTA-TTTAAAACT
1 AAATTTTATTTTAAAACT
1027393 TGTTTGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTATTTTAAAACTC
Found at i:1030115 original size:30 final size:33
Alignment explanation
Indices: 1030077--1030151 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 33
1030067 TAAGGTGAAC
*
1030077 CTTGGGTAGGCTCC-G-AGACCCCGA-TATCCTT
1 CTTGGGTAGGCTCCTGAAG-CCCCGAGTAACCTT
*
1030108 CTT-GGTAGGC-CCTGAAGCCCCGAGTAACTTT
1 CTTGGGTAGGCTCCTGAAGCCCCGAGTAACCTT
1030139 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1030152 TCAGGCCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 2 0.05
30 14 0.38
31 13 0.35
32 7 0.19
33 1 0.03
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.27
Consensus pattern (33 bp):
CTTGGGTAGGCTCCTGAAGCCCCGAGTAACCTT
Found at i:1034802 original size:25 final size:25
Alignment explanation
Indices: 1034773--1034820 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1034763 TGATATTTTC
*
1034773 TCCCTC-TAGAATTTTATAAGTTCTT
1 TCCCTCTTAAAATTTTA-AAGTTCTT
1034798 TCCCTCTTAAAATTTTAAAGTTC
1 TCCCTCTTAAAATTTTAAAGTTC
1034821 GCCCAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (25 bp):
TCCCTCTTAAAATTTTAAAGTTCTT
Found at i:1036247 original size:23 final size:23
Alignment explanation
Indices: 1036220--1036271 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1036210 AAGGAACGGC
* *
1036220 CACAAGAGCATAAAAAAACGTGT
1 CACAAGAGCAGAAAAAAACATGT
*
1036243 CACAATAGCAGAAAAAAACATGT
1 CACAAGAGCAGAAAAAAACATGT
1036266 CACAAG
1 CACAAG
1036272 GACATAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.19, G:0.15, T:0.12
Consensus pattern (23 bp):
CACAAGAGCAGAAAAAAACATGT
Found at i:1036321 original size:22 final size:22
Alignment explanation
Indices: 1036296--1036340 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1036286 TTTAAAATTG
1036296 AAAAAAACAA-AAGAAAAAAAAC
1 AAAAAAACAATAA-AAAAAAAAC
* *
1036318 AAAAAGACAATAAAAAAAGAAC
1 AAAAAAACAATAAAAAAAAAAC
1036340 A
1 A
1036341 TGAAGACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.02
Consensus pattern (22 bp):
AAAAAAACAATAAAAAAAAAAC
Found at i:1042727 original size:20 final size:20
Alignment explanation
Indices: 1042702--1042793 Score: 184
Period size: 20 Copynumber: 4.6 Consensus size: 20
1042692 CAAAGCTGGT
1042702 AGTATCGATACTACCTAGTG
1 AGTATCGATACTACCTAGTG
1042722 AGTATCGATACTACCTAGTG
1 AGTATCGATACTACCTAGTG
1042742 AGTATCGATACTACCTAGTG
1 AGTATCGATACTACCTAGTG
1042762 AGTATCGATACTACCTAGTG
1 AGTATCGATACTACCTAGTG
1042782 AGTATCGATACT
1 AGTATCGATACT
1042794 TCCCTTACCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
AGTATCGATACTACCTAGTG
Found at i:1045751 original size:20 final size:20
Alignment explanation
Indices: 1045726--1045798 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1045716 TTGGTTAACG
*
1045726 GAATGTAAGCTTATCAGTGA
1 GAATGTAAGATTATCAGTGA
*
1045746 GAATGTAAGATTATCAGTGG
1 GAATGTAAGATTATCAGTGA
*
1045766 GAATGTAAGATTATTAGT-A
1 GAATGTAAGATTATCAGTGA
1045785 GGAATGTAAGATTA
1 -GAATGTAAGATTA
1045799 CCAGGGTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (20 bp):
GAATGTAAGATTATCAGTGA
Found at i:1045966 original size:28 final size:28
Alignment explanation
Indices: 1045903--1045966 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
1045893 TATTTGAATG
*
1045903 TATATTTGACTAAATTGTCTTTATTATA
1 TATATTTTACTAAATTGTCTTTATTATA
1045931 TATATTTTACTAAATTGTCTTTATTATA
1 TATATTTTACTAAATTGTCTTTATTATA
1045959 TATATTTT
1 TATATTTT
1045967 TTTAACAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TATATTTTACTAAATTGTCTTTATTATA
Found at i:1046670 original size:34 final size:34
Alignment explanation
Indices: 1046625--1046691 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
1046615 ATCCAACGGT
*
1046625 TACAAACATATTGTATCAACAGTTAAGCTGAGAC
1 TACAAACATATTATATCAACAGTTAAGCTGAGAC
* *
1046659 TACAAATATATTATATCAACAGTTAAGGTGAGA
1 TACAAACATATTATATCAACAGTTAAGCTGAGA
1046692 GATGCAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (34 bp):
TACAAACATATTATATCAACAGTTAAGCTGAGAC
Found at i:1068007 original size:109 final size:107
Alignment explanation
Indices: 1067875--1068245 Score: 295
Period size: 109 Copynumber: 3.3 Consensus size: 107
1067865 TGATGGAGTC
* *
1067875 TTAGAAATCCGACGATAACAAAATAAGTTAATTACTGAAAACATTATTAACCATAATAACATAAC
1 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTG-AAACATTATCAA-CATAATAACATAAC
*
1067940 AAGTAGCGCTTATTTAATGTAATATGTAGCGTCTGTTTAAAGCT
64 AAGTAGCGCTTATTTAATGTAATATGTAGAGTCTGTTTAAAGCT
**** * *
1067984 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATCAATATTATGAACATATA
1 TTAGAAATCCGACGATAACAAAATAGGTTAATTAC-TGAAACATTATCAACATAAT-AACATA-A
* * * * * * *
1068049 -AGGTAGCGCTTA--AAATGTTACCA-AAGTATAAG-CTG-ATGAAGCC
63 CAAGTAGCGCTTATTTAATG-TA--ATATGTA-GAGTCTGTTTAAAGCT
* * *
1068092 TTAGAAATCCGACGGTAACAAAATAGGTTAATTATTGGACACATTATCAATCATAATAACATAAC
1 TTAGAAATCCGACGATAACAAAATAGGTTAATTACT-GAAACATTATCAA-CATAATAACATAAC
* * * * *
1068157 AAGTAACGTTTATTTAATGTAATATATAGTGTCTATTTAAAGCTAAT
64 AAGTAGCGCTTATTTAATGTAATATGTAGAGTCTGTTTAAAGC---T
*
1068204 GAGGCCTTAGAAATCCGACGATAACAAAATAGATTAATTACT
1 ------TTAGAAATCCGACGATAACAAAATAGGTTAATTACT
1068246 TGATTTGTTA
Statistics
Matches: 199, Mismatches: 39, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
107 8 0.04
108 73 0.37
109 76 0.38
110 9 0.05
118 33 0.17
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (107 bp):
TTAGAAATCCGACGATAACAAAATAGGTTAATTACTGAAACATTATCAACATAATAACATAACAA
GTAGCGCTTATTTAATGTAATATGTAGAGTCTGTTTAAAGCT
Found at i:1068065 original size:217 final size:219
Alignment explanation
Indices: 1067767--1068273 Score: 723
Period size: 217 Copynumber: 2.3 Consensus size: 219
1067757 TAATGGGGCC
*
1067767 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACATATT
1 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACATATA
* * * * *
1067832 AGGTAGTGTCTAAAATGTTACCAAAGTTTAAATTGATGGAGTCTTAGAAATCCGACGATAACAAA
66 AGGTAGCGTCTAAAATGTTACCAAAGTATAAACTGATGAAGCCTTAGAAATCCGACGATAACAAA
* *
1067897 ATAAGTTAATTACTGAAAACATTATTAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAA
131 ATAAGTTAATTACTGAAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTAA
* *
1067962 TATGTAGCGTCTGTTTAAAGC-T-
196 TATATAGCGTCTATTTAAAGCATG
* *
1067984 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATCAATATTATGAACATATA
1 TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACATATA
* *
1068049 AGGTAGCG-CTTAAAATGTTACCAAAGTATAAGCTGATGAAGCCTTAGAAATCCGACGGTAACAA
66 AGGTAGCGTC-TAAAATGTTACCAAAGTATAAACTGATGAAGCCTTAGAAATCCGACGATAACAA
* * * * * *
1068113 AATAGGTTAATTATTGGACACATTATCAATCATAATAACATAACAAGTAACGTTTATTTAATGTA
130 AATAAGTTAATTACTGAAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTA
*
1068178 ATATATAGTGTCTATTTAAAGCTAATGAGG
195 ATATATAGCGTCTATTTAAAGC--AT---G
*
1068208 CCTTAGAAATCCGACGATAACAAAATAGATTAATTACTTGATTTGTTATTAATATTATCAACATA
1 --TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACATA
1068273 T
64 T
1068274 TACCGTGTAC
Statistics
Matches: 256, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
216 1 0.00
217 193 0.75
220 1 0.00
226 61 0.24
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (219 bp):
TTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACATATA
AGGTAGCGTCTAAAATGTTACCAAAGTATAAACTGATGAAGCCTTAGAAATCCGACGATAACAAA
ATAAGTTAATTACTGAAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTAA
TATATAGCGTCTATTTAAAGCATG
Found at i:1068118 original size:108 final size:107
Alignment explanation
Indices: 1067764--1068273 Score: 365
Period size: 108 Copynumber: 4.6 Consensus size: 107
1067754 AGCTAATGGG
1067764 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATCAACAT
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTAT-AACAT
* * * ** *
1067829 ATTAGGTAGTG-TCTAAAATGTTACCAAAGTTTAAATTGATGGA
65 ATAAGGTAGCGCT-TAAAATGTTACCAAAGTATAAGCTGATGAA
* * **** * *
1067872 GTCTTAGAAATCCGACGATAACAAAATAAGTTAATTAC-TGAAAACATTATTAACCATAATAACA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTG-ATTTGTTATTAA-TATTATAACA
* * * ** * *
1067936 TA-ACAAGTAGCGCTTATTTAATG-TA--ATATGTA-GCGTCTGTTTAAA
64 TATA-AGGTAGCGCTTA--AAATGTTACCA-AAGTATAAG-CTG-ATGAA
* *
1067981 GCTTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATCAATATTATGAACAT
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTAT-AACAT
1068046 ATAAGGTAGCGCTTAAAATGTTACCAAAGTATAAGCTGATGAA
65 ATAAGGTAGCGCTTAAAATGTTACCAAAGTATAAGCTGATGAA
* **** * *
1068089 GCCTTAGAAATCCGACGGTAACAAAATAGGTTAATTA-TTGGACACATTATCAATCATAATAACA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTT-GATTTGTTATTAAT-ATTATAACA
* * * * * * * *
1068153 TA-ACAAGTAACGTTTATTTAATGTAATA-TATAGTGTCTATTTAAAGCTAATGAG
64 TATA-AGGTAGCGCTTA--AAATGT--TACCA-A-AG--TA--T-AAGCTGATGAA
*
1068207 GCCTTAGAAATCCGACGATAACAAAATAGATTAATTACTTGATTTGTTATTAATATTATCAACAT
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTAT-AACAT
1068272 AT
65 AT
1068274 TACCGTGTAC
Statistics
Matches: 308, Mismatches: 61, Indels: 55
0.73 0.14 0.13
Matches are distributed among these distances:
107 10 0.03
108 132 0.43
109 79 0.26
110 14 0.05
111 1 0.00
112 3 0.01
113 1 0.00
115 2 0.01
117 5 0.02
118 59 0.19
119 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (107 bp):
GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTGATTTGTTATTAATATTATAACATA
TAAGGTAGCGCTTAAAATGTTACCAAAGTATAAGCTGATGAA
Done.