Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold79
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: 4189514
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 5041 characters in sequence are not A, C, G, or T
File 20 of 26
Found at i:2792470 original size:22 final size:22
Alignment explanation
Indices: 2792445--2792488 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2792435 ACCTTATGAG
2792445 TTTACTCAAATTAACCAAAATC
1 TTTACTCAAATTAACCAAAATC
* * **
2792467 TTTATTTACCTTAACCAAAATC
1 TTTACTCAAATTAACCAAAATC
2792489 CTAATCGTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTACTCAAATTAACCAAAATC
Found at i:2793041 original size:37 final size:38
Alignment explanation
Indices: 2792988--2793076 Score: 153
Period size: 37 Copynumber: 2.4 Consensus size: 38
2792978 TTATCTCAAC
* *
2792988 TTTTATACATAGTTCATAAATGATATATTTGTAATAA-
1 TTTTATACATATTTCATAAATGATATATTTGTAACAAT
2793025 TTTTATACATATTTCATAAATGATATATTTGTAACAAT
1 TTTTATACATATTTCATAAATGATATATTTGTAACAAT
2793063 TTTTATACATATTT
1 TTTTATACATATTT
2793077 TTTTATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 35 0.71
38 14 0.29
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (38 bp):
TTTTATACATATTTCATAAATGATATATTTGTAACAAT
Found at i:2794110 original size:15 final size:13
Alignment explanation
Indices: 2794094--2794118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2794084 TCTTTGATAT
2794094 ATATGAATTTGGG
1 ATATGAATTTGGG
2794107 ATATGAATTTGG
1 ATATGAATTTGG
2794119 CTTTCATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (13 bp):
ATATGAATTTGGG
Found at i:2794649 original size:20 final size:19
Alignment explanation
Indices: 2794596--2794649 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
2794586 TAATTAATTA
* *
2794596 ATAATATTATATATTTAAT
1 ATAATAATATATTTTTAAT
*
2794615 TTAATAATATAATTTTTAAT
1 ATAATAATAT-ATTTTTAAT
*
2794635 ATATTAACTATATTT
1 ATAATAA-TATATTT
2794650 AAAATATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.29
20 17 0.61
21 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATAATATATTTTTAAT
Found at i:2794734 original size:66 final size:69
Alignment explanation
Indices: 2794596--2794745 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 69
2794586 TAATTAATTA
* ** *
2794596 ATAATATTATATATTTAATTTAATAATATAATTTTTAATATATTAACTATATTTAAAATATATGA
1 ATAATATTATATATTTAATTTAATAATATAA-TCTTAATATATTAACTATACATAAAATATATCA
2794661 AAAAT
65 AAAAT
* * *
2794666 ATAATTTTAT-TATTTAATTTAATGATA-AA-CTTATTATATTAACTATACATAAAAT-TA-CAA
1 ATAATATTATATATTTAATTTAATAATATAATCTTAATATATTAACTATACATAAAATATATCAA
*
2794726 AAGT
66 AAAT
2794730 ATATATATATATATAT
1 ATA-ATAT-TATATAT
2794746 CCTCAGTCCA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
64 8 0.12
65 5 0.07
66 25 0.37
67 3 0.04
68 2 0.03
69 16 0.24
70 9 0.13
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (69 bp):
ATAATATTATATATTTAATTTAATAATATAATCTTAATATATTAACTATACATAAAATATATCAA
AAAT
Found at i:2796582 original size:8 final size:8
Alignment explanation
Indices: 2796562--2796606 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
2796552 TATGCAGACC
2796562 TAAAATTAA
1 TAAAA-TAA
2796571 T-AAATAA
1 TAAAATAA
* *
2796578 TTAAATTA
1 TAAAATAA
2796586 TAAAATAA
1 TAAAATAA
2796594 TAAAATAA
1 TAAAATAA
2796602 TAAAA
1 TAAAA
2796607 AATTTTACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 4 0.12
8 27 0.84
9 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TAAAATAA
Found at i:2796763 original size:18 final size:17
Alignment explanation
Indices: 2796742--2796775 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2796732 TTATTTTTTA
*
2796742 TTTAATTTTTATATAATT
1 TTTAATTATTA-ATAATT
2796760 TTTAATTATTAATAAT
1 TTTAATTATTAATAAT
2796776 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAATTATTAATAATT
Found at i:2796783 original size:17 final size:18
Alignment explanation
Indices: 2796740--2796783 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
2796730 TTTTATTTTT
*
2796740 TATTTAATTTTTATATAA
1 TATTTAATTATTATATAA
*
2796758 TTTTTAATTATTA-ATAA
1 TATTTAATTATTATATAA
*
2796775 TATTAAATT
1 TATTTAATT
2796784 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTAATTATTATATAA
Found at i:2797567 original size:18 final size:18
Alignment explanation
Indices: 2797544--2797580 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2797534 CAATTCATGA
2797544 ACAATTCCCACTCTAATC
1 ACAATTCCCACTCTAATC
2797562 ACAATTCCCACTCTAATC
1 ACAATTCCCACTCTAATC
2797580 A
1 A
2797581 ATCTTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (18 bp):
ACAATTCCCACTCTAATC
Found at i:2799032 original size:44 final size:44
Alignment explanation
Indices: 2798973--2799073 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
2798963 TGTTATTCTG
* * * * * **
2798973 CAGCTGAAAGTTTACTTTACTTTCAGTTGGATACGTAACATATT
1 CAGCTGAATGCTTACTTCACTTTCACTGGGATAAATAACATATT
**
2799017 CAGCTGAATGCTTACTTCACTTTCACTGGGATAAATAATGTATT
1 CAGCTGAATGCTTACTTCACTTTCACTGGGATAAATAACATATT
*
2799061 CAGATGAATGCTT
1 CAGCTGAATGCTT
2799074 TTTGCTGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (44 bp):
CAGCTGAATGCTTACTTCACTTTCACTGGGATAAATAACATATT
Found at i:2803994 original size:2 final size:2
Alignment explanation
Indices: 2803987--2804028 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2803977 GCTAAACCAA
2803987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2804029 GGGGAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2816982 original size:17 final size:17
Alignment explanation
Indices: 2816912--2816996 Score: 63
Period size: 16 Copynumber: 5.2 Consensus size: 17
2816902 TTTAATTTTA
*
2816912 AAAAATAAAT-GTTAAT
1 AAAAATAAATATTTAAT
*
2816928 -TAAAT-AAT-TTTAAT
1 AAAAATAAATATTTAAT
* *
2816942 ATTAAATAAATATTAAAT
1 A-AAAATAAATATTTAAT
*
2816960 -ATAATAAATATTTAAT
1 AAAAATAAATATTTAAT
*
2816976 AAAAATATATATTTAACT
1 AAAAATAAATATTTAA-T
2816994 AAA
1 AAA
2816997 TAGTATGTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.15
15 4 0.07
16 18 0.33
17 16 0.29
18 9 0.16
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
AAAAATAAATATTTAAT
Found at i:2819053 original size:17 final size:17
Alignment explanation
Indices: 2819031--2819065 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2819021 AAATTTAAAT
2819031 TTATTTAAT-ATGAATTA
1 TTATTTAATGAT-AATTA
2819048 TTATTTAATGATAATTA
1 TTATTTAATGATAATTA
2819065 T
1 T
2819066 AATATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATTTAATGATAATTA
Found at i:2822735 original size:18 final size:18
Alignment explanation
Indices: 2822712--2822750 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2822702 TTGTTCCAGC
* *
2822712 TTCCTTTTTTTTTTTTTT
1 TTCCTTTTCTTTTTCTTT
2822730 TTCCTTTTCTTTTTCTTT
1 TTCCTTTTCTTTTTCTTT
2822748 TTC
1 TTC
2822751 TTCTCGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTCCTTTTCTTTTTCTTT
Found at i:2822737 original size:6 final size:6
Alignment explanation
Indices: 2822715--2822752 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2822705 TTCCAGCTTC
* *
2822715 CTTTTT -TTTTT TTTTTT CCTTTT CTTTTT CTTTTT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT
2822753 CTCGGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
CTTTTT
Found at i:2827956 original size:14 final size:15
Alignment explanation
Indices: 2827927--2827960 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2827917 TTTATATTTA
2827927 ATTATAAATATTAAT
1 ATTATAAATATTAAT
*
2827942 ATTA-AAATTTTAAT
1 ATTATAAATATTAAT
2827956 ATTAT
1 ATTAT
2827961 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAATATTAAT
Found at i:2829045 original size:2 final size:2
Alignment explanation
Indices: 2829038--2829071 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2829028 TCCACTATTT
2829038 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
2829072 CTTTCATCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2829360 original size:22 final size:22
Alignment explanation
Indices: 2829335--2829389 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
2829325 AATATAATAA
2829335 AATATTAAAAATATTTT-TAATT
1 AATATT-AAAATATTTTATAATT
* *
2829357 AATATTTATATATTTTATAATT
1 AATATTAAAATATTTTATAATT
*
2829379 AA-ATTTAAATA
1 AATATTAAAATA
2829390 AAAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTAAAATATTTTATAATT
Found at i:2829371 original size:21 final size:21
Alignment explanation
Indices: 2829345--2829385 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2829335 AATATTAAAA
2829345 ATATTTT-TAATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
2829366 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
2829386 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:2832308 original size:7 final size:7
Alignment explanation
Indices: 2832284--2832327 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
2832274 TTTTATTTTT
2832284 ATATTAA
1 ATATTAA
*
2832291 TTATATAA
1 ATAT-TAA
2832299 ATATTAA
1 ATATTAA
2832306 ATATTAA
1 ATATTAA
2832313 ATATT-A
1 ATATTAA
2832319 ATA-TAA
1 ATATTAA
2832325 ATA
1 ATA
2832328 AAAATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 1 0.03
6 8 0.24
7 18 0.55
8 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATTAA
Found at i:2833913 original size:19 final size:21
Alignment explanation
Indices: 2833886--2833933 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
2833876 GAAAATTATC
*
2833886 TTATAAATAA-ATA-AATTTT
1 TTATTAATAATATATAATTTT
2833905 TTATTAATAATTATATAATTTT
1 TTATTAATAA-TATATAATTTT
2833927 TATATTA
1 T-TATTA
2833934 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTAATAATATATAATTTT
Found at i:2839133 original size:10 final size:10
Alignment explanation
Indices: 2839118--2839159 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
2839108 ATTTTAGAAG
2839118 TTTTATATAT
1 TTTTATATAT
2839128 TTTTATA-AT
1 TTTTATATAT
2839137 TTTTATATTAT
1 TTTTATA-TAT
* *
2839148 TTATATTTAT
1 TTTTATATAT
2839158 TT
1 TT
2839160 GATTTGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
10 12 0.43
11 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATAT
Found at i:2839140 original size:19 final size:19
Alignment explanation
Indices: 2839105--2839149 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2839095 TTCATTAGTG
2839105 TATA-TTTTAGAAGTTTTA
1 TATATTTTTAGAAGTTTTA
* *
2839123 TATATTTTTATAATTTTTA
1 TATATTTTTAGAAGTTTTA
2839142 TATTATTT
1 TA-TATTT
2839150 ATATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TATATTTTTAGAAGTTTTA
Found at i:2839155 original size:17 final size:18
Alignment explanation
Indices: 2839105--2839152 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
2839095 TTCATTAGTG
*
2839105 TATA-TTTTAGAAGTTTTA
1 TATATTTTTATAA-TTTTA
2839123 TATATTTTTATAATTTT-
1 TATATTTTTATAATTTTA
2839140 TATATTATTTATA
1 TATATT-TTTATA
2839153 TTTATTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TATATTTTTATAATTTTA
Found at i:2839194 original size:20 final size:20
Alignment explanation
Indices: 2839144--2839201 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
2839134 AATTTTTATA
*
2839144 TTATTTATATTTATT-TGATT
1 TTATTTATATATATTAT-ATT
*
2839164 TGA-TTATTATATATTATATT
1 TTATTTA-TATATATTATATT
*
2839184 TTATTTATATAGATTATA
1 TTATTTATATATATTATA
2839202 CACATCGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTATTTATATATATTATATT
Found at i:2839608 original size:35 final size:36
Alignment explanation
Indices: 2839542--2839613 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 36
2839532 ATTTTATCAC
* *
2839542 TAATTTTAATTTTATTATTATTATATTAAAA-TAAT
1 TAATTTTAATTTTATTATAATTATATCAAAATTAAT
* *
2839577 TAATTTT-ATTATTATTTTAATTTTATCAAAATTAAT
1 TAATTTTAATT-TTATTATAATTATATCAAAATTAAT
2839613 T
1 T
2839614 TCATTATCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 3 0.10
35 23 0.74
36 5 0.16
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (36 bp):
TAATTTTAATTTTATTATAATTATATCAAAATTAAT
Found at i:2839931 original size:18 final size:19
Alignment explanation
Indices: 2839904--2839947 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2839894 TATTTATGTT
2839904 ATAAATATTATTT-TTAATA
1 ATAAA-ATTATTTATTAATA
*
2839923 GTAAAATTATTTATTAATA
1 ATAAAATTATTTATTAATA
2839942 ATAAAA
1 ATAAAA
2839948 GCATATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAAAATTATTTATTAATA
Found at i:2840144 original size:21 final size:21
Alignment explanation
Indices: 2840114--2840245 Score: 62
Period size: 26 Copynumber: 6.1 Consensus size: 21
2840104 TATACTAGAC
*
2840114 ATAAAATAATTAAAATATAAT
1 ATAAATTAATTAAAATATAAT
2840135 ATAAATTAATTTTTAAAATATATAAT
1 ATAAATTAA---TT-AAA-ATATAAT
* *
2840161 ATAAATT-ATT--AATTTATT
1 ATAAATTAATTAAAATATAAT
2840179 A-AAATTAA-TATAAATATAA-
1 ATAAATTAATTA-AAATATAAT
** *
2840198 ATATTTTAAATAAAATTATAATT
1 ATAAATTAATTAAAA-TATAA-T
2840221 ATAATATTAATATATAAAT-TAAT
1 ATAA-ATTAAT-TA-AAATATAAT
2840244 AT
1 AT
2840246 TTTTAATAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
17 6 0.07
18 7 0.08
19 2 0.02
20 13 0.15
21 15 0.18
22 2 0.02
23 6 0.07
24 9 0.11
25 7 0.08
26 17 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAATTAATTAAAATATAAT
Found at i:2840154 original size:33 final size:31
Alignment explanation
Indices: 2840115--2840200 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
2840105 ATACTAGACA
2840115 TAAAATAATTAAAATATAATATAAATTAATTT-T
1 TAAAATAA-TAAAATATAA-AT-AATTAATTTAT
* *
2840148 TAAAAT-ATATAATATAAATTATTAATTTAT
1 TAAAATAATAAAATATAAATAATTAATTTAT
2840178 TAAAATTAATATAAATATAAATA
1 TAAAA-TAATA-AAATATAAATA
2840201 TTTTAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 8 0.18
30 8 0.18
31 10 0.22
32 4 0.09
33 15 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAATAATAAAATATAAATAATTAATTTAT
Found at i:2840212 original size:30 final size:33
Alignment explanation
Indices: 2840151--2840215 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 33
2840141 TAATTTTTAA
* *
2840151 AATATATAATATAAATTATTAATTTATTAAAATT
1 AATATATAATATAAATTATT-ATTAAATAAAATT
2840185 AATATA-AATATAAA-TATT-TTAAATAAAATT
1 AATATATAATATAAATTATTATTAAATAAAATT
2840215 A
1 A
2840216 TAATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.38
32 4 0.14
33 8 0.28
34 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AATATATAATATAAATTATTATTAAATAAAATT
Found at i:2840241 original size:12 final size:13
Alignment explanation
Indices: 2840151--2840245 Score: 51
Period size: 12 Copynumber: 7.4 Consensus size: 13
2840141 TAATTTTTAA
*
2840151 AATATATAATATA
1 AATATATAATATT
2840164 AAT-TATTAATTTATT
1 AATATA-TAA--TATT
* *
2840179 AAAAT-TAATATA
1 AATATATAATATT
2840191 AATATA-AATATTTT
1 AATATATAATA--TT
*
2840205 AA-ATAAAAT-TAT
1 AATATATAATAT-T
2840217 AAT-TATAATATT
1 AATATATAATATT
2840229 AATATATAA-ATT
1 AATATATAATATT
2840241 AATAT
1 AATAT
2840246 TTTTAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 25
0.67 0.06 0.26
Matches are distributed among these distances:
11 1 0.02
12 33 0.52
13 15 0.23
14 9 0.14
15 5 0.08
16 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATATAATATT
Found at i:2840616 original size:24 final size:23
Alignment explanation
Indices: 2840589--2840651 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2840579 CGTCTATCAA
2840589 ATATTTTATAAATTTTTTTCTT-
1 ATATTTTATAAATTTTTTTCTTG
* * **
2840611 ATATATCTACAAATTCATTTCTTG
1 ATAT-TTTATAAATTTTTTTCTTG
2840635 ATATTTTATCAAATTTT
1 ATATTTTAT-AAATTTT
2840652 AATGTTTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
22 4 0.13
23 17 0.57
24 9 0.30
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATTTTATAAATTTTTTTCTTG
Found at i:2841284 original size:16 final size:17
Alignment explanation
Indices: 2841263--2841306 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
2841253 CTATTGACAA
2841263 AAAAAATAATA-TTTTT
1 AAAAAATAATATTTTTT
2841279 AAAAAAT-ATATTTTTT
1 AAAAAATAATATTTTTT
2841295 AAAAAATTAATA
1 AAAAAA-TAATA
2841307 GATAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 18 0.72
17 1 0.04
18 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATAATATTTTTT
Found at i:2844930 original size:10 final size:10
Alignment explanation
Indices: 2844915--2844948 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2844905 TTTCATTTAC
2844915 ATATTTATAT
1 ATATTTATAT
2844925 ATATTTATAT
1 ATATTTATAT
*
2844935 ATTTTTAT-T
1 ATATTTATAT
2844944 ATATT
1 ATATT
2844949 ATAACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATATTTATAT
Found at i:2844936 original size:18 final size:19
Alignment explanation
Indices: 2844909--2845000 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 19
2844899 TATATATTTC
2844909 ATTTACATATTTATA-TAT
1 ATTTACATATTTATATTAT
* *
2844927 ATTTATATATTTTTATTAT
1 ATTTACATATTTATATTAT
* *
2844946 ATTATA-ACTATTTTTATTTT
1 ATT-TACA-TATTTATATTAT
*
2844966 TTTTA-AT-TTTA-A-TAT
1 ATTTACATATTTATATTAT
2844981 A-TTA-ATAATTTATATTAT
1 ATTTACAT-ATTTATATTAT
2844999 AT
1 AT
2845001 AAATTTTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
14 5 0.08
15 2 0.03
16 5 0.08
17 4 0.07
18 18 0.31
19 10 0.17
20 15 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTACATATTTATATTAT
Found at i:2845216 original size:17 final size:17
Alignment explanation
Indices: 2845169--2845218 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2845159 ATTTTTTAAT
2845169 TTTATAT-AATAT-AAA
1 TTTATATAAATATAAAA
2845184 -TTAT-TAACATATTAAAA
1 TTTATATAA-ATA-TAAAA
2845201 TTTATATAAATATAAAA
1 TTTATATAAATATAAAA
2845218 T
1 T
2845219 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 3 0.10
16 1 0.03
17 9 0.31
18 7 0.24
19 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTATATAAATATAAAA
Found at i:2845246 original size:36 final size:33
Alignment explanation
Indices: 2845171--2845247 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 33
2845161 TTTTTAATTT
*
2845171 TATAT-AATATAAATTATTAACATATTAAAATT
1 TATATAAATATAAATTATTAACATATTAAAATA
* * *
2845203 TATATAAATATAAAATATTTTAATATAATTATAATA
1 TATATAAATAT-AAAT-TATTAACAT-ATTAAAATA
2845239 TATATAAAT
1 TATATAAAT
2845248 TATTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 5 0.14
33 5 0.14
34 4 0.11
35 7 0.19
36 16 0.43
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (33 bp):
TATATAAATATAAATTATTAACATATTAAAATA
Found at i:2845263 original size:32 final size:32
Alignment explanation
Indices: 2845169--2845265 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 32
2845159 ATTTTTTAAT
*
2845169 TTTATATA-ATATAAATTATTAACATATTAA-AA
1 TTTATATATATATAAATTATT-A-TTATTAATAA
* * *
2845201 TTTATATAAATATAAAATATT-TTAAT-ATAA
1 TTTATATATATATAAATTATTATTATTAATAA
2845231 -TTATAATATATATAAATTATTATTATTAATAA
1 TTTAT-ATATATATAAATTATTATTATTAATAA
2845263 TTT
1 TTT
2845266 TTTTTTGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
29 5 0.09
30 19 0.36
31 4 0.08
32 12 0.23
33 13 0.25
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
TTTATATATATATAAATTATTATTATTAATAA
Found at i:2845484 original size:5 final size:5
Alignment explanation
Indices: 2845474--2845571 Score: 61
Period size: 5 Copynumber: 21.2 Consensus size: 5
2845464 TTTAAAAATT
* * * *
2845474 ATATA ATATA A-ATT AT-TA ATATA TTAAA AT-TA ATATA ATAT- ACATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
2845520 ATTTAA ATAAA ATTTA A-ATA ATATA ATAT- ATA-A ATATA ATATA A-AT-
1 ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
2845566 ATATA A
1 ATATA A
2845572 ATTAAATTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
3 1 0.01
4 25 0.36
5 40 0.58
6 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:2845510 original size:32 final size:32
Alignment explanation
Indices: 2845433--2845562 Score: 115
Period size: 34 Copynumber: 3.9 Consensus size: 32
2845423 ATGATACACA
2845433 TAAAATTATATAA-ATAAAATATAAATATATTTT
1 TAAAATTATATAATATAAAATATAAATATA--TT
* *
2845466 TAAAAATTATATAATATAAATTATTAATATA-T
1 T-AAAATTATATAATATAAAATATAAATATATT
* *
2845498 TAAAATTAATATAATATACATAATTTAAATAAAATT
1 TAAAATT-ATATAATATA-A-AATATAAAT-ATATT
*
2845534 T-AAATAATATAATATATAAATAT-AATATA
1 TAAAATTATATAATATA-AAATATAAATATA
2845563 AATATATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
31 8 0.10
32 15 0.19
33 6 0.08
34 29 0.36
35 20 0.25
36 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
TAAAATTATATAATATAAAATATAAATATATT
Found at i:2847963 original size:5 final size:5
Alignment explanation
Indices: 2847953--2847977 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2847943 TTAAGATTGT
2847953 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
2847978 CTATTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:2848685 original size:14 final size:16
Alignment explanation
Indices: 2848662--2848712 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
2848652 AACTTGATAA
2848662 TTTA-ATTAT-TTA-T
1 TTTATATTATATTATT
2848675 TTTATATTATTATTATT
1 TTTATATTA-TATTATT
*
2848692 TTTATATTATAATTATG
1 TTTATATTAT-ATTATT
2848709 TTTA
1 TTTA
2848713 AAATTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 1 0.03
16 4 0.12
17 19 0.59
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATATTATATTATT
Found at i:2848686 original size:17 final size:17
Alignment explanation
Indices: 2848674--2848712 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2848664 TAATTATTTA
2848674 TTTTATATTATTATTAT
1 TTTTATATTATTATTAT
*
2848691 TTTTATATTATAATTAT
1 TTTTATATTATTATTAT
*
2848708 GTTTA
1 TTTTA
2848713 AAATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTATATTATTATTAT
Found at i:2848787 original size:39 final size:36
Alignment explanation
Indices: 2848710--2848793 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 36
2848700 ATAATTATGT
*
2848710 TTAA-AATTTAATATATATTTTAAAATTTTAATAAA
1 TTAATAATTTAATATATATTTTAAAATTTTAACAAA
* *
2848745 TTAATAATTTATATTATATATATTTAAAATTTTTACATA
1 TTAATAATTTA-A-TATATAT-TTTAAAATTTTAACAAA
*
2848784 TTAATTATTT
1 TTAATAATTT
2848794 TATACATCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.10
36 6 0.15
37 1 0.02
38 7 0.17
39 23 0.56
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (36 bp):
TTAATAATTTAATATATATTTTAAAATTTTAACAAA
Found at i:2848804 original size:21 final size:20
Alignment explanation
Indices: 2848779--2848835 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
2848769 TAAAATTTTT
2848779 ACATATTAATTATTTTATAC
1 ACATATTAATTATTTTATAC
* *
2848799 ATCATATTACATT-TTATATTC
1 A-CATATTA-ATTATTTTATAC
*
2848820 ACATTTTAATTATTTT
1 ACATATTAATTATTTT
2848836 TTTTATTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 14 0.47
22 3 0.10
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (20 bp):
ACATATTAATTATTTTATAC
Found at i:2849964 original size:23 final size:25
Alignment explanation
Indices: 2849938--2849983 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
2849928 TTTTTAATAT
*
2849938 TGATATTTTA-TAA-TAATTTATAG
1 TGATATTTAATTAATTAATTTATAG
2849961 TGATATTTAATTAATTAATTTAT
1 TGATATTTAATTAATTAATTTAT
2849984 TTTTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (25 bp):
TGATATTTAATTAATTAATTTATAG
Found at i:2850566 original size:2 final size:2
Alignment explanation
Indices: 2850561--2850585 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2850551 GTGTTGTGTG
2850561 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
2850586 GGGGTATCAT
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:2850893 original size:19 final size:20
Alignment explanation
Indices: 2850871--2850909 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2850861 ATTTATCATC
*
2850871 ATAAATATT-GATTATATTT
1 ATAAATATTCGATAATATTT
*
2850890 ATAATTATTCGATAATATTT
1 ATAAATATTCGATAATATTT
2850910 TATTTTATTT
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:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
ATAAATATTCGATAATATTT
Found at i:2851004 original size:18 final size:18
Alignment explanation
Indices: 2850983--2851017 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2850973 CATAAATATA
2850983 TTTTTAATATATATAATT
1 TTTTTAATATATATAATT
*
2851001 TTTTTAGTATATATAAT
1 TTTTTAATATATATAAT
2851018 ACATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTAATATATATAATT
Found at i:2854555 original size:32 final size:33
Alignment explanation
Indices: 2854518--2854587 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
2854508 AAAATAATAC
* *
2854518 TAAATAA-TTTTTTTATTATTTATAATTA-AATT
1 TAAATAATTTTTTTTATTATATA-AATAATAATT
2854550 TAAATAATTTTTTTTATTATATAAATAATAATT
1 TAAATAATTTTTTTTATTATATAAATAATAATT
2854583 TAAAT
1 TAAAT
2854588 TAAATTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TAAATAATTTTTTTTATTATATAAATAATAATT
Found at i:2855493 original size:37 final size:37
Alignment explanation
Indices: 2855429--2855499 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
2855419 ATTTTACTGT
* **
2855429 TAAAAATATTAAAATTAATTTTATAATTAAATTTAAA
1 TAAAAATATTAAAATCAAAATTATAATTAAATTTAAA
*
2855466 TAAAAATATTAAAAATCAAAATT-TAATTATATTT
1 TAAAAATATT-AAAATCAAAATTATAATTAAATTT
2855500 GATTGGATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 20 0.69
38 9 0.31
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (37 bp):
TAAAAATATTAAAATCAAAATTATAATTAAATTTAAA
Found at i:2856145 original size:25 final size:25
Alignment explanation
Indices: 2856119--2856176 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 25
2856109 TATTCTCATA
2856119 AAAATGTTATTTTTAAAAATT-ATT
1 AAAATGTTATTTTTAAAAATTAATT
2856143 -AAA--TTATTTTTAAAAATTAATT
1 AAAATGTTATTTTTAAAAATTAATT
*
2856165 AATATGTTATTT
1 AAAATGTTATTT
2856177 ATGATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 15 0.52
22 3 0.10
23 5 0.17
25 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (25 bp):
AAAATGTTATTTTTAAAAATTAATT
Found at i:2856736 original size:3 final size:3
Alignment explanation
Indices: 2856707--2856779 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
2856697 ATGCTTTCTT
* * * *
2856707 TCA TTA TCA TAA TCA TCA CCAA CCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TC-A TCA TCA TCA TCA TCA TCA TCA TCA
** *
2856753 TCA TCA TTG TCA TCA TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
2856780 ATTCTAATGT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:2857757 original size:2 final size:2
Alignment explanation
Indices: 2857750--2857791 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2857740 ACATAAGATC
2857750 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
2857792 GATGTGAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2857936 original size:16 final size:16
Alignment explanation
Indices: 2857915--2857945 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2857905 ATCATTAATT
2857915 TAATTCCCCTTTTAAG
1 TAATTCCCCTTTTAAG
2857931 TAATTCCCCTTTTAA
1 TAATTCCCCTTTTAA
2857946 TACTTTGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (16 bp):
TAATTCCCCTTTTAAG
Found at i:2858890 original size:20 final size:20
Alignment explanation
Indices: 2858854--2858920 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
2858844 TATTTTTACG
*
2858854 TTATA-ATTATATTTAAAATA
1 TTATATATT-TATATAAAATA
*
2858874 TTATATATTTATATAAACT-
1 TTATATATTTATATAAAATA
* *
2858893 TTA-ATTTTTTTATAATTAATA
1 TTATATATTTATATAA--AATA
2858914 TTATATA
1 TTATATA
2858921 AATTTTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 10 0.28
19 3 0.08
20 15 0.42
21 6 0.17
22 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATATTTATATAAAATA
Found at i:2862486 original size:9 final size:9
Alignment explanation
Indices: 2862474--2862522 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
2862464 GTAAAAAAAT
2862474 AATATTAAA
1 AATATTAAA
*
2862483 AATAATAAA
1 AATATTAAA
2862492 AAT-TTAAA
1 AATATTAAA
2862500 AATA-TAAA
1 AATATTAAA
*
2862508 AATAATAAA
1 AATATTAAA
*
2862517 ATTATT
1 AATATT
2862523 TGATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 15 0.44
9 19 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATATTAAA
Found at i:2862506 original size:16 final size:17
Alignment explanation
Indices: 2862478--2862510 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2862468 AAAAATAATA
2862478 TTAAAAATAATAAAAAT
1 TTAAAAATAATAAAAAT
2862495 TTAAAAAT-ATAAAAAT
1 TTAAAAATAATAAAAAT
2862511 AATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAAATAATAAAAAT
Found at i:2865031 original size:5 final size:5
Alignment explanation
Indices: 2865016--2865046 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
2865006 ACGATTGGGG
2865016 GAAAA GAAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA
2865047 CGACAGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:2865061 original size:21 final size:21
Alignment explanation
Indices: 2865015--2865066 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
2865005 AACGATTGGG
2865015 GGAAAAGAAAAAGAAAAGAAA
1 GGAAAAGAAAAAGAAAAGAAA
* * * *
2865036 AGAAAAGAAAACGACAGGAAA
1 GGAAAAGAAAAAGAAAAGAAA
*
2865057 GGAAAGGAAA
1 GGAAAAGAAA
2865067 GTTTCTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (21 bp):
GGAAAAGAAAAAGAAAAGAAA
Found at i:2866936 original size:16 final size:14
Alignment explanation
Indices: 2866928--2866959 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2866918 ATAGTTATAT
2866928 ATTTTAATAATTAA
1 ATTTTAATAATTAA
2866942 ATTTTAATAA--AA
1 ATTTTAATAATTAA
2866954 ATTTTA
1 ATTTTA
2866960 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATTAA
Found at i:2867249 original size:50 final size:50
Alignment explanation
Indices: 2867195--2867444 Score: 202
Period size: 50 Copynumber: 5.2 Consensus size: 50
2867185 AAGTATTATT
* * * ** *
2867195 ATTGTTGACTATTCTTTACCAATCTTTGACGATCGAGAGAAGT-AGTCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAAGTGA-CCGTA
*
2867245 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAAGTGACCGTA
* * *
2867295 ATTGTTGACCATTCTTCACCAACCTTTGACAATTGAAAGAG--GTAACCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAA-T-AAAGAGAAGTGACCGTA
* * * * * **
2867345 ATTGTTGACGACTCTTCATCAA---TTG-------AGAGAGGTGGCTATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAAGTGACCGTA
* **
2867385 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAGGTGGTCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAAGTGACCGTA
2867435 ATTGTTGACT
1 ATTGTTGACT
2867445 CTAAGCAACT
Statistics
Matches: 163, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
38 4 0.02
40 25 0.15
43 3 0.02
47 3 0.02
50 120 0.74
51 2 0.01
52 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATAAAGAGAAGTGACCGTA
Found at i:2867368 original size:40 final size:40
Alignment explanation
Indices: 2867324--2867402 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
2867314 CAACCTTTGA
2867324 CAATTGAAAGAGGTAACCATAATTGTTGACGACTCTTCAT
1 CAATTGAAAGAGGTAACCATAATTGTTGACGACTCTTCAT
* ** * * *
2867364 CAATTGAGAGAGGTGGCTATAATTGTTGACTATTCTTCA
1 CAATTGAAAGAGGTAACCATAATTGTTGACGACTCTTCA
2867403 CCAACCTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (40 bp):
CAATTGAAAGAGGTAACCATAATTGTTGACGACTCTTCAT
Found at i:2871402 original size:19 final size:19
Alignment explanation
Indices: 2871357--2871414 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
2871347 ACTGCCAGTT
2871357 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
2871376 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
2871395 ATCATGTATCGATAC-ATTG
1 -TCATGTATCGATACAATTG
2871414 T
1 T
2871415 ATCGATACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.50
20 16 0.44
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:2873066 original size:50 final size:49
Alignment explanation
Indices: 2873006--2873184 Score: 202
Period size: 50 Copynumber: 3.6 Consensus size: 49
2872996 GTTGCCATTG
**
2873006 TTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGACGATCATAATTA
1 TTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGA-CATAATTA
* *
2873056 TTGACCATTCTTCACCAA-TCTTTGATAATCGAGAGAGGTGACAGTAATTA
1 TTGACTATTCTTCACCAACT-TTTGACAATCGAGAGAGGTGACA-TAATTA
* * *
2873106 TTGA-TGACTT-TTCACCAACTTTTGACAATTGAGAGAGGTAACCATAATTG
1 TTGACT-A-TTCTTCACCAACTTTTGACAATCGAGAGAGGTGA-CATAATTA
* *
2873156 TTGACTATTCTTCACCAGCCTTTGACAAT
1 TTGACTATTCTTCACCAACTTTTGACAAT
2873185 AAAGAAATGT
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
49 5 0.05
50 99 0.90
51 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (49 bp):
TTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGACATAATTA
Found at i:2873203 original size:100 final size:100
Alignment explanation
Indices: 2873016--2873209 Score: 235
Period size: 100 Copynumber: 1.9 Consensus size: 100
2873006 TTGACTATTC
* * *
2873016 TTCACCAACTTTTGACAATCGAGAGAGACGATCATAATTATTGACCATTCTTCACCAATCTTTGA
1 TTCACCAACTTTTGACAATCGAGAGAGACAACCATAATTATTGACCATTCTTCACCAACCTTTGA
* ** *
2873081 TAATCGAGAGAGGTGACAGTAATTATTGATGACTT
66 CAATAAAGAAAGGTGACAGTAATTATTGATGACTT
* ** * * *
2873116 TTCACCAACTTTTGACAATTGAGAGAGGTAACCATAATTGTTGACTATTCTTCACCAGCCTTTGA
1 TTCACCAACTTTTGACAATCGAGAGAGACAACCATAATTATTGACCATTCTTCACCAACCTTTGA
* * * *
2873181 CAATAAAGAAATGTGGCTGTAATTGTTGA
66 CAATAAAGAAAGGTGACAGTAATTATTGA
2873210 CTCTAAGCAA
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (100 bp):
TTCACCAACTTTTGACAATCGAGAGAGACAACCATAATTATTGACCATTCTTCACCAACCTTTGA
CAATAAAGAAAGGTGACAGTAATTATTGATGACTT
Found at i:2874200 original size:21 final size:21
Alignment explanation
Indices: 2874174--2874213 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2874164 TATATGTGAA
2874174 CAAAATGAGTATGAAAATGAT
1 CAAAATGAGTATGAAAATGAT
2874195 CAAAATGAGTATGAAAATG
1 CAAAATGAGTATGAAAATG
2874214 TAGTACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.23
Consensus pattern (21 bp):
CAAAATGAGTATGAAAATGAT
Found at i:2874368 original size:2 final size:2
Alignment explanation
Indices: 2874361--2874395 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2874351 TCTATTCTTT
2874361 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2874396 TATGAAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2875674 original size:3 final size:3
Alignment explanation
Indices: 2875666--2875707 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2875656 GAGAGAACAA
2875666 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2875708 TTGTTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2876169 original size:12 final size:12
Alignment explanation
Indices: 2876150--2876179 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2876140 TGCTTTCCCT
2876150 AGAACAACAACA
1 AGAACAACAACA
*
2876162 ATAACAACAACA
1 AGAACAACAACA
2876174 AGAACA
1 AGAACA
2876180 GCACATGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.23, G:0.07, T:0.03
Consensus pattern (12 bp):
AGAACAACAACA
Found at i:2878298 original size:21 final size:19
Alignment explanation
Indices: 2878273--2878385 Score: 66
Period size: 16 Copynumber: 6.2 Consensus size: 19
2878263 TTACAAAATT
2878273 AATATAATATAAGATAATATA
1 AATATAATATAA-AT-ATATA
*
2878294 AATATGATATAAATATATA
1 AATATAATATAAATATATA
2878313 AATAT--T-TAAGAT-T-T-
1 AATATAATATAA-ATATATA
* *
2878327 TATATAATATAAAT-TATT
1 AATATAATATAAATATATA
* *
2878345 AATAT-AT-TAAA-ATTTT
1 AATATAATATAAATATATA
2878361 AATATAATATAAAATATATTA
1 AATATAATAT-AAATATA-TA
2878382 AATA
1 AATA
2878386 AGATTATAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
14 4 0.05
15 1 0.01
16 20 0.27
17 11 0.15
18 5 0.07
19 13 0.18
20 4 0.05
21 16 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AATATAATATAAATATATA
Found at i:2878313 original size:19 final size:21
Alignment explanation
Indices: 2878273--2878317 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2878263 TTACAAAATT
2878273 AATATAATATAAGATAATATA
1 AATATAATATAAGATAATATA
*
2878294 AATATGATATAA-AT-ATATA
1 AATATAATATAAGATAATATA
2878313 AATAT
1 AATAT
2878318 TTAAGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AATATAATATAAGATAATATA
Found at i:2878366 original size:34 final size:34
Alignment explanation
Indices: 2878294--2878382 Score: 119
Period size: 33 Copynumber: 2.6 Consensus size: 34
2878284 AGATAATATA
* * *
2878294 AATATGATATAAATATATAAATATTTAAGATTTT
1 AATATAATATAAATATATTAATATTTAAAATTTT
2878328 -ATATAATATAAAT-TATTAATATATTAAAATTTT
1 AATATAATATAAATATATTAATAT-TTAAAATTTT
2878361 AATATAATATAAAATATATTAA
1 AATATAATAT-AAATATATTAA
2878383 ATAAGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 8 0.17
33 21 0.44
34 9 0.19
35 4 0.08
36 6 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (34 bp):
AATATAATATAAATATATTAATATTTAAAATTTT
Found at i:2880751 original size:36 final size:37
Alignment explanation
Indices: 2880711--2880791 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
2880701 AATATCATAG
2880711 TATTTTATTTTATTAAGT-TAAAAT-ATTATAATTATT-
1 TATTTTATTTTATT-AGTATAAAATAATTAT-ATTATTA
*
2880747 TATTTTATTTTATTATTATAAAATAATTATATTATTA
1 TATTTTATTTTATTAGTATAAAATAATTATATTATTA
2880784 TAATTTTA
1 T-ATTTTA
2880792 AGTGCTATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 2 0.05
36 26 0.65
37 6 0.15
38 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
TATTTTATTTTATTAGTATAAAATAATTATATTATTA
Found at i:2880851 original size:3 final size:3
Alignment explanation
Indices: 2880843--2880905 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
2880833 GCACAGAGCT
* *
2880843 ATA ATA ATA CTA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
*
2880889 ATA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
2880906 CTGTAGGGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:2884767 original size:33 final size:33
Alignment explanation
Indices: 2884725--2884795 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
2884715 TCGCGGAACG
*
2884725 AGGGTTTTGTTTTTCATTGGCTATGCCATTTTT
1 AGGGTTTTGTTTTTCATTGGCTAGGCCATTTTT
**
2884758 AGGGTTTTGTTTTTCATTTTCTAGGCCATTTTT
1 AGGGTTTTGTTTTTCATTGGCTAGGCCATTTTT
2884791 -GGGTT
1 AGGGTT
2884796 GGGCTTAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 5 0.14
33 30 0.86
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.55
Consensus pattern (33 bp):
AGGGTTTTGTTTTTCATTGGCTAGGCCATTTTT
Found at i:2889549 original size:18 final size:17
Alignment explanation
Indices: 2889497--2889549 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
2889487 TTTTAAAATT
* *
2889497 TATTTTATTATTAAATAT
1 TATTTTA-TATTAATTAA
2889515 TATTTTATATTAAAATTAA
1 TATTTTATATT--AATTAA
2889534 TATTTTATAATTAATT
1 TATTTTAT-ATTAATT
2889550 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.13
18 11 0.37
19 12 0.40
20 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTTATATTAATTAA
Found at i:2889555 original size:20 final size:19
Alignment explanation
Indices: 2889489--2889547 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
2889479 TAAATCAATT
2889489 TTAAAATT--TATTTTATTA
1 TTAAAATTAATATTTTA-TA
*
2889507 TT-AAA-TATTATTTTATA
1 TTAAAATTAATATTTTATA
2889524 TTAAAATTAATATTTTATAA
1 TTAAAATTAATATTTTAT-A
2889544 TTAA
1 TTAA
2889548 TTTTAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 1 0.03
17 7 0.20
18 12 0.34
19 10 0.29
20 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAAATTAATATTTTATA
Found at i:2889575 original size:31 final size:31
Alignment explanation
Indices: 2889501--2889580 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
2889491 AAAATTTATT
*
2889501 TTATTATTAAAT-ATT-ATTTTATATTAAAA
1 TTATTATTAAATAATTAATTTTATATAAAAA
* **
2889530 TTAATATTTTATAATTAATTTTA-ATAAAAAA
1 TTATTATTAAATAATTAATTTTATAT-AAAAA
2889561 TTATTATTAAATAA-TAATTT
1 TTATTATTAAATAATTAATTT
2889581 AAATTATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 9 0.22
30 11 0.27
31 21 0.51
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TTATTATTAAATAATTAATTTTATATAAAAA
Found at i:2889598 original size:23 final size:23
Alignment explanation
Indices: 2889519--2889598 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 23
2889509 AAATATTATT
*
2889519 TTATATTAAAATTAATATTTTATAA
1 TTATATT-AAATTAATAATTTA-AA
*
2889544 TTA-ATT---TTAATAA--AAAA
1 TTATATTAAATTAATAATTTAAA
2889561 TTATTATTAAA-TAATAATTTAAA
1 TTA-TATTAAATTAATAATTTAAA
2889584 TTATATTAAATTAAT
1 TTATATTAAATTAAT
2889599 TTTGAATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 18
0.68 0.05 0.28
Matches are distributed among these distances:
17 5 0.11
18 1 0.02
19 3 0.07
20 6 0.14
21 6 0.14
22 7 0.16
23 10 0.23
24 3 0.07
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATATTAAATTAATAATTTAAA
Found at i:2892147 original size:2 final size:2
Alignment explanation
Indices: 2892140--2892165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2892130 ATTTAACACC
2892140 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2892166 CCGAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2893546 original size:20 final size:21
Alignment explanation
Indices: 2893512--2893569 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
2893502 TGAATCGTTT
*
2893512 AATTTTAATAAAAATAATTTTA
1 AATTTT-AGAAAAATAATTTTA
*
2893534 AATTTTA-AAAAAT-ATTTTT
1 AATTTTAGAAAAATAATTTTA
*
2893553 AATTTTAGATAAATAAT
1 AATTTTAGAAAAATAAT
2893570 AAATAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 12 0.38
20 11 0.34
21 3 0.09
22 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATTTTAGAAAAATAATTTTA
Found at i:2894329 original size:29 final size:30
Alignment explanation
Indices: 2894289--2894375 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 30
2894279 AAACTTTATC
* *
2894289 ATTT-TATATAAATAAATCATTTAATTTTT
1 ATTTATATCTAAATAAATCATTTAATTTTA
* * *
2894318 A-TTATATTTAAATAAATTATTAAATTTTA
1 ATTTATATCTAAATAAATCATTTAATTTTA
*
2894347 ATTTATATCTAAATAAATC-TTTAAATTTA
1 ATTTATATCTAAATAAATCATTTAATTTTA
2894376 TACTAACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.04
29 31 0.65
30 15 0.31
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTATATCTAAATAAATCATTTAATTTTA
Found at i:2894370 original size:23 final size:22
Alignment explanation
Indices: 2894338--2894381 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
2894328 AATAAATTAT
2894338 TAAATTTT-AATTTATATCTAAA
1 TAAATTTTAAATTTATA-CTAAA
2894360 TAAATCTTTAAATTTATACTAA
1 TAAAT-TTTAAATTTATACTAA
2894382 CTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTTTAAATTTATACTAAA
Found at i:2897135 original size:30 final size:31
Alignment explanation
Indices: 2897086--2897144 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
2897076 TCCATTTAAC
2897086 ATATATCAATAATATTATTTAAAT-TTTATT
1 ATATATCAATAATATTATTTAAATATTTATT
*
2897116 ATATAT-AATAATTTATATTTAAATATTTA
1 ATATATCAATAATAT-TATTTAAATATTTA
2897145 ACAAAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 15 0.58
31 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
ATATATCAATAATATTATTTAAATATTTATT
Found at i:2899760 original size:15 final size:15
Alignment explanation
Indices: 2899740--2899778 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2899730 AAGATACGAG
2899740 AATATATATTTAATA
1 AATATATATTTAATA
* * *
2899755 AATATAAAATTAATT
1 AATATATATTTAATA
2899770 AATATATAT
1 AATATATAT
2899779 AATATGATAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATATTTAATA
Found at i:2899783 original size:9 final size:10
Alignment explanation
Indices: 2899740--2899813 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 10
2899730 AAGATACGAG
*
2899740 AATATATATTT
1 AATATA-ATAT
2899751 AATA-AATAT
1 AATATAATAT
*
2899760 AAAATTAAT-T
1 AATA-TAATAT
2899770 AATAT-ATAT
1 AATATAATAT
*
2899779 AATATGATAT
1 AATATAATAT
* *
2899789 ATTTTAATAT
1 AATATAATAT
2899799 AAT-TAATAT
1 AATATAATAT
2899808 AATATA
1 AATATA
2899814 TTTAATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 2 0.04
9 22 0.43
10 20 0.39
11 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (10 bp):
AATATAATAT
Found at i:2899795 original size:24 final size:23
Alignment explanation
Indices: 2899743--2899825 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
2899733 ATACGAGAAT
*
2899743 ATATATTTAATA-A-AT-ATAAA
1 ATATATTTAATATATATAATATA
* *
2899763 AT-TAATTAATATATATAATATG
1 ATATATTTAATATATATAATATA
2899785 ATATATTTTAATATA-ATTAATATA
1 ATATA-TTTAATATATA-TAATATA
*
2899809 ATATATTTAATTTATAT
1 ATATATTTAATATATAT
2899826 TTTATATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.16
20 3 0.06
21 2 0.04
22 5 0.10
23 12 0.24
24 20 0.40
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATATTTAATATATATAATATA
Found at i:2899825 original size:18 final size:18
Alignment explanation
Indices: 2899762--2899835 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 18
2899752 ATAAATATAA
*
2899762 AATTAAT-TAATATATAT
1 AATTAATATAATATATTT
* * * *
2899779 AATATGATATATTTTAATAT
1 AAT-TAATATAATAT-ATTT
2899799 AATTAATATAATATATTT
1 AATTAATATAATATATTT
* **
2899817 AATTTATATTTTATATTT
1 AATTAATATAATATATTT
2899835 A
1 A
2899836 TTTTTAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
17 3 0.07
18 22 0.50
19 12 0.27
20 7 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (18 bp):
AATTAATATAATATATTT
Found at i:2900038 original size:13 final size:14
Alignment explanation
Indices: 2900020--2900048 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2900010 TTAATAATAA
2900020 AAAATTTA-TAAAT
1 AAAATTTATTAAAT
2900033 AAAATTTATTAAAT
1 AAAATTTATTAAAT
2900047 AA
1 AA
2900049 TATATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATTTATTAAAT
Found at i:2900540 original size:13 final size:13
Alignment explanation
Indices: 2900515--2900547 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
2900505 TATAAATTTA
2900515 AAATTTATTAATT
1 AAATTTATTAATT
2900528 -AATTTATTTAATT
1 AAATTTA-TTAATT
2900541 AAATTTA
1 AAATTTA
2900548 AAAGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 6 0.33
14 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATTTATTAATT
Found at i:2900670 original size:34 final size:32
Alignment explanation
Indices: 2900616--2900732 Score: 101
Period size: 34 Copynumber: 3.5 Consensus size: 32
2900606 GTAATAAAAA
* * *
2900616 ATAATATAAATAATAAATATATTAAA-TTGTAT
1 ATAATATAAATATTAAATATA-AAAATTTATAT
2900648 ATAATATATAATATTAACATATAAAAATTTATAT
1 ATAATATA-AATATTAA-ATATAAAAATTTATAT
* * *
2900682 ATAATATAAAATATTTTAAATATAAATATAATATAA
1 ATAATAT-AAATA--TTAAATATAAAAAT-TTATAT
*
2900718 ATATTATAAATATTA
1 ATAATATAAATATTA
2900733 TTTAAATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
32 8 0.11
33 13 0.18
34 21 0.30
35 15 0.21
36 14 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (32 bp):
ATAATATAAATATTAAATATAAAAATTTATAT
Found at i:2900704 original size:21 final size:20
Alignment explanation
Indices: 2900666--2900712 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
2900656 TAATATTAAC
*
2900666 ATATAAAAATTTATATAT-A
1 ATATAAAAATTTAAATATAA
2900685 ATATAAAATATTTTAAATATAA
1 ATATAAAA-A-TTTAAATATAA
2900707 ATATAA
1 ATATAA
2900713 TATAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 8 0.33
22 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAAAAATTTAAATATAA
Found at i:2900716 original size:11 final size:11
Alignment explanation
Indices: 2900700--2900742 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
2900690 AAATATTTTA
2900700 AATATAAATAT
1 AATATAAATAT
2900711 AATATAAATAT
1 AATATAAATAT
2900722 --TATAAATAT
1 AATATAAATAT
* *
2900731 TATTTAAATAT
1 AATATAAATAT
2900742 A
1 A
2900743 TAAATTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
11 19 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATAAATAT
Found at i:2900725 original size:20 final size:19
Alignment explanation
Indices: 2900616--2900747 Score: 84
Period size: 20 Copynumber: 7.0 Consensus size: 19
2900606 GTAATAAAAA
2900616 ATAATATAAATA-ATAAAT
1 ATAATATAAATATATAAAT
2900634 AT-AT-TAAATTGTATATAATAT
1 ATAATATAAA---TATATAA-AT
*
2900655 ATAATATTAACATATAAAAAT
1 ATAATA-TAA-ATATATAAAT
*
2900676 -TTATATATAATATA-AAAT
1 ATAATATA-AATATATAAAT
*
2900694 AT--T-TTAA-ATATAAAT
1 ATAATATAAATATATAAAT
2900709 ATAATATAAATATTATAAAT
1 ATAATATAAATA-TATAAAT
* *
2900729 ATTATTTAAATATATAAAT
1 ATAATATAAATATATAAAT
2900748 TATCATAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 33
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.03
15 8 0.09
16 5 0.05
17 4 0.04
18 9 0.10
19 18 0.20
20 26 0.29
21 6 0.07
22 8 0.09
24 3 0.03
25 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (19 bp):
ATAATATAAATATATAAAT
Found at i:2900742 original size:26 final size:26
Alignment explanation
Indices: 2900646--2900730 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
2900636 ATTAAATTGT
*
2900646 ATATAATATATAATATTAACATA-TAAAA
1 ATATAA-ATATAATA-TAA-ATATTATAA
* * *
2900674 ATTTATATATAATATAAAATATTTTAA
1 ATATAAATATAATAT-AAATATTATAA
2900701 ATATAAATATAATATAAATATTATAA
1 ATATAAATATAATATAAATATTATAA
2900727 ATAT
1 ATAT
2900731 TATTTAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 18 0.38
27 26 0.54
28 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
ATATAAATATAATATAAATATTATAA
Found at i:2902523 original size:38 final size:38
Alignment explanation
Indices: 2902481--2902555 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
2902471 TATATGTTTA
*
2902481 GAGAATGGGCTTTG-AACATATATATATATATATATATT
1 GAGAATGGGCTTTGTAA-ATATATAAATATATATATATT
*
2902519 GAGAATGTGCTTTGTAAATATATAAATATATATATAT
1 GAGAATGGGCTTTGTAAATATATAAATATATATATAT
2902556 ATAAATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 32 0.94
39 2 0.06
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (38 bp):
GAGAATGGGCTTTGTAAATATATAAATATATATATATT
Found at i:2902546 original size:8 final size:8
Alignment explanation
Indices: 2902533--2902564 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
2902523 ATGTGCTTTG
2902533 TAAATATA
1 TAAATATA
2902541 TAAATATA
1 TAAATATA
*
2902549 TATATATA
1 TAAATATA
2902557 TAAATATA
1 TAAATATA
2902565 CACATTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:2903142 original size:17 final size:17
Alignment explanation
Indices: 2903122--2903165 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
2903112 TTTTAATTTA
2903122 AATTAATTTAATTTTTT
1 AATTAATTTAATTTTTT
2903139 AATTAA--TAATTTTTT
1 AATTAATTTAATTTTTT
2903154 --TTAAATTTAATT
1 AATT-AATTTAATT
2903166 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 2 0.08
15 9 0.38
16 5 0.21
17 6 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTAATTTAATTTTTT
Found at i:2909988 original size:2 final size:2
Alignment explanation
Indices: 2909981--2910013 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2909971 CACCCACCTA
2909981 AT 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 AT A
2910014 AAGTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2910255 original size:19 final size:20
Alignment explanation
Indices: 2910223--2910270 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2910213 CTTTGCATAT
2910223 TTATTTATTTAAAAATTAAA
1 TTATTTATTTAAAAATTAAA
*
2910243 TTATTTA-TTAAAATTTAAA
1 TTATTTATTTAAAAATTAAA
*
2910262 -AATTTATTT
1 TTATTTATTT
2910271 TATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTTATTTAAAAATTAAA
Found at i:2910273 original size:27 final size:26
Alignment explanation
Indices: 2910229--2910282 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
2910219 ATATTTATTT
2910229 ATTTAAAAATTAAATTAT-TTATTAAA
1 ATTTAAAAATTAAATTATATT-TTAAA
**
2910255 ATTTAAAAATTTATTTTATATTTTAAA
1 ATTTAAAAA-TTAAATTATATTTTAAA
2910282 A
1 A
2910283 AATTAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 13 0.54
28 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTAAAAATTAAATTATATTTTAAA
Found at i:2910320 original size:14 final size:14
Alignment explanation
Indices: 2910274--2910346 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
2910264 TTTATTTTAT
2910274 ATTTTAAAAAATTAA
1 ATTTT-AAAAATTAA
** *
2910289 A-TACAAATATTAA
1 ATTTTAAAAATTAA
2910302 ATTTTAAAAATTAA
1 ATTTTAAAAATTAA
*
2910316 TTTTTAAATAA--AA
1 ATTTTAAA-AATTAA
* *
2910329 AATTTAAAATTTAA
1 ATTTTAAAAATTAA
2910343 ATTT
1 ATTT
2910347 AACGATCAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 9
0.68 0.17 0.14
Matches are distributed among these distances:
12 1 0.02
13 17 0.40
14 22 0.51
15 3 0.07
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTTAAAAATTAA
Found at i:2910596 original size:17 final size:17
Alignment explanation
Indices: 2910563--2910600 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2910553 AATTTATATT
2910563 TTAAATAAAATAAAATA
1 TTAAATAAAATAAAATA
*
2910580 TTAAA-AAAATTATAATA
1 TTAAATAAAA-TAAAATA
2910597 TTAA
1 TTAA
2910601 TATATTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAATAAAATAAAATA
Found at i:2912404 original size:2 final size:2
Alignment explanation
Indices: 2912357--2912388 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2912347 TCATATATGT
2912357 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
2912389 ATAAGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2927065 original size:21 final size:20
Alignment explanation
Indices: 2927028--2927069 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2927018 TATTTTTTAA
**
2927028 AAATAAAATAATTTAAAATT
1 AAATAAAATAAAATAAAATT
2927048 AAATAATAATAAAATAAAATT
1 AAATAA-AATAAAATAAAATT
2927069 A
1 A
2927070 TCTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATAAAATAAAATAAAATT
Found at i:2927313 original size:6 final size:6
Alignment explanation
Indices: 2927302--2927465 Score: 55
Period size: 6 Copynumber: 27.7 Consensus size: 6
2927292 TAATTACATG
* *
2927302 ATATAA ATAT-A ATATAA A-A-AA ATATTTAA AT-T-A ATATAA TGTAAAA
1 ATATAA ATATAA ATATAA ATATAA ATA--TAA ATATAA ATATAA -ATATAA
* *
2927348 ATATGA ATAT-A ATATAA ATATAGA A-ATAT ATCA-AA ATTTATATA ATATAA
1 ATATAA ATATAA ATATAA ATATA-A ATATAA AT-ATAA A--TATA-A ATATAA
* * * * *
2927398 ATTATTA ATAT-A TTA-AA ATTTAA ATATAA TATATAA AAATAA TTATAA
1 A-TATAA ATATAA ATATAA ATATAA ATATAA -ATATAA ATATAA ATATAA
* *
2927446 A-ATAA AAAT-A ATATTA ATAT
1 ATATAA ATATAA ATATAA ATAT
2927466 TAAAAATTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 44
0.66 0.09 0.24
Matches are distributed among these distances:
4 6 0.05
5 29 0.24
6 53 0.45
7 23 0.19
8 6 0.05
9 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:2927337 original size:27 final size:26
Alignment explanation
Indices: 2927307--2927398 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
2927297 ACATGATATA
2927307 AATATAATATAAAAAAATATTTAAATT
1 AATATAATATAAAAAAATA-TTAAATT
* *
2927334 AATATAATGT--AAAAATA-TGAATAT
1 AATATAATATAAAAAAATATTAAAT-T
* * *
2927358 AATATAAATATAGAAATATATCAAAATT
1 AATAT-AATATAAAAAAATAT-TAAATT
*
2927386 TATATAATATAAA
1 AATATAATATAAA
2927399 TTATTAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 11 0.22
27 22 0.43
28 5 0.10
29 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (26 bp):
AATATAATATAAAAAAATATTAAATT
Found at i:2927375 original size:19 final size:19
Alignment explanation
Indices: 2927334--2927455 Score: 68
Period size: 16 Copynumber: 6.9 Consensus size: 19
2927324 TATTTAAATT
*
2927334 AATATAATGTAAAAATATG
1 AATATAATATAAAAATATG
*
2927353 AATATAATATAAATATA-G
1 AATATAATATAAAAATATG
*
2927371 AA-AT-ATATCAAAAT-T-
1 AATATAATATAAAAATATG
* * *
2927386 TATATAATAT-AAATTATT
1 AATATAATATAAAAATATG
* *
2927404 AATAT-AT-T-AAAATTTA
1 AATATAATATAAAAATATG
2927420 AATATAATATATAAAA-AT-
1 AATATAATATA-AAAATATG
*
2927438 AATTATAAAATAAAAATA
1 AA-TATAATATAAAAATA
2927456 ATATTAATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
15 1 0.01
16 25 0.31
17 11 0.14
18 14 0.17
19 25 0.31
20 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (19 bp):
AATATAATATAAAAATATG
Found at i:2927416 original size:32 final size:34
Alignment explanation
Indices: 2927353--2927430 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 34
2927343 TAAAAATATG
2927353 AATATAATATAAATATAGAAATATATCAAAATTT
1 AATATAATATAAATATAGAAATATATCAAAATTT
** *
2927387 -ATATAATATAAAT-TATTAATATATTAAAATTT
1 AATATAATATAAATATAGAAATATATCAAAATTT
2927419 AAATATAATATA
1 -AATATAATATA
2927431 TAAAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 16 0.41
33 13 0.33
34 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
AATATAATATAAATATAGAAATATATCAAAATTT
Found at i:2927834 original size:26 final size:25
Alignment explanation
Indices: 2927805--2927865 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
2927795 TTACATTTTA
2927805 TTATTATTTTTTAATATATT-ATAAAT
1 TTATTATTTTTTAAT-TATTAAT-AAT
**
2927831 TTATTTAAATTTTAATTATTAATAAT
1 TTA-TTATTTTTTAATTATTAATAAT
2927857 TTATATATT
1 TTAT-TATT
2927866 GAATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
25 1 0.04
26 15 0.54
27 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTATTTTTTAATTATTAATAAT
Found at i:2928129 original size:22 final size:22
Alignment explanation
Indices: 2928104--2928163 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
2928094 TAATAAAATA
*
2928104 TAAATTTAAACTTAAACCTATT
1 TAAATTTAAACTTAAACCTATC
* * *
2928126 TAAATCTAAACTAAAAATCTATC
1 TAAATTTAAACT-TAAACCTATC
*
2928149 TAAACTTAAA-TTAAA
1 TAAATTTAAACTTAAA
2928164 ATTTTAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 3 0.10
22 12 0.40
23 15 0.50
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATTTAAACTTAAACCTATC
Found at i:2928152 original size:23 final size:22
Alignment explanation
Indices: 2928104--2928152 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
2928094 TAATAAAATA
* * *
2928104 TAAATTTAAACTTAAACCTATT
1 TAAATCTAAACTAAAACCTATC
*
2928126 TAAATCTAAACTAAAAATCTATC
1 TAAATCTAAACT-AAAACCTATC
2928149 TAAA
1 TAAA
2928153 CTTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATCTAAACTAAAACCTATC
Found at i:2928275 original size:20 final size:20
Alignment explanation
Indices: 2928252--2928290 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2928242 AAATTAAAAA
2928252 AATTAAATAATTTTAATATC
1 AATTAAATAATTTTAATATC
* *
2928272 AATTTAATTATTTTAATAT
1 AATTAAATAATTTTAATAT
2928291 TTTTTTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTAAATAATTTTAATATC
Found at i:2928344 original size:9 final size:9
Alignment explanation
Indices: 2928330--2928381 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
2928320 ATAATATTAA
2928330 AAATTAATT
1 AAATTAATT
2928339 AAATTAATT
1 AAATTAATT
*
2928348 --TTTAATTT
1 AAATTAA-TT
*
2928356 AAATAAATT
1 AAATTAATT
*
2928365 AAATTAATC
1 AAATTAATT
2928374 AAATTAAT
1 AAATTAAT
2928382 AGTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 4 0.11
8 2 0.06
9 26 0.74
10 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATTAATT
Found at i:2928779 original size:33 final size:31
Alignment explanation
Indices: 2928740--2928834 Score: 104
Period size: 31 Copynumber: 3.0 Consensus size: 31
2928730 AATTTATTTT
*
2928740 AAATTTTATTTTTATAATTTAAATTTTTAATTA
1 AAATTTTATTTTTAT-A-TTAAATTTTAAATTA
2928773 AAATTTTATTTTTATATTAAATTTTAAATT-
1 AAATTTTATTTTTATATTAAATTTTAAATTA
* * *
2928803 TAATTAATAATTTTTAAATTAAA-TTTAAATTA
1 AAATT--TTATTTTTATATTAAATTTTAAATTA
2928835 TTTTATCAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.07
31 21 0.38
32 15 0.27
33 15 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
AAATTTTATTTTTATATTAAATTTTAAATTA
Found at i:2928780 original size:20 final size:20
Alignment explanation
Indices: 2928735--2928822 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
2928725 ACTTGAATTT
** *
2928735 ATTTTAAATTTTATTTTTATA
1 ATTTTAAATTTT-TAATTAAA
2928756 A-TTTAAATTTTTAATTAAA
1 ATTTTAAATTTTTAATTAAA
2928775 ATTTT--ATTTTTATATT-AA
1 ATTTTAAATTTTTA-ATTAAA
2928793 ATTTTAAA--TTTAATTAATA
1 ATTTTAAATTTTTAATTAA-A
2928812 ATTTTTAAATT
1 A-TTTTAAATT
2928823 AAATTTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
17 3 0.05
18 19 0.35
19 11 0.20
20 21 0.38
21 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTAAATTTTTAATTAAA
Found at i:2928785 original size:19 final size:18
Alignment explanation
Indices: 2928762--2928816 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
2928752 TATAATTTAA
2928762 ATTTTTAATTAAAATTTT
1 ATTTTTAATTAAAATTTT
2928780 ATTTTTATATT-AAATTTT
1 ATTTTTA-ATTAAAATTTT
**
2928798 AAATTTAATTAATAATTTT
1 ATTTTTAATTAA-AATTTT
2928817 TAAATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.09
18 20 0.62
19 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTAATTAAAATTTT
Found at i:2928833 original size:19 final size:18
Alignment explanation
Indices: 2928691--2928833 Score: 65
Period size: 19 Copynumber: 8.0 Consensus size: 18
2928681 TGAAATAAAA
2928691 TTTAATTAAATTTAAA--
1 TTTAATTAAATTTAAATT
2928707 --TAATTAAAATTATAAATT
1 TTTAATT-AAATT-TAAATT
* * *
2928725 ACTTGAATTTATTTTAAATT
1 --TTTAATTAAATTTAAATT
**
2928745 TTATTTTTATAATTTAAATT
1 TT-TAATTA-AATTTAAATT
*
2928765 TTTAATTAAAATTT-TATT
1 TTTAATT-AAATTTAAATT
2928783 TTTATATTAAATTTTAAA--
1 TTTA-ATTAAA-TTTAAATT
2928801 TTTAATT-AA--T-AATT
1 TTTAATTAAATTTAAATT
2928815 TTTAAATTAAATTTAAATT
1 TTT-AATTAAATTTAAATT
2928834 ATTTTATCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 39
0.65 0.08 0.27
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 8 0.09
15 9 0.10
16 8 0.09
17 3 0.03
18 17 0.18
19 20 0.21
20 19 0.20
21 3 0.03
22 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
TTTAATTAAATTTAAATT
Found at i:2929272 original size:17 final size:19
Alignment explanation
Indices: 2929252--2929291 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2929242 TATTTTTATA
2929252 TTTA-TTTTTAA-TAATTT
1 TTTATTTTTTAAGTAATTT
2929269 TTTATTTTTTAAGTTAATTT
1 TTTATTTTTTAAG-TAATTT
2929289 TTT
1 TTT
2929292 TAAAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
20 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTATTTTTTAAGTAATTT
Done.