genome.fa.s7999.2.7.7.80.10.50.1000.26.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  26  of  50  ( 5918 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6409503--6409622	20	5.7	20	78	11	132	44	10	25	20	1.82
6409494--6409657	86	1.9	87	80	6	190	48	9	20	21	1.77
6413663--6413709	19	2.6	18	80	19	53	14	19	8	57	1.63
6414847--6414901	18	2.9	19	78	5	58	20	14	9	56	1.65
6428144--6428187	19	2.3	19	96	0	79	11	43	9	36	1.72
6436470--6437037	133	4.3	133	77	6	472	32	20	17	29	1.96
6464563--6464603	16	2.6	16	88	3	57	36	12	21	29	1.90
6468112--6468152	19	2.1	19	86	4	55	41	17	0	41	1.49
6476275--6476549	89	3.1	88	88	2	406	29	25	24	20	1.99
6478432--6478474	20	2.2	20	83	4	52	30	13	11	44	1.80
6479125--6479192	23	3.0	23	91	0	109	27	19	26	26	1.99
6479243--6479302	18	3.3	18	97	0	111	8	28	35	28	1.86
6481251--6481602	89	3.9	89	92	1	562	28	26	24	20	1.99
6481262--6481611	177	2.0	179	92	1	587	28	27	24	20	1.99
6483434--6483820	193	2.0	193	97	0	738	34	18	11	35	1.87
6484367--6484425	30	2.0	29	83	3	73	32	20	23	23	1.98
6484420--6484477	27	2.1	28	84	9	75	31	22	20	25	1.98
6487255--6487294	20	2.0	20	90	0	62	45	5	5	45	1.47
6499387--6499445	31	1.9	31	100	0	118	25	13	20	40	1.89
6500233--6500302	30	2.3	30	100	0	140	5	20	2	71	1.19
6504769--6505087	54	5.9	54	86	3	381	33	18	16	31	1.93
6511761--6511997	54	4.4	54	85	3	296	29	21	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6511761--6511972	109	2.0	108	86	2	300	29	21	18	30	1.97
6511764--6511997	109	2.2	108	84	3	292	29	21	18	29	1.97
6514156--6515200	521	2.0	521	100	0	2090	32	15	13	38	1.86
6516049--6516082	17	2.0	17	88	0	50	58	0	0	41	0.98
6518351--6518393	20	2.2	20	86	0	59	30	13	23	32	1.93
6529829--6529869	17	2.4	17	91	0	64	39	43	4	12	1.63
6530073--6530134	18	3.5	18	69	10	56	30	0	4	64	1.14
6530074--6530151	35	2.2	38	79	11	92	30	1	3	64	1.20
6530089--6530156	36	1.9	35	82	8	84	32	1	4	61	1.24
6535106--6535140	13	2.7	13	95	0	61	0	28	0	71	0.86
6535461--6535554	48	2.0	48	97	0	179	35	11	14	38	1.83
6535474--6535574	48	2.1	48	85	3	132	35	11	16	35	1.86
6537233--6537285	25	2.1	26	89	3	81	60	0	0	39	0.97
6537233--6537300	24	2.6	26	81	13	77	58	0	1	39	1.07
6538667--6538737	14	4.9	14	71	20	56	77	0	7	15	0.97
6538680--6538754	14	4.9	16	74	19	54	73	0	9	17	1.09
6538694--6538884	80	2.4	78	77	12	194	71	1	5	21	1.14
6538715--6538889	65	2.7	64	72	11	149	70	1	5	22	1.13
6539103--6539221	7	16.4	7	73	19	50	71	1	3	23	1.10
6539071--6539193	7	17.0	7	68	12	61	73	2	4	20	1.12
6540228--6540252	2	12.5	2	100	0	50	52	0	0	48	1.00
6541020--6541966	85	11.1	85	82	2	1125	24	18	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6541020--6541966	170	5.6	170	90	1	1405	24	18	22	35	1.96
6541020--6541966	511	1.9	510	89	2	1479	24	18	22	35	1.96
6542504--6542530	11	2.5	11	100	0	54	14	18	7	59	1.58
6545461--6545522	22	2.7	23	82	9	74	17	24	35	22	1.95
6545438--6545523	23	3.9	23	74	15	74	16	24	36	23	1.94
6552920--6553122	99	2.1	99	89	1	309	32	17	16	34	1.92
6556818--6556981	9	18.6	9	66	27	68	72	1	7	18	1.15
6556818--6557113	15	20.3	14	67	20	105	70	1	9	18	1.20
6557093--6557127	10	3.5	10	96	0	61	85	0	0	14	0.59
6556999--6557127	9	12.9	9	71	18	51	74	1	6	17	1.10
6557082--6557128	10	4.4	10	84	10	58	82	0	2	14	0.75
6557082--6557129	11	4.4	11	81	7	53	83	0	2	14	0.74
6557240--6557415	62	2.9	58	73	16	133	68	3	2	25	1.19
6557372--6557417	22	2.0	21	84	12	56	73	0	2	23	0.94
6558200--6558277	33	2.4	33	91	4	122	23	10	46	20	1.81
6558463--6558507	2	23.0	2	93	4	74	46	0	2	51	1.13
6566396--6566447	24	2.1	26	85	7	72	15	15	17	51	1.76
6566749--6566788	20	2.0	20	85	0	53	7	10	22	60	1.54
6566854--6566894	16	2.7	16	85	7	59	12	9	17	60	1.57
6569890--6569946	19	2.9	18	76	18	69	14	26	35	24	1.93
6570387--6570426	21	1.9	21	100	0	80	27	25	5	42	1.75
6571786--6571838	23	2.3	23	93	0	88	28	20	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6571786--6571844	23	2.6	23	84	10	84	28	22	28	20	1.98
6575660--6575701	21	2.0	21	86	9	59	35	7	4	52	1.50
6579286--6579320	3	12.0	3	93	6	63	34	0	0	65	0.93
6581389--6581504	4	29.0	4	91	0	88	1	12	49	37	1.50
6586000--6586068	33	2.1	33	86	5	95	34	20	15	28	1.94
6586150--6586494	62	5.4	63	72	16	252	29	15	13	40	1.86
6586157--6586494	128	2.6	128	87	4	484	29	15	13	40	1.86
6586169--6586494	129	2.5	127	87	3	474	30	15	13	39	1.86
6587046--6587079	3	11.0	3	87	6	50	35	0	2	61	1.11
6587048--6587078	16	1.9	16	93	0	53	35	0	3	61	1.12
6588931--6589018	30	3.0	29	83	6	97	18	6	10	64	1.45
6589319--6589354	5	7.2	5	93	0	63	16	0	2	80	0.83
6589319--6589359	15	2.7	15	88	3	64	14	2	4	78	1.03
6594471--6594578	31	3.4	31	82	3	135	22	16	5	55	1.62
6596302--6596337	17	2.1	17	94	0	63	38	22	16	22	1.93
6596617--6596667	16	3.2	16	91	0	75	17	21	13	47	1.82
6597419--6597461	19	2.2	20	87	4	61	25	32	0	41	1.56
6597427--6597484	27	2.1	29	87	6	84	32	25	0	41	1.56
6598007--6598069	2	31.5	2	85	6	83	42	1	1	53	1.19
6598582--6598651	2	36.0	2	72	21	51	50	5	0	44	1.26
6598584--6598661	26	2.8	28	80	9	106	51	5	0	43	1.24
6598582--6598658	19	4.2	19	69	24	74	50	5	0	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6598703--6598766	13	4.8	13	73	7	56	42	7	6	43	1.58
6598699--6598865	28	6.6	26	71	18	120	44	4	4	45	1.46
6598687--6598922	28	8.5	28	68	19	95	45	3	4	46	1.42
6598750--6598922	18	9.2	18	74	17	113	46	2	4	47	1.34
6598702--6598922	98	2.3	97	90	4	349	45	3	4	46	1.41
6598805--6598865	13	4.5	13	74	8	59	44	4	4	45	1.46
6609765--6609886	57	2.1	58	80	6	131	35	9	14	40	1.78
6613347--6613402	20	2.8	20	86	0	76	26	28	16	28	1.97
6614957--6614983	3	9.0	3	100	0	54	66	0	33	0	0.92
6616600--6616656	20	3.0	19	92	7	98	33	8	5	52	1.55
6616883--6616943	20	3.0	20	90	0	86	24	29	18	27	1.98
6617311--6617863	300	1.8	300	98	0	1061	30	14	16	38	1.89
6618908--6618941	2	17.0	2	100	0	68	0	0	50	50	1.00
6622400--6622711	29	10.8	29	68	13	119	41	5	1	50	1.37
6622433--6622698	27	9.3	27	69	14	108	41	5	2	50	1.37
6622466--6622527	31	2.0	31	87	0	88	38	4	1	54	1.31
6623654--6623726	30	2.4	30	95	0	128	30	24	20	24	1.99
6623657--6623753	30	3.2	30	88	1	113	31	22	20	24	1.98
6623715--6623775	31	2.0	31	83	6	79	32	18	19	29	1.95
6626454--6626489	2	18.0	2	100	0	72	50	0	0	50	1.00
6628833--6628868	2	18.0	2	100	0	72	50	0	0	50	1.00
6629186--6629248	30	2.1	30	93	0	108	30	23	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6632988--6633025	2	18.5	2	84	15	51	50	0	44	5	1.24
6636735--6636844	30	3.6	30	72	9	98	40	8	13	38	1.75
6637583--6637641	31	1.9	31	89	0	91	40	5	10	44	1.60
6637688--6638215	32	17.7	32	71	21	359	53	14	0	32	1.41
6637794--6637879	14	5.6	14	67	20	55	56	9	0	33	1.31
6637868--6637910	22	2.0	22	100	0	86	51	13	0	34	1.42
6637870--6637918	22	2.2	22	88	3	71	55	14	0	30	1.40
6637804--6638214	80	5.0	81	81	12	441	53	14	0	32	1.41
6637924--6637998	22	3.2	23	75	17	82	54	17	0	28	1.43
6638033--6638118	22	3.7	22	75	11	91	52	15	0	32	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50