genome.fa.s8087.2.7.7.80.10.50.1000.3.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  3  of  37  ( 4336 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)
510935--510983	22	2.2	22	88	3	71	55	14	0	30	1.40
510977--511020	22	2.0	22	82	8	54	54	4	0	40	1.21
510987--511029	22	2.0	22	90	0	68	51	9	0	39	1.34
511045--511188	77	1.9	76	94	1	252	53	12	0	34	1.39
511135--511279	22	5.3	30	65	31	94	50	11	0	37	1.43
511142--511291	26	5.6	28	65	24	90	50	13	0	35	1.46
511036--511573	128	4.2	129	80	10	495	51	13	0	34	1.45
511350--511392	22	2.0	22	100	0	86	51	13	0	34	1.42
511500--511870	32	12.4	32	66	26	140	52	11	0	35	1.38
511531--511573	22	2.0	22	100	0	86	51	13	0	34	1.42
511355--511601	129	1.9	129	94	3	435	51	12	0	34	1.46
511533--511581	22	2.2	22	88	3	71	55	14	0	30	1.40
511722--511855	54	2.5	53	91	3	209	52	13	0	34	1.41
511773--511821	22	2.2	22	85	3	62	55	12	0	32	1.37
511790--511870	31	2.4	34	82	15	107	51	7	0	40	1.30
511844--511885	15	2.8	15	96	0	75	52	0	0	47	1.00
511866--511934	28	2.6	26	88	9	95	52	4	1	42	1.30
511844--511918	15	5.1	15	76	12	66	50	4	1	44	1.29
513551--513886	168	2.0	168	98	1	656	33	14	16	35	1.89
516154--516188	16	2.2	16	89	0	52	45	2	0	51	1.16
516337--516393	28	2.1	27	83	9	71	57	7	0	35	1.26
534255--534351	36	2.6	37	93	3	126	36	4	5	54	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534255--534370	38	3.1	38	92	2	182	36	3	5	55	1.39
542038--542075	2	19.5	2	94	5	69	50	0	0	50	1.00
544064--544130	31	2.0	34	86	11	95	43	4	2	49	1.38
545738--545763	2	13.0	2	100	0	52	50	0	0	50	1.00
555573--555631	30	2.0	30	83	6	75	38	20	8	32	1.83
556051--556085	3	11.7	3	93	0	61	34	0	2	62	1.10
557006--557049	15	2.9	15	81	15	54	34	0	2	63	1.07
560674--560765	22	4.2	21	78	13	71	52	20	10	16	1.73
560694--560751	11	5.3	10	76	15	53	51	25	8	13	1.70
560674--560765	33	2.8	33	81	0	103	52	20	10	16	1.73
565558--565582	2	12.5	2	100	0	50	48	0	0	52	1.00
574162--574199	12	3.4	11	85	14	51	71	0	0	28	0.87
574166--574215	22	2.4	21	77	16	50	66	0	4	30	1.10
574908--574970	19	3.2	19	75	4	54	55	12	0	31	1.37
574928--575093	76	2.2	76	86	4	237	56	10	2	30	1.46
576927--576967	20	2.1	19	90	4	64	80	4	2	12	0.97
581730--581798	33	2.1	33	94	0	120	14	31	21	31	1.93
581730--581808	33	2.5	33	89	4	108	12	36	21	29	1.90
593532--593567	7	5.4	7	93	6	58	91	8	0	0	0.41
594375--595273	105	8.6	105	95	0	1534	33	25	18	22	1.97
595622--595690	33	2.1	33	94	0	120	14	31	21	31	1.93
595622--595700	33	2.5	33	89	4	108	12	36	21	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596647--596732	2	44.5	2	93	6	151	47	0	0	52	1.00
598517--598558	22	2.0	21	90	4	66	59	0	4	35	1.19
598594--598634	21	1.9	22	90	5	66	75	0	4	19	0.98
599194--599239	21	2.2	20	80	3	56	58	17	0	23	1.38
599250--599312	19	3.2	19	75	4	54	55	12	0	31	1.37
599215--599410	64	2.8	68	78	16	188	58	11	1	28	1.42
603558--603598	8	5.2	8	82	5	57	34	0	29	36	1.58
603681--604283	128	4.7	127	94	1	1048	21	24	21	33	1.97
604684--604776	32	2.8	33	88	3	134	38	4	4	52	1.41
605284--605352	21	3.3	21	86	8	95	21	26	31	20	1.98
605360--605407	21	2.3	21	88	0	69	20	12	41	25	1.87
607098--607177	34	2.4	33	81	8	92	60	1	0	38	1.05
609563--609617	28	2.0	28	85	3	76	25	14	27	32	1.95
613699--613771	27	2.7	26	77	10	76	75	2	4	17	1.08
613714--613757	13	3.4	13	87	6	63	75	4	4	15	1.14
613738--613773	19	1.9	18	88	5	54	77	0	5	16	0.94
614465--614498	17	2.1	17	88	5	52	5	11	29	52	1.61
614975--615043	30	2.2	32	85	7	90	44	4	4	46	1.43
615025--615092	29	2.3	29	80	9	77	44	1	5	48	1.36
615071--615174	36	2.8	36	83	4	127	44	4	4	46	1.46
615126--615208	28	3.0	26	74	10	76	45	2	4	46	1.37
615092--615257	91	1.8	91	96	0	305	45	6	4	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615128--615210	27	3.0	26	75	16	78	44	2	4	48	1.37
615173--615220	25	1.9	25	82	0	60	43	4	2	50	1.33
615197--615321	40	3.3	37	76	11	119	46	9	3	40	1.53
621976--622111	69	2.0	69	88	0	200	25	13	30	30	1.94
622169--622201	2	16.5	2	93	0	57	45	0	54	0	0.99
623049--623092	23	1.9	23	90	0	70	59	18	11	11	1.61
623081--623135	22	2.4	23	81	6	76	45	14	21	18	1.85
623899--623931	16	2.1	16	94	0	57	48	12	9	30	1.71
628363--628497	68	2.0	68	82	2	164	28	15	30	25	1.96
630519--630564	21	2.2	21	100	0	92	50	23	15	10	1.75
631592--631649	16	3.7	16	83	4	73	22	20	10	46	1.81
631835--631859	13	1.9	13	100	0	50	52	0	0	48	1.00
631986--632050	15	4.4	15	69	18	55	52	3	7	36	1.46
631992--632062	22	3.2	22	67	15	65	49	4	9	36	1.56
632818--632858	20	2.0	20	90	0	64	68	14	4	12	1.36
634342--634382	21	2.0	21	100	0	82	51	0	0	48	1.00
634373--634453	31	2.5	31	84	7	101	48	2	2	46	1.28
634349--634424	10	7.4	10	68	26	52	47	1	1	50	1.18
634451--634504	21	2.6	21	73	8	56	42	5	5	46	1.50
634631--634719	11	8.3	11	66	18	53	40	3	7	48	1.49
634678--634719	20	2.1	20	86	0	57	35	4	11	47	1.61
634619--634752	55	2.4	57	79	9	152	40	6	8	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634710--634783	37	2.1	36	84	5	96	40	12	8	39	1.72
634925--635077	70	2.1	70	82	10	173	43	5	1	49	1.36
635004--635068	26	2.4	28	75	10	64	41	1	1	55	1.18
634968--635076	33	3.2	33	69	24	89	44	3	0	50	1.25
634965--635105	70	2.0	71	86	6	198	43	4	2	50	1.33
635102--635129	11	2.5	11	100	0	56	39	0	7	53	1.28
635228--635262	18	1.9	18	94	0	61	42	5	11	40	1.65
635272--635315	14	3.1	14	86	0	52	36	0	22	40	1.54
635283--635331	14	3.5	14	86	5	55	28	0	28	42	1.56
635447--635554	42	2.6	42	92	2	175	39	12	8	38	1.74
635760--635891	2	69.0	2	73	16	111	47	3	1	46	1.29
635765--635885	43	2.8	44	80	10	131	47	3	1	47	1.28
635970--636120	18	8.2	18	74	17	123	44	2	5	47	1.41
635874--636118	95	2.6	96	85	8	308	43	4	4	46	1.45
636794--636933	64	2.2	64	83	2	183	27	27	17	27	1.97
645419--645490	37	2.0	36	83	5	92	34	4	15	45	1.65
649422--649497	36	2.1	37	87	7	111	36	5	14	43	1.68
652585--652680	17	5.5	17	76	14	79	32	5	0	62	1.17
652635--652661	13	2.1	13	100	0	54	37	0	0	62	0.95
652636--652683	13	3.8	12	79	17	53	39	4	0	56	1.19
652747--652812	2	34.5	2	91	8	111	46	0	0	53	1.00
652787--652879	47	1.9	49	83	12	122	26	3	1	68	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652874--652956	36	2.3	35	79	6	94	22	3	4	68	1.24
653088--653153	26	2.5	27	76	16	68	15	6	4	74	1.18
656247--656298	27	2.0	25	92	7	86	75	3	17	3	1.11
656249--656297	13	3.8	13	84	15	66	75	4	18	2	1.06
656370--656496	67	1.9	67	95	0	227	38	23	12	25	1.90
657973--658047	37	2.0	38	84	2	98	29	20	14	36	1.92
658054--658140	37	2.4	36	82	3	93	25	20	12	41	1.88
658054--658130	37	2.1	36	87	2	109	23	20	14	41	1.89
657967--658236	102	2.7	101	89	2	407	29	20	12	37	1.89
658156--658312	36	4.3	36	86	1	206	24	22	14	38	1.91

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