genome.fa.s4123.2.7.7.80.10.50.1000.6.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: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596068

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1036 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)
948996--949461	197	2.4	198	82	4	564	39	13	16	31	1.87
951059--951098	17	2.4	17	95	0	71	47	40	5	7	1.54
953563--953595	16	2.0	17	88	5	50	36	18	6	39	1.75
954069--954123	14	3.9	15	90	6	55	47	5	0	47	1.25
954078--954123	2	22.5	2	95	4	83	47	2	0	50	1.13
954916--954989	18	4.1	18	89	0	85	25	28	18	27	1.98
956394--956434	3	14.0	3	94	5	75	68	0	31	0	0.90
958897--958938	21	2.0	22	95	4	77	42	26	0	30	1.55
958900--958947	21	2.2	22	85	7	62	39	25	2	33	1.67
966251--966345	44	2.2	44	83	11	115	29	24	18	27	1.98
975474--975800	59	5.6	59	84	4	326	31	11	15	42	1.81
979073--979398	137	2.4	137	81	5	365	28	13	15	42	1.85
979904--980483	216	2.6	218	86	3	770	28	18	17	34	1.94
980486--980524	18	2.1	18	86	13	53	69	5	15	10	1.34
981210--981249	14	2.9	14	100	0	80	30	0	5	65	1.14
983621--983660	14	2.9	14	100	0	80	30	0	5	65	1.14
985562--985834	137	2.0	137	83	5	347	30	13	14	42	1.84
986396--986957	216	2.5	220	86	3	772	27	19	17	35	1.94
986996--987034	18	2.1	18	86	13	53	69	5	15	10	1.34
987720--987759	14	2.9	14	100	0	80	30	0	5	65	1.14
989653--989978	137	2.4	137	81	5	365	28	13	15	42	1.85
994775--994889	60	1.9	58	94	3	203	37	5	8	48	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997692--997769	15	5.2	15	70	6	59	41	29	12	16	1.86
997693--997769	30	2.6	30	83	4	93	41	28	12	16	1.86
997768--997811	22	2.0	22	90	0	70	31	22	9	36	1.86
998731--998768	20	1.9	20	100	0	76	36	10	28	23	1.88
998932--998996	33	1.9	33	81	9	78	49	4	1	44	1.32
1000961--1001005	16	2.8	16	93	0	72	71	4	11	13	1.29
1003855--1003888	16	2.1	16	88	0	50	55	2	11	29	1.50
1003898--1003926	2	14.5	2	100	0	58	51	0	0	48	1.00
1005371--1005450	40	2.0	40	85	0	106	42	26	12	18	1.86
1010198--1010236	20	2.0	20	90	5	62	20	15	20	43	1.88
1010281--1010326	12	3.6	12	81	16	56	45	17	19	17	1.85
1010287--1010327	12	3.1	13	80	19	57	46	14	17	21	1.84
1012621--1012660	21	1.9	21	94	0	71	30	15	7	47	1.72
1012655--1012753	33	3.0	33	94	1	164	32	7	15	45	1.73
1012989--1013045	21	2.7	21	91	0	96	19	26	26	28	1.99
1013211--1013266	15	3.6	15	79	9	67	32	12	12	42	1.80
1013230--1013263	18	1.9	18	94	5	61	38	11	11	38	1.79
1013357--1013388	16	2.0	17	88	11	50	43	21	21	12	1.86
1024523--1024588	24	2.8	24	86	2	80	27	24	24	24	2.00
1025617--1025683	22	3.0	22	95	2	116	25	28	26	19	1.99
1027361--1027405	21	2.1	21	87	0	63	15	24	28	31	1.96
1030468--1030534	22	3.0	22	95	2	116	25	28	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032219--1032262	20	2.1	21	87	4	63	15	25	27	31	1.96
1033461--1033520	10	5.6	10	83	14	75	56	20	11	11	1.65
1033448--1033542	34	2.8	34	85	3	111	54	18	12	13	1.70
1033468--1033518	24	2.1	24	92	0	84	56	21	11	9	1.63
1033478--1033508	14	2.2	14	94	0	53	58	19	12	9	1.62
1033705--1033773	31	2.2	31	92	0	111	30	24	4	40	1.74
1041667--1041722	23	2.5	23	76	2	60	25	1	3	69	1.14
1041684--1041718	12	3.2	11	88	11	54	17	0	2	80	0.84
1043950--1044025	35	2.2	35	90	4	118	39	21	2	36	1.67
1044422--1044669	130	1.9	130	92	0	415	36	15	12	35	1.85
1044438--1044697	130	2.0	128	81	5	299	40	13	12	33	1.83
1044994--1045056	28	2.3	27	78	8	63	46	1	3	49	1.27
1045129--1045165	15	2.4	16	86	13	51	59	5	2	32	1.34
1052091--1052215	62	2.0	62	100	0	250	36	11	19	32	1.87
1054025--1054069	23	2.0	23	86	0	63	17	48	11	22	1.78
1055925--1055982	22	2.7	22	80	15	77	20	39	13	25	1.90
1056167--1056198	16	2.0	16	100	0	64	25	12	18	43	1.85
1058488--1058560	21	3.5	20	77	7	65	23	34	17	24	1.96
1058478--1058580	42	2.5	42	81	0	116	23	31	18	27	1.97
1058550--1058600	21	2.4	21	80	6	59	27	21	19	31	1.97
1060019--1060082	20	3.2	20	78	8	67	37	17	21	23	1.94
1060093--1060149	29	2.0	29	96	0	105	31	26	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063523--1063651	20	6.5	19	72	14	75	34	13	22	29	1.92
1063544--1063662	40	3.0	40	80	6	141	34	11	22	31	1.90
1063647--1063695	20	2.4	21	86	6	66	36	16	22	24	1.94
1065768--1065829	32	1.9	32	83	0	79	14	19	9	56	1.65
1067541--1067638	10	8.9	11	71	20	55	75	7	16	1	1.07
1067551--1067660	25	4.7	24	69	22	65	74	9	15	0	1.11
1067521--1067672	34	4.3	33	76	10	108	74	8	15	1	1.12
1067511--1067636	43	2.8	42	73	16	103	74	7	15	2	1.15
1067521--1067670	52	2.9	50	80	9	167	74	8	16	1	1.13
1069377--1069447	31	2.3	31	80	9	83	42	14	11	32	1.81
1069459--1069522	30	2.2	29	82	2	74	26	17	14	42	1.87
1069467--1069539	29	2.5	29	84	2	92	24	17	13	43	1.86
1069586--1069956	134	2.8	134	86	2	494	25	31	17	25	1.97
1069877--1069989	40	2.8	40	77	6	120	23	31	19	25	1.98
1070335--1070379	23	2.0	23	90	0	72	15	46	11	26	1.79
1072058--1072114	22	2.8	19	80	14	69	31	19	22	26	1.98
1072069--1072113	22	2.0	22	100	0	90	31	22	22	24	1.99
1072443--1073054	59	10.4	59	81	5	621	35	10	24	29	1.89
1072496--1072594	31	3.3	31	63	13	80	33	11	27	28	1.91
1072434--1072940	236	2.1	236	94	0	888	35	10	24	29	1.88
1072434--1073040	236	2.6	238	87	4	883	35	10	24	29	1.89
1073136--1073355	44	5.0	44	88	0	305	40	6	19	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075366--1075393	13	2.2	13	100	0	56	35	0	21	42	1.53
1078736--1079352	59	10.5	59	82	5	642	35	10	23	30	1.89
1078725--1079233	236	2.2	236	94	0	912	34	10	24	30	1.89
1078727--1079333	236	2.6	237	87	5	892	34	11	24	29	1.90
1079429--1079692	44	6.0	44	91	0	348	39	7	20	32	1.80
1081224--1081258	16	2.1	17	89	5	54	48	5	8	37	1.58
1081284--1081359	2	38.0	2	100	0	152	50	0	0	50	1.00
1081815--1081845	16	1.9	16	93	0	53	6	22	0	70	1.09
1082987--1083019	3	11.3	3	87	6	50	66	0	0	33	0.92
1083176--1083525	111	3.2	111	91	0	565	27	17	26	29	1.97
1083526--1083599	37	2.0	37	91	0	121	22	17	17	41	1.89
1083998--1084109	43	2.6	43	81	5	145	20	16	33	29	1.95
1083705--1084557	335	2.5	335	91	0	1341	22	19	24	32	1.97
1084328--1084443	43	2.7	43	90	0	178	18	18	31	30	1.96
1084718--1084779	32	1.9	32	90	0	97	35	27	8	29	1.85
1085824--1085869	7	6.6	7	80	9	58	0	15	0	84	0.62
1085823--1085869	9	5.3	9	82	12	62	0	14	0	85	0.61
1085838--1085864	11	2.5	11	100	0	54	0	14	0	85	0.61
1085831--1085905	21	3.6	20	77	19	73	4	14	2	78	1.00
1085824--1085883	28	2.1	28	81	6	68	3	15	0	81	0.81
1091839--1091873	16	2.1	17	89	5	54	48	5	8	37	1.58
1091900--1091944	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092436--1092902	21	22.1	21	75	14	369	32	23	20	23	1.98
1092436--1092902	62	7.4	64	81	10	402	32	23	20	23	1.98
1092436--1092799	104	3.4	109	86	8	468	31	24	20	23	1.98
1092911--1093064	21	7.4	21	83	10	199	23	21	25	29	1.99
1092586--1092902	62	5.1	62	88	5	480	32	22	21	23	1.98
1092891--1093064	62	2.8	61	79	14	194	25	20	24	29	1.99
1092870--1093053	83	2.2	83	88	5	266	26	21	24	28	1.99
1092917--1093093	42	4.2	41	78	7	171	24	19	23	32	1.98
1093358--1093495	21	6.6	21	80	9	149	31	23	20	24	1.98
1093379--1093497	62	1.9	62	91	3	195	32	21	20	25	1.97

Tables:   1   2   3   4   5   6   7   8   9