genome.fa.s7823.2.7.7.80.10.50.1000.6.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  6  of  33  ( 3920 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)
937538--937568	16	1.9	16	93	0	53	22	3	9	64	1.38
939683--939762	23	3.6	23	77	13	94	25	23	22	28	1.99
939663--939759	44	2.2	44	87	7	135	26	24	20	27	1.99
940003--940063	28	2.2	28	96	0	113	22	6	16	54	1.65
942431--942584	65	2.4	65	84	2	184	31	21	17	29	1.96
952613--952637	13	1.9	13	100	0	50	32	4	8	56	1.47
952736--952785	24	2.0	27	84	11	70	44	12	2	42	1.53
952752--952783	16	2.0	16	93	0	55	43	15	0	40	1.47
952778--952806	15	1.9	15	100	0	58	48	6	3	41	1.47
955720--955748	10	2.9	10	100	0	58	20	31	17	31	1.96
958810--958846	15	2.5	15	100	0	74	5	21	40	32	1.76
961186--961250	33	1.9	34	84	9	89	50	4	1	43	1.32
961776--961835	24	2.5	24	100	0	120	11	35	5	48	1.61
962675--962709	17	2.1	17	94	0	61	5	17	0	77	0.96
970355--970404	21	2.4	21	100	0	100	28	26	20	26	1.99
971101--971153	18	3.0	18	94	2	90	18	20	32	28	1.97
977255--977339	30	2.8	30	79	10	84	40	8	21	30	1.82
979439--979532	45	2.1	44	88	2	134	41	5	20	32	1.75
980455--980555	34	3.0	34	92	0	157	16	15	29	37	1.90
982566--982631	23	3.0	22	78	8	73	66	3	0	30	1.06
982879--982936	23	2.5	23	73	18	57	25	0	5	68	1.10
982890--982950	21	2.8	20	69	13	50	26	0	3	70	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991694--991726	9	3.7	9	100	0	66	54	0	45	0	0.99
992086--992412	162	2.0	163	98	0	638	29	17	17	35	1.93
992588--992621	17	2.0	17	100	0	68	47	5	17	29	1.71
993615--993660	23	2.0	23	83	8	58	21	21	23	32	1.98
1000404--1000450	23	2.0	23	95	0	85	19	27	25	27	1.99
1000404--1000458	23	2.4	23	90	0	74	20	25	23	30	1.98
1005182--1005917	364	2.0	364	94	0	1278	27	18	14	39	1.90
1009527--1009645	31	3.9	31	81	5	143	23	20	21	34	1.97
1009527--1009648	62	2.0	61	87	4	174	23	19	22	34	1.97
1010831--1010881	19	2.6	19	90	3	84	29	29	15	25	1.96
1011790--1011877	37	2.4	37	90	5	151	11	11	39	37	1.77
1012444--1012488	18	2.6	18	86	6	67	28	26	6	37	1.82
1014258--1014290	14	2.3	15	89	5	50	36	0	0	63	0.95
1016707--1016735	2	14.5	2	100	0	58	48	0	0	51	1.00
1020536--1020593	17	2.9	21	78	16	70	53	0	3	43	1.17
1020567--1020616	8	6.2	8	77	9	57	60	0	0	40	0.97
1020585--1020614	15	2.0	15	93	0	51	63	0	0	36	0.95
1020563--1020653	40	2.3	39	79	7	103	53	0	4	41	1.21
1020995--1021295	163	1.8	163	88	2	462	40	18	9	30	1.83
1027211--1027251	20	2.0	21	85	4	57	58	2	2	36	1.24
1028641--1028707	3	22.7	3	90	3	100	61	0	2	35	1.12
1028897--1030052	117	10.1	117	91	4	1797	30	21	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028907--1030057	345	3.3	347	94	3	1913	30	21	13	35	1.91
1030777--1031155	83	4.6	83	93	2	620	36	21	13	28	1.92
1030776--1031155	167	2.3	164	93	2	652	36	21	13	28	1.92
1032271--1032335	11	6.1	10	75	12	58	1	20	0	78	0.83
1032272--1032323	17	2.9	17	83	13	68	1	17	0	80	0.80
1032273--1032334	17	3.5	17	79	14	63	1	17	0	80	0.79
1032271--1032335	28	2.4	27	85	12	89	1	20	0	78	0.83
1032271--1032335	14	5.1	13	75	16	64	1	20	0	78	0.83
1042131--1042174	17	2.6	17	75	13	54	61	2	2	34	1.21
1042624--1042673	18	2.9	17	77	14	57	72	2	0	26	0.96
1044232--1044262	16	1.9	16	93	0	53	0	16	3	80	0.83
1044751--1044823	3	24.7	3	94	2	130	64	0	0	35	0.94
1046263--1046333	2	36.5	2	94	5	128	49	0	0	50	1.00
1048264--1048345	25	3.1	26	85	7	96	32	20	19	26	1.97
1048284--1048360	25	3.2	25	89	7	108	31	23	19	25	1.98
1049890--1050031	71	2.0	71	100	0	284	42	14	7	36	1.72
1050043--1050132	45	2.0	45	100	0	180	28	26	17	26	1.98
1050167--1050253	31	2.7	33	85	7	126	26	28	26	18	1.98
1050167--1050250	32	2.7	30	87	5	114	25	28	27	19	1.98
1050563--1050647	32	2.7	32	79	3	91	28	28	25	17	1.98
1054835--1054908	2	37.0	2	97	0	139	50	1	0	48	1.09
1056984--1057036	27	2.0	27	84	0	70	35	7	24	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057098--1057231	36	3.5	38	87	6	159	45	9	14	29	1.77
1057132--1057231	36	2.8	36	93	0	173	48	10	14	28	1.75
1066116--1066153	20	1.9	20	94	0	67	18	15	34	31	1.92
1072701--1072743	20	2.2	20	83	8	52	37	4	2	55	1.33
1074407--1074450	21	2.1	21	87	8	63	9	20	11	59	1.59
1074407--1074442	11	3.4	11	96	3	65	8	25	8	58	1.55
1074723--1074813	45	2.0	46	93	2	157	26	19	26	27	1.99
1080496--1080637	58	2.4	57	87	4	194	14	18	19	47	1.83
1081490--1081533	21	2.1	21	82	0	52	40	15	6	36	1.74
1082571--1082611	13	3.2	13	86	6	57	43	0	2	53	1.13
1086452--1086521	30	2.4	29	90	4	106	44	1	2	51	1.25
1086452--1086521	15	4.8	15	78	7	90	44	1	2	51	1.25
1088407--1088440	13	2.7	12	86	13	50	61	0	2	35	1.11
1088408--1088473	14	4.8	13	82	14	62	59	0	3	37	1.13
1089715--1089747	17	1.9	17	93	0	57	60	0	3	36	1.12
1098970--1099002	17	2.1	16	88	11	50	42	3	0	54	1.15
1100487--1100525	11	3.6	11	83	16	55	35	0	0	64	0.94
1100552--1100635	11	8.5	10	67	21	52	44	1	1	53	1.16
1100563--1100657	50	1.9	50	81	12	115	43	2	3	51	1.29
1100947--1101027	29	2.7	30	80	1	92	38	8	8	44	1.66
1100947--1101032	30	2.9	29	80	1	100	36	8	8	47	1.63
1102887--1102923	15	2.5	15	90	0	56	8	16	67	8	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109587--1109674	28	3.1	28	95	0	158	38	13	12	35	1.83
1111761--1111791	12	2.7	12	95	5	55	29	41	0	29	1.56
1122155--1122274	63	1.9	62	81	9	147	40	5	7	47	1.54
1123846--1123901	26	2.1	27	83	3	69	46	3	0	50	1.19
1123994--1124039	24	1.9	25	83	16	62	52	2	0	45	1.13
1124520--1124567	19	2.5	19	100	0	96	12	12	6	68	1.37
1124663--1124705	14	2.7	15	82	17	52	41	9	2	46	1.48
1130592--1130800	2	109.0	2	67	18	79	43	5	5	45	1.50
1130574--1130650	19	3.9	19	77	9	75	40	7	1	50	1.39
1130574--1130650	21	3.9	21	76	10	81	40	7	1	50	1.39
1130663--1130742	40	2.0	41	87	2	117	45	6	5	43	1.51
1130733--1130769	19	1.9	19	94	0	65	45	8	8	37	1.63
1130811--1130874	20	3.2	21	80	13	71	45	3	9	42	1.52
1130811--1130893	39	2.1	40	84	2	105	42	2	9	45	1.50
1130820--1130874	19	2.8	20	81	13	69	47	1	9	41	1.46
1131033--1131170	71	2.0	70	89	1	213	33	9	6	50	1.60
1138510--1138604	49	1.9	49	81	8	113	65	5	5	24	1.34
1140703--1140742	17	2.4	17	91	0	62	65	2	5	27	1.27
1141189--1141337	73	2.0	74	91	5	241	47	14	14	23	1.81
1143131--1143334	103	2.0	97	83	5	246	39	27	9	22	1.86
1148266--1148325	26	2.3	26	97	0	111	51	18	13	16	1.76
1149636--1149678	14	3.1	14	96	0	77	34	13	39	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149886--1149930	21	2.1	21	100	0	90	24	40	13	22	1.90
1157371--1157396	12	2.2	12	100	0	52	42	7	15	34	1.75
1160150--1160175	3	8.7	3	100	0	52	0	34	34	30	1.58
1162708--1162836	29	4.4	29	80	3	143	38	20	21	18	1.93
1162708--1162842	58	2.3	58	83	2	173	39	20	22	17	1.93
1166429--1166557	29	4.5	29	80	2	118	41	16	20	21	1.90
1166448--1166557	58	1.9	58	84	1	150	39	15	22	22	1.92
1174335--1174374	21	1.9	21	84	0	53	40	5	2	52	1.37
1179654--1179743	44	2.0	44	100	0	180	31	15	15	37	1.89
1179669--1179739	22	3.2	22	63	21	58	28	18	16	36	1.93

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