genome.fa.s7838.2.7.7.80.10.50.1000.5.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1485 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)
969250--969327	31	2.4	34	76	20	87	51	0	0	48	1.00
969283--969394	54	2.1	52	80	9	129	47	0	0	50	1.13
969602--969671	20	3.5	20	94	0	113	37	11	10	41	1.75
969654--969740	15	5.9	15	84	2	104	33	18	6	41	1.77
969602--969680	20	4.0	20	89	0	59	36	12	8	41	1.74
969602--969680	40	2.0	40	84	0	104	36	12	8	41	1.74
969670--969735	15	4.4	15	92	0	114	37	19	6	36	1.77
969654--969735	30	2.8	30	92	1	130	35	18	7	39	1.78
979857--979889	2	16.5	2	100	0	66	48	0	0	51	1.00
984720--984763	22	2.0	23	86	4	63	56	2	2	38	1.24
985009--985054	22	2.0	24	87	8	69	56	0	0	43	0.99
985844--985868	2	12.5	2	100	0	50	48	0	52	0	1.00
986750--986802	2	26.5	2	100	0	106	50	0	0	49	1.00
990482--990511	2	15.0	2	100	0	60	50	0	0	50	1.00
997095--997121	14	1.9	14	100	0	54	66	3	7	22	1.33
1003877--1003924	2	22.5	2	87	12	69	47	6	0	45	1.27
1027894--1027922	15	1.9	15	100	0	58	20	20	37	20	1.94
1044969--1045009	21	2.0	21	100	0	82	31	14	9	43	1.78
1047371--1047480	46	2.3	48	73	4	116	48	6	2	42	1.43
1048395--1048446	10	5.1	10	72	4	50	69	0	0	30	0.89
1058666--1058736	24	3.0	24	70	2	63	49	16	9	23	1.76
1063000--1063094	24	4.0	24	74	8	77	49	16	9	24	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066145--1066178	2	17.0	2	100	0	68	50	0	0	50	1.00
1067350--1067387	20	1.9	20	88	0	58	26	18	18	36	1.94
1067395--1067556	64	2.5	62	78	12	157	27	22	17	32	1.96
1080379--1080412	14	2.4	15	90	9	54	67	0	0	32	0.91
1080522--1080617	35	2.7	35	88	0	147	29	18	23	28	1.98
1083609--1083637	3	9.7	3	100	0	58	34	31	34	0	1.58
1089156--1089189	12	2.8	12	95	0	59	76	0	17	5	0.98
1097406--1097465	22	2.7	22	77	12	59	38	1	6	53	1.37
1100345--1100380	2	18.0	2	100	0	72	50	0	0	50	1.00
1100648--1100708	29	2.1	29	96	3	115	45	3	3	47	1.35
1101715--1101739	3	8.3	3	100	0	50	68	0	0	32	0.90
1101846--1101893	20	2.5	20	96	3	89	41	4	4	50	1.41
1104389--1104421	16	2.1	16	94	0	57	45	9	0	45	1.35
1109707--1109735	13	2.3	13	94	5	51	44	31	0	24	1.54
1113998--1114060	27	2.3	27	82	17	78	68	4	7	19	1.33
1123803--1123841	18	2.2	18	86	9	53	43	2	2	51	1.29
1131375--1131399	2	12.5	2	100	0	50	52	0	0	48	1.00
1133550--1133605	23	2.5	23	94	5	98	39	3	12	44	1.60
1133619--1133652	11	2.9	12	82	8	52	55	0	0	44	0.99
1136618--1136658	8	5.2	8	82	5	57	34	0	29	36	1.58
1136726--1137072	122	2.8	124	94	4	603	21	26	20	31	1.98
1138059--1138160	21	4.9	21	91	4	145	20	22	37	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138170--1138217	21	2.3	21	85	0	60	22	12	39	25	1.89
1139677--1139740	33	2.0	33	88	11	98	50	10	9	29	1.69
1141947--1141989	21	2.0	21	82	8	52	53	0	6	39	1.28
1142661--1142700	17	2.5	16	92	8	64	27	5	0	67	1.11
1142657--1142700	15	2.8	16	87	12	65	29	4	0	65	1.12
1147312--1147588	141	2.0	142	97	0	529	28	25	16	29	1.97
1158138--1158180	10	4.1	10	82	11	59	58	23	11	6	1.57
1158158--1158208	16	3.2	16	85	0	75	50	23	15	9	1.73
1158142--1158186	22	2.0	22	100	0	90	55	26	13	4	1.57
1172442--1172506	23	2.8	23	76	4	78	29	24	24	21	1.99
1173353--1173384	2	16.0	2	100	0	64	50	0	0	50	1.00
1173851--1173904	27	2.0	27	100	0	108	18	18	22	40	1.91
1174374--1174548	87	2.0	88	96	3	327	42	17	16	24	1.89
1178501--1178574	30	2.5	29	89	4	112	35	13	32	18	1.90
1184923--1184952	5	6.2	5	96	3	53	36	0	0	63	0.95
1185642--1185666	12	2.1	12	100	0	50	60	8	24	8	1.52
1187767--1187869	51	2.0	51	100	0	206	32	9	23	34	1.87
1191043--1191098	19	2.8	19	81	8	67	25	32	26	16	1.96
1199030--1199155	50	2.5	50	78	7	148	19	34	25	20	1.96
1199275--1199314	10	4.0	10	84	12	55	32	27	0	40	1.57
1199441--1199773	111	3.0	111	95	0	585	36	7	11	45	1.68
1200512--1200542	16	1.9	16	93	0	53	35	3	3	58	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201646--1201693	9	5.3	9	87	0	69	31	18	35	14	1.91
1201646--1201693	18	2.7	18	90	0	78	31	18	35	14	1.91
1206034--1206071	7	5.4	7	100	0	76	57	0	0	42	0.98
1206730--1206803	36	2.1	36	87	5	105	35	1	16	47	1.55
1208562--1208601	2	20.5	2	84	5	55	45	0	2	52	1.14
1215376--1215438	26	2.4	26	97	0	117	34	14	4	46	1.66
1218701--1218805	37	2.8	37	79	0	111	40	14	13	31	1.84
1219214--1219260	2	23.5	2	95	0	85	46	0	0	53	1.00
1219315--1219352	20	1.9	20	88	0	58	26	7	2	63	1.35
1223679--1223711	14	2.4	14	94	0	57	42	18	6	33	1.75
1224022--1224069	9	5.0	9	80	14	60	81	4	14	0	0.84
1224022--1224095	30	2.6	28	85	10	89	79	5	13	1	0.96
1224022--1224082	21	3.1	19	81	13	70	80	4	14	0	0.87
1224025--1224093	20	3.5	20	80	9	61	79	5	13	1	0.97
1225559--1226721	106	11.0	106	88	2	1628	34	24	17	23	1.96
1227452--1227556	37	2.8	37	83	0	129	40	15	13	31	1.85
1228048--1228085	20	1.9	20	88	0	58	26	7	2	63	1.35
1229767--1229822	24	2.3	24	100	0	112	33	10	7	48	1.65
1234505--1234700	20	9.6	20	78	6	144	26	22	20	30	1.98
1234563--1234700	40	3.5	40	84	2	161	29	23	21	25	1.99
1234878--1234921	22	2.0	22	86	0	61	22	36	15	25	1.94
1235313--1235428	20	5.8	20	88	1	135	13	17	21	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237163--1237212	18	2.8	18	93	0	91	34	20	6	40	1.77
1237315--1237374	30	2.0	30	96	0	111	40	15	16	28	1.89
1237430--1237477	20	2.4	20	89	0	69	14	18	27	39	1.90
1237668--1237715	20	2.4	20	89	0	69	35	27	16	20	1.94
1238293--1238334	21	2.2	19	87	12	59	21	35	19	23	1.96
1239776--1239837	14	4.3	14	73	6	52	38	0	12	48	1.42
1239936--1239989	20	2.7	20	73	0	54	46	24	16	12	1.82
1240032--1240236	20	10.9	20	75	12	191	25	17	22	34	1.96
1239992--1240236	34	6.6	40	72	16	159	24	17	22	35	1.96
1239983--1240170	94	2.0	93	84	3	243	23	19	23	33	1.97
1240071--1240228	54	2.9	54	87	0	235	23	16	24	35	1.95
1240207--1240476	140	1.9	140	96	0	495	42	15	13	28	1.84
1242494--1242530	14	2.6	14	91	4	56	5	21	21	51	1.68
1242720--1242773	24	2.2	24	93	0	90	40	20	18	20	1.91
1243595--1243662	20	3.4	20	87	0	91	26	20	25	27	1.99
1243596--1243686	40	2.3	40	82	3	103	26	20	21	30	1.98
1243689--1243745	21	2.7	21	91	0	96	49	17	14	19	1.80
1245065--1245113	21	2.3	21	96	0	89	22	24	16	36	1.94
1253587--1253682	37	2.6	37	91	0	147	35	14	14	35	1.87
1254409--1254441	3	11.0	3	100	0	66	66	0	0	33	0.92
1254862--1254951	37	2.4	37	96	0	162	35	13	13	37	1.84
1255708--1255798	44	2.1	44	95	0	164	26	24	15	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256692--1256864	85	2.0	86	92	7	289	16	34	12	36	1.86
1259686--1259906	112	2.0	112	94	1	390	28	10	19	41	1.85
1272723--1272820	42	2.3	43	82	6	112	50	0	5	44	1.24
1272801--1272835	15	2.4	15	90	4	54	45	0	2	51	1.16
1273989--1274081	40	2.3	42	76	10	102	56	1	1	40	1.13
1274294--1274367	20	3.6	20	74	3	67	56	0	1	41	1.07
1274280--1274371	40	2.2	41	75	11	98	55	0	2	42	1.12
1273827--1274410	291	2.0	289	95	1	1053	39	10	8	41	1.70
1275194--1275230	16	2.3	16	100	0	74	24	5	29	40	1.77
1280231--1280301	35	2.0	35	94	0	124	22	12	26	38	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13