genome.fa.s9623.2.7.7.80.10.50.1000.6.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2083 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)
906743--906780	4	9.8	4	82	5	51	26	0	21	52	1.47
906745--906778	16	2.1	17	94	5	61	23	0	23	52	1.47
914284--914334	3	17.0	3	76	15	52	64	1	1	31	1.15
921123--921154	11	2.9	11	95	0	55	25	12	9	53	1.68
921439--921478	20	2.0	21	90	5	64	37	22	20	20	1.94
923853--924253	200	2.0	200	99	0	793	35	10	9	43	1.72
924878--924917	20	2.0	21	95	5	73	37	20	20	22	1.94
925871--925900	12	2.4	13	94	5	53	23	16	0	60	1.36
926885--926921	20	1.9	20	88	5	58	37	2	8	51	1.46
929016--929082	34	2.0	33	82	2	80	29	19	17	32	1.95
931043--931111	34	2.1	34	94	2	122	47	8	15	27	1.75
937174--937201	9	3.1	9	100	0	56	53	0	10	35	1.36
937855--937922	30	2.3	31	89	7	113	38	14	11	35	1.83
953276--953390	18	6.6	17	72	23	73	73	0	20	6	1.10
953276--953386	26	4.2	26	72	18	88	72	0	19	6	1.11
953291--953384	19	5.3	18	72	16	63	73	1	19	6	1.11
953284--953390	45	2.5	43	76	15	112	72	0	19	6	1.11
954562--954673	37	3.0	37	85	2	136	39	16	20	23	1.92
958015--958098	6	14.0	6	72	14	57	5	14	2	77	1.06
958800--958856	25	2.2	25	81	9	62	47	8	12	31	1.72
959189--959294	39	2.7	39	90	7	155	28	23	26	21	1.99
959189--959533	44	8.1	44	82	6	299	29	22	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959634--959694	24	2.5	24	89	0	95	52	13	16	18	1.75
959634--959697	12	5.3	12	70	20	53	53	12	15	18	1.73
970352--970386	18	1.9	18	94	0	61	28	34	20	17	1.95
970353--970426	22	3.5	22	85	7	102	28	31	25	14	1.95
970972--971133	64	2.5	65	82	10	174	24	20	20	34	1.96
974378--974443	26	2.6	26	95	2	116	60	10	15	13	1.59
976276--976398	65	1.9	65	93	0	210	52	8	14	25	1.69
977227--977255	11	2.7	11	94	5	51	13	17	0	68	1.20
977833--977881	19	2.4	21	87	12	68	26	2	12	59	1.44
977833--977883	20	2.6	19	82	14	59	25	1	13	58	1.46
981854--982206	194	1.8	193	82	1	456	37	12	11	38	1.78
984578--984638	32	1.9	32	86	3	88	16	0	21	62	1.33
984578--984647	32	2.3	30	83	9	81	15	0	21	62	1.32
995646--995723	13	6.0	13	81	0	93	33	16	20	29	1.95
995509--995674	85	2.0	85	86	0	233	29	18	21	30	1.97
997359--997405	5	9.2	5	86	4	58	4	0	40	55	1.19
997796--997827	3	10.7	3	100	0	64	68	0	0	31	0.90
997390--998040	363	1.8	353	94	3	1149	42	11	16	29	1.84
1003786--1004352	111	5.1	111	92	1	861	46	13	15	25	1.82
1003786--1004352	223	2.5	223	90	2	879	46	13	15	25	1.82
1004226--1004678	182	2.5	182	93	1	757	42	12	16	28	1.85
1005287--1005357	23	3.1	23	89	0	106	36	19	8	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007309--1007353	20	2.3	19	85	11	56	64	2	0	33	1.06
1007987--1008025	2	19.5	2	100	0	78	51	0	0	48	1.00
1008505--1008577	24	3.0	24	90	4	76	9	15	26	49	1.74
1008515--1008570	14	4.3	14	82	17	84	7	14	26	51	1.67
1008516--1008577	24	2.6	24	97	0	115	8	12	25	53	1.66
1009609--1009659	16	3.3	15	86	5	68	13	9	15	60	1.58
1010509--1010587	23	3.4	23	96	0	140	40	17	17	24	1.91
1021123--1021161	20	2.0	20	85	10	53	74	0	5	20	1.01
1021118--1021168	19	2.8	19	72	16	54	74	0	3	21	0.98
1023757--1023824	13	5.2	13	87	0	91	30	20	14	33	1.93
1027691--1027734	18	2.4	18	85	7	54	20	34	0	45	1.51
1028289--1028322	13	2.6	13	95	0	59	55	11	0	32	1.36
1028397--1028442	23	2.0	23	91	0	74	23	15	28	32	1.95
1036712--1036761	21	2.3	22	80	19	61	66	0	6	28	1.15
1036721--1036760	21	1.9	21	90	10	64	65	0	5	30	1.14
1044152--1044342	53	3.6	53	89	4	287	20	25	21	31	1.98
1044800--1045030	42	5.5	42	84	2	275	34	22	17	26	1.96
1044800--1045032	84	2.8	84	84	2	306	33	22	17	26	1.96
1044839--1044981	22	6.8	21	66	18	75	32	23	17	26	1.97
1045020--1045044	13	1.9	13	100	0	50	24	20	24	32	1.98
1045007--1045161	77	2.0	78	88	2	233	25	20	18	34	1.96
1059153--1059540	146	2.6	144	85	4	485	29	11	21	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061896--1061955	28	2.1	28	93	0	102	48	13	0	38	1.42
1071893--1071921	11	2.6	11	100	0	58	31	17	13	37	1.89
1071942--1071978	18	2.0	19	94	5	67	48	10	8	32	1.67
1078131--1078179	19	2.6	19	80	0	62	34	22	18	24	1.96
1084139--1084486	173	2.0	175	98	1	682	21	19	16	41	1.90
1087562--1087608	3	16.7	3	78	12	55	61	0	0	38	0.96
1087567--1087608	17	2.5	17	96	0	75	61	0	0	38	0.96
1087886--1088316	134	3.2	132	85	7	577	27	20	18	34	1.96
1089193--1089247	20	2.8	20	81	13	62	10	14	1	72	1.19
1089188--1089260	13	5.6	13	73	22	64	12	15	1	71	1.22
1089188--1089284	7	13.1	7	71	25	67	11	15	2	71	1.24
1089191--1089274	28	2.9	28	82	13	82	11	14	1	72	1.18
1089228--1089259	16	1.9	17	93	6	57	15	12	0	71	1.14
1089199--1089284	23	3.8	23	80	17	83	11	13	2	72	1.22
1100311--1100344	14	2.3	15	90	10	52	52	2	2	41	1.31
1102165--1102216	3	17.7	3	88	4	79	61	0	0	38	0.96
1106633--1106657	13	1.9	13	100	0	50	32	32	0	36	1.58
1106619--1106664	24	1.9	24	90	0	74	30	34	0	34	1.58
1106625--1106664	11	3.5	11	83	12	53	30	35	0	35	1.58
1110079--1110143	24	2.7	24	90	2	94	15	35	16	32	1.91
1117659--1117695	7	5.3	7	96	0	65	45	29	10	13	1.77
1122230--1122427	42	4.7	42	79	5	186	28	14	19	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122230--1122367	43	3.2	42	81	10	147	27	15	19	37	1.92
1122610--1122678	27	2.6	27	90	2	104	42	11	14	31	1.82
1124914--1124948	12	3.0	12	87	4	54	11	14	8	65	1.46
1131048--1131088	21	2.0	21	85	0	55	19	0	53	26	1.45
1131056--1131103	15	3.2	14	82	11	60	22	0	54	22	1.45
1134114--1134238	44	2.8	44	82	2	153	48	22	19	10	1.79
1153815--1153852	20	1.9	20	100	0	76	36	10	28	23	1.88
1154843--1154914	21	3.4	21	82	5	92	37	12	26	23	1.90
1154854--1154915	14	4.4	15	73	18	62	38	11	27	22	1.88
1155046--1155095	21	2.4	21	93	0	82	20	10	28	42	1.84
1155065--1155170	21	4.9	21	64	19	56	20	17	26	34	1.95
1155089--1155137	23	2.1	23	81	7	55	22	20	22	34	1.97
1156160--1156215	16	3.3	17	79	18	55	33	14	12	39	1.83
1156272--1156332	17	3.6	17	73	8	61	34	14	9	40	1.79
1156272--1156342	34	2.1	34	83	0	88	36	14	8	40	1.76
1157367--1157486	64	1.9	63	84	1	159	35	20	17	25	1.95
1158174--1158259	23	3.7	23	80	0	91	23	20	23	32	1.98
1158136--1158249	46	2.5	46	80	5	124	22	22	22	31	1.98
1158300--1158343	21	2.1	21	100	0	88	20	18	22	38	1.93
1164111--1164215	52	2.0	53	98	1	203	42	11	15	30	1.82
1164616--1164738	65	1.9	65	83	9	162	35	21	17	25	1.95
1165377--1165437	23	2.7	23	92	0	104	18	27	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165919--1165958	20	2.0	21	85	14	57	42	5	7	45	1.54
1166187--1166225	19	2.1	19	90	0	60	17	38	15	28	1.91
1166173--1166316	65	2.2	64	83	3	173	29	26	15	27	1.96
1172081--1172136	22	2.7	21	83	10	62	30	23	17	28	1.97
1174493--1174532	20	2.0	21	85	14	57	42	5	7	45	1.54
1174749--1174910	64	2.5	64	84	5	211	30	26	16	27	1.96
1178208--1178254	14	3.3	14	77	13	51	36	29	0	34	1.58
1180470--1180523	17	3.2	17	75	0	54	35	18	5	40	1.74
1185838--1185873	13	2.4	16	82	17	51	36	0	5	58	1.22
1192403--1192448	23	2.0	23	100	0	92	43	13	4	39	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18