genome.fa.s8094.2.7.7.80.10.50.1000.6.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   38   39   40   41   42   43   

This is table  6  of  43  ( 5090 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)
1004658--1004695	20	1.9	20	88	0	58	26	36	26	10	1.89
1006604--1006637	17	2.0	17	88	0	50	14	0	32	52	1.42
1018128--1018170	20	2.2	20	84	12	54	20	18	0	60	1.36
1026104--1026152	19	2.5	20	83	3	64	16	16	0	67	1.24
1026091--1026159	26	2.7	26	82	8	70	14	17	0	68	1.22
1029967--1030001	9	3.7	9	92	7	52	11	5	0	82	0.82
1031312--1031346	9	3.7	9	92	7	52	82	0	5	11	0.82
1044449--1044553	53	2.0	53	84	3	140	40	6	7	44	1.59
1050537--1052156	8	203.0	8	67	3	300	22	18	17	41	1.90
1051832--1051899	31	2.2	32	89	2	102	22	20	17	39	1.92
1051858--1052259	24	16.8	24	71	7	84	25	18	15	41	1.89
1052246--1052325	8	10.0	8	72	5	54	28	10	18	42	1.83
1052255--1052324	32	2.2	33	79	7	81	30	10	15	44	1.79
1052241--1052325	24	3.5	24	69	6	64	29	10	17	42	1.83
1052840--1052868	14	2.0	15	93	6	51	24	0	0	75	0.80
1059056--1059159	10	10.8	9	71	13	73	16	26	28	27	1.97
1059056--1059114	20	2.9	21	85	7	86	18	27	23	30	1.98
1059077--1059165	10	9.3	10	72	25	77	14	29	30	25	1.95
1059077--1059163	19	4.6	20	90	7	112	14	27	31	26	1.95
1059107--1059165	9	6.3	9	82	7	73	13	28	32	25	1.94
1059161--1059214	17	3.2	17	100	0	108	18	44	24	12	1.85
1059206--1059236	7	4.4	7	91	0	53	16	25	29	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066188--1066246	20	2.9	21	85	7	86	18	27	23	30	1.98
1066209--1066278	10	7.3	10	72	24	62	14	30	30	25	1.95
1066189--1066253	30	2.2	29	86	13	89	16	27	26	29	1.97
1066209--1066276	19	3.5	20	86	9	81	14	27	30	26	1.95
1066239--1066278	9	4.3	9	84	6	53	12	30	32	25	1.92
1066275--1066327	5	9.8	5	76	15	52	18	50	22	7	1.72
1066274--1066334	17	3.3	17	79	20	77	18	47	22	11	1.80
1066275--1066341	22	3.0	22	93	4	107	17	46	23	11	1.82
1066324--1066350	7	3.9	7	100	0	54	14	29	29	25	1.95
1071935--1071978	23	1.9	23	86	9	63	56	0	4	38	1.20
1073159--1073198	20	2.0	20	90	9	64	35	0	0	65	0.93
1073154--1073200	23	2.0	24	88	12	71	34	0	2	63	1.06
1075387--1075428	10	4.1	10	87	6	66	28	0	0	71	0.86
1075398--1075449	20	2.5	20	87	3	68	28	1	1	67	1.12
1075378--1075450	31	2.3	31	84	11	87	27	2	1	68	1.11
1085083--1085232	54	2.9	54	80	5	148	38	15	23	22	1.92
1085563--1085614	19	2.5	21	81	15	72	36	7	15	40	1.76
1086285--1086330	20	2.3	20	96	0	83	47	13	23	15	1.80
1086172--1086443	133	2.0	133	91	1	438	38	14	20	26	1.91
1086017--1087484	113	12.9	110	82	9	1190	38	14	19	28	1.91
1086305--1087488	339	3.5	335	83	7	1342	38	14	19	28	1.90
1087064--1087248	100	1.8	102	91	3	311	40	12	21	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087183--1087408	123	1.8	123	94	0	398	40	13	19	26	1.89
1087309--1087511	106	1.9	108	81	7	252	40	12	17	29	1.86
1087694--1087737	3	14.3	3	81	13	54	36	0	2	61	1.09
1089302--1089342	21	2.0	21	90	0	64	48	2	0	48	1.14
1091990--1092142	41	3.7	41	77	11	127	36	18	18	25	1.94
1092013--1092107	41	2.3	41	87	0	145	40	18	17	23	1.92
1092184--1092379	41	4.8	43	85	7	257	33	14	19	32	1.92
1093055--1093157	41	2.5	42	81	6	113	28	14	23	33	1.94
1096035--1096089	21	2.6	21	77	11	67	41	18	38	1	1.61
1096066--1096178	21	5.4	21	77	4	102	45	19	32	2	1.64
1097526--1097560	15	2.3	15	100	0	70	5	68	20	5	1.31
1106132--1106197	28	2.5	26	78	12	71	69	0	1	28	0.97
1106124--1106175	24	2.2	24	82	6	61	67	0	1	30	1.02
1106112--1106192	14	5.6	14	72	16	58	69	0	1	29	0.97
1106972--1107006	13	2.6	13	90	4	52	77	0	0	22	0.78
1110917--1110949	15	2.2	15	94	0	57	3	33	30	33	1.73
1110945--1110982	6	6.3	6	87	0	58	2	18	47	31	1.62
1111078--1111222	21	7.0	19	66	17	83	37	20	18	23	1.94
1111142--1111297	21	7.6	21	68	13	101	37	23	19	19	1.94
1111075--1111291	42	5.3	42	87	3	291	37	22	18	21	1.94
1111306--1111355	21	2.4	21	82	0	64	24	22	24	30	1.99
1130271--1130298	14	2.0	14	100	0	56	42	0	14	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131739--1131788	19	2.6	20	84	6	59	26	28	18	28	1.98
1134583--1134623	19	2.1	20	82	13	50	43	2	7	46	1.44
1150258--1150300	18	2.5	17	80	3	50	39	4	18	37	1.72
1150711--1150781	35	2.1	35	97	2	135	35	0	35	29	1.58
1153619--1153676	20	2.7	20	86	10	71	29	18	24	27	1.98
1154365--1154430	27	2.4	27	87	0	96	31	15	24	28	1.95
1157637--1157694	20	2.7	20	86	10	71	29	18	24	27	1.98
1158575--1158600	8	3.2	8	100	0	52	38	0	11	50	1.39
1160965--1161045	29	2.7	29	92	3	126	11	33	0	55	1.35
1164777--1164810	14	2.4	14	95	0	59	70	0	0	29	0.87
1171103--1171145	15	2.8	15	85	3	50	34	0	4	60	1.17
1171768--1171883	4	29.8	4	71	11	89	27	1	3	67	1.17
1171762--1171880	18	6.2	20	78	11	106	28	1	3	66	1.17
1171793--1171883	34	2.9	29	83	11	92	28	1	3	67	1.14
1172324--1172353	14	2.1	15	93	6	53	30	0	0	70	0.88
1174075--1174125	18	2.8	18	96	0	93	43	1	1	52	1.23
1176496--1176537	15	2.9	15	89	3	59	52	4	0	42	1.22
1178124--1178174	25	2.1	25	85	10	70	37	1	3	56	1.29
1178322--1178390	21	3.2	21	79	8	68	52	1	0	46	1.09
1178877--1178901	10	2.5	10	100	0	50	76	0	8	16	1.02
1182398--1182435	18	2.1	18	90	0	58	28	0	0	71	0.87
1182414--1182447	12	2.9	12	86	4	52	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187181--1187249	24	2.7	27	82	12	67	50	1	4	43	1.30
1187339--1187384	23	2.0	23	82	0	56	52	0	4	43	1.21
1194194--1194579	132	2.9	132	94	0	682	39	18	12	28	1.88
1195305--1195331	14	1.9	14	100	0	54	18	7	7	66	1.40
1195492--1195522	14	2.2	14	94	0	53	3	6	25	64	1.33
1195496--1195549	24	2.2	24	90	0	90	7	5	22	64	1.40
1203464--1203525	21	3.0	21	92	0	97	25	24	22	27	2.00
1206446--1206485	22	1.9	21	90	10	64	12	22	42	22	1.87
1208564--1208645	21	3.8	20	75	13	65	20	23	31	24	1.98
1215075--1215113	22	1.9	20	85	15	53	15	23	38	23	1.92
1218582--1218622	8	5.2	8	82	5	57	34	0	29	36	1.58
1219000--1219107	34	3.1	34	83	10	139	37	3	4	54	1.39
1219615--1219687	21	3.5	21	81	7	94	21	27	31	19	1.97
1221089--1221119	16	1.9	16	93	0	53	58	3	0	38	1.15
1221364--1221463	51	2.0	51	80	7	114	21	33	29	17	1.95
1222515--1222568	22	2.5	21	88	5	81	24	25	16	33	1.96
1222555--1222603	20	2.5	20	96	0	89	36	20	18	24	1.94
1223494--1223547	24	2.2	24	90	0	81	22	18	18	40	1.91
1226018--1226110	20	4.7	19	72	13	71	37	23	17	21	1.94
1226084--1226148	19	3.7	18	69	23	57	44	20	24	10	1.83
1226158--1226222	33	2.0	33	90	0	103	10	18	23	47	1.79
1226340--1226376	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227764--1227843	42	1.9	42	84	0	106	23	17	36	22	1.95
1228268--1228328	19	3.5	19	74	21	78	44	22	22	9	1.82
1228268--1228362	33	2.8	33	90	1	136	46	24	20	9	1.80
1228411--1228467	19	2.9	19	92	5	96	10	22	17	49	1.77
1228404--1228465	20	3.2	20	90	4	108	11	22	16	50	1.76
1228556--1228929	94	4.1	94	93	3	602	47	18	12	21	1.81
1230596--1230708	33	3.1	38	75	17	121	45	18	23	12	1.84
1230596--1230708	19	6.1	19	78	13	119	45	18	23	12	1.84
1231035--1231086	27	2.0	26	88	7	79	21	11	34	32	1.89
1231311--1231401	20	4.5	20	81	2	119	19	19	18	41	1.90

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   38   39   40   41   42   43