genome.fa.s8242.2.7.7.80.10.50.1000.6.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  6  of  73  ( 8740 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)
1015271--1015338	27	2.5	27	83	4	75	80	1	10	7	0.95
1015296--1015356	20	2.9	20	83	11	61	80	0	14	4	0.87
1015291--1015371	27	3.1	26	80	8	92	79	0	17	3	0.88
1015297--1015336	16	2.6	16	80	4	55	85	0	12	2	0.71
1015297--1015370	13	5.8	12	76	19	62	79	0	16	4	0.87
1015297--1015378	28	3.0	27	81	12	87	79	0	15	4	0.90
1017261--1017386	54	2.4	54	86	5	168	34	10	14	40	1.80
1017263--1017569	53	5.8	51	78	9	215	31	11	14	42	1.81
1017633--1018257	90	7.1	89	87	6	881	26	19	20	33	1.96
1017633--1018257	171	3.6	176	84	9	841	26	19	20	33	1.96
1017904--1018231	81	3.9	81	91	4	487	24	20	21	34	1.97
1018300--1018399	36	2.8	36	86	3	130	28	17	11	44	1.82
1018499--1018546	21	2.3	21	100	0	96	25	27	8	39	1.84
1018470--1018584	57	2.0	57	84	0	149	26	21	12	39	1.89
1018523--1018708	36	5.2	36	74	6	164	30	17	13	38	1.89
1018520--1018853	67	4.9	67	76	9	275	28	19	13	38	1.90
1019245--1019950	91	7.8	90	87	2	1015	36	15	23	24	1.94
1019438--1019501	20	3.2	20	68	27	64	39	12	23	25	1.90
1019258--1019950	182	3.8	182	92	0	1124	36	16	23	24	1.94
1019902--1019970	22	3.4	22	69	19	76	44	17	27	10	1.80
1019892--1019989	39	2.5	39	94	0	178	43	14	24	17	1.86
1019801--1020080	130	2.2	130	94	0	488	39	14	23	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019938--1020107	91	1.9	91	91	0	277	39	15	21	23	1.91
1019710--1020107	221	1.8	221	88	1	609	37	16	22	23	1.93
1024584--1024714	69	1.9	68	95	1	235	25	13	25	35	1.93
1028643--1028683	21	2.0	21	85	9	57	24	12	19	43	1.85
1029073--1029131	22	2.7	22	94	0	100	23	22	27	27	1.99
1031734--1032175	219	2.0	219	96	0	821	33	24	17	24	1.97
1038610--1038635	12	2.2	12	100	0	52	30	26	19	23	1.98
1038890--1038992	35	2.9	35	88	4	145	20	22	20	36	1.95
1038892--1039001	36	3.1	36	86	3	143	19	22	19	39	1.93
1041887--1042091	105	2.0	105	86	7	292	21	24	14	38	1.92
1042319--1043198	411	2.1	409	81	3	1057	28	22	15	34	1.95
1043330--1044164	408	2.1	405	82	4	993	28	23	14	33	1.94
1050410--1050447	3	12.7	3	100	0	76	68	0	0	31	0.90
1064370--1064402	17	1.9	17	100	0	66	48	15	0	36	1.45
1068255--1068287	13	2.6	13	95	4	59	69	0	0	30	0.88
1070220--1070256	15	2.4	16	86	9	58	56	0	0	43	0.99
1078236--1078270	2	17.5	2	100	0	70	0	48	0	51	1.00
1082534--1082609	15	4.8	15	78	10	71	39	5	0	55	1.23
1082542--1082616	33	2.3	33	100	0	150	36	5	0	58	1.21
1082560--1082617	18	3.4	18	76	13	77	32	5	0	62	1.18
1082534--1082616	16	5.1	17	79	15	86	38	4	0	56	1.21
1088529--1088580	9	5.8	9	75	8	52	73	1	7	17	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088964--1088994	2	15.5	2	93	0	53	51	3	0	45	1.17
1090006--1090525	105	5.0	107	86	6	702	21	17	26	34	1.95
1090725--1090800	36	2.1	36	90	0	116	40	15	21	22	1.90
1090816--1090894	39	2.0	39	82	4	97	37	16	16	29	1.91
1090910--1091023	36	3.1	36	68	13	90	38	14	19	27	1.91
1090897--1091064	72	2.3	71	84	7	205	41	13	18	26	1.88
1104197--1104239	20	2.2	20	86	0	59	37	16	11	34	1.85
1108716--1108768	26	2.1	25	83	13	65	73	0	3	22	0.99
1109025--1109059	16	2.1	18	89	10	56	65	2	5	25	1.28
1109625--1109682	26	2.2	27	84	9	75	65	1	1	31	1.13
1109638--1109705	19	3.5	19	76	17	59	69	1	0	29	0.98
1109664--1109732	33	2.0	35	88	5	106	65	2	0	31	1.08
1109661--1109711	19	2.6	20	81	6	68	74	0	0	25	0.82
1109662--1109718	25	2.4	25	82	5	73	73	0	0	26	0.83
1120891--1120950	13	4.2	13	75	19	57	20	43	20	16	1.88
1120887--1120950	31	2.1	31	90	0	101	20	45	18	15	1.86
1120905--1120945	18	2.3	18	86	0	64	21	48	19	9	1.77
1122404--1122461	26	2.2	26	96	0	107	29	17	24	29	1.97
1122404--1122475	26	2.8	26	89	4	92	31	15	25	27	1.95
1123802--1124254	43	10.8	42	89	5	645	16	24	25	33	1.96
1125665--1125696	2	16.5	2	93	6	57	50	0	0	50	1.00
1130290--1130431	23	6.3	23	80	9	166	31	23	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130312--1130452	44	3.2	44	77	11	160	31	25	19	23	1.98
1130252--1130408	67	2.3	69	93	2	273	33	23	18	24	1.97
1131015--1131153	55	2.5	54	80	6	147	29	23	18	28	1.98
1131124--1131174	20	2.5	20	81	6	59	33	29	9	27	1.89
1133715--1133767	25	2.1	25	96	0	97	52	3	3	39	1.37
1134845--1134918	29	2.6	29	93	0	121	35	20	0	44	1.52
1142228--1142383	30	5.1	30	69	11	93	32	21	12	33	1.91
1143970--1143995	13	2.0	13	100	0	52	30	23	23	23	1.99
1148862--1149165	62	5.0	61	78	7	283	27	19	15	37	1.92
1148862--1149144	123	2.3	122	82	4	345	28	19	15	36	1.93
1149297--1149687	36	10.9	36	91	0	604	38	20	23	17	1.94
1149297--1149814	108	4.9	108	84	7	692	37	21	23	17	1.94
1149692--1149814	36	3.4	36	90	6	205	36	21	24	17	1.94
1149598--1149780	93	2.0	93	88	4	271	39	19	25	16	1.91
1152561--1152613	19	2.6	19	76	21	54	60	0	32	7	1.25
1154049--1154081	17	2.0	17	94	5	59	3	12	24	60	1.46
1157661--1157708	20	2.4	20	92	0	78	29	20	25	25	1.99
1158702--1158756	28	2.0	28	96	0	101	30	3	12	52	1.56
1159751--1159860	32	3.4	33	82	7	118	17	10	27	45	1.80
1159854--1159937	16	5.2	16	85	5	116	9	17	28	44	1.80
1159866--1159948	16	5.2	16	81	11	62	7	16	31	44	1.75
1159855--1159955	32	3.2	31	79	8	96	8	16	29	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159935--1159976	22	1.9	22	85	0	57	9	9	26	54	1.63
1159923--1159998	38	2.0	39	82	7	93	7	11	30	50	1.68
1161313--1161375	32	2.0	32	93	0	108	31	12	20	34	1.90
1162294--1162767	54	8.8	54	89	0	671	38	17	11	33	1.85
1163176--1163285	26	4.2	26	98	0	211	31	20	11	35	1.89
1193826--1193882	29	2.0	28	82	3	69	40	5	15	38	1.70
1212769--1212988	45	4.9	45	86	0	287	29	20	10	39	1.87
1212769--1213025	135	1.9	135	83	1	336	29	21	11	38	1.88
1212963--1213113	79	1.9	79	86	2	214	29	23	9	37	1.87
1213517--1213580	22	3.0	21	77	8	67	26	31	14	28	1.95
1214337--1214369	2	16.5	2	100	0	66	48	0	0	51	1.00
1220533--1220583	20	2.5	20	87	0	75	21	33	11	33	1.90
1220572--1220617	18	2.6	18	96	0	83	28	23	17	30	1.97
1223990--1224075	43	2.0	44	83	2	111	33	3	10	52	1.53
1227335--1227374	20	1.9	21	90	10	64	30	10	15	45	1.78
1229120--1229235	37	3.1	37	93	0	187	43	22	8	25	1.81
1229101--1229216	15	6.8	15	66	24	52	42	22	7	27	1.81
1229168--1229235	22	3.4	22	66	26	60	42	20	8	27	1.82
1231447--1231942	55	8.9	55	88	2	672	35	19	11	33	1.88
1235978--1236004	13	2.1	13	100	0	54	66	0	0	33	0.92
1236778--1237037	36	7.2	36	92	3	359	18	28	22	30	1.97
1236780--1237037	108	2.4	107	90	1	401	18	28	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239478--1239517	2	20.0	2	100	0	80	50	0	0	50	1.00
1241637--1241686	22	2.2	23	92	3	84	24	22	24	30	1.99
1243686--1243739	19	2.8	19	80	0	54	22	14	9	53	1.69
1256721--1256770	23	2.2	22	86	10	66	42	2	14	42	1.56
1256958--1257006	21	2.3	22	82	10	66	22	20	20	36	1.95
1256969--1257015	21	2.4	19	80	19	60	25	12	23	38	1.90
1257018--1257086	23	3.1	22	73	6	68	20	15	26	37	1.93
1263440--1263485	19	2.4	18	82	10	56	36	4	15	43	1.66
1263439--1263486	20	2.4	21	75	10	55	37	4	14	43	1.65
1263975--1264011	3	12.3	3	100	0	74	32	0	0	67	0.91

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73