genome.fa.s7960.2.7.7.80.10.50.1000.6.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  6  of  39  ( 4646 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)
1002967--1003492	107	4.8	108	80	5	470	31	9	15	42	1.80
1003465--1003514	21	2.4	21	90	3	75	20	8	20	52	1.71
1003486--1003635	53	2.8	55	82	8	191	32	10	17	39	1.84
1003488--1003658	53	3.2	53	82	1	189	31	10	18	39	1.85
1003710--1004048	85	4.0	84	85	3	430	25	26	15	32	1.95
1003710--1004048	170	2.0	170	90	2	529	25	26	15	32	1.95
1005041--1005400	138	2.6	133	86	7	485	37	17	20	25	1.93
1005335--1005398	17	3.3	19	67	20	51	42	10	21	25	1.85
1005041--1005448	138	3.0	137	77	10	408	37	17	19	25	1.94
1007300--1007347	21	2.3	21	82	10	64	22	8	10	58	1.58
1020071--1020111	21	1.9	22	85	14	59	19	21	46	12	1.82
1021221--1021387	75	2.2	75	83	5	196	29	4	13	52	1.61
1021383--1021419	11	3.5	11	79	20	51	32	2	0	64	1.07
1021491--1021518	12	2.3	12	100	0	56	7	50	17	25	1.72
1022712--1022763	23	2.3	23	83	3	61	25	25	7	42	1.81
1024413--1024465	20	2.7	19	85	5	70	69	11	13	5	1.34
1031970--1032010	3	13.7	3	100	0	82	68	0	31	0	0.90
1033542--1033591	18	2.8	18	100	0	100	30	0	46	24	1.53
1034238--1034283	11	4.0	12	77	8	51	71	4	10	13	1.27
1034238--1034280	23	1.9	22	90	4	68	69	4	11	13	1.33
1038579--1038627	17	3.1	16	80	8	57	0	6	12	81	0.86
1038956--1039001	11	4.0	12	77	8	51	71	4	10	13	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038956--1038998	23	1.9	22	90	4	68	69	4	11	13	1.33
1040947--1041016	34	2.1	34	86	5	99	22	30	15	31	1.95
1041336--1041419	21	4.0	21	83	6	109	25	28	25	21	1.99
1041454--1041496	22	1.9	23	90	4	70	20	20	32	25	1.97
1041440--1041538	21	4.8	20	84	13	128	21	20	36	22	1.95
1041618--1041675	30	2.0	29	90	10	91	44	17	5	32	1.70
1041618--1041676	29	2.0	30	93	6	102	44	16	5	33	1.70
1042953--1043000	19	2.5	20	82	3	62	29	12	6	52	1.63
1044360--1044437	20	3.8	20	80	14	86	21	17	35	24	1.95
1044517--1044574	30	2.0	29	90	10	91	44	17	5	32	1.70
1044517--1044575	29	2.0	30	93	6	102	44	16	5	33	1.70
1048639--1048682	22	2.0	22	91	8	72	29	4	15	50	1.64
1052796--1052831	13	2.8	13	86	0	54	44	16	0	38	1.48
1055956--1056011	29	1.9	29	92	0	94	21	12	26	39	1.89
1059023--1059110	3	28.3	3	80	13	81	3	30	0	65	1.09
1063311--1063388	24	3.3	23	83	7	93	24	14	21	39	1.90
1063324--1063398	24	3.1	24	83	5	89	26	12	20	41	1.87
1065488--1065528	13	3.2	13	93	3	66	17	41	24	17	1.89
1068005--1068092	24	3.7	24	90	3	142	22	15	21	39	1.91
1068005--1068102	24	4.1	24	88	5	119	23	14	21	40	1.90
1075733--1075764	3	10.7	3	100	0	64	65	0	0	34	0.93
1078200--1078795	3	203.3	3	90	8	964	67	0	32	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079890--1079948	26	2.2	27	87	3	84	23	11	11	52	1.71
1083903--1083934	2	16.0	2	100	0	64	50	0	0	50	1.00
1088004--1088030	13	2.1	13	100	0	54	70	0	0	29	0.88
1088255--1088279	13	1.9	13	100	0	50	36	0	24	40	1.55
1092067--1092108	21	2.0	21	100	0	84	19	14	9	57	1.64
1096119--1096165	16	2.9	16	100	0	94	38	12	19	29	1.89
1100227--1100314	34	2.6	34	85	3	115	65	13	1	19	1.32
1100940--1100998	23	2.6	23	97	0	109	38	13	25	22	1.90
1103494--1103789	30	10.1	30	75	9	164	38	6	1	53	1.36
1103531--1103801	60	4.7	56	77	13	189	38	5	1	54	1.31
1103688--1103781	24	3.6	26	81	8	95	38	3	1	57	1.22
1103846--1104162	41	7.7	41	85	4	345	26	18	18	35	1.95
1105011--1105038	14	2.0	14	100	0	56	42	28	7	21	1.79
1112569--1112650	29	2.9	26	87	8	92	59	1	4	34	1.26
1112560--1112922	30	12.2	29	79	9	329	54	1	6	37	1.35
1112564--1112927	149	2.5	150	80	8	390	54	1	6	37	1.34
1117036--1117120	35	2.5	35	82	1	100	67	14	1	17	1.30
1117143--1117200	26	2.3	23	81	18	64	65	6	0	27	1.18
1117186--1117218	16	1.9	17	88	11	50	60	3	0	36	1.12
1117156--1117206	26	2.0	26	85	11	70	64	3	0	31	1.11
1121724--1121778	23	2.4	23	90	0	92	27	25	29	18	1.98
1125292--1125331	21	1.9	21	94	0	71	12	25	37	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136031--1136084	15	4.0	14	77	11	51	68	1	0	29	1.00
1137391--1137475	3	29.0	3	83	4	93	61	2	0	36	1.09
1137837--1138405	123	4.7	120	78	12	567	27	18	13	40	1.88
1137957--1138418	236	2.0	235	90	3	723	26	19	14	39	1.90
1138706--1138788	22	3.8	22	91	0	112	38	9	16	34	1.82
1139147--1139254	54	2.0	54	90	0	171	28	24	11	36	1.89
1140129--1140377	75	3.3	75	87	2	347	32	19	16	31	1.95
1140397--1140516	36	3.4	36	71	21	128	33	25	13	27	1.93
1140436--1140552	32	3.6	32	70	21	107	37	20	11	30	1.87
1140402--1140544	68	2.1	68	100	0	286	36	21	13	28	1.91
1141906--1141947	7	6.0	7	81	18	52	57	11	16	14	1.66
1142121--1142207	43	2.0	44	86	2	122	34	22	11	31	1.90
1142593--1142664	36	2.0	36	86	0	99	26	11	20	41	1.86
1144416--1144471	14	3.8	14	79	9	51	64	1	1	32	1.14
1145774--1145891	3	40.0	3	82	3	123	61	1	0	37	1.07
1145783--1145878	33	2.9	33	93	1	156	60	1	0	38	1.04
1150529--1150631	29	3.8	26	81	10	93	58	0	3	36	1.23
1150519--1150879	30	12.2	29	79	10	329	54	1	6	37	1.33
1154847--1154891	22	2.0	22	95	0	81	28	13	35	22	1.92
1155088--1155176	35	2.6	35	87	1	126	67	12	1	19	1.29
1155447--1155479	13	2.5	13	100	0	66	12	33	48	6	1.65
1160666--1160701	17	2.1	17	94	0	63	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165188--1165231	18	2.4	19	85	7	56	59	4	2	34	1.30
1166300--1166330	11	2.8	11	90	0	53	61	0	0	38	0.96
1166300--1166337	17	2.2	17	86	9	51	57	0	0	42	0.98
1166303--1166337	19	1.9	18	88	11	54	57	0	0	42	0.99
1166521--1166617	37	2.6	37	90	1	142	20	15	16	47	1.83
1177582--1177638	3	18.7	3	96	3	105	35	0	0	64	0.93
1177679--1177715	12	3.1	12	92	0	65	13	18	8	59	1.58
1177896--1178273	146	2.6	146	87	1	517	34	20	23	21	1.97
1178327--1178395	28	2.4	28	83	7	77	21	15	4	57	1.55
1180315--1180434	47	2.6	46	91	1	186	31	15	22	30	1.94
1186545--1186717	36	4.8	35	82	5	168	36	21	17	23	1.94
1186545--1186709	72	2.3	72	81	4	190	37	22	16	23	1.94
1187105--1188551	54	27.0	54	84	4	1421	34	18	25	21	1.96
1187105--1188551	163	9.0	163	84	6	1514	34	18	25	21	1.96
1188792--1188878	3	28.7	3	97	2	165	34	0	0	65	0.93
1188919--1188955	12	3.1	12	96	0	65	13	18	8	59	1.58
1189143--1189461	146	2.2	146	90	0	512	33	19	24	22	1.97
1189528--1189596	28	2.4	28	83	7	77	21	15	4	57	1.55
1191090--1191136	25	2.0	21	84	15	58	44	4	4	46	1.42
1191169--1191222	18	2.9	19	83	10	58	59	3	1	35	1.26
1191355--1191383	2	14.5	2	100	0	58	51	0	0	48	1.00
1193655--1193789	20	6.7	20	80	5	155	32	25	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193978--1194021	22	2.0	22	90	0	70	22	45	13	18	1.84
1194299--1194336	20	1.9	20	88	0	58	13	15	21	50	1.78
1195650--1195697	18	2.7	18	90	0	78	27	43	12	16	1.84
1196232--1196298	20	3.4	20	81	2	73	38	23	22	14	1.92
1196287--1196345	14	3.9	14	72	20	55	49	22	16	11	1.78
1196271--1196362	33	2.8	33	94	0	166	47	20	18	13	1.81
1196232--1196367	19	7.6	19	71	17	76	43	22	20	13	1.87
1196379--1196469	14	5.9	14	73	20	74	12	17	21	48	1.80
1196374--1196485	33	3.4	33	96	1	199	12	18	21	47	1.81
1196395--1196485	14	5.4	18	71	24	90	14	18	19	47	1.83

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