genome.fa.s8463.2.7.7.80.10.50.1000.7.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: VEPZ01008463.1 Hibiscus syriacus cultivar Beakdansim tig00111276_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1833679

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

This is table  7  of  11  ( 1213 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)
1092870--1092941	20	4.0	19	72	20	82	9	22	18	50	1.76
1092857--1092936	33	2.4	34	87	2	117	8	21	21	48	1.76
1094982--1095043	20	3.2	20	88	4	99	50	17	20	11	1.77
1094980--1095072	19	5.1	19	80	15	115	47	19	22	10	1.80
1095068--1095160	33	2.8	33	83	1	105	10	18	25	45	1.82
1095132--1095180	20	2.5	20	86	0	71	16	14	22	46	1.82
1095733--1095847	20	5.8	20	89	4	162	22	20	20	36	1.95
1095733--1095847	61	1.9	59	85	7	160	22	20	20	36	1.95
1095996--1096052	27	2.2	26	84	6	71	24	10	35	29	1.89
1096267--1096423	20	7.8	20	81	5	190	26	21	14	37	1.92
1096265--1096423	61	2.6	61	90	0	237	26	21	14	37	1.92
1096267--1096423	41	3.9	40	84	4	199	26	21	14	37	1.92
1096627--1096838	27	8.0	26	73	17	127	42	6	4	47	1.48
1096628--1096743	20	5.9	19	70	12	92	44	6	3	45	1.45
1096628--1096745	2	56.0	2	69	21	64	44	5	3	45	1.44
1096697--1096824	25	5.2	25	73	14	95	42	6	5	46	1.52
1096801--1096841	15	2.9	14	89	7	64	41	2	2	53	1.27
1097496--1097530	15	2.3	15	100	0	70	40	5	28	25	1.78
1097693--1097757	29	2.2	29	100	0	130	16	35	40	7	1.78
1097693--1097771	29	2.7	29	90	3	97	15	36	37	10	1.81
1101086--1101121	18	2.0	18	88	0	54	44	16	0	38	1.48
1105080--1105521	132	3.3	135	79	9	451	36	30	18	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106795--1106820	2	13.0	2	100	0	52	50	0	0	50	1.00
1107432--1107766	108	3.3	100	72	11	313	39	31	12	16	1.86
1110848--1110873	5	5.2	5	100	0	52	0	19	57	23	1.40
1111528--1111610	18	4.7	18	96	1	150	27	32	7	32	1.84
1111950--1112016	20	3.3	20	83	4	89	37	23	11	26	1.90
1112007--1112055	20	2.5	20	89	0	71	44	22	16	16	1.86
1112629--1112673	14	3.1	14	87	6	72	4	15	26	53	1.61
1112629--1112673	15	3.1	14	90	3	63	4	15	26	53	1.61
1113368--1113419	21	2.5	21	96	0	95	34	11	23	30	1.90
1114097--1114146	21	2.4	21	80	6	57	22	10	36	32	1.87
1114488--1114606	21	5.6	22	83	8	131	21	38	16	22	1.93
1114488--1114606	42	2.8	41	88	5	157	21	38	16	22	1.93
1116793--1116829	18	2.1	18	94	0	65	16	2	24	56	1.53
1119266--1119299	12	2.8	12	90	0	50	14	0	29	55	1.40
1120096--1120134	20	2.0	19	85	5	51	41	12	15	30	1.85
1120160--1120217	20	2.9	20	82	5	64	37	8	27	25	1.85
1120170--1120292	40	3.2	40	79	14	105	32	10	30	26	1.90
1120211--1120286	36	2.1	36	97	2	145	31	11	28	27	1.92
1120277--1120360	42	2.0	42	84	9	109	26	11	30	30	1.92
1120298--1120361	20	3.1	20	82	6	74	28	10	31	29	1.91
1122782--1122836	22	2.5	22	90	0	92	38	20	7	34	1.80
1127072--1127109	19	2.0	19	85	10	51	36	0	7	55	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127685--1127715	2	15.5	2	100	0	62	51	0	0	48	1.00
1128039--1128428	183	2.1	187	91	3	630	42	3	8	45	1.50
1130453--1130569	23	5.2	23	91	2	175	25	17	26	29	1.98
1132092--1132148	21	2.7	21	81	10	62	47	26	0	26	1.52
1132727--1132793	33	2.0	34	94	2	118	41	13	11	32	1.81
1133613--1133649	13	2.7	14	84	15	51	29	2	0	67	1.04
1134987--1135018	6	5.7	6	89	10	50	50	0	0	50	1.00
1136581--1136695	32	3.6	31	81	5	131	22	13	23	40	1.89
1136921--1136969	16	3.0	16	81	3	53	8	16	28	46	1.75
1140538--1140577	18	2.2	18	90	0	62	22	30	22	25	1.99
1144548--1144584	12	2.9	13	84	15	51	62	5	2	29	1.31
1149987--1150056	34	2.1	32	89	5	104	21	31	15	31	1.95
1150271--1150310	21	1.9	21	85	10	55	15	10	37	37	1.80
1150338--1150380	21	2.0	21	95	0	77	27	27	20	23	1.99
1150416--1150455	21	1.9	21	100	0	80	15	27	45	12	1.82
1150663--1150722	29	2.0	31	93	6	106	43	16	6	33	1.74
1152597--1152655	23	2.7	23	78	5	68	33	27	20	18	1.96
1152679--1152712	14	2.4	14	95	0	59	29	35	17	17	1.93
1157316--1157360	7	6.6	7	84	5	56	24	26	17	31	1.97
1157316--1157360	21	2.2	20	88	4	63	24	26	17	31	1.97
1158343--1158389	20	2.3	20	78	7	51	25	25	10	38	1.88
1162712--1162762	19	2.7	19	96	0	93	29	9	33	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163231--1163270	20	2.0	20	95	0	71	50	2	35	12	1.54
1180653--1180702	22	2.3	23	83	10	61	44	0	0	56	0.99
1180636--1180698	23	2.6	25	80	14	78	49	0	0	50	1.00
1180646--1180704	23	2.6	22	84	7	66	42	0	0	57	0.98
1180665--1180714	22	2.4	22	83	12	61	38	2	0	60	1.09
1180909--1180961	24	2.2	24	83	10	63	45	3	1	49	1.31
1184321--1184398	20	3.7	20	89	6	111	25	21	20	32	1.98
1187637--1187710	29	2.6	29	84	4	87	47	4	10	37	1.58
1187718--1187792	27	2.8	27	78	8	80	46	9	8	36	1.65
1187943--1187992	22	2.3	22	92	0	82	32	12	38	18	1.87
1187943--1188002	22	2.7	22	86	0	75	28	16	38	16	1.91
1189504--1189663	43	3.7	41	78	11	142	31	20	20	28	1.97
1189563--1189676	43	2.7	43	77	0	120	32	18	18	30	1.95
1189712--1189871	44	3.7	43	85	3	198	27	15	26	30	1.96
1189712--1189873	88	1.9	86	87	5	236	27	16	27	29	1.97
1194372--1194515	71	2.0	71	100	0	288	31	12	0	55	1.37
1195431--1195527	42	2.3	42	89	1	142	30	16	18	34	1.93
1197034--1197253	41	5.3	42	70	12	143	34	23	14	28	1.93
1197033--1197243	82	2.6	82	84	5	257	34	22	13	29	1.93
1197106--1197249	42	3.5	42	69	10	116	31	22	15	29	1.95
1198660--1198687	4	7.0	4	100	0	56	0	25	0	75	0.81
1199006--1199167	41	4.0	41	78	1	146	29	13	14	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205623--1205702	40	2.0	40	82	0	97	21	16	18	43	1.88
1206005--1206042	17	2.2	18	90	4	60	60	2	18	18	1.48
1206443--1206475	3	11.0	3	87	12	50	63	0	3	33	1.10
1210183--1210229	12	3.8	12	76	15	51	25	0	2	72	0.96
1210186--1210226	12	3.1	14	83	10	52	24	0	2	73	0.96
1211666--1211725	25	2.5	23	78	19	61	30	1	3	65	1.19
1212560--1212596	16	2.3	16	95	0	65	24	2	0	72	0.97
1212561--1212623	23	2.9	22	76	21	69	25	1	0	73	0.93
1214216--1214258	21	2.0	21	86	0	59	18	11	9	60	1.57
1216790--1216831	17	2.4	18	92	4	68	78	0	21	0	0.75
1216798--1216875	10	7.4	10	80	11	84	82	1	15	1	0.81
1216808--1216875	33	2.1	32	86	8	93	83	1	13	1	0.78
1216809--1216872	22	3.0	22	82	8	78	82	1	14	1	0.81
1221299--1221460	54	3.0	54	94	0	279	36	16	24	22	1.94
1221821--1221899	22	3.6	22	87	0	104	32	16	12	37	1.86
1222317--1222743	113	3.9	111	87	5	564	36	15	19	27	1.93
1223177--1223223	12	3.8	12	76	15	51	25	0	2	72	0.96
1223180--1223220	12	3.1	14	83	10	52	24	0	2	73	0.96
1224661--1224720	25	2.5	23	78	19	61	30	1	3	65	1.19
1227577--1227626	26	1.9	26	91	0	82	26	22	10	42	1.84
1229280--1229317	19	2.1	19	85	5	51	39	5	0	55	1.23
1229489--1229528	16	2.5	16	88	8	55	10	12	27	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234521--1234553	16	2.1	16	94	0	57	27	0	0	72	0.85
1235591--1235666	36	2.1	36	85	7	100	47	1	3	47	1.29
1235812--1235849	20	1.9	20	88	0	58	21	26	10	42	1.85
1237778--1237859	19	4.4	19	69	21	57	50	0	1	48	1.08
1240033--1240074	21	2.0	21	81	9	50	16	9	4	69	1.33
1241114--1241170	28	2.0	28	90	6	89	50	1	0	47	1.11
1241634--1241676	19	2.3	18	80	15	52	32	2	6	58	1.38
1242111--1242182	31	2.3	31	90	4	110	30	8	11	50	1.67
1242162--1242660	246	2.0	246	96	0	908	32	14	13	39	1.86
1244832--1244903	20	3.8	20	74	20	75	22	30	19	27	1.98

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