genome.fa.s7819.2.7.7.80.10.50.1000.6.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

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

This is table  6  of  17  ( 2007 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)
1068290--1068608	130	2.5	129	77	9	318	31	14	12	41	1.83
1068488--1069017	197	2.7	196	80	7	515	33	13	13	39	1.84
1068981--1069038	21	2.8	21	91	0	89	20	15	20	43	1.88
1068784--1069502	218	3.3	219	89	2	1069	32	15	14	38	1.87
1069199--1069252	21	2.6	21	93	0	90	27	12	11	48	1.76
1069424--1069469	20	2.3	21	85	10	62	32	10	10	45	1.74
1070075--1070113	21	1.9	20	89	5	60	41	10	10	38	1.73
1070276--1070319	21	2.1	22	87	8	65	43	9	9	38	1.68
1069501--1070422	201	4.6	199	82	4	1066	35	11	12	40	1.80
1069501--1070422	398	2.3	402	82	6	1120	35	11	12	40	1.80
1071671--1071710	21	2.0	21	95	5	73	42	10	10	37	1.72
1071426--1072233	201	4.0	201	85	3	1036	32	12	12	42	1.80
1071426--1072212	403	2.0	402	86	1	1110	32	12	12	42	1.80
1073032--1073121	43	2.1	43	91	0	144	50	5	21	23	1.70
1073384--1073414	2	15.5	2	100	0	62	51	0	0	48	1.00
1073510--1073541	2	16.0	2	100	0	64	50	0	0	50	1.00
1077936--1077993	29	2.0	29	90	6	91	32	3	10	53	1.52
1081406--1081453	21	2.3	20	72	10	51	39	10	8	41	1.69
1081377--1081823	121	3.7	121	83	4	492	37	13	10	37	1.81
1081377--1081823	242	1.8	243	81	5	564	37	13	10	37	1.81
1082430--1082492	26	2.4	26	81	0	72	33	7	17	41	1.79
1094375--1094471	33	3.0	33	83	4	108	38	23	10	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094400--1094471	33	2.1	34	89	2	110	38	23	8	29	1.84
1099848--1100142	36	8.6	34	73	18	175	46	4	6	43	1.47
1099885--1100142	38	7.5	34	72	20	118	47	4	5	43	1.44
1100174--1100202	14	2.0	15	93	6	51	10	6	0	82	0.83
1104743--1104811	31	2.2	31	89	2	102	49	14	5	30	1.67
1104753--1104819	31	2.2	31	100	0	134	46	14	5	32	1.69
1106326--1106400	29	2.4	30	84	13	98	40	8	18	33	1.80
1106341--1106400	29	2.0	29	93	3	102	38	8	18	35	1.81
1106349--1106400	15	3.5	15	81	5	70	40	7	17	34	1.78
1106734--1106796	23	2.7	23	80	5	63	46	1	1	50	1.20
1106772--1106882	19	5.6	20	69	14	70	47	1	0	50	1.11
1106781--1106843	27	2.3	26	81	10	72	42	1	0	55	1.09
1106865--1106922	17	3.2	17	77	22	64	43	0	1	55	1.10
1107106--1107211	42	2.5	42	93	1	178	47	17	16	17	1.83
1107262--1107310	21	2.3	22	86	10	66	46	4	2	46	1.33
1108736--1108787	19	2.7	19	100	0	104	25	17	26	30	1.97
1110259--1110290	13	2.3	15	89	10	50	31	3	25	40	1.71
1110339--1110364	12	2.2	12	100	0	52	42	7	0	50	1.31
1113526--1113573	22	2.2	23	88	7	73	54	2	12	31	1.49
1114753--1114787	11	3.1	11	88	8	52	45	14	0	40	1.45
1117818--1117860	6	7.2	6	79	10	52	16	37	2	44	1.60
1118771--1119003	71	3.3	70	78	10	242	30	20	10	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118815--1119001	34	5.3	34	70	14	128	28	20	11	40	1.87
1118771--1119036	142	1.9	143	83	7	353	30	21	10	37	1.87
1120237--1120299	28	2.2	28	100	0	126	25	11	22	41	1.86
1122211--1122260	2	26.0	2	82	15	52	42	0	2	56	1.11
1122264--1122333	17	4.0	17	71	14	54	38	1	10	50	1.45
1122263--1122313	16	2.9	18	71	14	52	41	0	11	47	1.40
1122322--1122398	2	38.5	2	90	5	102	51	0	1	46	1.09
1122426--1122451	13	2.0	13	100	0	52	30	0	15	53	1.42
1122461--1122514	12	4.5	12	82	11	58	37	0	0	62	0.95
1122462--1122509	25	2.0	24	84	12	62	39	0	0	60	0.97
1126057--1126114	30	1.9	30	92	0	98	25	12	12	50	1.74
1132200--1132284	34	2.5	34	98	0	161	40	0	0	60	0.97
1135133--1135208	38	2.1	36	87	9	109	46	1	0	52	1.08
1136487--1136530	12	3.8	12	78	6	54	29	4	2	63	1.26
1138103--1138204	35	3.0	33	81	9	116	48	27	7	16	1.74
1138533--1138634	32	3.2	32	91	0	159	31	14	22	31	1.94
1138742--1138864	34	3.7	33	87	3	165	30	20	12	36	1.89
1139162--1139281	40	3.1	40	66	22	119	28	19	11	40	1.86
1139130--1139244	36	3.1	36	66	22	101	32	17	9	40	1.82
1139045--1139404	76	4.7	76	86	5	399	30	16	12	40	1.86
1139407--1139508	39	2.6	39	85	4	125	32	17	15	34	1.92
1139407--1139523	39	3.0	38	81	10	121	32	18	13	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139514--1139599	21	4.4	21	71	16	85	27	24	9	38	1.86
1139491--1139599	57	1.9	57	92	0	182	28	22	9	39	1.85
1139535--1139726	36	5.3	36	94	0	330	27	24	12	35	1.91
1139796--1140026	43	5.4	43	85	6	324	27	12	30	29	1.93
1139796--1140029	129	1.8	129	94	3	418	27	13	30	28	1.94
1140235--1140318	35	2.5	33	92	5	134	47	27	8	16	1.75
1140657--1140790	32	4.2	32	91	3	216	31	14	22	31	1.94
1140904--1141018	34	3.4	34	93	0	203	33	18	12	35	1.88
1140888--1141018	68	1.9	67	93	1	226	36	17	11	34	1.86
1141195--1141479	76	3.8	76	80	7	321	30	17	12	39	1.87
1141195--1141504	73	4.2	75	79	9	278	30	17	13	38	1.88
1141230--1141518	149	1.9	149	81	5	352	30	17	12	39	1.87
1141584--1141652	21	3.6	21	66	22	60	24	24	13	37	1.91
1141493--1141853	36	9.8	36	89	3	463	26	23	15	34	1.94
1141823--1141852	15	2.0	15	100	0	60	20	33	20	26	1.97
1141839--1141915	39	2.0	39	81	0	91	29	20	14	35	1.92
1141948--1142280	43	7.2	43	70	17	202	28	12	29	29	1.93
1142094--1142330	99	2.4	98	91	2	388	27	13	29	29	1.95
1141947--1142280	142	2.4	141	87	4	485	28	12	29	29	1.93
1142231--1142337	54	2.0	55	92	1	180	28	14	29	28	1.95
1144209--1144266	2	29.0	2	100	0	116	50	0	0	50	1.00
1147718--1147752	15	2.3	15	95	0	61	57	2	0	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148172--1148221	25	2.0	25	84	7	66	34	2	2	62	1.18
1151211--1151302	48	1.9	47	81	14	109	35	6	10	46	1.65
1152385--1152627	34	6.9	35	78	15	179	46	4	5	43	1.46
1152386--1152584	68	2.8	70	81	8	210	47	5	5	41	1.48
1152384--1152637	37	7.2	36	80	11	233	46	3	5	44	1.46
1152640--1152700	23	2.6	23	76	21	72	54	4	3	37	1.39
1152753--1152793	16	2.6	16	84	11	57	14	9	0	75	1.04
1152760--1152797	20	1.9	19	89	5	58	13	10	0	76	1.02
1152760--1152814	24	2.5	22	77	13	60	12	10	0	76	1.02
1155515--1155562	14	3.4	14	81	16	55	8	14	2	75	1.13
1159713--1159745	2	16.5	2	100	0	66	48	0	0	51	1.00
1159732--1159853	24	4.7	24	69	15	64	42	1	2	53	1.24
1159976--1160045	31	2.3	31	82	0	86	51	8	4	35	1.52
1161571--1161596	2	13.0	2	100	0	52	50	0	0	50	1.00
1165246--1165551	154	2.0	152	96	2	569	40	13	19	26	1.89
1173090--1173147	26	2.2	27	90	3	91	53	1	3	41	1.28
1173125--1173346	18	11.7	18	66	17	51	46	5	3	44	1.43
1173188--1173250	2	33.0	2	87	9	87	52	1	0	46	1.10
1173290--1173454	33	5.1	33	75	11	110	43	4	6	45	1.49
1173290--1173390	51	2.0	51	90	0	157	45	3	4	45	1.43
1173323--1173419	44	2.2	44	87	7	135	44	4	5	46	1.44
1173290--1173454	18	9.1	18	69	21	105	43	4	6	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173517--1173699	15	12.3	15	69	21	66	44	15	2	37	1.61
1179354--1179396	2	22.0	2	95	4	79	48	0	0	51	1.00
1180368--1180412	22	2.0	22	86	0	63	31	17	17	33	1.94
1180705--1180742	19	2.0	20	89	5	60	23	36	15	23	1.94
1180771--1180829	21	2.8	21	89	5	84	30	16	20	32	1.95
1180817--1180881	34	1.9	34	100	0	130	23	18	23	35	1.96
1187570--1187596	3	9.0	3	100	0	54	33	0	0	66	0.92
1189006--1189055	2	25.0	2	100	0	100	50	0	0	50	1.00
1194578--1194845	90	3.0	90	89	0	410	26	13	24	35	1.93
1200815--1201179	182	2.0	182	100	0	730	29	21	19	29	1.98

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