genome.fa.s8480.2.7.7.80.10.50.1000.6.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: VEPZ01008480.1 Hibiscus syriacus cultivar Beakdansim tig00111311_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2515485

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1492 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)
1107949--1107985	3	12.3	3	88	0	56	32	2	2	62	1.23
1109300--1109376	30	2.6	29	80	8	84	36	11	6	45	1.67
1109300--1109377	29	2.6	30	82	6	88	35	11	6	46	1.66
1109305--1109390	29	3.0	29	81	3	84	32	13	9	44	1.76
1110424--1110474	2	25.5	2	100	0	102	50	0	0	49	1.00
1113745--1113798	3	17.7	3	84	3	63	33	3	1	61	1.25
1121778--1121818	21	1.9	22	90	5	66	46	12	4	36	1.63
1124583--1124614	13	2.3	15	89	10	50	40	12	3	43	1.58
1127700--1127741	22	1.9	22	85	0	57	35	2	7	54	1.41
1127712--1127772	3	19.7	3	80	6	59	34	3	3	59	1.30
1128344--1128411	26	2.8	24	76	10	66	45	5	4	44	1.48
1135094--1135128	17	2.2	15	90	10	52	25	42	22	8	1.82
1135186--1135240	25	2.2	25	86	0	74	16	27	20	36	1.93
1135198--1135233	18	2.0	18	88	0	54	16	27	16	38	1.90
1136879--1136942	3	20.7	3	84	6	74	34	3	1	60	1.22
1136877--1136942	25	2.7	25	80	2	80	34	4	1	59	1.27
1136879--1136943	28	2.3	28	83	0	85	35	3	1	60	1.22
1142594--1142655	20	3.0	20	70	13	54	30	27	8	33	1.86
1144481--1144528	18	2.7	18	93	0	87	18	31	20	29	1.97
1146170--1146230	3	19.7	3	83	6	59	34	4	1	59	1.29
1146168--1146229	25	2.5	25	81	0	70	33	6	1	58	1.34
1146800--1146846	24	1.9	25	87	12	71	51	10	2	36	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147615--1147698	23	3.7	23	84	6	125	29	25	27	17	1.98
1147784--1147821	20	1.9	20	88	0	58	36	18	18	26	1.94
1154985--1155026	11	3.8	11	96	0	75	19	26	7	47	1.74
1157372--1157432	23	2.7	23	77	10	70	27	27	24	19	1.99
1159679--1159720	21	2.0	21	85	0	57	38	11	7	42	1.69
1160804--1160856	21	2.5	22	78	9	65	35	20	16	26	1.94
1161176--1161237	24	2.6	24	94	0	106	25	11	16	46	1.80
1167445--1167481	13	2.9	13	81	18	51	29	0	5	64	1.15
1168398--1168435	15	2.5	16	83	12	53	57	5	2	34	1.35
1168790--1168835	24	1.9	24	86	8	67	34	10	2	52	1.49
1169957--1169996	21	1.9	21	90	10	64	67	0	15	17	1.23
1170290--1170336	2	23.5	2	100	0	94	51	0	0	48	1.00
1172105--1172273	69	2.4	69	83	10	227	30	8	17	42	1.80
1172105--1172270	35	4.7	36	85	5	223	30	9	18	42	1.81
1172332--1172401	29	2.4	29	92	0	113	32	8	21	37	1.84
1172390--1172777	36	11.2	36	76	14	377	40	12	19	27	1.88
1172280--1172638	167	2.1	169	86	6	507	40	12	20	27	1.88
1172361--1172777	134	3.1	136	92	2	676	40	12	19	27	1.88
1172475--1172777	65	4.5	65	75	15	260	40	11	19	27	1.87
1172688--1172747	19	3.3	19	65	25	56	45	6	20	28	1.76
1174150--1174331	95	1.9	95	90	2	294	30	18	18	32	1.95
1178229--1178281	22	2.5	20	85	11	63	69	0	13	16	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178423--1178452	2	15.0	2	100	0	60	50	0	0	50	1.00
1178589--1178629	2	20.5	2	100	0	82	51	0	0	48	1.00
1178679--1178760	28	2.8	29	77	17	73	59	2	3	34	1.28
1179774--1179805	2	16.0	2	100	0	64	50	0	0	50	1.00
1183445--1184702	80	15.4	80	85	3	1546	22	19	23	33	1.97
1185882--1186079	99	2.0	99	86	3	274	31	19	15	33	1.93
1194291--1194338	9	5.0	9	76	14	51	12	18	31	37	1.88
1194342--1194397	23	2.4	23	88	5	78	19	57	16	7	1.62
1197244--1197320	31	2.5	31	78	2	82	14	25	31	28	1.95
1198277--1198329	22	2.4	22	90	0	88	33	0	1	64	1.05
1198277--1198328	3	16.7	3	88	7	77	32	0	1	65	1.04
1206248--1206286	19	2.1	19	85	9	53	48	23	5	23	1.70
1208037--1208077	19	2.2	19	86	8	57	43	12	9	34	1.75
1209112--1209150	19	2.1	19	90	0	60	48	7	7	35	1.61
1214584--1214651	31	2.2	30	86	5	91	35	1	1	61	1.14
1214584--1214653	3	22.7	3	82	5	86	35	1	1	61	1.14
1217148--1217186	19	2.1	19	90	0	60	48	7	7	35	1.61
1218608--1218674	3	21.7	3	84	6	71	31	1	4	62	1.24
1223632--1223703	19	3.7	19	92	3	117	34	22	13	29	1.93
1223860--1223898	16	2.5	15	84	8	51	28	5	0	66	1.12
1224387--1224420	12	2.8	12	90	0	50	55	29	0	14	1.40
1226144--1226206	20	3.2	20	90	2	101	47	23	17	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226697--1226827	20	6.6	19	76	12	122	19	16	23	41	1.90
1226697--1226814	40	2.9	39	87	8	150	19	16	22	41	1.90
1226821--1226867	20	2.3	20	96	0	85	21	19	25	34	1.96
1227083--1227127	19	2.4	18	82	7	54	48	4	6	40	1.49
1227446--1227470	3	8.3	3	100	0	50	32	0	0	68	0.90
1229358--1229398	21	2.0	21	95	0	73	43	9	4	41	1.59
1231382--1231472	25	3.7	25	92	2	148	45	10	4	39	1.60
1231651--1231682	12	2.5	13	90	10	57	43	0	0	56	0.99
1232576--1232621	20	2.3	20	92	0	74	60	15	8	15	1.57
1234767--1234837	30	2.4	30	76	4	72	39	18	4	38	1.70
1238482--1238546	24	2.7	24	95	0	112	41	9	4	44	1.57
1242978--1243096	60	2.0	60	98	0	229	39	22	15	22	1.91
1244565--1244653	24	3.7	24	95	0	151	43	11	4	40	1.61
1245338--1245384	20	2.3	20	100	0	94	61	17	8	12	1.55
1248432--1248458	13	2.1	13	100	0	54	22	7	29	40	1.81
1249929--1249960	12	2.5	13	90	10	57	40	0	0	59	0.97
1250988--1251026	19	2.1	19	85	9	53	48	23	5	23	1.70
1253909--1253947	19	2.1	19	90	0	60	48	7	7	35	1.61
1255389--1255434	3	15.0	3	86	4	65	34	2	0	63	1.07
1257929--1257967	19	2.1	19	90	0	60	48	7	7	35	1.61
1259391--1259461	31	2.3	31	82	0	88	33	0	4	61	1.15
1259425--1259483	22	2.7	22	86	5	75	44	1	0	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259422--1259482	25	2.5	24	86	10	79	42	1	0	55	1.09
1259391--1259460	3	22.7	3	85	5	77	32	0	4	62	1.14
1262594--1262634	22	2.0	22	85	9	59	9	9	14	65	1.46
1263961--1263999	19	2.1	19	85	9	53	48	23	5	23	1.70
1266258--1266350	20	4.7	20	88	6	111	36	24	13	24	1.92
1266508--1266544	16	2.3	16	90	0	56	27	2	0	70	1.01
1267257--1267310	24	2.2	24	86	0	72	20	16	24	38	1.92
1269050--1269103	20	2.7	19	83	8	72	46	22	16	14	1.84
1269586--1269712	19	6.4	20	78	13	129	19	14	22	42	1.88
1269586--1269747	40	4.1	39	75	13	145	19	15	22	41	1.89
1269586--1269723	20	7.0	19	77	12	127	19	15	23	42	1.89
1269586--1269747	78	2.0	80	88	2	238	19	15	22	41	1.89
1270323--1270350	3	9.3	3	100	0	56	32	0	0	67	0.91
1272240--1272280	21	2.0	21	95	0	73	43	9	4	41	1.59
1276387--1276476	24	3.7	24	93	1	144	44	11	4	40	1.60
1276656--1276687	12	2.5	13	90	10	57	43	0	0	56	0.99
1277577--1277626	20	2.5	20	93	3	84	58	18	10	14	1.63
1278887--1278954	21	3.2	21	69	22	70	44	25	1	29	1.63
1278873--1278964	42	2.2	42	96	0	175	43	25	2	29	1.66
1279815--1279885	30	2.4	30	76	4	72	39	18	4	38	1.70
1280147--1280188	3	13.7	3	95	5	75	35	0	0	64	0.94
1283536--1283601	24	2.7	25	92	4	116	43	9	4	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286492--1286555	3	20.7	3	84	6	74	32	1	3	62	1.20
1288320--1288438	60	2.0	60	96	0	220	40	21	15	22	1.91
1289906--1289994	24	3.7	24	90	0	133	42	12	4	40	1.63
1290178--1290214	12	3.0	13	88	11	60	43	0	0	56	0.99
1291041--1291090	20	2.5	20	93	3	84	58	18	10	14	1.63
1297032--1297070	19	2.1	19	85	9	53	48	23	5	23	1.70
1298822--1298862	20	2.2	19	91	8	66	43	9	9	36	1.71
1301414--1301482	34	2.0	34	86	5	95	31	4	4	59	1.37
1301472--1301527	22	2.5	22	100	0	112	48	3	0	48	1.19
1301416--1301482	3	21.7	3	78	6	62	31	2	4	61	1.31

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13