genome.fa.s761.2.7.7.80.10.50.1000.5.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  5  of  23  ( 2686 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)
1182530--1182586	3	19.0	3	92	0	96	33	0	1	64	1.04
1197683--1197770	44	2.0	44	100	0	176	25	22	13	38	1.91
1198341--1198380	20	2.0	20	90	0	62	20	35	25	20	1.96
1202058--1202135	15	5.6	14	77	21	67	67	0	15	16	1.23
1202062--1202113	5	10.6	5	89	10	81	65	0	17	17	1.28
1203684--1204132	113	3.9	112	80	7	469	39	13	19	27	1.89
1204483--1204533	27	2.0	25	84	7	66	37	0	0	62	0.95
1205032--1205068	13	2.8	13	91	0	56	48	13	37	0	1.43
1206954--1206987	11	3.2	11	95	4	61	73	0	17	8	1.08
1208936--1208989	28	2.0	27	85	3	72	46	37	9	7	1.64
1220999--1221294	54	5.5	54	88	0	396	26	17	20	35	1.95
1221063--1221148	27	3.2	26	67	23	70	29	18	17	34	1.94
1220998--1221294	162	1.8	162	87	1	443	25	17	20	36	1.94
1223289--1223330	22	1.9	22	90	0	66	19	2	42	35	1.64
1227461--1227517	24	2.4	23	88	8	80	12	14	3	70	1.30
1227557--1227591	19	1.9	18	88	11	54	5	17	5	71	1.25
1227864--1227905	22	1.9	22	85	9	59	19	2	40	38	1.64
1231120--1231171	3	17.3	3	100	0	104	65	0	0	34	0.93
1232149--1232191	18	2.5	17	85	7	61	67	2	4	25	1.22
1233285--1234008	105	7.0	105	92	1	1104	22	16	26	34	1.95
1233285--1234008	207	3.5	208	89	2	1105	22	16	26	34	1.95
1233286--1234008	312	2.3	312	90	2	1096	22	16	26	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234651--1234808	68	2.4	66	84	6	203	36	8	22	32	1.85
1234784--1234907	36	3.4	36	82	6	160	40	13	20	25	1.89
1235872--1235915	22	2.0	22	91	8	72	27	11	22	38	1.88
1236520--1236577	15	3.7	15	75	15	55	1	13	5	79	0.98
1236509--1236577	31	2.2	31	82	10	79	2	15	4	76	1.06
1236520--1236559	20	2.0	20	85	9	55	2	12	5	80	0.98
1236527--1236578	15	3.5	14	84	10	68	0	13	7	78	0.94
1237759--1237797	8	5.0	8	84	6	53	58	12	17	10	1.61
1237759--1237797	15	2.5	15	87	4	51	58	12	17	10	1.61
1239153--1239184	5	6.6	5	92	7	57	81	0	0	18	0.70
1239154--1239184	14	2.2	14	100	0	62	80	0	0	19	0.71
1240358--1240403	2	23.0	2	95	0	83	52	0	0	47	1.00
1240900--1240942	18	2.5	17	85	7	61	67	2	4	25	1.22
1241932--1242073	36	3.9	36	92	0	230	36	16	9	37	1.82
1243432--1243581	57	2.6	55	80	7	140	46	6	18	28	1.74
1243447--1243640	58	3.4	57	79	3	183	45	7	18	28	1.76
1244668--1244712	17	2.5	19	76	20	51	53	2	8	35	1.45
1247019--1247060	21	2.0	22	85	4	59	47	0	0	52	1.00
1248252--1248301	14	3.6	14	86	0	64	56	2	2	40	1.22
1249541--1249606	31	2.2	30	84	10	82	45	6	19	28	1.74
1259395--1259451	21	2.8	20	81	7	60	56	3	7	33	1.43
1260174--1260204	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260787--1260822	17	2.1	17	90	10	56	33	16	11	38	1.84
1265322--1265469	29	5.2	29	77	8	151	27	8	6	58	1.52
1265715--1265752	2	19.0	2	100	0	76	50	0	0	50	1.00
1267413--1267577	54	3.1	54	86	0	231	37	15	13	33	1.87
1267506--1267654	77	1.9	77	87	0	217	36	14	11	37	1.82
1267583--1267711	54	2.4	54	92	2	206	36	17	10	34	1.85
1267452--1267708	131	2.0	131	86	1	363	36	15	12	36	1.84
1268339--1268376	14	2.7	14	84	11	51	21	10	28	39	1.86
1274891--1275394	54	9.3	54	88	2	672	38	18	12	30	1.88
1274901--1275394	217	2.3	216	88	2	713	38	18	12	30	1.88
1282165--1282242	32	2.5	31	82	12	81	48	7	10	33	1.66
1284805--1285061	128	2.0	128	98	0	496	21	18	14	45	1.85
1291261--1291414	60	2.5	60	83	3	184	41	3	20	34	1.70
1291660--1291686	3	9.0	3	100	0	54	33	0	0	66	0.92
1293769--1294094	131	2.5	131	87	1	458	33	11	16	38	1.85
1302876--1302922	24	2.0	24	83	8	60	57	12	2	27	1.47
1308299--1308353	20	2.8	20	94	0	92	21	29	21	27	1.99
1308633--1309745	134	8.2	134	78	7	1006	32	22	15	30	1.94
1310972--1311472	134	3.7	134	83	5	558	30	22	14	32	1.94
1318502--1318543	3	14.0	3	100	0	84	33	0	0	66	0.92
1318714--1318753	21	1.9	21	84	0	53	70	0	0	30	0.88
1319106--1319150	23	2.0	23	86	0	63	26	15	13	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319116--1319161	23	2.0	23	86	0	65	28	10	15	45	1.79
1319281--1319329	19	2.6	19	96	0	89	34	16	10	38	1.82
1319653--1319699	5	9.0	5	81	9	58	23	4	0	72	1.02
1321962--1322027	25	2.6	25	100	0	132	40	10	4	43	1.59
1323246--1323287	16	2.6	17	88	7	61	73	0	0	26	0.83
1325135--1325202	20	3.4	19	84	15	93	25	36	23	14	1.93
1325204--1325250	22	2.1	22	100	0	94	19	25	23	31	1.98
1344689--1344732	2	22.0	2	100	0	88	50	0	0	50	1.00
1370872--1370897	12	2.2	12	100	0	52	30	0	26	42	1.56
1375387--1375457	35	2.0	35	91	0	115	22	14	28	35	1.93
1376754--1376792	14	2.8	14	88	0	60	12	15	12	58	1.62
1376832--1376872	17	2.4	18	80	15	52	46	17	2	34	1.61
1377021--1377096	33	2.3	33	81	2	89	13	11	18	56	1.66
1378034--1378330	147	2.0	145	93	2	506	32	22	16	28	1.96
1379885--1379917	12	2.8	12	95	4	59	36	6	27	30	1.81
1380441--1380566	65	2.0	59	91	8	198	30	5	7	56	1.51
1380543--1380583	18	2.3	18	91	4	66	29	4	2	63	1.28
1383229--1383268	15	2.6	16	88	4	64	12	30	30	27	1.93
1386256--1386295	15	2.6	15	88	4	53	70	0	2	27	1.01
1386538--1386664	51	2.5	50	76	7	112	25	29	30	14	1.95
1392880--1392951	17	4.2	16	74	12	63	36	15	9	38	1.80
1394559--1394589	12	2.7	12	95	5	55	16	12	9	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396271--1396342	17	4.2	16	81	12	81	38	13	8	38	1.75
1396751--1396798	24	2.0	25	87	4	71	33	20	16	29	1.95
1397883--1397922	21	1.9	21	85	10	55	52	2	0	45	1.14
1398018--1398107	34	2.8	33	83	9	98	53	1	2	43	1.20
1399219--1399272	21	2.4	24	79	14	62	62	0	1	35	1.06
1399221--1399280	18	3.2	19	81	11	70	60	0	3	36	1.14
1403291--1403333	21	2.0	21	86	0	59	30	27	25	16	1.97
1403313--1403463	66	2.2	68	85	2	198	27	27	27	17	1.98
1403766--1403837	29	2.5	29	93	0	117	38	9	12	38	1.76
1403852--1403911	30	2.0	31	87	9	88	36	6	25	31	1.82
1404131--1404197	22	3.0	22	100	0	134	19	26	26	26	1.99
1410220--1410260	21	2.0	21	85	0	55	29	29	24	17	1.97
1410240--1410388	64	2.3	67	84	4	187	27	27	26	18	1.98
1410687--1410756	29	2.5	27	88	4	95	38	10	12	38	1.77
1411049--1411115	22	3.0	22	100	0	134	19	26	26	26	1.99
1424161--1424328	40	4.2	39	73	8	124	39	23	14	22	1.91
1424194--1424349	20	7.8	20	75	6	109	39	22	14	23	1.91
1424157--1424329	80	2.2	80	81	0	211	39	23	15	21	1.91
1424953--1424986	12	2.8	12	90	0	50	55	29	0	14	1.40
1425112--1425165	24	2.2	24	90	0	81	22	16	20	40	1.91
1428292--1428388	20	5.2	20	76	15	100	49	20	17	12	1.79
1428288--1428360	34	2.1	35	87	2	103	52	17	16	13	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428401--1428440	20	2.0	20	85	0	53	15	12	22	50	1.77
1428934--1429135	20	10.1	20	72	8	115	19	12	20	47	1.82
1428980--1429171	40	4.8	40	77	7	149	20	12	22	44	1.85
1429001--1429171	80	2.1	80	85	0	234	20	12	22	43	1.86
1429140--1429248	20	5.3	20	67	4	74	27	17	23	31	1.97
1429142--1429257	41	2.8	41	96	0	205	30	16	23	30	1.96
1431735--1431807	29	2.6	29	78	10	71	38	8	15	38	1.77
1437414--1437473	26	2.3	26	82	0	75	23	38	11	26	1.89
1440521--1440890	122	3.0	122	96	0	677	28	22	13	34	1.93
1441048--1441151	38	2.7	40	80	8	133	30	5	7	55	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23