genome.fa.s8558.2.7.7.80.10.50.1000.6.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: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2950132

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

This is table  6  of  14  ( 1626 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)
1239372--1239440	23	3.0	22	81	12	75	31	0	0	68	0.90
1240817--1240857	4	10.5	4	84	5	57	29	0	0	70	0.87
1240817--1240857	15	2.7	15	84	3	55	29	0	0	70	0.87
1242467--1242778	102	3.1	101	85	4	378	33	15	10	40	1.82
1243333--1243602	104	2.6	104	82	1	326	35	23	15	25	1.94
1243313--1243629	104	3.1	103	76	5	293	35	23	14	26	1.93
1243402--1243664	104	2.5	104	80	0	256	35	25	13	25	1.92
1243853--1243895	3	14.0	3	95	4	77	32	2	0	65	1.06
1254141--1254413	44	6.1	44	78	8	266	23	24	20	31	1.98
1254141--1254413	88	3.1	88	82	2	312	23	24	20	31	1.98
1254775--1254818	22	2.0	23	86	8	65	34	9	4	52	1.54
1261040--1261350	44	7.1	44	88	0	451	22	24	22	29	1.99
1261359--1261437	39	2.0	39	83	9	99	16	24	26	32	1.96
1263951--1263988	20	2.0	20	89	5	60	71	5	0	23	1.07
1265411--1265458	3	16.3	3	95	4	89	66	0	0	33	0.92
1265574--1265657	41	2.0	42	90	2	134	48	4	13	33	1.63
1267244--1267317	37	2.0	37	100	0	148	29	21	21	27	1.99
1268644--1268833	84	2.3	83	85	9	226	31	2	14	52	1.55
1269410--1269456	19	2.5	19	89	3	69	23	6	0	70	1.10
1269524--1269569	19	2.3	20	88	3	67	26	2	0	71	0.97
1269478--1269561	22	3.7	21	78	20	89	23	5	0	70	1.09
1270968--1271299	59	5.7	59	90	2	505	34	19	11	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271630--1271681	22	2.5	22	87	6	72	28	26	15	28	1.96
1271724--1271775	22	2.5	21	87	6	70	28	19	17	34	1.94
1271644--1271829	95	2.0	95	86	0	264	26	22	17	32	1.96
1277254--1277287	17	1.9	18	88	5	52	14	8	2	73	1.19
1277261--1277353	11	8.8	11	72	9	52	21	7	2	68	1.25
1277326--1277380	5	10.6	5	80	7	65	21	3	1	72	1.09
1286390--1286560	84	2.0	84	91	4	274	30	1	9	57	1.41
1286416--1286607	84	2.3	83	84	8	212	32	3	13	51	1.58
1287088--1287134	19	2.5	19	89	3	69	23	6	0	70	1.10
1287172--1287243	10	7.4	10	75	17	55	23	5	0	70	1.08
1287203--1287245	5	8.8	5	80	14	54	23	0	0	76	0.78
1295765--1295826	28	2.3	27	80	5	72	25	3	4	66	1.27
1303201--1303268	35	1.9	35	93	0	118	58	10	7	23	1.56
1307503--1307536	14	2.6	13	86	13	52	8	29	0	61	1.26
1313383--1313470	44	2.0	44	97	0	167	36	5	11	46	1.64
1317027--1317462	222	2.0	222	86	0	604	36	19	24	19	1.95
1319275--1319313	20	1.9	21	89	5	62	51	17	0	30	1.46
1322308--1322547	56	4.2	56	91	2	381	32	20	12	34	1.90
1322308--1322537	114	2.0	112	92	1	379	33	19	12	34	1.90
1322957--1323012	20	2.6	22	80	11	71	25	25	14	35	1.93
1323002--1323049	19	2.5	19	100	0	96	31	31	12	25	1.92
1330132--1330165	14	2.4	14	90	9	52	44	2	0	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331453--1331489	2	19.0	2	88	5	58	48	0	2	48	1.15
1331593--1331697	2	53.0	2	89	5	160	49	0	1	47	1.18
1333086--1333117	16	2.0	16	100	0	64	31	31	12	25	1.92
1336360--1336869	74	6.9	75	85	3	629	38	10	18	32	1.85
1336360--1336867	149	3.4	149	85	4	641	38	11	18	32	1.85
1346878--1346927	13	3.8	13	81	2	55	26	2	2	70	1.09
1346976--1347030	30	1.9	30	85	7	78	30	9	1	58	1.40
1357656--1357753	49	1.9	52	84	10	132	46	15	22	15	1.82
1358522--1358829	98	3.0	104	82	9	380	33	26	21	18	1.96
1360307--1360356	13	3.8	13	81	2	55	26	2	2	70	1.09
1360405--1360459	30	1.9	30	85	7	78	30	9	1	58	1.40
1361615--1361852	41	5.7	41	76	9	196	28	19	19	32	1.97
1361631--1361850	84	2.6	84	79	8	225	28	20	19	31	1.97
1361615--1361850	125	1.9	126	89	4	370	27	19	19	32	1.97
1365128--1365447	85	3.7	86	81	5	328	23	21	20	34	1.96
1365127--1365473	43	8.1	42	77	8	243	23	20	21	34	1.97
1366078--1366121	20	2.1	21	87	4	63	40	22	13	22	1.89
1367022--1367103	33	2.6	31	79	11	94	25	10	12	51	1.72
1368066--1368115	26	1.9	26	91	0	82	34	8	20	38	1.82
1374359--1374527	85	2.0	85	85	2	232	30	18	15	34	1.93
1375024--1375352	54	6.1	54	89	3	493	36	19	13	31	1.89
1375024--1375352	107	3.1	107	90	2	509	36	19	13	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379264--1379443	95	1.9	94	80	5	211	39	13	22	24	1.90
1379851--1379939	45	2.0	45	81	0	106	41	11	22	24	1.86
1379930--1380085	26	6.5	26	71	16	120	41	12	24	21	1.88
1379930--1380085	72	2.2	72	91	0	249	41	12	24	21	1.88
1380000--1380394	46	8.6	46	87	0	574	41	13	24	20	1.88
1379886--1380131	118	2.1	118	82	0	296	41	13	24	21	1.88
1379850--1380177	164	2.0	163	87	0	467	41	13	24	21	1.88
1386242--1386378	46	3.0	46	82	4	168	43	10	24	21	1.83
1394627--1394706	23	3.4	23	74	3	79	32	22	22	22	1.98
1394809--1394875	15	4.6	15	72	7	57	41	20	5	31	1.77
1397667--1397705	10	3.9	10	96	0	69	0	48	0	51	1.00
1405716--1405754	17	2.3	18	86	8	55	41	2	0	56	1.13
1406835--1406907	30	2.4	29	79	6	83	9	26	24	39	1.86
1406862--1406908	20	2.3	20	85	0	67	10	27	23	38	1.88
1407207--1407243	19	1.9	19	94	0	65	32	29	16	21	1.95
1407329--1407381	20	2.7	20	93	0	88	39	16	20	22	1.92
1407370--1407496	20	6.3	19	79	9	85	29	27	22	21	1.99
1407391--1407496	20	5.2	20	82	6	133	28	27	21	22	1.99
1407370--1407496	61	2.1	61	92	0	209	29	27	22	21	1.99
1407370--1407526	61	2.6	61	84	0	161	30	24	21	23	1.99
1407659--1407735	22	3.5	22	92	0	127	19	38	19	22	1.93
1408079--1408161	33	2.5	33	86	5	114	15	18	24	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408132--1408189	20	2.8	21	86	5	82	15	12	22	50	1.77
1410141--1410326	20	9.6	20	83	6	204	34	23	20	20	1.96
1410141--1410329	40	4.9	39	81	10	235	34	23	20	21	1.97
1410160--1410300	74	1.9	74	91	2	230	33	24	21	21	1.97
1410149--1410322	94	1.9	94	91	2	287	34	22	21	21	1.97
1410322--1410363	19	2.2	19	86	0	57	14	16	28	40	1.88
1410405--1410467	20	3.2	20	88	0	81	19	12	20	47	1.81
1410951--1411054	21	5.0	21	72	9	77	20	39	19	21	1.93
1410954--1411054	42	2.4	42	81	0	112	20	39	18	20	1.92
1412426--1412491	30	2.2	30	94	0	114	31	1	12	54	1.46
1412608--1412743	34	3.9	34	76	12	121	22	20	21	36	1.96
1412598--1412783	73	2.5	73	87	1	246	22	19	21	36	1.95
1412642--1412899	20	13.9	20	72	14	176	22	19	21	36	1.95
1412775--1412852	34	2.3	34	97	0	147	17	21	21	38	1.93
1412775--1412871	34	2.9	34	88	0	113	19	21	20	38	1.94
1413074--1413108	18	1.9	18	94	0	61	17	2	25	54	1.57
1415145--1415181	14	2.6	14	91	4	56	5	21	21	51	1.68
1415371--1415424	24	2.2	24	93	0	90	40	20	18	20	1.91
1416246--1416372	20	6.3	20	85	5	175	23	19	27	29	1.98
1416319--1416393	21	3.6	21	78	10	91	20	22	26	30	1.98
1416263--1416393	41	3.2	41	90	3	185	22	20	27	29	1.98
1416382--1416430	20	2.5	20	100	0	98	22	22	16	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416439--1416487	21	2.4	21	86	10	66	36	20	22	20	1.95
1416508--1416554	19	2.4	19	82	3	58	25	14	29	29	1.95
1416520--1416556	19	1.9	19	94	0	65	21	16	29	32	1.95
1417224--1417284	31	2.0	31	86	0	86	60	6	6	26	1.46
1422123--1422264	29	4.9	29	71	11	94	57	7	14	20	1.60
1423594--1423626	3	11.3	3	87	6	50	72	0	0	27	0.85
1423779--1424031	134	1.9	133	90	5	404	24	18	31	26	1.97
1423817--1424065	134	1.9	134	82	3	313	27	16	29	26	1.97
1425169--1425197	2	14.5	2	100	0	58	0	0	48	51	1.00
1425812--1425874	2	31.5	2	100	0	126	50	49	0	0	1.00

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