genome.fa.s7770.2.7.7.80.10.50.1000.7.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: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1450453

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 841 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)
1238580--1238710	19	7.7	19	64	23	85	42	19	22	15	1.88
1238580--1238706	33	3.8	33	87	4	193	42	19	22	15	1.89
1238581--1238713	66	2.0	66	95	0	239	41	19	21	17	1.90
1238706--1238748	20	2.2	20	87	4	61	16	18	23	41	1.89
1238734--1238767	14	2.4	14	85	0	50	8	23	20	47	1.78
1238889--1238925	14	2.6	14	91	0	65	45	24	0	29	1.53
1240283--1240349	21	3.2	21	68	4	55	19	20	35	23	1.95
1240283--1240405	42	2.9	41	80	7	113	22	17	36	22	1.95
1242406--1242466	20	3.1	19	79	9	68	44	18	24	13	1.85
1242431--1242529	33	3.0	33	83	1	126	40	25	22	12	1.88
1242501--1242590	19	4.7	19	93	2	153	46	22	20	11	1.81
1242501--1242590	39	2.3	38	94	1	153	46	22	20	11	1.81
1242586--1242652	19	3.5	19	85	2	89	10	16	25	47	1.78
1243170--1243222	20	2.7	20	90	0	79	26	18	28	26	1.98
1243231--1243284	20	2.7	20	97	0	99	25	18	24	31	1.97
1243171--1243287	61	1.9	61	85	0	162	23	17	24	34	1.96
1243171--1243305	61	2.2	61	81	2	155	22	19	24	33	1.97
1243355--1243395	21	2.0	21	85	0	55	34	31	17	17	1.93
1246940--1247021	31	2.6	31	88	0	119	41	28	12	18	1.86
1248307--1248360	16	3.5	16	78	11	60	38	18	24	18	1.93
1250847--1250891	21	2.2	20	88	4	63	31	17	20	31	1.96
1254535--1254709	20	8.6	20	77	7	147	29	22	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254572--1254707	40	3.4	40	84	5	168	31	21	21	25	1.98
1254884--1254926	22	2.0	22	95	0	77	23	41	16	18	1.89
1255313--1255352	19	2.1	19	95	0	71	7	10	27	55	1.60
1255344--1255396	20	2.7	20	84	0	70	18	18	24	37	1.94
1255379--1255419	20	2.0	20	100	0	82	9	14	19	56	1.66
1255383--1255426	20	2.2	20	91	0	70	11	13	20	54	1.69
1257154--1257203	18	2.8	18	100	0	100	32	20	6	42	1.76
1257347--1257413	20	3.3	20	81	4	82	35	25	19	19	1.95
1257459--1257512	20	2.7	20	88	0	72	22	16	22	38	1.93
1259493--1259558	30	2.2	30	100	0	132	28	3	13	54	1.54
1259708--1259952	20	12.9	20	74	10	172	23	17	21	37	1.94
1259788--1259944	54	2.9	54	89	0	215	20	17	21	40	1.92
1259748--1259949	74	2.7	72	74	9	210	21	17	22	38	1.94
1260128--1260162	18	1.9	18	94	0	61	17	2	25	54	1.57
1263297--1263365	20	3.5	20	84	6	86	30	20	23	26	1.98
1263349--1263425	20	3.8	20	81	6	102	24	22	18	35	1.96
1263337--1263429	40	2.3	40	94	0	168	24	21	19	34	1.96
1263633--1263677	22	2.0	22	95	0	81	46	4	2	46	1.35
1263633--1263683	22	2.4	21	87	6	59	47	3	1	47	1.32
1267008--1267150	54	2.6	55	85	1	189	30	16	20	31	1.95
1267118--1267169	20	2.6	20	96	0	95	26	11	30	30	1.92
1268032--1268066	18	1.9	18	94	0	61	20	22	34	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271180--1271213	15	2.3	15	94	0	59	44	0	0	55	0.99
1274492--1274539	18	2.6	18	83	9	53	58	0	12	29	1.35
1278723--1278780	27	2.1	27	100	0	116	29	17	6	46	1.74
1284542--1284575	11	3.0	11	86	4	50	76	0	0	23	0.79
1284949--1285002	14	3.7	14	78	14	56	68	0	5	25	1.11
1284918--1284982	25	2.6	25	82	7	69	61	0	3	35	1.12
1284951--1285024	24	3.0	24	68	20	62	70	0	4	25	1.05
1287371--1287594	36	6.4	36	78	12	223	40	12	19	26	1.88
1287380--1287472	37	2.6	36	89	1	132	41	16	21	20	1.90
1287403--1287675	101	2.7	102	84	2	316	39	12	19	28	1.88
1289337--1289389	13	4.0	13	79	15	56	5	15	3	75	1.13
1289337--1289389	27	2.0	26	89	10	81	5	15	3	75	1.13
1290658--1290692	14	2.4	14	95	4	61	71	0	5	22	1.07
1291759--1291822	24	2.8	23	79	9	69	73	4	3	18	1.14
1291778--1291803	11	2.4	11	100	0	52	76	0	0	23	0.78
1291780--1291822	17	2.4	19	84	7	54	74	2	2	20	1.04
1292132--1292181	8	6.2	8	95	0	55	48	6	0	46	1.27
1292139--1292196	2	29.0	2	87	6	82	50	1	3	44	1.29
1302195--1302235	2	20.5	2	100	0	82	48	0	0	51	1.00
1304310--1304358	13	3.7	13	81	5	53	61	12	4	22	1.48
1316573--1316614	20	2.1	20	100	0	84	40	16	14	28	1.88
1334524--1334548	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334670--1334996	134	2.5	133	86	3	473	28	15	26	29	1.96
1335561--1335657	42	2.3	41	78	1	104	32	21	21	23	1.98
1335278--1336071	231	3.4	230	86	3	1002	34	18	15	31	1.92
1335324--1336071	233	3.2	230	87	3	1004	34	18	16	31	1.93
1338524--1338620	31	3.2	30	81	7	81	31	22	19	25	1.98
1338550--1338673	31	4.0	32	80	8	130	31	20	19	29	1.97
1339231--1339263	16	2.1	16	94	0	57	39	18	0	42	1.50
1341022--1341093	32	2.2	32	100	0	144	18	25	8	48	1.75
1341217--1341315	16	6.6	14	76	14	83	4	18	0	77	0.92
1341210--1341316	23	4.6	22	73	17	51	3	18	0	77	0.91
1341250--1341339	30	3.0	28	70	19	74	6	16	0	76	0.99
1341208--1341336	37	3.4	37	78	15	131	5	17	0	76	0.96
1341219--1341339	10	11.8	10	69	20	56	4	17	0	77	0.94
1341217--1341315	7	13.1	7	78	14	83	4	18	0	77	0.92
1341219--1341316	8	11.8	8	74	15	67	4	17	0	78	0.90
1341210--1341363	38	4.1	37	75	12	120	5	17	0	76	0.97
1347322--1347346	6	4.2	6	100	0	50	84	0	0	16	0.63
1347455--1347530	29	2.6	30	80	15	97	60	6	7	25	1.49
1375985--1376012	3	9.3	3	100	0	56	67	0	0	32	0.91
1376134--1376460	134	2.5	133	86	3	473	29	15	25	29	1.96
1376788--1376875	41	2.1	42	83	6	108	31	18	22	27	1.97
1376969--1377490	232	2.2	231	85	5	712	34	17	16	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379677--1379704	6	4.7	6	100	0	56	50	17	0	32	1.47
1379956--1380052	31	3.2	30	81	7	81	31	22	19	25	1.98
1379982--1380105	31	4.0	32	80	8	130	31	20	19	29	1.97
1380521--1380557	13	2.8	13	95	0	65	24	16	2	56	1.53
1380920--1380979	2	30.0	2	100	0	120	50	0	0	50	1.00
1382671--1382735	9	7.4	9	81	10	73	3	20	0	76	0.91
1382679--1382735	8	6.9	8	82	6	51	3	19	0	77	0.92
1382671--1382763	16	5.8	16	71	14	75	4	19	0	76	0.95
1382671--1382739	26	2.7	26	82	8	95	2	20	0	76	0.91
1382710--1382759	20	2.5	22	81	15	63	8	18	0	74	1.06
1388704--1388728	6	4.2	6	100	0	50	84	0	0	16	0.63
1388836--1388911	29	2.6	30	78	15	88	60	7	7	23	1.51
1405466--1405528	21	3.0	21	77	9	65	26	22	20	30	1.98
1406734--1406794	25	2.4	25	100	0	122	18	27	0	54	1.44
1410242--1410266	7	3.6	7	100	0	50	72	0	0	28	0.86
1413427--1413468	18	2.3	18	100	0	84	11	16	33	38	1.86
1420338--1420799	230	2.0	230	93	0	780	32	14	21	32	1.93
1432591--1432697	24	4.5	24	72	0	88	47	15	13	23	1.81
1432591--1432699	48	2.3	48	75	0	110	47	15	13	22	1.81
1433818--1433855	18	2.1	18	90	0	58	31	18	0	50	1.47
1435159--1435213	8	7.5	8	82	17	75	21	25	38	14	1.92
1435159--1435210	15	3.6	15	84	10	81	23	25	38	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435172--1435226	21	2.7	21	91	2	85	20	21	41	16	1.90
1435187--1435253	18	3.6	18	83	6	80	14	17	47	19	1.82
1437379--1437485	24	4.5	24	72	0	88	47	15	13	23	1.81
1437379--1437487	48	2.3	48	75	0	110	47	15	13	22	1.81
1438609--1438646	18	2.1	18	90	0	58	31	18	0	50	1.47
1439950--1440004	7	7.7	7	77	18	60	21	27	36	14	1.93
1439951--1440002	8	7.1	8	81	18	69	23	25	38	13	1.91
1439951--1440004	15	3.7	15	85	9	85	22	25	37	14	1.93
1439964--1440008	20	2.2	20	92	7	74	17	24	42	15	1.88
1439964--1440035	20	3.7	21	80	12	73	19	20	41	18	1.90

Tables:   1   2   3   4   5   6   7   8