genome.fa.s8124.2.7.7.80.10.50.1000.7.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

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

This is table  7  of  19  ( 2165 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)
1174382--1174440	30	2.0	30	86	0	82	52	5	5	37	1.46
1177201--1177225	7	3.6	7	100	0	50	76	0	0	24	0.80
1179770--1179824	22	2.5	23	79	5	60	63	1	1	32	1.15
1180873--1180919	14	3.3	14	82	5	58	36	2	0	61	1.08
1185333--1185365	17	2.0	17	88	5	50	27	3	12	57	1.49
1188786--1188946	87	1.9	87	84	5	218	44	11	13	29	1.80
1194603--1194632	7	4.4	7	91	8	53	23	30	30	16	1.96
1194607--1194632	13	2.0	13	100	0	52	23	30	30	15	1.95
1194641--1194709	9	7.1	10	76	12	72	27	28	23	20	1.99
1194639--1194709	19	3.7	20	88	5	101	26	28	25	19	1.99
1201887--1201915	13	2.1	14	93	6	51	24	27	31	17	1.97
1201887--1201915	7	4.3	7	91	8	51	24	27	31	17	1.97
1201939--1202025	19	4.5	19	85	7	104	27	32	24	16	1.96
1201941--1202025	9	8.8	10	72	11	70	28	32	22	16	1.95
1202023--1202828	427	1.9	426	97	0	1542	29	17	19	33	1.95
1203122--1203155	17	1.9	18	88	5	52	64	2	32	0	1.08
1204314--1204378	25	2.7	24	77	11	62	32	3	0	64	1.09
1205170--1205207	20	1.9	20	94	0	67	44	10	23	21	1.83
1205170--1205213	20	2.3	19	88	7	63	45	9	25	20	1.80
1205360--1205434	36	2.1	36	83	14	93	48	4	1	46	1.29
1212005--1212035	16	1.9	16	93	0	53	64	0	0	35	0.94
1216005--1216070	21	3.1	22	82	4	66	40	16	40	1	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216447--1216562	43	2.7	43	85	2	144	36	25	12	25	1.92
1216448--1216599	43	3.5	43	81	5	130	37	25	14	23	1.92
1218300--1218339	16	2.5	16	88	8	55	35	10	20	35	1.86
1218441--1218529	23	3.9	23	81	0	97	17	22	24	34	1.96
1218441--1218587	23	6.2	22	78	7	96	18	23	23	34	1.96
1218518--1218600	25	3.4	25	91	1	123	19	20	22	37	1.94
1218712--1218775	32	2.0	32	81	0	74	23	4	25	46	1.71
1220702--1220770	31	2.4	28	73	17	70	44	4	4	46	1.43
1228058--1228325	42	6.3	43	78	8	156	22	19	17	41	1.91
1228108--1228325	42	5.2	42	83	2	258	18	21	17	41	1.90
1230940--1231367	83	5.2	83	79	6	350	35	16	14	33	1.90
1230947--1231369	165	2.6	163	76	7	433	34	17	14	33	1.90
1232726--1232908	42	4.3	43	78	10	180	18	18	19	43	1.88
1232726--1232916	85	2.2	84	80	9	201	20	18	18	42	1.90
1235563--1235692	42	3.1	41	69	12	113	30	19	18	31	1.96
1235479--1235910	83	5.2	84	80	5	398	34	17	15	31	1.92
1235515--1235908	165	2.4	164	81	5	454	36	18	14	30	1.91
1237334--1237494	42	3.8	43	76	5	150	14	18	18	47	1.82
1240102--1240557	82	5.5	82	80	5	436	33	17	16	31	1.93
1240360--1240482	41	3.0	41	66	17	101	30	17	20	30	1.96
1240163--1240555	165	2.4	164	83	5	497	34	18	16	30	1.93
1241584--1241636	23	2.3	22	79	20	56	52	1	3	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243046--1243075	2	15.0	2	100	0	60	50	0	0	50	1.00
1248631--1248691	21	2.9	21	78	11	61	75	1	4	18	1.06
1248662--1248784	18	7.2	16	70	19	72	70	0	1	26	1.02
1248688--1248804	14	7.9	14	65	23	53	67	0	2	29	1.09
1248620--1248748	25	5.0	25	70	20	70	71	0	4	23	1.10
1248672--1248773	42	2.4	41	75	6	96	69	0	1	27	1.05
1249977--1250066	39	2.5	35	85	7	108	27	10	24	37	1.87
1250053--1250168	36	3.2	36	82	9	146	40	12	19	26	1.88
1251436--1251525	32	2.8	32	88	3	128	35	21	12	31	1.90
1252589--1252633	7	6.7	7	85	14	60	0	11	11	77	0.99
1252572--1252626	19	3.1	19	82	10	71	1	9	9	80	0.99
1255685--1255753	16	4.4	15	75	14	59	73	2	8	14	1.18
1255775--1255911	4	35.8	4	72	16	67	70	0	1	28	0.96
1255785--1255849	33	1.9	35	87	12	100	75	0	3	21	0.94
1255780--1255944	87	1.9	87	84	9	223	68	0	1	29	1.02
1255776--1255932	11	14.4	11	71	17	78	70	0	1	28	1.00
1255815--1255926	44	2.4	47	75	13	124	66	0	0	31	1.03
1258771--1258808	10	4.0	10	93	6	62	15	0	0	84	0.63
1258771--1258811	9	4.6	9	85	11	57	19	0	0	80	0.71
1259730--1259755	13	2.0	13	100	0	52	76	0	7	15	0.99
1261443--1261484	11	3.8	11	84	12	59	30	0	0	69	0.89
1261596--1261663	11	6.5	11	76	8	63	44	0	4	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261633--1261780	65	2.3	64	81	8	167	43	2	6	47	1.42
1261674--1261805	65	2.0	66	81	10	155	41	2	8	47	1.46
1261772--1261842	34	2.1	33	82	7	81	45	1	5	47	1.35
1264560--1264639	34	2.4	34	82	4	90	48	21	11	18	1.79
1264601--1264695	23	4.2	23	72	2	84	46	15	12	25	1.81
1264743--1264807	30	2.2	31	81	13	82	60	12	1	26	1.41
1264856--1264888	17	1.9	17	93	0	57	30	30	0	39	1.57
1264857--1264901	17	2.6	17	85	0	54	35	28	0	35	1.58
1265030--1265095	25	2.6	25	77	13	73	78	3	1	16	0.95
1265030--1265108	16	4.9	16	83	7	72	77	6	1	15	1.03
1265050--1265098	9	5.9	9	81	15	61	79	6	0	14	0.91
1265054--1265107	25	2.2	24	86	3	72	79	9	0	11	0.93
1269350--1269378	13	2.2	13	100	0	58	55	0	0	44	0.99
1280328--1280371	22	2.0	22	95	0	79	29	4	25	40	1.75
1281019--1281052	12	2.8	12	86	0	50	5	2	26	64	1.30
1283368--1283404	16	2.2	17	90	4	58	32	13	16	37	1.87
1287631--1287662	2	16.0	2	100	0	64	50	0	0	50	1.00
1288493--1288531	20	2.0	20	89	0	60	66	5	7	20	1.36
1288683--1288766	2	42.5	2	95	2	152	47	0	52	0	1.00
1297716--1297763	21	2.3	21	82	10	62	56	0	0	43	0.99
1297825--1297857	2	16.5	2	100	0	66	48	0	0	51	1.00
1310419--1310529	55	2.0	55	98	0	213	32	17	10	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317012--1317077	32	2.1	32	100	0	132	36	18	3	42	1.66
1317130--1317165	18	2.0	18	100	0	72	61	0	16	22	1.35
1317177--1317215	21	1.9	21	94	5	71	30	25	10	33	1.89
1320804--1320867	23	2.8	23	80	0	83	32	26	25	15	1.95
1326272--1326335	23	2.8	23	80	0	83	34	26	23	15	1.95
1329273--1329313	13	3.2	13	86	3	57	51	17	0	31	1.46
1335857--1335894	20	1.9	20	88	0	58	21	26	10	42	1.85
1336210--1336260	17	3.1	16	71	18	50	45	1	5	47	1.38
1336194--1336260	33	2.0	34	97	2	127	43	2	5	47	1.43
1336203--1336254	15	3.3	15	75	15	59	42	3	5	48	1.45
1337207--1337240	16	2.1	17	88	5	52	41	2	20	35	1.68
1344095--1344177	29	2.8	29	88	1	130	40	10	14	33	1.81
1348371--1348458	29	2.9	30	88	8	126	43	10	12	34	1.76
1356112--1356154	17	2.5	17	78	14	52	53	0	4	41	1.21
1357977--1358039	18	3.5	18	75	0	63	38	12	23	25	1.90
1358859--1358931	37	2.0	36	84	7	94	49	2	1	46	1.24
1359775--1359819	23	2.0	23	82	8	56	46	2	2	48	1.26
1364877--1364927	20	2.5	20	84	6	68	25	27	13	33	1.94
1364937--1365074	64	2.2	64	94	0	240	35	20	13	31	1.90
1366238--1366995	168	4.5	166	79	7	723	37	17	16	28	1.91
1367596--1367826	102	2.3	102	80	4	261	32	24	13	29	1.93
1369573--1369612	22	1.9	20	85	10	53	30	17	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370326--1370379	22	2.3	24	81	15	69	48	27	1	22	1.61
1370343--1370387	23	2.0	23	82	8	56	46	31	2	20	1.62
1375621--1375663	2	21.5	2	100	0	86	48	0	0	51	1.00
1386926--1386994	32	2.3	31	78	11	74	44	0	0	55	0.99
1386926--1387011	38	2.3	38	80	4	104	46	0	0	53	1.00
1388263--1388296	16	2.1	16	100	0	68	58	5	5	29	1.45
1392024--1392094	30	2.4	30	81	11	76	46	8	2	42	1.49
1392523--1392566	17	2.6	17	85	3	54	45	4	2	47	1.35
1392669--1392763	29	3.4	30	77	16	103	38	6	10	44	1.64
1392913--1392986	29	2.6	30	83	10	93	31	5	12	51	1.61

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