genome.fa.s7978.2.7.7.80.10.50.1000.6.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: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479011

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 755 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)
1240828--1241021	20	9.6	20	81	5	221	35	25	19	19	1.95
1240828--1241021	60	3.2	60	83	0	253	35	25	19	19	1.95
1241402--1241472	33	2.2	33	92	0	115	11	22	18	47	1.80
1241593--1241647	14	3.6	14	73	21	56	40	23	27	9	1.85
1241658--1241775	14	7.1	18	67	25	80	10	24	21	44	1.83
1241680--1241769	14	5.7	14	74	23	81	8	25	23	42	1.83
1241663--1241777	33	3.5	33	95	0	212	9	24	20	45	1.81
1243471--1243852	185	2.1	186	98	0	748	22	12	18	46	1.83
1243471--1243850	93	4.1	93	98	0	744	22	12	18	46	1.83
1243894--1244022	19	7.3	19	75	17	125	45	28	17	8	1.77
1243930--1244022	33	2.8	32	91	4	150	46	27	18	7	1.76
1243894--1244022	52	2.5	52	74	14	140	45	28	17	8	1.77
1244018--1244152	19	7.6	19	76	16	137	10	19	24	45	1.81
1244040--1244096	14	3.7	14	77	20	60	8	21	24	45	1.80
1244023--1244115	33	2.8	33	98	0	177	9	20	22	47	1.79
1245968--1246040	38	1.9	38	97	0	137	28	1	16	53	1.51
1245963--1246027	19	3.4	19	64	8	51	24	1	15	58	1.46
1246022--1246057	14	2.6	14	95	0	63	33	0	22	44	1.53
1246164--1246264	19	5.6	19	82	15	142	43	17	23	14	1.87
1246293--1246590	19	16.7	19	82	13	402	14	21	16	47	1.82
1246271--1246590	161	2.0	157	93	3	552	14	21	16	46	1.83
1246312--1246617	33	8.8	33	79	13	271	14	20	17	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246271--1246590	52	6.0	52	94	4	550	14	21	16	46	1.83
1248921--1248945	12	2.1	12	100	0	50	0	28	0	72	0.86
1249120--1249166	24	2.0	24	87	8	69	38	21	14	25	1.92
1249840--1250248	20	20.5	20	85	5	486	20	18	25	35	1.95
1250598--1250642	18	2.4	19	85	14	58	35	2	0	62	1.08
1250614--1250657	22	2.0	21	91	4	70	34	0	2	63	1.07
1250619--1250662	15	3.1	14	79	20	56	31	0	2	65	1.05
1260116--1260149	2	17.0	2	100	0	68	50	0	0	50	1.00
1276113--1276190	18	4.2	18	75	16	54	17	5	3	73	1.18
1276399--1276579	53	3.2	53	66	22	123	48	13	18	19	1.81
1276527--1276610	30	2.7	34	89	10	96	44	11	21	22	1.85
1276537--1276610	30	2.5	30	97	2	141	45	10	20	22	1.82
1276367--1276583	119	1.9	117	84	4	287	47	13	19	20	1.83
1276640--1276697	28	2.1	28	90	0	89	44	12	17	25	1.83
1286330--1286474	62	2.3	63	78	3	150	39	10	8	42	1.69
1290832--1290863	16	2.0	16	100	0	64	18	6	31	43	1.75
1291648--1291680	14	2.4	14	94	0	57	33	6	30	30	1.82
1296678--1296724	20	2.3	20	96	0	85	34	21	19	25	1.96
1296718--1296881	20	8.4	19	75	21	126	40	25	16	18	1.91
1296729--1296819	18	5.0	18	83	12	107	40	26	15	17	1.89
1296899--1296967	19	3.6	19	98	0	129	37	17	10	34	1.83
1297161--1297200	16	2.6	15	84	7	53	27	5	0	67	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300150--1300190	18	2.3	18	82	0	55	53	24	2	19	1.57
1300614--1300789	66	2.6	65	87	8	248	52	17	2	27	1.58
1302108--1302178	21	3.4	21	78	7	81	21	21	38	19	1.94
1302108--1302199	42	2.2	40	86	7	123	22	20	36	19	1.95
1304364--1304390	14	1.9	14	100	0	54	48	22	22	7	1.75
1304983--1305234	20	12.6	20	79	9	221	19	13	23	43	1.87
1304983--1305234	60	4.2	60	81	6	260	19	13	23	43	1.87
1305143--1305269	60	2.1	60	81	5	141	21	14	25	37	1.92
1325214--1325289	21	3.7	20	78	3	80	15	21	38	25	1.92
1328601--1328637	20	1.9	19	89	10	58	45	10	24	18	1.81
1328788--1328862	38	2.0	37	84	5	98	48	4	1	46	1.29
1334153--1334186	16	2.1	16	94	0	59	50	0	14	35	1.44
1334488--1334543	20	2.7	21	86	5	78	12	37	5	44	1.65
1336083--1336107	13	1.9	13	100	0	50	20	24	0	56	1.43
1340999--1341048	23	2.2	23	85	0	64	44	10	12	34	1.75
1341008--1341055	23	2.1	23	88	0	69	45	8	12	33	1.72
1341086--1341133	23	2.1	23	84	0	60	35	6	16	41	1.74
1340894--1341133	87	2.8	87	86	0	336	44	9	12	34	1.74
1341135--1341652	199	2.6	199	87	3	756	31	15	13	38	1.87
1341902--1341941	21	1.9	21	84	0	53	37	12	2	47	1.55
1341986--1342245	125	2.1	125	85	0	340	40	15	12	31	1.85
1347336--1347468	68	2.0	66	88	5	196	60	7	4	27	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347753--1347794	12	3.3	12	81	12	57	40	0	2	57	1.12
1351581--1351620	10	4.0	10	86	0	53	27	32	0	40	1.57
1351666--1351699	9	3.9	9	84	7	52	35	0	2	61	1.11
1351665--1351703	17	2.4	17	95	4	71	33	0	5	61	1.18
1353751--1353782	3	10.7	3	93	0	55	34	28	34	3	1.73
1359274--1359318	18	2.6	18	85	3	56	31	24	8	35	1.86
1365187--1365252	22	3.0	21	80	8	78	43	15	18	22	1.87
1365286--1365328	21	2.0	21	95	0	77	23	25	20	30	1.99
1366008--1366104	31	3.1	32	88	4	144	35	19	16	28	1.94
1370257--1370293	18	2.1	18	90	10	58	54	5	0	40	1.24
1375787--1375844	21	2.8	22	85	12	79	41	1	3	53	1.28
1375807--1375844	11	3.5	11	85	10	51	42	2	2	52	1.29
1375876--1375920	22	2.0	22	83	8	56	42	4	4	48	1.43
1381863--1381902	16	2.4	16	87	4	53	70	0	5	25	1.08
1382110--1382156	22	2.1	22	84	7	60	61	4	17	17	1.49
1382132--1382169	19	2.0	19	89	0	58	52	2	23	21	1.59
1382418--1382465	25	1.9	25	87	8	71	72	0	6	20	1.05
1382432--1382504	17	4.7	15	73	18	60	71	1	2	24	1.07
1383901--1383942	20	2.1	20	100	0	84	33	16	23	26	1.96
1383987--1384878	193	4.6	193	93	2	1381	22	18	24	34	1.96
1383987--1384873	94	9.2	94	89	3	1342	22	18	24	34	1.96
1384615--1384770	43	3.4	43	67	13	123	21	18	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385689--1385717	11	2.6	11	100	0	58	0	10	0	89	0.48
1385626--1385749	64	1.9	65	85	4	171	12	20	11	54	1.68
1385635--1385763	64	2.0	65	80	7	147	15	20	10	53	1.71
1392279--1392319	20	2.0	21	85	4	57	14	19	4	60	1.51
1395119--1395153	10	3.4	10	92	4	52	77	0	2	20	0.90
1396142--1396181	16	2.4	16	87	4	53	70	0	5	25	1.08
1396238--1396292	24	2.3	22	80	20	58	74	3	7	14	1.17
1396425--1396511	5	16.4	5	74	18	54	71	1	3	24	1.08
1396415--1396511	17	6.1	15	71	19	63	71	1	4	23	1.10
1400664--1400695	2	16.0	2	100	0	64	50	0	0	50	1.00
1402482--1402621	39	3.6	39	89	1	201	48	9	17	25	1.76
1409040--1409116	31	2.5	31	91	0	118	32	15	14	37	1.88
1409788--1409835	25	1.9	25	91	0	78	43	4	16	35	1.67
1410429--1410460	3	10.7	3	100	0	64	65	0	34	0	0.93
1410685--1410718	3	11.3	3	100	0	68	0	32	0	67	0.91
1411860--1411995	74	1.9	72	84	6	184	41	2	7	48	1.46
1415446--1415497	20	2.6	20	93	0	86	36	13	21	28	1.91
1422502--1422538	17	2.2	17	100	0	74	51	16	0	32	1.45
1422655--1422684	6	4.8	6	92	8	51	50	3	13	33	1.58
1423261--1423289	13	2.3	13	94	5	51	41	37	0	20	1.53
1425111--1425154	2	22.0	2	100	0	88	50	0	0	50	1.00
1425899--1426192	149	2.0	148	89	0	453	26	12	18	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1428251--1428401	60	2.5	60	79	6	171	31	27	5	35	1.81
1428251--1428427	60	2.9	59	73	9	151	31	28	6	33	1.82
1429003--1429028	3	8.7	3	100	0	52	34	0	0	65	0.93
1429228--1429257	14	2.1	14	100	0	60	66	20	6	6	1.38
1429312--1429432	21	5.9	21	72	14	65	37	19	19	23	1.95
1429378--1429430	20	2.7	20	88	5	72	43	22	18	15	1.87
1429439--1429588	41	3.7	40	86	3	176	37	24	17	20	1.94
1429439--1429588	20	7.4	20	76	3	140	37	24	17	20	1.94
1429499--1429558	19	3.1	19	71	4	57	43	23	15	18	1.87
1430149--1430218	20	3.5	20	80	1	79	51	21	12	14	1.75

Tables:   1   2   3   4   5   6   7