genome.fa.s8620.2.7.7.80.10.50.1000.6.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  6  of  64  ( 7674 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)
1222301--1222344	18	2.4	19	84	3	63	25	45	15	13	1.83
1222828--1222872	20	2.3	19	84	3	63	37	15	24	22	1.93
1222836--1222951	19	6.6	19	71	21	92	43	21	21	13	1.87
1222872--1222929	14	3.9	14	79	16	71	48	24	17	10	1.78
1222856--1222946	32	2.8	33	94	3	166	47	21	18	12	1.81
1222988--1223062	39	1.9	39	86	5	107	14	24	22	38	1.92
1222977--1223081	20	5.4	19	82	4	104	14	20	23	40	1.89
1224924--1224959	14	2.6	14	90	0	54	30	0	22	47	1.52
1225076--1225114	19	2.1	19	100	0	78	46	15	23	15	1.83
1225137--1225194	20	2.9	20	97	0	107	15	22	24	37	1.93
1226243--1226296	24	2.2	24	86	0	72	25	14	20	38	1.91
1228763--1228893	19	7.7	19	63	23	76	41	20	21	16	1.90
1228764--1228896	33	4.0	33	93	1	205	39	20	21	18	1.92
1228918--1228964	19	2.5	19	96	0	85	12	21	21	44	1.85
1229071--1229107	14	2.6	14	91	0	65	45	24	0	29	1.53
1230501--1230580	42	1.9	42	84	0	106	22	17	38	21	1.93
1232413--1232550	20	7.7	19	67	18	64	43	19	23	13	1.86
1232438--1232522	33	2.5	33	94	1	143	38	22	27	11	1.89
1232508--1232550	18	2.3	18	84	4	59	48	20	18	11	1.79
1235822--1235857	14	2.6	14	95	0	63	30	0	25	44	1.54
1235964--1236030	19	3.8	19	77	18	81	44	20	22	11	1.84
1236035--1236185	19	8.7	19	63	21	71	15	21	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236039--1236165	33	3.9	32	85	8	184	14	22	19	43	1.88
1236032--1236164	66	2.0	66	95	0	239	16	21	19	42	1.89
1238456--1238480	12	2.1	12	100	0	50	0	28	0	72	0.86
1239764--1239841	20	3.9	20	98	0	147	37	24	23	15	1.93
1239865--1239918	14	3.5	14	77	22	63	11	20	20	48	1.80
1239847--1239917	33	2.2	33	84	0	88	19	19	21	39	1.93
1239860--1239929	33	2.1	33	91	0	113	12	24	20	42	1.86
1240025--1240061	14	2.6	14	86	0	56	48	21	0	29	1.50
1241929--1241982	20	2.7	20	85	0	72	37	22	24	16	1.94
1241985--1242042	14	3.9	14	75	16	53	50	25	13	10	1.74
1241977--1242047	32	2.2	33	92	2	117	49	23	16	9	1.76
1242059--1242104	20	2.3	20	88	0	65	15	21	26	36	1.93
1242586--1242630	18	2.5	18	88	0	72	13	15	44	26	1.83
1243950--1244008	20	3.0	20	87	0	73	42	22	18	16	1.89
1244502--1244574	20	3.7	20	92	0	119	26	19	28	26	1.98
1244585--1244636	20	2.5	20	75	3	50	17	23	19	40	1.91
1245576--1245618	18	2.4	18	92	0	68	27	44	11	16	1.82
1248255--1248295	16	2.6	16	88	3	57	29	21	12	36	1.90
1249421--1249457	19	1.9	19	88	0	56	35	29	13	21	1.92
1249543--1249586	20	2.2	20	100	0	88	40	20	13	25	1.89
1249552--1249595	20	2.2	20	91	0	70	40	22	15	20	1.90
1249605--1249649	20	2.2	20	92	0	72	28	28	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249819--1249888	22	3.2	22	81	0	95	22	41	12	22	1.88
1250232--1250312	33	2.4	34	87	6	121	17	22	23	37	1.94
1250284--1250332	20	2.5	20	82	0	53	20	18	24	36	1.94
1250300--1250355	20	2.8	20	91	0	85	12	16	21	50	1.78
1250319--1250362	20	2.2	20	91	0	70	11	13	20	54	1.69
1252177--1252238	31	2.0	31	87	9	90	24	8	16	51	1.71
1252357--1252443	20	4.3	20	92	0	66	33	22	18	25	1.97
1252375--1252444	20	3.5	20	98	0	131	30	22	20	27	1.98
1252487--1252523	19	1.9	19	94	0	65	5	13	27	54	1.61
1252507--1252567	14	4.0	14	73	19	50	11	21	24	42	1.86
1252507--1252584	33	2.3	34	93	2	131	14	21	24	39	1.90
1252596--1252635	20	2.0	20	100	0	80	15	10	25	50	1.74
1253116--1253220	21	5.0	21	78	0	102	21	35	16	26	1.94
1253112--1253218	42	2.5	42	80	1	115	21	35	16	26	1.95
1254592--1254657	30	2.2	30	94	0	114	30	4	12	53	1.58
1254807--1255104	20	15.9	20	73	12	211	22	19	21	37	1.95
1254773--1254903	34	3.7	34	73	13	111	22	19	20	37	1.94
1254821--1255101	74	3.8	72	77	9	255	21	19	21	37	1.94
1254920--1255062	54	2.6	54	93	0	232	19	21	21	37	1.95
1255279--1255313	18	1.9	18	94	0	61	17	2	25	54	1.57
1257351--1257377	14	1.9	14	100	0	54	7	18	29	44	1.77
1257352--1257384	14	2.5	13	90	9	50	6	21	24	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257577--1257630	24	2.2	24	90	0	81	42	20	16	20	1.89
1258451--1258598	20	7.3	20	79	8	165	22	21	26	29	1.99
1258464--1258578	41	2.8	41	95	0	203	21	22	26	29	1.99
1258484--1258558	21	3.6	21	80	10	100	21	22	25	30	1.99
1258451--1258598	61	2.4	61	83	6	167	22	21	26	29	1.99
1258585--1258660	21	3.7	20	81	10	73	31	19	18	30	1.96
1258450--1258679	102	2.3	102	78	6	243	26	20	24	28	1.99
1258624--1258672	21	2.4	21	86	10	66	36	20	22	20	1.95
1258693--1258739	19	2.4	19	82	3	58	25	14	29	29	1.95
1258705--1258741	19	1.9	19	94	0	65	21	16	29	32	1.95
1260563--1260600	2	19.0	2	100	0	76	50	0	0	50	1.00
1262204--1262236	16	2.1	16	100	0	66	36	6	18	39	1.75
1267464--1267496	16	2.1	16	100	0	66	36	6	18	39	1.75
1271465--1271548	27	2.9	29	77	8	100	27	3	7	61	1.38
1272300--1272349	19	2.5	20	90	3	75	44	24	16	16	1.86
1272298--1272557	20	12.7	20	73	9	112	40	19	22	18	1.92
1272404--1272540	43	3.3	43	82	6	190	36	17	24	21	1.94
1272661--1272761	6	17.3	6	93	6	181	33	50	15	0	1.45
1273445--1273519	6	12.5	6	100	0	150	0	17	49	33	1.47
1273599--1273638	20	2.0	20	85	9	55	7	20	20	52	1.70
1273626--1273801	20	8.6	20	89	3	226	19	28	17	34	1.95
1273611--1273822	60	3.4	60	81	5	262	18	27	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273836--1273889	20	2.7	20	83	11	74	11	20	16	51	1.74
1273876--1273946	19	3.7	19	90	5	108	18	16	22	42	1.89
1274819--1274864	24	1.9	24	100	0	92	63	8	4	23	1.42
1282657--1282708	24	2.1	25	92	3	88	53	9	19	17	1.70
1292384--1292547	7	22.7	7	72	18	99	42	1	3	53	1.27
1292400--1292527	15	8.7	15	70	25	53	42	1	3	52	1.29
1292427--1292482	22	2.6	21	80	11	60	42	3	5	48	1.43
1292473--1292535	3	21.0	3	82	12	76	36	1	1	60	1.16
1292428--1292539	41	2.6	41	79	13	111	40	2	3	53	1.32
1292474--1292564	28	3.1	30	80	19	104	36	3	1	59	1.21
1293068--1293110	22	2.0	22	82	17	54	72	25	2	0	0.97
1295745--1295876	2	69.5	2	68	24	65	41	2	5	50	1.37
1295745--1295889	7	20.1	7	70	17	84	40	2	4	53	1.34
1297223--1297277	24	2.3	24	100	0	110	23	0	47	29	1.52
1299456--1299500	21	2.1	21	87	0	63	31	28	24	15	1.96
1300174--1300298	31	4.0	31	95	2	216	19	19	23	38	1.93
1301270--1301333	21	3.0	21	77	4	74	28	23	21	26	1.99
1306741--1306772	6	5.5	6	96	3	57	0	15	50	34	1.45
1307026--1307101	38	2.0	38	97	0	143	35	14	18	31	1.91
1309315--1309358	14	3.2	13	82	17	54	11	22	0	65	1.24
1309308--1309358	18	2.9	17	72	18	50	13	21	0	64	1.28
1309902--1309948	18	2.6	18	86	6	60	42	36	2	19	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311786--1311872	4	20.8	4	70	17	52	67	3	4	24	1.25
1311799--1311875	9	8.4	9	72	13	68	68	2	3	24	1.19
1311786--1311837	21	2.5	21	84	6	70	67	3	5	23	1.29
1311799--1311868	30	2.3	30	90	0	104	68	2	4	24	1.21
1311827--1311879	17	3.1	17	83	0	79	67	3	1	26	1.17
1311824--1311872	21	2.3	21	79	6	55	69	2	2	26	1.10
1317070--1317222	20	7.7	20	84	2	182	36	26	18	17	1.94
1317601--1317671	33	2.2	33	94	0	124	11	23	16	47	1.79
1317751--1317824	21	3.5	20	80	8	94	47	17	20	14	1.83
1317812--1317868	14	3.7	14	70	20	51	43	21	24	10	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64