genome.fa.s7984.2.7.7.80.10.50.1000.7.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   
          65   

This is table  7  of  65  ( 7696 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)
1208398--1208483	19	4.6	18	72	13	75	34	1	3	60	1.21
1208463--1208500	14	2.8	13	92	7	67	34	0	0	65	0.93
1208398--1208484	18	4.7	18	70	13	68	34	1	3	60	1.21
1208463--1208515	27	2.0	26	85	3	70	37	1	0	60	1.08
1209106--1209189	23	3.7	23	91	1	134	33	27	14	25	1.94
1209276--1209356	20	4.1	20	77	4	83	55	14	12	17	1.69
1211929--1212168	18	13.5	18	79	3	218	7	7	42	42	1.60
1211929--1212168	6	40.5	6	73	5	130	7	7	42	42	1.60
1211976--1212054	23	3.4	23	85	3	104	8	7	40	43	1.64
1211958--1212147	24	8.1	23	76	8	177	7	7	43	41	1.62
1211951--1212168	24	9.2	24	77	5	176	6	7	43	41	1.60
1212354--1212683	105	3.0	113	82	10	385	31	6	31	30	1.83
1212918--1213059	61	2.3	61	91	0	230	36	9	7	46	1.64
1213082--1213163	26	2.9	27	81	16	87	46	1	7	45	1.39
1213111--1213329	33	6.6	33	75	15	177	41	5	7	45	1.56
1213114--1213265	51	3.0	51	91	0	250	41	5	9	44	1.59
1213111--1213329	84	2.6	82	80	5	260	41	5	7	45	1.56
1213301--1213339	13	3.0	13	84	0	51	35	5	5	53	1.45
1213111--1213330	69	3.3	65	73	13	214	41	5	7	45	1.56
1213140--1213387	18	14.8	17	69	20	66	41	6	7	45	1.56
1213341--1213393	18	2.9	18	83	5	63	47	5	7	39	1.56
1213488--1213691	47	4.2	46	65	24	116	43	5	8	42	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213466--1213570	27	4.0	27	87	2	124	47	4	5	41	1.48
1213500--1213583	27	3.2	26	86	6	73	41	5	7	45	1.56
1213540--1213644	34	2.9	34	80	13	104	40	3	8	47	1.52
1213659--1213723	31	2.1	31	81	16	73	41	3	10	44	1.55
1213595--1213722	27	4.9	27	74	7	93	43	4	9	42	1.57
1213813--1214005	2	93.5	2	69	18	76	43	3	6	47	1.44
1213850--1214005	17	8.9	17	72	19	124	41	1	7	50	1.39
1213881--1213960	42	1.9	42	89	5	126	42	1	6	50	1.35
1213882--1213991	44	2.6	41	78	8	123	40	1	8	49	1.43
1213953--1214015	33	1.9	33	100	0	126	38	3	11	47	1.55
1213953--1214035	33	2.6	33	90	3	125	40	3	9	45	1.54
1213999--1214145	79	1.9	79	80	5	172	40	5	8	45	1.57
1214054--1214226	42	4.2	41	71	19	144	39	5	8	46	1.57
1214132--1214189	22	2.6	22	86	2	80	34	3	8	53	1.49
1214149--1214297	13	11.1	13	65	25	53	38	4	8	47	1.55
1214138--1214228	22	4.3	22	78	10	84	37	5	9	47	1.60
1214045--1214254	81	2.6	80	80	10	209	39	5	8	46	1.57
1214329--1214702	22	17.8	22	69	17	117	45	3	4	45	1.40
1214373--1214487	9	11.5	10	68	26	59	46	2	2	48	1.30
1214434--1214695	11	24.4	11	70	15	70	45	3	4	46	1.40
1214573--1214706	2	66.5	2	84	10	175	49	0	2	47	1.19
1214329--1214697	20	17.9	22	70	18	147	46	3	4	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224230--1224296	32	2.1	32	94	0	116	26	22	17	32	1.96
1227918--1228008	31	3.0	31	93	6	152	35	6	14	43	1.71
1228175--1228216	21	2.0	21	95	0	75	23	21	28	26	1.99
1228499--1228568	34	2.1	32	89	5	104	31	15	31	21	1.95
1229080--1229143	31	2.1	31	100	0	128	31	28	31	9	1.88
1230013--1230075	7	9.4	7	75	13	53	23	25	31	19	1.98
1230025--1230060	18	2.0	18	100	0	72	16	27	38	16	1.90
1231219--1231276	18	3.2	18	72	13	57	31	12	1	55	1.47
1231257--1231307	20	2.5	20	87	9	68	27	13	1	56	1.48
1232877--1232912	2	18.0	2	100	0	72	50	0	0	50	1.00
1233576--1233603	2	14.0	2	100	0	56	50	0	0	50	1.00
1235934--1235985	2	26.5	2	81	18	65	48	0	3	48	1.20
1235967--1236031	26	2.5	26	87	12	89	53	1	1	43	1.19
1235969--1236089	22	4.9	23	75	18	102	46	1	4	47	1.34
1236044--1236118	28	2.7	29	86	10	95	41	1	4	53	1.28
1246013--1246054	22	2.0	22	86	9	61	57	9	21	11	1.63
1257541--1257609	34	1.9	37	88	8	108	17	23	36	23	1.95
1260928--1260967	21	1.9	21	89	0	62	37	2	5	55	1.35
1262033--1262075	19	2.2	19	84	12	52	65	13	11	9	1.48
1264081--1264133	18	3.1	17	78	7	63	43	16	1	37	1.60
1264944--1264968	2	12.5	2	100	0	50	48	0	0	52	1.00
1265242--1265289	25	1.9	25	95	0	87	64	8	0	27	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265539--1266049	181	2.8	179	77	9	391	37	12	10	39	1.77
1266229--1266260	15	2.1	15	94	0	55	46	6	9	37	1.61
1266366--1266405	21	1.9	22	90	10	66	12	10	40	37	1.77
1266579--1266649	36	2.0	36	94	2	126	14	26	36	22	1.92
1266577--1266642	20	3.5	20	67	23	61	15	24	40	19	1.90
1267092--1267153	22	2.8	22	82	0	79	27	24	17	30	1.97
1273159--1273226	24	2.8	24	90	0	109	16	35	22	26	1.94
1273271--1273296	13	2.0	13	100	0	52	15	23	23	38	1.92
1275725--1275809	24	3.5	24	80	3	100	20	10	17	51	1.74
1278143--1278206	22	2.9	22	92	0	110	25	25	23	26	2.00
1283345--1283407	21	3.0	21	83	2	72	46	4	7	41	1.54
1283335--1283421	22	3.9	23	78	14	101	44	4	8	42	1.54
1283551--1283589	15	2.7	15	88	4	53	25	2	0	71	0.98
1286060--1286101	15	2.8	15	88	0	57	40	4	52	2	1.35
1287408--1287495	23	3.4	25	75	20	83	45	3	0	51	1.18
1287408--1287495	26	3.4	26	79	14	94	45	3	0	51	1.18
1287651--1287718	31	2.2	31	84	5	84	54	8	4	32	1.51
1288671--1289189	266	2.0	261	93	2	887	41	9	13	35	1.77
1291109--1291900	268	3.0	260	89	6	1189	26	13	20	39	1.90
1292786--1292838	9	5.7	9	80	8	61	16	24	30	28	1.97
1292785--1292839	19	2.9	19	91	0	92	18	25	29	27	1.98
1292785--1292831	9	4.9	10	79	10	62	19	23	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292849--1292900	18	2.9	18	97	2	97	17	48	23	11	1.79
1292839--1292872	13	2.6	13	95	0	59	14	47	23	14	1.82
1292908--1292995	29	3.0	29	86	6	133	23	6	23	45	1.77
1292908--1293098	58	3.3	58	78	5	176	28	6	21	42	1.78
1292908--1293106	28	7.0	28	74	6	130	28	7	21	42	1.79
1292998--1293127	28	4.5	29	78	4	120	32	7	20	39	1.81
1293075--1293139	29	2.2	29	80	0	76	38	6	20	35	1.77
1294405--1294443	19	2.1	19	86	13	55	30	5	5	58	1.41
1300134--1300171	19	2.0	19	94	0	67	15	28	31	23	1.96
1300197--1300222	7	3.7	7	100	0	52	15	30	30	23	1.95
1300279--1300432	29	5.3	29	84	1	175	29	5	23	41	1.76
1300255--1300431	58	3.1	57	83	1	192	30	5	22	42	1.75
1302015--1302059	17	2.6	17	89	0	72	28	31	6	33	1.83
1304767--1304791	8	3.1	8	100	0	50	52	12	24	12	1.72
1304837--1304870	16	2.1	16	100	0	68	29	11	17	41	1.85
1307077--1307151	38	2.0	37	89	2	114	48	14	9	28	1.75
1316256--1316294	20	2.0	20	89	0	60	51	12	7	28	1.67
1318006--1318168	87	1.9	87	93	2	283	41	12	12	33	1.81
1318163--1318886	200	3.6	197	88	3	1015	29	16	15	38	1.89
1322316--1322357	21	2.0	22	90	4	68	47	9	14	28	1.75
1322322--1323490	201	5.8	200	90	1	1636	31	14	14	39	1.87
1322323--1323490	399	2.9	400	87	3	1706	31	14	14	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324811--1324847	18	2.1	18	89	0	56	51	10	5	32	1.60
1324813--1324866	24	2.2	24	80	0	63	50	12	5	31	1.64
1326266--1326318	3	17.7	3	80	7	63	28	30	1	39	1.67
1327461--1327506	15	2.9	15	81	15	56	26	4	41	28	1.74
1327797--1328760	200	4.8	200	91	1	1515	32	15	12	38	1.86
1329141--1329190	19	2.5	20	90	3	75	56	12	6	26	1.58
1330652--1330688	18	2.1	18	94	0	65	8	37	0	54	1.30
1331041--1331073	15	2.2	15	100	0	66	12	63	6	18	1.48
1331105--1331160	9	6.2	9	82	0	58	14	53	5	26	1.62
1331097--1331154	27	2.1	27	83	0	71	13	53	3	29	1.56

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   
          65