genome.fa.s7999.2.7.7.80.10.50.1000.5.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  5  of  50  ( 5918 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)
1051346--1051375	13	2.3	13	94	0	51	20	30	23	26	1.98
1051362--1051404	22	1.9	23	90	4	70	25	32	20	20	1.97
1052617--1052664	19	2.5	20	82	3	62	52	6	12	29	1.63
1053910--1053967	30	1.9	30	93	6	100	32	3	17	46	1.65
1054068--1054110	22	1.9	23	90	4	70	25	32	20	20	1.97
1054563--1054632	34	2.1	32	86	5	95	31	15	30	22	1.95
1055755--1056002	55	4.6	55	86	8	368	37	11	15	35	1.84
1055755--1056013	105	2.4	107	88	5	382	37	11	15	35	1.84
1055755--1056042	105	2.7	104	85	4	292	37	11	16	34	1.86
1060546--1060584	20	2.0	20	89	0	60	25	28	30	15	1.96
1063076--1063145	23	3.0	23	77	8	88	15	22	27	34	1.95
1063076--1063167	46	2.0	44	87	4	130	14	21	28	35	1.92
1072493--1072636	44	3.2	44	86	3	182	34	21	9	34	1.85
1074350--1074396	19	2.5	19	92	0	67	34	4	27	34	1.77
1074350--1074388	19	2.1	19	100	0	78	35	5	28	30	1.79
1082287--1082390	45	2.3	45	91	1	165	30	24	9	35	1.87
1094359--1094414	28	2.0	28	86	6	78	39	3	7	50	1.47
1094525--1094576	20	2.5	20	90	3	77	34	17	1	46	1.59
1106727--1106769	19	2.3	19	96	4	79	27	16	27	27	1.97
1123996--1124068	30	2.4	30	93	0	119	30	26	20	23	1.99
1124054--1124205	30	5.0	30	72	11	105	31	19	18	30	1.96
1124055--1124239	60	3.0	61	88	5	268	30	20	17	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124055--1124239	31	6.1	32	75	11	156	30	20	17	31	1.95
1128605--1128789	31	6.1	31	76	10	177	30	20	17	31	1.96
1128629--1128789	62	2.7	63	93	6	280	30	19	17	32	1.95
1144734--1144758	12	2.1	12	100	0	50	40	0	36	24	1.55
1148067--1148095	11	2.7	11	94	5	51	58	0	10	31	1.31
1149207--1149319	58	1.9	58	98	0	217	29	14	25	30	1.95
1152952--1152986	18	1.9	18	94	0	61	25	51	8	14	1.70
1152985--1153016	13	2.5	13	100	0	64	15	31	21	31	1.95
1157154--1157262	24	4.5	24	73	11	89	22	15	14	47	1.81
1160783--1160812	15	2.0	15	93	0	51	30	13	23	33	1.93
1162235--1162341	24	4.5	24	70	4	81	25	10	15	48	1.77
1165138--1165393	84	3.0	84	84	8	300	20	23	25	30	1.99
1173281--1173314	16	2.1	16	88	0	50	50	5	8	35	1.58
1173739--1173797	27	2.2	27	93	3	102	54	11	6	27	1.62
1181822--1181874	26	2.0	26	100	0	106	28	22	7	41	1.81
1189633--1189663	13	2.4	13	94	0	53	38	25	19	16	1.92
1197398--1197428	16	1.9	16	93	0	53	38	6	6	48	1.55
1197430--1197460	13	2.4	13	94	0	53	38	25	19	16	1.92
1201697--1201745	24	2.0	24	100	0	98	55	8	0	36	1.30
1202907--1202954	22	2.2	22	92	0	78	10	20	47	20	1.79
1202914--1202960	5	9.2	5	77	13	51	6	19	53	21	1.67
1202964--1203023	9	6.3	9	77	11	57	28	26	28	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206001--1206045	13	3.5	13	90	0	72	15	44	22	17	1.86
1206032--1206078	10	5.5	8	85	14	51	12	34	25	27	1.92
1206035--1206068	15	2.1	16	89	10	52	11	35	26	26	1.91
1206692--1207228	271	2.0	270	94	3	966	38	7	19	33	1.80
1207767--1207792	9	2.9	9	100	0	52	57	23	0	19	1.40
1208733--1208817	12	7.3	11	72	17	64	18	15	17	48	1.82
1208732--1208825	24	4.0	24	80	8	95	21	14	15	47	1.82
1211111--1211154	17	2.3	21	70	29	60	22	27	27	22	1.99
1211117--1211155	17	2.3	17	100	0	78	20	28	25	25	1.99
1215121--1215154	14	2.4	14	90	0	50	17	32	29	20	1.96
1215664--1215736	31	2.3	31	80	2	83	26	31	26	16	1.96
1218875--1218909	18	1.9	18	88	0	52	34	14	0	51	1.42
1229318--1229351	11	3.2	11	87	8	52	0	20	0	79	0.73
1243060--1243163	3	35.3	3	76	11	99	31	2	0	65	1.07
1244995--1245060	16	4.1	17	74	14	59	51	24	1	22	1.57
1256197--1256267	5	13.8	5	77	14	56	7	22	49	21	1.73
1256190--1256227	17	2.2	17	90	0	58	13	26	42	18	1.87
1256184--1256232	22	2.1	23	88	7	73	14	26	40	18	1.89
1256197--1256260	27	2.4	27	89	2	94	7	21	50	20	1.73
1256264--1256320	9	6.1	9	82	8	69	28	29	28	14	1.95
1256264--1256320	19	3.1	18	80	7	69	28	29	28	14	1.95
1257845--1257917	31	2.3	31	80	2	83	26	31	26	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260087--1260114	13	2.2	13	100	0	56	35	21	25	17	1.95
1260146--1260179	14	2.4	14	90	0	50	17	32	29	20	1.96
1267584--1267618	18	1.9	18	88	0	52	34	14	0	51	1.42
1292750--1292788	21	2.0	20	90	10	62	56	2	28	12	1.50
1292984--1293079	3	33.3	3	74	12	76	31	2	0	66	1.03
1294906--1294971	16	4.1	17	74	14	59	51	24	1	22	1.57
1302434--1302474	19	2.2	19	95	0	73	0	7	12	80	0.90
1304579--1304627	21	2.3	21	82	10	55	18	20	36	24	1.94
1317037--1317096	21	2.8	22	80	11	72	25	38	23	13	1.91
1317784--1317809	12	2.2	12	100	0	52	23	53	0	23	1.46
1325811--1325865	10	5.3	10	75	18	51	78	0	10	10	0.98
1325814--1325868	16	3.4	16	92	7	94	74	0	12	12	1.07
1325811--1325865	26	2.1	25	83	12	67	78	0	10	10	0.98
1326487--1326532	20	2.3	20	88	0	65	39	13	21	26	1.90
1326858--1326937	22	3.6	22	84	0	106	37	13	11	37	1.81
1326848--1326920	22	3.5	20	76	16	69	31	16	8	43	1.77
1327326--1327390	17	3.2	20	64	23	55	43	9	21	26	1.82
1327295--1327614	112	2.9	112	95	0	563	39	16	18	25	1.91
1327549--1327612	17	3.2	20	63	20	53	45	9	20	25	1.80
1328102--1328201	3	34.0	3	79	9	100	34	2	0	64	1.05
1328115--1328199	32	2.7	32	81	5	109	34	2	0	63	1.07
1342219--1342321	24	4.3	24	79	10	122	16	10	16	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342239--1342321	12	6.9	12	72	10	71	16	12	16	54	1.71
1353034--1353072	13	2.9	13	81	7	51	41	23	17	17	1.91
1353086--1353124	14	2.7	14	84	4	51	25	20	30	23	1.98
1356237--1356295	13	4.5	13	82	4	66	32	16	13	37	1.88
1356456--1356483	2	14.0	2	100	0	56	50	0	0	50	1.00
1360671--1360744	9	7.8	9	72	11	58	17	27	28	27	1.98
1360671--1360748	19	4.1	19	89	1	111	17	26	28	26	1.98
1360692--1360750	9	6.3	9	78	7	64	15	30	30	23	1.95
1360752--1360799	22	2.2	21	89	7	78	20	45	22	10	1.81
1367951--1368009	5	11.8	5	75	10	50	20	49	25	5	1.69
1367962--1368016	27	2.0	27	96	0	101	18	47	25	9	1.78
1374995--1375045	12	4.2	12	94	0	84	56	3	39	0	1.18
1375665--1375693	13	2.2	13	100	0	58	37	13	13	34	1.85
1383273--1383311	20	2.0	20	94	0	69	35	20	10	33	1.86
1396623--1396676	21	2.8	19	76	13	65	37	31	11	20	1.88
1396743--1396792	20	2.6	19	78	6	55	26	16	28	30	1.96
1409884--1409917	16	2.2	15	89	5	50	17	8	0	73	1.08
1410963--1411196	81	2.9	81	92	0	369	35	9	23	31	1.87
1411129--1411251	59	2.1	59	87	0	174	33	8	27	30	1.87
1415235--1415269	17	2.1	17	100	0	70	34	5	22	37	1.78
1416199--1416308	55	2.0	56	92	1	186	36	10	19	34	1.85
1416451--1416864	81	5.1	81	91	0	641	35	10	24	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416920--1417029	45	2.4	46	83	8	136	45	10	22	21	1.81
1417716--1417754	19	2.1	19	100	0	78	35	10	5	48	1.59
1417880--1417970	31	2.9	31	95	0	155	30	19	13	36	1.90
1420540--1420592	21	2.5	21	81	0	70	20	26	18	33	1.96
1420582--1420714	20	6.7	20	98	0	248	39	20	20	20	1.93
1420915--1420976	22	2.8	22	80	7	72	25	37	12	24	1.91
1421376--1421400	13	1.9	13	100	0	50	0	16	36	48	1.46
1423256--1423309	20	2.7	20	88	0	81	38	24	16	20	1.92
1423261--1423447	53	3.5	54	71	11	159	44	21	17	16	1.86
1423348--1423415	20	3.3	20	87	4	91	41	22	16	20	1.90

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