genome.fa.s9247.2.7.7.80.10.50.1000.7.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: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479039

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 948 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)
1177772--1177814	22	2.0	22	90	0	68	48	16	2	32	1.58
1177518--1177980	134	3.4	134	96	0	854	51	14	0	33	1.44
1177831--1177903	22	3.3	22	69	16	53	54	15	0	30	1.41
1177588--1178025	188	2.3	186	86	6	600	52	13	0	34	1.43
1177906--1177948	22	2.0	22	100	0	86	51	13	0	34	1.42
1177908--1177956	22	2.2	22	88	3	71	55	14	0	30	1.40
1177960--1178002	22	2.0	22	95	0	77	51	11	0	37	1.39
1177962--1178010	22	2.2	22	85	3	62	55	12	0	32	1.37
1178005--1178040	15	2.5	15	95	4	65	58	0	0	41	0.98
1179928--1179967	12	3.1	12	86	13	53	35	7	7	50	1.59
1202245--1202418	75	2.3	75	82	3	217	50	15	5	28	1.67
1202346--1202374	12	2.5	12	94	5	51	62	10	0	27	1.28
1207139--1207262	51	2.5	50	82	5	160	16	33	30	20	1.94
1207283--1207404	51	2.4	49	86	5	163	19	30	34	15	1.93
1211582--1211612	12	2.6	12	100	0	62	45	0	0	54	0.99
1211599--1212031	22	19.6	22	88	3	647	39	0	11	48	1.43
1212055--1212113	31	1.9	31	89	0	91	47	6	1	44	1.39
1218515--1218699	91	2.0	91	100	0	370	21	10	31	35	1.88
1221766--1221812	23	2.0	23	87	0	67	38	17	19	25	1.92
1221889--1221929	16	2.6	16	92	3	66	29	19	12	39	1.88
1221963--1222006	18	2.4	18	88	0	61	45	11	6	36	1.67
1223154--1223193	21	1.9	21	90	10	64	20	27	5	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223963--1224026	27	2.4	27	97	0	119	39	3	12	45	1.58
1224267--1224316	14	3.6	14	100	0	100	50	0	8	42	1.32
1225603--1225648	18	2.6	18	85	0	65	45	13	6	34	1.69
1227963--1228081	33	3.6	33	75	4	107	30	26	26	15	1.96
1227963--1228114	66	2.3	66	87	4	209	30	25	26	17	1.97
1234488--1234518	14	2.2	14	100	0	62	12	6	35	45	1.68
1234959--1235011	21	2.5	21	78	0	61	20	24	18	35	1.95
1235001--1235091	20	4.6	20	97	0	164	36	20	20	21	1.95
1235657--1235727	33	2.1	34	84	7	92	9	19	26	43	1.82
1235702--1235771	20	3.5	20	90	0	95	8	15	22	52	1.70
1237655--1237798	20	7.5	20	81	9	174	40	22	17	19	1.91
1237655--1237836	40	4.9	40	75	14	174	41	21	18	18	1.91
1237655--1237836	94	1.9	93	86	1	256	41	21	18	18	1.91
1237845--1238018	20	9.4	20	76	16	142	18	18	20	42	1.89
1237826--1238021	107	1.8	107	93	0	338	17	19	20	42	1.89
1237826--1238019	40	5.4	35	72	16	146	17	19	20	42	1.90
1238502--1238606	21	5.0	21	74	3	95	20	37	19	22	1.95
1238499--1238609	42	2.6	42	78	5	118	20	37	18	22	1.94
1239966--1240001	14	2.6	14	90	0	54	30	0	22	47	1.52
1240114--1240177	33	1.9	33	87	0	92	43	18	20	17	1.88
1240207--1240300	20	4.7	20	86	2	136	19	21	24	35	1.96
1240209--1240300	40	2.3	40	92	3	150	19	20	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242705--1242758	24	2.2	24	93	0	90	40	20	18	20	1.91
1242705--1242772	24	2.8	24	84	0	64	38	20	17	23	1.93
1243612--1243754	20	7.1	20	84	3	180	22	20	18	38	1.93
1243756--1243800	21	2.1	21	87	0	63	37	17	26	17	1.93
1244249--1244348	3	33.3	3	93	0	173	34	1	2	63	1.13
1245665--1245697	3	11.0	3	93	0	57	33	3	0	63	1.10
1247950--1248031	42	1.9	43	90	2	130	32	10	20	35	1.88
1249697--1249749	2	27.0	2	96	3	99	49	0	0	50	1.00
1250052--1250086	15	2.2	16	90	5	54	68	5	14	11	1.37
1254036--1254215	54	3.3	54	92	0	297	41	15	18	25	1.89
1254575--1254628	22	2.5	22	90	3	83	35	14	11	38	1.82
1254892--1255299	114	3.6	110	79	11	393	38	15	17	28	1.90
1254892--1255179	113	2.6	113	86	7	389	37	15	18	28	1.91
1255646--1255670	3	8.3	3	100	0	50	36	0	0	64	0.94
1257010--1257047	15	2.5	15	83	8	51	31	0	2	65	1.06
1257048--1257077	3	10.0	3	92	0	51	33	3	0	63	1.11
1260715--1260790	20	3.8	21	84	3	86	36	23	31	7	1.84
1260745--1260790	9	4.6	10	84	15	60	39	28	28	4	1.76
1261023--1261078	24	2.3	24	96	0	103	37	14	19	28	1.91
1262145--1262195	21	2.4	21	80	6	68	21	25	19	33	1.97
1262204--1262338	41	3.3	39	78	10	135	36	23	17	22	1.95
1262222--1262340	41	2.9	41	89	0	175	37	24	15	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262233--1262346	20	5.6	20	70	8	95	35	25	17	21	1.95
1263611--1263648	14	2.8	14	84	4	51	44	0	0	55	0.99
1264154--1264181	9	3.1	9	100	0	56	21	10	25	42	1.85
1264808--1264862	20	2.8	20	76	20	62	69	1	5	23	1.19
1264808--1264863	19	2.9	19	75	21	62	67	1	5	25	1.21
1264946--1265083	19	7.4	17	72	20	75	64	0	2	31	1.13
1265290--1265316	2	13.5	2	100	0	54	51	0	0	48	1.00
1265717--1265809	37	2.5	37	80	0	96	35	13	9	40	1.78
1271457--1271488	16	1.9	17	93	6	57	25	18	0	56	1.42
1271556--1271742	4	45.8	4	68	13	78	25	3	5	64	1.33
1271559--1271681	23	5.8	22	74	15	107	27	5	3	63	1.33
1271563--1271657	19	4.8	19	83	10	118	27	4	3	65	1.26
1271563--1271740	19	8.9	20	73	14	104	26	3	6	63	1.36
1273764--1273866	52	2.0	52	98	0	197	41	13	23	21	1.88
1278360--1278462	52	2.0	52	98	0	197	41	13	23	21	1.88
1278708--1278767	28	2.1	28	84	0	75	18	8	10	63	1.50
1278810--1278860	18	2.9	17	77	5	57	37	5	3	52	1.44
1291158--1291481	2	167.0	2	67	20	145	47	2	4	45	1.36
1291163--1291247	29	2.9	31	81	11	83	50	3	2	43	1.32
1291272--1291305	15	2.3	15	89	0	50	52	5	5	35	1.50
1291264--1291479	81	2.7	81	84	6	255	47	1	4	45	1.34
1291866--1291908	7	6.1	7	83	0	59	41	37	2	18	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291995--1292101	20	5.1	20	78	15	76	42	7	6	42	1.58
1291995--1292108	22	5.5	21	76	16	105	42	7	7	42	1.59
1292009--1292105	20	4.7	22	79	16	86	44	7	5	43	1.54
1292155--1292224	21	3.3	20	78	9	68	38	8	5	47	1.58
1292190--1292268	22	3.5	22	75	14	63	40	3	6	49	1.46
1292169--1292445	21	12.7	22	66	21	70	44	3	3	48	1.39
1292351--1292471	6	20.3	6	73	22	64	49	0	1	48	1.10
1292232--1292463	50	4.8	50	74	19	138	46	3	2	48	1.31
1292349--1292461	15	7.4	14	76	19	86	48	0	0	50	1.06
1292353--1292462	21	5.0	21	76	19	93	50	0	0	49	1.07
1292357--1292473	28	4.0	27	77	21	105	49	0	1	48	1.11
1292406--1292483	15	5.5	14	77	18	72	52	0	1	46	1.08
1292709--1292754	18	2.5	19	79	10	60	17	26	8	47	1.76
1293169--1293278	6	18.5	6	75	5	71	44	42	4	8	1.54
1293169--1293224	19	3.1	19	80	12	55	48	42	3	5	1.43
1293169--1293317	12	12.4	12	69	5	50	42	41	6	9	1.63
1293197--1293229	17	2.0	16	94	5	57	42	42	6	9	1.61
1293182--1293278	35	2.7	35	75	6	88	44	42	5	8	1.56
1293168--1293278	47	2.3	47	84	4	134	44	42	5	8	1.57
1293262--1293353	43	2.1	43	82	4	105	43	39	7	9	1.66
1293632--1293665	17	2.0	17	100	0	68	11	11	17	58	1.62
1293649--1293860	101	2.1	102	92	0	363	20	7	20	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299503--1299698	95	2.1	94	85	3	268	32	18	17	31	1.94
1300954--1301140	85	2.2	85	81	4	216	32	26	19	22	1.97
1301237--1301463	125	1.8	125	91	0	373	33	23	18	24	1.97
1301635--1301806	36	4.9	36	71	16	137	24	21	13	40	1.89
1301839--1302038	84	2.4	83	85	5	271	32	22	19	26	1.97
1301839--1302121	84	3.4	82	81	9	234	32	21	19	26	1.97
1303722--1303754	17	2.0	17	88	5	50	24	15	12	48	1.78
1303837--1303911	2	38.0	2	97	2	143	49	0	0	50	1.00
1304024--1304065	11	3.7	11	90	3	57	38	0	0	61	0.96
1304030--1304064	15	2.2	15	90	10	52	37	0	0	62	0.95

Tables:   1   2   3   4   5   6   7   8