genome.fa.s8506.2.7.7.80.10.50.1000.6.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: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1253200

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 681 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)
1114084--1114124	14	2.7	15	82	17	50	51	0	0	48	1.00
1115653--1115749	3	33.0	3	91	8	164	64	0	0	35	0.93
1126435--1126598	65	2.5	64	85	1	229	27	15	26	30	1.96
1126549--1126595	19	2.5	19	83	10	62	25	17	31	25	1.97
1126439--1126645	65	3.2	62	80	12	204	27	16	24	30	1.97
1126815--1126854	20	2.0	21	85	14	57	45	7	5	42	1.54
1127243--1127319	2	38.5	2	100	0	154	50	0	0	49	1.00
1132694--1132740	20	2.2	21	78	17	53	44	6	12	36	1.68
1134824--1134961	64	2.2	63	82	5	161	28	16	23	30	1.96
1134888--1134994	46	2.3	46	83	3	135	30	16	19	32	1.94
1135159--1135198	20	2.0	21	85	14	57	45	7	5	42	1.54
1135601--1135637	16	2.3	17	86	9	51	13	8	2	75	1.13
1135655--1135709	24	2.2	24	77	3	56	21	3	1	72	1.09
1135724--1135779	16	3.5	15	79	13	51	23	5	1	69	1.18
1146445--1146664	117	1.9	116	82	6	275	31	12	8	47	1.71
1153881--1153912	2	16.0	2	100	0	64	50	0	0	50	1.00
1157238--1157272	18	1.9	18	94	0	61	62	0	0	37	0.95
1158250--1158310	30	2.1	29	84	9	79	37	14	3	44	1.62
1158767--1159113	117	3.0	117	93	1	599	28	15	14	41	1.87
1159359--1159694	44	7.7	44	79	9	278	25	17	5	51	1.67
1160023--1160070	25	1.9	25	91	0	78	54	4	2	39	1.32
1160022--1160077	25	2.2	25	83	0	76	55	5	1	37	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160089--1160249	11	15.0	11	72	10	109	46	7	4	40	1.54
1160063--1160267	64	3.6	54	75	15	200	45	6	4	42	1.52
1160093--1160267	20	8.7	20	68	18	80	45	7	5	41	1.54
1160476--1160581	32	3.3	32	84	4	124	20	12	23	43	1.86
1161177--1161240	20	3.3	20	72	22	64	39	3	0	57	1.14
1161468--1161565	10	9.3	11	69	22	50	50	7	3	39	1.45
1161532--1161559	2	14.0	2	100	0	56	50	0	0	50	1.00
1161466--1161553	39	2.3	38	77	16	99	50	6	3	39	1.46
1161951--1162135	95	1.9	95	82	5	230	30	28	5	35	1.81
1161951--1162290	103	3.4	94	76	11	263	32	29	4	34	1.77
1162027--1162349	103	3.3	98	76	13	290	34	31	3	30	1.74
1162459--1162603	47	3.1	47	76	1	157	29	24	4	41	1.74
1165210--1165346	64	2.1	64	97	0	256	24	10	18	45	1.81
1165582--1165772	97	2.0	97	90	0	301	29	10	17	41	1.84
1166301--1166342	19	2.2	19	86	0	57	42	23	0	33	1.55
1170508--1170642	69	1.9	70	92	1	227	31	14	14	40	1.85
1173086--1173156	35	2.0	35	86	5	99	43	18	9	28	1.81
1173471--1173527	28	2.0	28	93	6	98	28	7	10	54	1.60
1173930--1174038	39	2.8	38	79	10	130	37	16	2	43	1.63
1174089--1174135	16	3.1	15	78	6	51	34	2	0	63	1.06
1174070--1174118	26	1.9	25	83	4	62	38	0	2	59	1.09
1174174--1174202	8	3.8	8	95	4	51	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174287--1174369	25	3.3	24	75	21	73	44	6	0	49	1.27
1174356--1174445	26	3.3	26	83	10	94	38	2	0	58	1.10
1175825--1175861	20	1.9	19	89	10	58	45	10	24	18	1.81
1176245--1176310	27	2.4	27	80	12	73	31	3	0	65	1.08
1179567--1179601	16	2.2	16	94	0	61	54	0	45	0	0.99
1179629--1179702	34	2.2	33	85	4	96	41	14	36	6	1.73
1194437--1194836	59	6.8	59	89	0	590	32	12	19	35	1.89
1195880--1196017	36	3.9	36	88	0	197	42	12	15	28	1.84
1200667--1200805	36	3.9	36	89	0	215	43	14	14	27	1.84
1209670--1209795	65	2.0	64	85	7	175	28	24	16	30	1.97
1215581--1215645	24	3.0	21	72	12	67	29	20	21	29	1.98
1215581--1215678	45	2.2	44	85	5	126	28	22	19	29	1.98
1218340--1218441	46	2.2	47	83	10	131	30	23	16	29	1.96
1220475--1220520	23	2.0	23	95	4	85	30	26	17	26	1.97
1221076--1221121	23	2.0	23	95	0	83	54	4	10	30	1.55
1225561--1225585	8	3.1	8	100	0	50	40	24	0	36	1.55
1226739--1226770	15	2.1	16	88	11	50	18	12	3	65	1.38
1227753--1228025	135	2.0	138	81	2	327	22	12	16	48	1.79
1229061--1229138	38	2.1	38	80	4	86	46	0	5	48	1.24
1229177--1229264	42	2.1	42	91	0	140	39	2	5	52	1.38
1229234--1229264	15	2.1	15	93	0	53	45	0	0	54	0.99
1230477--1230503	14	1.9	14	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236869--1237009	41	3.4	41	67	27	109	31	19	15	32	1.93
1236869--1237020	42	3.7	42	68	18	111	32	21	15	30	1.94
1245107--1245555	229	2.0	228	95	0	808	44	8	7	39	1.62
1245617--1245666	20	2.5	20	81	18	68	56	14	14	16	1.69
1245788--1245834	20	2.4	19	79	10	58	53	8	17	21	1.70
1248138--1248203	33	2.0	33	87	0	96	28	1	45	24	1.62
1248399--1248436	14	2.7	14	80	15	51	50	0	44	5	1.24
1249979--1250027	19	2.6	19	93	0	80	30	2	10	57	1.43
1250176--1251661	199	7.5	199	97	1	2816	35	15	16	32	1.90
1250176--1251661	396	3.8	395	98	1	2815	35	15	16	32	1.90
1250176--1251661	594	2.5	592	97	1	2813	35	15	16	32	1.90
1253096--1253192	6	16.3	6	79	2	70	37	7	35	20	1.80
1253111--1253196	3	29.0	3	76	2	75	36	5	34	23	1.79
1253099--1253188	41	2.2	42	93	2	155	35	7	35	21	1.82
1253099--1253196	12	8.2	12	83	2	81	35	7	34	22	1.82

Tables:   1   2   3   4   5   6

The End!