genome.fa.s8621.2.7.7.80.10.50.1000.7.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: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991651

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1297 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)
1111144--1111214	13	5.5	13	83	3	72	0	14	4	81	0.83
1111152--1111220	10	7.2	9	78	18	61	0	11	4	84	0.77
1111109--1111218	13	8.2	13	73	10	62	2	14	2	80	0.95
1111169--1111228	8	6.6	9	79	12	52	0	6	8	85	0.76
1111190--1111228	20	2.0	20	89	0	60	0	5	5	89	0.58
1112598--1112648	21	2.3	23	80	9	63	60	7	15	15	1.56
1117283--1117313	13	2.4	13	100	0	62	38	0	0	61	0.96
1123982--1125258	636	2.0	636	97	0	2428	35	19	21	24	1.96
1125621--1125668	20	2.5	20	83	6	64	47	2	0	50	1.12
1132319--1132361	20	2.3	19	80	11	52	46	6	20	25	1.76
1133988--1134062	32	2.3	32	95	0	132	30	1	29	38	1.66
1134696--1134748	21	2.5	21	78	0	61	20	24	16	37	1.93
1134966--1135027	18	3.0	22	69	26	62	27	38	16	17	1.91
1135358--1135406	20	2.5	20	89	0	80	30	22	20	26	1.98
1135448--1135497	20	2.5	20	90	0	73	18	18	28	36	1.94
1135465--1135519	20	2.8	20	91	0	83	10	16	23	49	1.77
1135484--1135527	20	2.2	20	87	0	61	13	13	20	52	1.74
1137345--1137448	20	5.5	20	74	13	94	40	21	17	21	1.91
1137352--1137486	54	2.5	54	85	1	164	41	20	19	19	1.91
1137495--1137581	20	4.3	20	89	0	129	21	18	20	39	1.93
1138065--1138169	21	5.0	21	74	3	95	21	36	19	22	1.95
1138062--1138172	42	2.6	42	78	5	118	21	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139383--1139436	24	2.2	24	93	0	90	40	20	18	20	1.91
1139383--1139450	24	2.8	24	84	0	64	38	20	17	23	1.93
1140298--1140363	20	3.3	20	93	0	105	19	19	21	39	1.93
1140277--1140363	40	2.2	39	83	8	104	21	19	21	36	1.95
1140360--1140405	21	2.2	21	88	0	65	36	17	28	17	1.92
1141958--1141988	16	1.9	16	93	0	53	54	6	0	38	1.26
1147361--1147423	30	2.0	31	93	6	110	31	12	15	39	1.85
1150200--1150244	15	2.9	14	84	15	54	73	2	0	24	0.95
1150390--1150541	38	4.1	37	79	13	163	45	7	3	43	1.50
1150363--1150545	38	5.0	37	74	17	134	44	6	4	44	1.51
1151130--1151524	84	4.8	84	82	4	532	23	20	27	29	1.98
1151130--1151507	164	2.3	163	83	3	513	23	19	27	29	1.98
1154912--1154956	19	2.4	19	92	3	74	66	8	13	11	1.44
1158046--1158090	15	2.9	14	84	15	54	73	2	0	24	0.95
1158236--1158388	38	4.1	37	77	15	156	46	7	3	42	1.49
1158205--1158388	72	2.5	71	79	11	187	45	6	5	42	1.53
1161769--1161800	2	16.0	2	100	0	64	50	0	0	50	1.00
1164749--1164807	24	2.4	25	83	8	77	23	28	15	32	1.95
1165547--1165584	2	19.0	2	100	0	76	50	0	50	0	1.00
1168404--1168453	25	2.0	25	96	0	91	38	20	10	32	1.85
1174876--1174922	24	2.0	24	91	0	76	34	29	19	17	1.94
1178184--1178240	23	2.4	24	75	13	57	68	8	0	22	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178794--1178839	24	2.0	23	83	8	58	36	0	4	58	1.18
1182560--1182631	35	2.1	35	100	0	144	45	19	6	27	1.76
1186433--1186555	61	2.0	61	87	3	176	49	16	15	18	1.80
1189090--1189148	30	2.0	30	93	6	102	32	6	16	44	1.74
1189229--1189327	21	4.8	20	84	10	128	22	36	20	21	1.95
1189260--1189327	13	4.9	14	73	18	54	22	35	20	22	1.96
1189348--1189421	20	3.7	20	78	10	87	18	27	24	29	1.98
1189534--1189573	20	1.9	22	90	10	66	37	40	10	12	1.77
1190711--1190757	20	2.5	19	80	10	60	51	6	12	29	1.65
1192027--1192086	29	2.0	30	90	6	95	33	6	15	45	1.72
1192166--1192208	21	2.0	21	95	0	77	20	39	18	20	1.93
1193235--1193260	2	13.0	2	100	0	52	50	0	0	50	1.00
1194120--1194153	16	2.1	16	94	0	59	17	23	17	41	1.90
1194218--1194577	137	2.6	136	82	6	424	27	18	14	39	1.90
1194218--1194577	139	2.6	136	81	7	401	27	18	14	39	1.90
1194494--1195190	123	5.7	123	91	0	1094	27	19	14	38	1.91
1200489--1200549	22	2.8	22	89	0	95	19	24	27	27	1.99
1205675--1205706	15	2.1	15	94	0	55	50	6	15	28	1.68
1209539--1209596	27	2.2	26	87	9	82	44	0	0	55	0.99
1209539--1209596	26	2.2	27	84	9	75	44	0	0	55	0.99
1209550--1209609	27	2.2	27	82	11	70	40	0	1	58	1.08
1209930--1209958	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213512--1213566	23	2.5	23	91	5	87	16	3	18	61	1.48
1226188--1226281	42	2.2	42	100	0	188	44	27	8	19	1.79
1227596--1227737	54	2.6	56	80	5	139	28	17	24	28	1.97
1227660--1227733	27	2.7	27	77	10	78	25	20	27	27	1.99
1227603--1227905	55	5.5	55	75	8	238	27	20	23	28	1.99
1227660--1227902	113	2.2	111	85	4	319	26	20	23	28	1.99
1228020--1228173	81	1.9	81	84	5	204	31	20	31	16	1.95
1233789--1233873	30	2.9	29	70	3	71	15	12	8	63	1.51
1243774--1243824	22	2.3	22	100	0	102	39	11	23	25	1.89
1245360--1245517	21	7.8	20	72	7	86	38	25	17	18	1.92
1245484--1245733	20	12.5	20	87	1	268	37	24	18	19	1.94
1246417--1246461	24	1.9	23	86	13	65	26	17	22	33	1.96
1248990--1249088	19	5.4	19	82	12	136	15	22	16	46	1.83
1248971--1249098	52	2.4	53	97	1	240	13	25	17	44	1.84
1248971--1249101	33	3.8	33	66	25	99	13	24	17	44	1.85
1249121--1249175	14	3.6	14	73	21	56	45	20	23	10	1.82
1249107--1249194	33	2.6	33	98	1	167	46	17	23	12	1.82
1249135--1249251	52	2.2	52	95	0	207	44	17	21	16	1.87
1249258--1249357	19	5.5	19	87	12	156	15	22	17	46	1.84
1249241--1249357	53	2.2	53	93	1	200	14	23	17	44	1.85
1249464--1249499	13	2.6	14	86	4	56	47	22	0	30	1.52
1251459--1251551	33	2.8	33	93	0	159	47	21	19	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251422--1251556	19	7.6	19	76	16	128	45	23	18	11	1.82
1251478--1251534	14	3.7	14	75	20	51	45	22	19	12	1.83
1251552--1251680	19	7.3	19	74	17	116	9	17	28	44	1.79
1251552--1251643	33	2.8	33	90	3	141	8	18	28	44	1.79
1251724--1252104	93	4.1	93	98	1	728	45	18	12	22	1.83
1251724--1252104	187	2.0	185	97	1	726	45	18	12	22	1.83
1253802--1253891	14	5.7	14	74	23	81	42	23	25	8	1.83
1253794--1253908	33	3.5	33	93	0	203	46	20	23	9	1.80
1253801--1253913	19	6.8	18	71	23	79	44	22	23	9	1.82
1253909--1253994	39	2.4	37	84	11	108	10	22	22	45	1.82
1253932--1253985	19	2.8	20	80	5	65	12	25	20	40	1.88
1253932--1254006	20	3.8	20	78	5	89	13	24	18	44	1.85
1254086--1254156	33	2.2	33	94	0	124	47	16	23	11	1.79
1254339--1254391	21	2.3	25	68	25	60	18	20	37	22	1.94
1255171--1255247	33	2.3	33	95	0	136	22	29	5	42	1.75
1259862--1259892	16	2.0	16	93	6	55	25	25	6	41	1.79
1260981--1261010	2	15.0	2	100	0	60	50	0	0	50	1.00
1261205--1261265	32	1.9	32	86	0	86	37	18	16	27	1.92
1261697--1261756	31	1.9	31	90	6	95	35	10	20	35	1.86
1261695--1261767	31	2.4	31	81	4	94	32	8	23	35	1.84
1263426--1263461	15	2.4	15	95	0	63	38	8	0	52	1.32
1269057--1269402	176	2.0	176	92	0	575	38	12	15	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271320--1271360	6	6.8	6	97	0	73	53	29	17	0	1.44
1271311--1271363	12	4.4	12	90	0	52	58	24	15	1	1.47
1273303--1273333	15	2.1	15	100	0	62	38	6	35	19	1.77
1287667--1287824	21	7.8	20	70	7	77	37	25	17	18	1.93
1287792--1288020	20	11.4	20	83	5	239	36	25	17	20	1.94
1288713--1288759	24	2.0	24	87	8	69	25	14	21	38	1.92
1291234--1291432	53	3.8	49	86	11	231	46	18	22	13	1.83
1291248--1291399	72	2.1	72	95	2	270	46	17	21	14	1.83
1291392--1291446	14	3.6	14	73	21	56	45	20	23	10	1.82
1291373--1291464	33	2.8	33	98	0	175	45	18	21	14	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11