genome.fa.s422.2.7.7.80.10.50.1000.6.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1325 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)
1138260--1138683	72	5.8	72	82	3	501	39	10	21	28	1.86
1138260--1138683	146	2.9	145	89	2	609	39	10	21	28	1.86
1138691--1138730	18	2.2	19	95	4	73	42	5	12	40	1.64
1139937--1139970	11	2.9	11	87	12	50	2	14	2	79	0.97
1144335--1144364	12	2.5	12	94	0	51	3	6	6	83	0.90
1144327--1144368	11	3.7	11	81	6	57	2	9	4	83	0.88
1145444--1145501	24	2.4	24	77	11	64	34	36	8	20	1.84
1147882--1147919	20	1.9	20	89	10	60	57	28	2	10	1.45
1148468--1148519	18	3.2	18	71	25	60	23	15	19	42	1.89
1148475--1148527	17	3.3	16	78	21	58	18	16	16	47	1.83
1148525--1148586	17	3.6	16	73	18	54	22	17	12	46	1.82
1148505--1148586	34	2.3	35	87	4	112	21	18	13	46	1.83
1148957--1149058	3	33.3	3	80	9	82	36	0	0	62	1.02
1148958--1149051	16	5.7	16	82	9	100	37	0	1	61	1.03
1148957--1149056	19	5.4	19	82	10	118	36	0	1	63	1.02
1151861--1151894	12	2.8	12	86	0	50	5	8	8	76	1.15
1155360--1155513	29	5.4	29	89	4	242	38	24	3	33	1.72
1161518--1161594	31	2.5	31	80	2	91	27	31	27	14	1.95
1162489--1162640	28	5.4	29	86	7	215	40	22	2	34	1.68
1162489--1162640	29	5.4	28	85	6	200	40	22	2	34	1.68
1167899--1167999	42	2.4	41	81	4	114	26	25	17	29	1.98
1167797--1168580	246	3.1	247	86	6	1031	32	16	16	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169015--1169046	14	2.2	15	94	5	57	21	3	0	75	0.95
1169450--1169480	4	7.8	4	92	0	53	25	3	0	70	1.02
1176492--1176562	30	2.3	31	87	2	99	25	8	21	45	1.80
1176545--1176615	33	2.2	33	87	5	99	12	9	38	39	1.77
1176616--1176687	30	2.3	30	81	9	83	22	8	22	47	1.77
1176479--1176736	125	2.1	116	86	9	347	18	8	29	43	1.80
1176668--1176736	27	2.5	27	90	2	102	13	7	34	44	1.71
1177362--1177400	20	2.0	20	94	0	69	38	20	2	38	1.66
1180839--1180923	34	2.5	34	77	7	100	28	12	35	23	1.92
1187368--1187420	23	2.3	22	84	9	70	37	24	11	26	1.89
1195498--1195523	13	2.0	13	100	0	52	69	0	0	30	0.89
1200908--1200984	2	38.5	2	100	0	154	50	0	0	49	1.00
1203949--1204065	59	2.0	60	81	8	141	30	12	16	40	1.86
1207190--1207224	2	17.5	2	100	0	70	48	0	0	51	1.00
1207076--1207358	147	1.9	147	93	0	485	38	10	12	37	1.79
1219307--1219356	26	1.9	26	95	0	91	38	14	0	48	1.44
1219702--1219746	20	2.3	20	80	3	56	44	4	4	46	1.43
1219747--1219782	14	2.7	13	83	8	54	52	0	5	41	1.24
1229462--1229553	43	2.2	42	77	9	98	35	17	15	31	1.91
1233017--1233046	2	15.0	2	100	0	60	50	0	0	50	1.00
1233216--1233264	20	2.5	20	89	0	71	48	8	20	22	1.75
1233562--1233629	24	2.8	24	84	0	82	33	20	27	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233574--1233603	14	2.1	15	93	6	53	26	20	33	20	1.97
1239121--1239276	73	2.1	73	100	0	312	45	12	13	28	1.79
1240058--1240180	60	2.0	60	88	0	183	36	21	19	21	1.95
1240148--1240214	34	2.0	34	87	0	98	43	13	22	20	1.87
1240089--1240271	94	1.9	94	85	0	249	37	19	20	22	1.95
1241893--1241947	28	2.0	27	82	3	65	40	20	16	23	1.91
1241974--1242040	34	2.0	34	82	5	82	22	26	22	28	1.99
1244652--1244886	59	4.0	60	80	6	273	36	19	20	23	1.95
1249285--1249457	58	2.9	59	85	5	242	38	19	18	23	1.93
1256454--1256506	20	2.7	20	80	8	72	28	30	28	13	1.94
1256457--1256519	20	3.2	19	78	13	65	22	34	28	14	1.93
1263527--1263562	16	2.3	16	90	4	56	30	16	5	47	1.70
1263749--1263869	61	2.2	53	84	15	149	57	3	6	33	1.41
1263746--1263876	59	2.2	60	97	2	246	56	3	6	34	1.40
1263844--1263892	23	2.1	23	92	0	80	46	0	6	46	1.27
1265040--1265116	31	2.5	31	80	2	91	27	31	27	14	1.95
1265986--1266030	7	6.4	7	89	0	72	28	26	26	17	1.98
1266033--1266092	14	4.1	14	86	6	75	13	21	46	18	1.83
1266098--1266147	9	5.1	10	76	13	59	30	28	22	20	1.98
1266093--1266147	19	2.8	20	88	2	76	30	29	21	18	1.97
1266087--1266146	9	6.3	9	75	11	57	30	28	25	16	1.97
1272384--1272460	31	2.5	31	80	2	91	27	31	27	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273327--1273364	7	5.4	7	90	0	58	26	23	28	21	1.99
1273327--1273364	14	2.7	14	95	0	67	26	23	28	21	1.99
1273354--1273391	17	2.2	17	95	0	67	13	23	44	18	1.85
1273366--1273433	14	5.3	14	76	18	67	13	23	45	17	1.84
1273362--1273424	19	3.4	18	76	8	65	11	22	47	19	1.80
1273442--1273475	10	3.5	10	84	8	52	32	29	20	17	1.96
1273442--1273491	20	2.6	19	83	3	55	32	26	20	22	1.98
1277044--1277157	18	6.2	18	77	6	104	13	2	36	47	1.56
1277057--1277104	19	2.5	19	79	0	51	12	4	33	50	1.59
1277093--1277157	6	10.8	6	80	6	60	9	1	41	47	1.45
1277094--1277157	12	5.3	12	77	7	67	9	1	40	48	1.45
1277823--1277860	16	2.4	16	90	0	58	28	0	18	52	1.45
1277855--1277882	12	2.3	12	100	0	56	39	0	7	53	1.28
1277714--1277930	72	3.1	71	79	14	209	29	1	13	54	1.50
1278612--1278653	15	2.8	16	89	7	61	26	4	0	69	1.08
1278618--1278674	16	3.5	16	75	17	55	24	3	0	71	1.01
1278957--1279087	60	2.2	60	88	2	192	39	19	17	23	1.92
1282913--1282951	2	20.0	2	94	5	71	48	0	0	51	1.00
1283963--1284408	222	2.0	222	100	0	892	35	11	12	39	1.80
1288227--1288306	30	2.7	30	90	1	126	40	38	5	16	1.70
1292199--1292250	3	17.3	3	83	0	59	25	34	7	32	1.84
1294252--1294301	8	5.8	8	78	17	55	68	2	0	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294252--1294330	36	2.2	35	86	8	106	65	2	2	29	1.18
1295172--1295211	21	1.9	21	100	0	80	45	7	10	37	1.66
1298063--1298115	3	18.0	3	82	3	63	35	1	1	60	1.19
1299469--1299527	28	2.1	28	80	0	64	45	1	0	52	1.10
1299606--1299869	143	1.9	142	80	5	311	39	8	7	44	1.64
1301707--1301745	18	2.2	18	100	0	78	17	10	46	25	1.80
1307383--1307413	9	3.6	9	91	8	55	22	22	0	54	1.44
1309150--1309214	30	2.2	30	94	0	112	36	9	23	30	1.86
1310962--1310987	11	2.4	11	100	0	52	84	0	7	7	0.77
1312545--1312983	114	3.9	109	81	6	477	37	14	19	28	1.92
1312545--1312982	226	1.9	225	85	3	594	37	14	19	28	1.92
1313234--1313271	3	13.0	3	83	5	51	34	0	0	65	0.93
1313235--1313269	17	2.1	17	88	0	52	34	0	0	65	0.93
1329249--1329294	24	1.9	24	95	0	83	32	17	26	23	1.97
1329299--1329395	46	2.1	46	88	3	142	32	22	25	18	1.97
1329299--1329395	23	4.2	23	78	0	104	32	22	25	18	1.97
1336041--1336073	17	1.9	17	93	0	57	39	9	6	45	1.61
1337056--1337092	18	2.1	18	94	0	65	35	40	5	18	1.74
1337394--1337452	10	5.4	11	73	15	50	84	3	5	6	0.85
1337396--1337452	16	3.4	16	85	7	78	84	3	5	7	0.87
1341462--1341505	21	2.0	22	82	4	54	34	20	11	34	1.88
1343756--1344454	123	5.7	123	90	1	1091	24	19	15	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344260--1344328	36	2.0	35	86	8	97	20	21	11	46	1.82
1344646--1344764	36	3.3	36	71	2	105	38	12	20	28	1.89
1344476--1344800	73	4.4	73	79	9	309	36	10	19	33	1.86
1344662--1344777	37	3.2	37	72	2	135	37	9	18	34	1.84
1344680--1344796	37	3.2	37	74	2	137	34	11	21	32	1.90
1346455--1346530	38	2.0	38	87	5	109	30	23	9	36	1.86
1348025--1348085	9	6.9	9	81	10	72	6	18	0	75	1.01
1348032--1348064	16	2.1	16	100	0	66	6	18	0	75	1.00
1348025--1348076	25	2.1	25	92	0	86	5	17	0	76	0.97
1352740--1352770	14	2.2	14	94	0	53	70	3	0	25	1.02

Tables:   1   2   3   4   5   6   7   8   9   10   11   12