genome.fa.s8245.2.7.7.80.10.50.1000.6.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  6  of  33  ( 3922 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)
928796--929319	225	2.4	214	86	6	711	38	13	15	31	1.86
929455--929502	20	2.5	19	86	6	62	54	10	0	35	1.35
931081--931130	24	2.1	24	100	0	100	12	34	0	54	1.38
931086--931138	24	2.2	24	89	3	79	15	28	0	56	1.39
931148--931284	65	2.1	66	86	4	188	23	41	1	33	1.63
931707--931756	24	2.0	24	88	3	73	44	6	0	50	1.26
933703--934220	194	2.7	192	86	5	668	32	13	10	43	1.79
936898--936984	44	2.0	43	93	2	147	39	9	4	47	1.56
937277--937320	22	1.9	24	86	9	65	40	4	0	54	1.21
939063--939196	67	2.0	67	100	0	268	32	7	11	47	1.68
944414--944441	2	14.0	2	100	0	56	50	0	0	50	1.00
951580--951659	32	2.5	32	80	9	101	30	21	12	36	1.90
952919--952957	21	1.9	20	89	5	60	23	25	15	35	1.94
956749--957452	200	3.5	200	83	6	815	31	15	13	39	1.87
960332--961295	200	4.8	200	88	3	1316	32	15	14	37	1.88
960377--961295	399	2.3	399	87	2	1344	31	15	14	37	1.89
961724--962201	182	2.6	180	86	6	665	26	15	14	43	1.85
963342--963404	32	1.9	31	84	12	81	49	9	0	41	1.35
970618--970741	51	2.6	48	79	10	155	25	16	12	46	1.81
970652--970770	51	2.4	51	86	1	159	26	15	12	46	1.81
973330--973376	20	2.3	20	85	0	67	38	25	23	12	1.90
973342--973396	20	2.7	21	86	5	69	38	30	18	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976070--976107	18	2.1	18	85	9	51	52	0	5	42	1.24
980956--980996	19	2.2	19	86	0	55	21	19	21	36	1.95
992203--992288	32	2.7	32	87	0	109	37	11	18	32	1.87
993026--993433	206	2.0	206	83	1	523	28	13	24	33	1.93
1000595--1000631	14	2.8	14	92	8	60	32	5	0	62	1.18
1003359--1003395	17	2.2	17	90	0	56	16	10	2	70	1.27
1003853--1003928	39	1.9	38	82	10	91	39	5	0	55	1.23
1004003--1004141	72	2.0	70	94	2	242	45	7	10	36	1.67
1030462--1030488	5	5.4	5	100	0	54	0	18	0	81	0.69
1033476--1033511	18	1.9	19	88	5	56	0	11	22	66	1.22
1033771--1033829	3	19.0	3	89	6	91	64	0	0	35	0.94
1034202--1034241	16	2.4	16	95	4	71	15	20	15	50	1.79
1034349--1034482	40	3.5	39	89	8	220	18	22	9	49	1.77
1034388--1034448	17	3.5	17	70	16	61	18	21	8	52	1.71
1034219--1034595	189	2.0	189	96	0	691	23	20	14	42	1.88
1034424--1035085	113	5.8	113	89	2	1031	27	19	14	38	1.91
1035903--1036539	83	7.7	83	98	0	1220	38	21	12	26	1.89
1035814--1036539	166	4.3	166	95	1	1238	38	22	12	26	1.90
1035814--1036539	249	2.9	249	94	2	1238	38	22	12	26	1.90
1045223--1045254	15	2.1	15	94	0	55	46	6	18	28	1.73
1050186--1050221	18	1.9	19	88	5	56	0	11	22	66	1.22
1050482--1050531	3	16.0	3	87	8	73	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052470--1052507	16	2.5	15	84	12	51	28	5	0	65	1.14
1053643--1053694	26	2.0	27	85	7	72	42	5	3	48	1.45
1053843--1053901	21	2.8	22	79	5	68	35	37	3	23	1.72
1053841--1053901	14	4.4	14	72	0	50	37	36	3	22	1.71
1055196--1055228	17	1.9	17	93	0	57	30	6	21	42	1.77
1055793--1055837	6	7.7	6	80	5	56	77	0	22	0	0.76
1055797--1055837	12	3.5	12	96	3	75	78	0	21	0	0.76
1056985--1057115	20	6.8	20	70	20	93	47	22	8	22	1.77
1056992--1057097	54	2.0	54	80	14	121	48	22	6	22	1.74
1057163--1057338	40	4.7	39	71	12	147	20	14	22	42	1.88
1057131--1057336	74	2.8	74	86	0	295	21	14	21	42	1.88
1057163--1057313	20	7.8	20	71	11	100	21	14	22	41	1.90
1058890--1058929	21	1.9	21	84	0	53	27	12	37	22	1.90
1058895--1059012	21	5.7	21	79	6	114	23	15	38	22	1.92
1058913--1059012	41	2.4	42	86	1	139	23	17	37	23	1.94
1058999--1059060	21	3.0	21	85	0	79	30	11	35	22	1.89
1059366--1059444	21	3.8	19	74	12	59	40	34	7	17	1.78
1059350--1059448	42	2.4	42	78	10	112	38	36	6	19	1.76
1059463--1059517	21	2.6	21	91	0	83	36	30	12	20	1.90
1059632--1059694	21	3.1	21	66	13	60	15	11	44	28	1.81
1059632--1059753	42	3.0	42	86	3	160	20	10	39	29	1.86
1061258--1061290	14	2.3	15	84	10	50	48	24	12	15	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061271--1061328	20	2.9	21	78	14	59	41	18	15	24	1.89
1061293--1061330	20	1.9	20	89	10	60	34	18	13	34	1.89
1061315--1061398	20	4.2	20	87	3	80	16	19	16	47	1.83
1061315--1061398	40	2.1	40	82	8	100	16	19	16	47	1.83
1061328--1061411	20	4.2	20	79	8	82	15	16	16	51	1.77
1061777--1061826	22	2.3	22	89	0	73	16	18	46	20	1.85
1061999--1062085	40	2.2	40	85	4	113	34	10	21	33	1.88
1061916--1062110	20	9.6	20	63	12	58	33	12	21	32	1.90
1062616--1062667	21	2.4	23	79	20	60	32	5	0	61	1.20
1065243--1065343	48	2.1	48	80	5	116	22	57	5	13	1.58
1067581--1067730	67	2.3	67	89	1	221	29	27	25	18	1.98
1067694--1067731	20	1.9	20	88	0	58	23	34	31	10	1.89
1067994--1068040	24	2.0	24	86	0	67	36	19	8	36	1.82
1068096--1068154	30	2.0	30	93	0	100	38	3	23	33	1.72
1068368--1068435	22	3.0	22	97	2	127	19	26	27	26	1.99
1074470--1074512	21	2.0	21	86	0	59	30	27	25	16	1.97
1074492--1074643	67	2.2	68	87	3	209	28	26	26	18	1.98
1075280--1075347	22	3.0	22	97	2	127	19	26	27	26	1.99
1078499--1078559	7	8.7	7	75	7	52	42	3	37	16	1.64
1078497--1078553	14	4.1	14	75	8	62	47	1	35	15	1.56
1078497--1078559	21	3.0	21	81	4	74	44	3	36	15	1.63
1084416--1084627	106	2.0	106	98	0	406	33	30	11	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086398--1086463	30	2.2	30	88	0	96	39	18	30	12	1.87
1093635--1093708	18	3.9	18	76	10	67	22	28	22	25	1.99
1094725--1094767	22	2.0	22	86	8	63	37	23	0	39	1.55
1095089--1095289	7	28.7	7	98	0	303	57	0	37	4	1.20
1096611--1096926	158	2.0	158	100	0	632	29	17	27	25	1.97
1103355--1103596	119	2.0	120	93	0	414	42	7	9	41	1.64
1104129--1104269	61	2.3	61	95	0	246	29	25	20	24	1.99
1105240--1105281	21	2.1	21	86	8	61	35	14	16	33	1.89
1112331--1112477	74	2.0	74	100	0	294	33	13	21	31	1.92
1112467--1112510	21	2.1	21	95	0	79	34	36	15	13	1.87
1118662--1118727	33	2.0	33	90	0	105	31	4	30	33	1.78
1120032--1120070	19	2.1	19	100	0	78	38	15	30	15	1.88
1122928--1122979	15	3.5	15	97	0	95	5	17	69	7	1.33
1123672--1123734	27	2.3	27	86	0	81	30	26	19	23	1.98
1126383--1126416	15	2.3	15	90	5	52	0	17	29	52	1.45
1133592--1133793	101	2.0	101	100	0	404	29	9	14	45	1.78
1151015--1151054	17	2.4	17	95	0	71	15	7	12	65	1.47
1151014--1151078	17	3.4	18	81	12	69	13	7	10	67	1.41
1153829--1153856	7	4.0	7	100	0	56	42	14	28	14	1.84
1155158--1155195	20	1.9	20	88	0	58	52	2	2	42	1.29
1160463--1160510	11	4.3	11	81	5	60	27	27	16	29	1.97
1160606--1160644	19	2.1	18	90	4	60	41	17	0	41	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160926--1161089	41	3.9	43	85	10	223	28	21	7	41	1.81
1166246--1166324	3	25.7	3	87	10	115	63	0	0	36	0.95
1166544--1166743	35	5.8	34	86	2	247	22	22	17	38	1.93
1166807--1166910	20	5.2	20	86	0	136	35	19	15	29	1.92
1174905--1174994	3	28.0	3	82	12	108	61	0	0	38	0.96
1174905--1174994	16	5.6	15	85	10	108	61	0	0	38	0.96
1174905--1174994	26	3.5	25	90	6	135	61	0	0	38	0.96
1175596--1175681	14	6.7	14	71	20	80	17	13	11	56	1.66
1175583--1175671	24	3.6	24	89	3	124	17	14	12	55	1.70
1175908--1175964	23	2.5	23	85	0	78	10	10	19	59	1.59

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