genome.fa.s9634.2.7.7.80.10.50.1000.5.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  5  of  78  ( 9351 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)
1023438--1023501	31	2.1	31	84	0	83	31	10	15	42	1.82
1024024--1024057	16	2.1	16	88	0	50	50	0	2	47	1.16
1025212--1025283	35	2.1	35	92	2	119	34	1	25	38	1.65
1025725--1025773	24	1.9	27	84	12	68	28	2	10	59	1.41
1026656--1026730	28	2.7	28	91	4	116	30	12	21	36	1.90
1031580--1032157	53	10.7	53	85	4	746	28	28	13	29	1.94
1031631--1032161	108	4.9	108	95	1	915	28	29	13	29	1.94
1032158--1032513	51	6.8	53	83	6	433	23	23	19	33	1.97
1032187--1032523	154	2.2	156	86	4	475	24	23	18	33	1.97
1032891--1033080	36	5.2	36	87	0	182	21	18	23	36	1.95
1032925--1033080	72	2.2	71	87	4	215	19	19	25	35	1.95
1032944--1033087	72	2.0	72	90	5	229	18	20	23	36	1.95
1033806--1034109	124	2.4	125	88	0	448	22	27	17	32	1.96
1035352--1035452	25	4.3	23	73	14	82	7	17	0	74	1.05
1035352--1035457	24	4.4	25	73	13	82	7	18	0	73	1.06
1035368--1035458	6	14.2	6	70	23	53	7	18	0	73	1.06
1038041--1038092	20	2.5	21	93	3	88	11	25	19	44	1.84
1038041--1038153	21	5.4	20	83	7	111	15	22	20	41	1.90
1042649--1042714	31	2.2	30	81	7	82	51	6	16	25	1.67
1052814--1052848	18	1.9	18	94	0	61	17	20	34	28	1.95
1054125--1054191	34	2.0	33	82	11	82	49	7	22	20	1.74
1057934--1058009	37	2.1	37	90	2	118	35	19	7	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058228--1058521	132	2.2	132	85	4	394	29	18	11	40	1.86
1058228--1058519	67	4.4	66	86	3	356	29	18	11	41	1.85
1060297--1060449	76	2.0	75	80	1	171	22	7	13	56	1.62
1064807--1064838	12	2.7	12	100	0	64	12	15	34	37	1.85
1064831--1064875	23	2.0	23	90	0	72	24	17	17	40	1.91
1064839--1064892	23	2.3	23	90	0	81	27	16	12	42	1.85
1066011--1066070	22	2.7	22	87	7	86	63	0	28	8	1.23
1066054--1066086	11	3.0	11	95	0	57	72	0	24	3	0.98
1066008--1066086	22	3.4	22	71	19	70	65	0	27	6	1.16
1068811--1068861	21	2.4	21	100	0	102	56	5	0	37	1.23
1068831--1068979	46	3.2	47	83	8	196	47	12	0	39	1.46
1068831--1068991	49	3.4	48	81	5	195	48	11	0	39	1.43
1069223--1069302	25	3.3	25	77	11	76	48	8	1	41	1.42
1069225--1069285	14	4.7	14	73	20	53	50	8	0	40	1.32
1069617--1069709	21	4.6	21	67	14	61	46	9	0	44	1.36
1072503--1072560	21	2.8	20	80	14	82	50	6	3	39	1.46
1072627--1072679	18	2.7	20	88	8	74	49	9	0	41	1.35
1072750--1072782	17	1.9	17	88	11	50	72	18	3	6	1.18
1073115--1073171	28	2.0	30	93	6	100	57	10	0	31	1.32
1073124--1073177	28	1.9	28	92	0	90	57	14	0	27	1.38
1073154--1073202	21	2.3	21	78	3	53	51	18	0	30	1.47
1074572--1074623	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074612--1074726	20	5.7	20	77	9	99	33	23	18	24	1.96
1074894--1074937	22	2.0	22	95	0	79	20	45	15	18	1.85
1075200--1075258	20	3.0	20	82	0	64	16	16	22	44	1.87
1075395--1075449	25	2.2	24	78	15	58	20	9	18	52	1.71
1076579--1076623	18	2.5	18	88	0	72	26	44	15	13	1.83
1077102--1077168	20	3.4	20	81	2	73	38	23	22	14	1.92
1077157--1077214	14	3.9	14	79	16	71	48	24	17	10	1.78
1077141--1077231	32	2.8	33	93	3	157	47	20	18	13	1.82
1077248--1077338	14	5.9	14	74	20	83	10	17	23	48	1.79
1077243--1077354	33	3.4	33	97	1	208	11	18	22	47	1.81
1077764--1077829	19	3.4	19	69	12	53	24	40	16	18	1.90
1079748--1079806	19	3.4	19	73	22	74	45	18	22	13	1.84
1079748--1079874	33	3.8	33	83	4	175	43	18	22	16	1.88
1079749--1079881	66	2.0	66	92	0	221	42	18	21	18	1.90
1079874--1079963	33	2.7	33	89	0	135	13	20	21	45	1.84
1079903--1079963	19	3.5	19	70	21	60	11	21	21	45	1.82
1080070--1080106	14	2.6	14	82	0	56	45	21	0	32	1.52
1081483--1081592	21	5.3	21	65	10	55	21	21	31	24	1.98
1081493--1081667	42	4.2	42	77	1	190	23	17	37	22	1.94
1081493--1081667	83	2.1	84	96	1	325	23	17	37	22	1.94
1081885--1082066	91	2.0	90	91	5	296	47	18	12	21	1.80
1083722--1083843	20	6.8	19	67	20	75	42	20	24	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083747--1083843	33	2.9	33	92	1	158	40	22	25	11	1.87
1083844--1083928	19	4.7	19	69	20	65	10	18	23	47	1.80
1084434--1084486	20	2.7	20	87	0	79	26	18	28	26	1.98
1084495--1084548	20	2.7	20	97	0	99	25	18	24	31	1.97
1084435--1084551	61	1.9	61	83	0	153	23	17	24	34	1.96
1087743--1087893	39	3.9	39	80	4	135	31	22	27	17	1.97
1088507--1088548	21	2.0	22	85	4	59	59	16	7	16	1.58
1093594--1093618	2	12.5	2	100	0	50	52	0	0	48	1.00
1094722--1094788	23	2.9	22	84	4	80	31	22	26	19	1.98
1101559--1101625	23	3.0	23	82	2	73	32	26	23	16	1.96
1104776--1104853	23	3.5	23	92	3	124	34	17	20	26	1.95
1119595--1119642	20	2.4	20	92	0	78	27	6	16	50	1.69
1119995--1120040	24	1.9	24	90	0	74	56	4	0	39	1.19
1124567--1124629	33	1.9	33	90	0	99	22	34	22	20	1.96
1133345--1133391	24	2.0	24	95	0	85	34	0	36	29	1.58
1136850--1136905	25	2.2	25	84	6	69	41	0	26	32	1.56
1142396--1142446	23	2.2	23	92	0	84	23	25	41	9	1.85
1142905--1142944	21	1.9	21	89	0	62	37	5	5	52	1.45
1146042--1146066	9	2.8	9	100	0	50	44	0	36	20	1.52
1146413--1146455	18	2.4	18	92	0	68	6	44	20	27	1.77
1153249--1153290	20	2.1	20	90	0	66	26	4	16	52	1.63
1153432--1153475	17	2.6	17	85	7	63	36	2	0	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156402--1156504	41	2.5	40	77	10	118	32	18	21	28	1.97
1156905--1157060	84	1.9	84	84	8	210	30	16	23	30	1.96
1166005--1166105	43	2.3	44	84	1	123	36	13	18	30	1.90
1166210--1166291	43	1.9	43	84	0	110	37	17	19	25	1.93
1172198--1172240	20	2.2	20	91	0	68	37	25	2	34	1.69
1180499--1180549	21	2.3	23	93	6	88	23	27	27	21	1.99
1180765--1180841	30	2.5	30	91	2	118	31	23	5	40	1.76
1180856--1180930	27	2.7	28	85	6	100	36	14	9	40	1.78
1181219--1181370	67	2.3	67	89	3	225	17	26	28	27	1.97
1181848--1181879	16	2.1	16	88	11	50	65	0	34	0	0.93
1187358--1187408	21	2.3	23	93	6	88	25	31	25	17	1.97
1187623--1187698	30	2.6	29	89	4	107	31	23	5	39	1.77
1187712--1187776	29	2.4	28	84	7	80	36	15	9	38	1.79
1188066--1188211	66	2.3	63	86	5	195	17	27	26	28	1.98
1188066--1188232	66	2.6	67	83	7	193	17	27	25	29	1.97
1194462--1194499	16	2.2	19	86	13	55	57	0	0	42	0.98
1194740--1194817	40	2.0	40	89	0	120	19	35	25	19	1.95
1194798--1194908	51	2.2	51	78	3	125	16	35	29	18	1.93
1195183--1195260	37	2.1	37	90	4	122	39	12	23	24	1.89
1195712--1195748	19	1.9	19	94	0	65	32	29	16	21	1.95
1195793--1195840	21	2.3	20	86	10	69	27	18	18	35	1.95
1195834--1195886	20	2.7	20	87	0	79	41	15	20	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195896--1196002	20	5.3	20	80	10	119	30	28	18	22	1.97
1196823--1196876	24	2.2	24	90	0	81	20	20	18	40	1.91
1197066--1197102	14	2.6	14	91	4	56	51	21	21	5	1.68
1199092--1199126	18	1.9	18	94	0	61	54	25	2	17	1.57
1199306--1199564	20	13.6	20	77	11	222	35	21	20	22	1.96
1199309--1199524	54	3.9	54	84	6	202	36	21	20	21	1.96
1199714--1199779	30	2.2	30	94	0	123	54	12	3	30	1.52
1201138--1201255	21	5.6	21	72	0	92	22	16	36	24	1.94
1201138--1201256	42	2.8	42	83	2	141	23	15	36	24	1.94
1201736--1201780	20	2.2	20	96	0	81	51	20	11	17	1.75

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78