genome.fa.s7926.2.7.7.80.10.50.1000.5.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  5  of  42  ( 5024 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)
1004157--1004190	14	2.5	13	86	9	50	47	0	0	52	1.00
1005626--1005660	10	3.5	10	100	0	70	0	40	0	60	0.97
1008995--1009064	12	5.8	12	80	6	79	51	18	15	14	1.77
1008993--1009101	48	2.3	47	85	3	137	47	17	16	18	1.83
1008993--1009101	24	4.5	25	78	6	109	47	17	16	18	1.83
1010243--1010277	18	1.9	18	88	0	52	28	17	0	54	1.43
1011565--1011639	8	9.5	8	74	21	61	22	22	38	16	1.92
1011565--1011621	15	3.8	15	84	9	64	24	22	36	15	1.94
1011582--1011657	13	5.3	13	75	17	62	19	21	43	15	1.88
1011603--1011679	18	4.6	18	79	15	92	14	19	49	16	1.80
1011582--1011675	31	3.1	31	86	4	131	19	20	44	15	1.86
1015453--1015514	2	31.0	2	100	0	124	50	0	50	0	1.00
1015866--1015923	21	2.8	21	74	10	55	32	24	20	22	1.98
1015911--1016182	20	13.5	20	76	7	201	38	23	18	19	1.93
1015911--1016185	40	6.8	40	81	7	270	38	23	18	19	1.93
1015911--1016185	81	3.4	80	82	6	263	38	23	18	19	1.93
1017042--1017095	24	2.2	24	93	0	90	20	18	20	40	1.91
1019605--1019690	20	4.7	19	69	16	56	39	22	20	17	1.92
1019837--1019873	14	2.6	14	86	0	56	48	18	0	32	1.49
1021264--1021343	42	1.9	42	86	0	115	23	17	37	21	1.94
1021838--1021917	33	2.4	33	91	0	124	11	21	22	45	1.83
1021857--1021941	19	4.6	19	73	16	72	14	21	20	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022005--1022384	94	4.1	94	95	1	638	47	18	12	21	1.81
1024079--1024224	19	8.1	19	69	17	105	45	17	23	14	1.85
1024128--1024219	33	2.8	33	91	0	157	45	19	21	13	1.84
1024247--1024338	40	2.3	40	88	3	132	10	19	19	50	1.77
1024251--1024341	20	4.6	20	82	9	114	10	17	19	51	1.75
1024902--1025095	20	9.6	20	79	10	182	17	18	24	39	1.91
1025061--1025160	21	4.8	21	68	15	64	24	20	19	37	1.94
1032053--1032121	22	3.2	21	85	6	77	40	1	2	55	1.24
1032284--1032346	25	2.5	24	80	7	63	39	0	1	58	1.07
1032861--1032898	20	1.9	20	89	10	60	44	5	13	36	1.66
1034126--1034191	32	2.1	32	94	0	114	33	7	4	54	1.49
1040066--1040110	21	2.1	21	87	0	63	31	28	24	15	1.96
1040689--1040723	18	1.9	18	88	11	54	54	5	17	22	1.64
1040780--1040823	22	2.0	22	86	4	63	45	0	22	31	1.53
1041475--1041778	149	2.0	149	96	0	563	27	17	19	34	1.95
1041757--1041801	23	2.0	23	86	0	63	20	24	28	26	1.99
1043417--1043516	42	2.4	42	83	8	116	31	20	15	34	1.93
1043635--1043704	36	1.9	37	85	2	97	32	11	5	50	1.62
1047136--1047215	42	2.0	42	82	5	101	50	3	1	45	1.28
1048101--1048151	22	2.3	22	86	0	66	23	39	15	21	1.92
1048520--1048563	20	2.2	20	88	4	63	13	15	15	54	1.71
1048527--1048570	20	2.2	20	83	0	52	13	15	18	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050507--1050598	21	4.4	21	70	17	66	21	11	34	31	1.90
1050523--1050623	42	2.4	42	96	0	193	23	11	32	31	1.91
1050545--1050613	21	3.3	21	70	22	72	26	14	27	31	1.95
1050605--1050644	21	1.9	21	94	0	71	22	12	27	37	1.90
1050912--1051020	42	2.6	42	80	0	119	22	33	18	24	1.96
1050910--1051015	21	5.0	21	69	4	79	21	32	19	26	1.97
1052380--1052406	14	1.9	14	100	0	54	33	0	22	44	1.53
1055875--1055935	20	2.9	21	85	7	70	19	26	32	21	1.97
1062162--1062211	20	2.5	20	83	0	64	42	20	18	20	1.90
1067019--1067986	483	2.0	484	98	0	1893	37	11	19	31	1.87
1070936--1070979	21	2.1	21	82	0	52	9	38	15	36	1.80
1071313--1071342	14	2.1	15	93	6	53	6	3	26	63	1.35
1071922--1071979	28	2.1	28	100	0	116	29	27	13	29	1.94
1071946--1072089	65	2.2	64	87	6	202	30	22	18	28	1.97
1073256--1073317	20	3.2	19	84	8	88	14	29	37	19	1.91
1076678--1076717	20	2.0	20	85	4	55	15	30	35	20	1.93
1078231--1078267	18	2.1	18	94	0	65	51	8	5	35	1.55
1078653--1078702	25	2.0	25	88	0	73	46	20	6	28	1.74
1079012--1079047	18	2.0	18	88	0	54	22	2	19	55	1.56
1081878--1081922	21	2.1	21	87	0	63	31	28	24	15	1.96
1082964--1083028	31	2.1	31	85	5	87	24	18	21	35	1.96
1083014--1083292	30	9.3	30	97	0	515	22	22	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083566--1083590	2	12.5	2	100	0	50	48	0	0	52	1.00
1086630--1086674	21	2.1	21	87	0	63	31	28	24	15	1.96
1087711--1087775	31	2.1	31	82	5	78	23	18	23	35	1.96
1087761--1088034	30	9.3	30	92	4	452	22	22	23	30	1.99
1087761--1088034	59	4.7	59	94	2	446	22	22	23	30	1.99
1087761--1088034	89	3.1	90	93	3	452	22	22	23	30	1.99
1088301--1088330	2	15.0	2	92	0	51	46	0	3	50	1.18
1089708--1089745	16	2.5	15	84	12	51	65	0	5	28	1.14
1089922--1089992	20	3.5	20	83	9	81	30	11	25	32	1.91
1089935--1090151	20	10.9	20	72	11	115	27	14	24	33	1.94
1091364--1091403	22	1.9	22	85	10	57	25	7	12	55	1.63
1095359--1095385	13	2.1	13	100	0	54	29	0	14	55	1.40
1104604--1104734	70	1.9	70	95	0	235	44	13	9	32	1.77
1104702--1104766	16	4.1	16	91	0	103	58	20	12	9	1.61
1105837--1105911	24	3.1	24	90	0	96	53	21	12	13	1.71
1105857--1105912	14	4.3	14	76	17	66	50	25	14	10	1.75
1118260--1118325	32	2.1	32	97	0	123	18	16	34	30	1.93
1120281--1120311	16	1.9	16	93	0	53	41	16	6	35	1.74
1127313--1127364	24	2.2	24	77	19	56	53	7	3	34	1.48
1130197--1130406	65	3.3	63	80	12	214	25	18	24	30	1.98
1132861--1132901	19	2.2	19	100	0	82	36	12	21	29	1.90
1132861--1132909	19	2.6	19	93	0	71	34	10	26	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136953--1136992	21	1.9	21	85	10	55	35	10	2	52	1.48
1138937--1139146	65	3.2	64	76	12	214	26	19	24	30	1.98
1140745--1140770	3	8.7	3	100	0	52	0	30	0	69	0.89
1144256--1144280	11	2.3	11	100	0	50	28	16	16	40	1.89
1144582--1144806	85	2.6	85	83	1	254	33	14	18	33	1.91
1144546--1144817	85	3.2	85	78	3	235	31	15	19	34	1.92
1152264--1152422	80	2.0	78	95	4	284	45	8	25	20	1.80
1158521--1158568	22	2.1	23	84	3	62	68	2	8	20	1.26
1159562--1159678	41	3.0	39	87	6	164	28	23	12	35	1.91
1159743--1159787	21	2.2	21	96	4	83	28	20	17	33	1.95
1160783--1160837	20	2.8	20	97	2	103	38	16	21	23	1.93
1161142--1161181	21	2.0	20	85	14	55	60	0	5	35	1.19
1161398--1161618	111	2.0	111	88	1	327	24	20	24	30	1.99
1162052--1162198	43	3.2	42	65	20	107	18	16	27	38	1.92
1164277--1164448	57	2.8	62	77	13	185	33	22	18	26	1.96
1164360--1164384	12	2.1	12	100	0	50	24	24	24	28	2.00
1164753--1164797	12	3.8	12	88	5	65	31	4	26	37	1.76
1167021--1167062	21	2.0	21	86	9	59	50	2	11	35	1.52
1170789--1170849	20	3.0	21	83	9	81	24	36	24	14	1.93
1170810--1170869	21	2.9	20	80	12	59	25	36	21	16	1.94
1170790--1170869	42	1.9	41	82	7	99	25	36	22	16	1.94
1180494--1180702	64	3.3	64	82	2	224	34	20	18	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184621--1184678	6	9.5	6	72	23	50	77	0	3	18	0.91
1184610--1184678	32	2.1	33	86	7	97	73	0	7	18	1.05
1184658--1184722	30	2.2	30	80	5	78	70	3	4	21	1.19
1186096--1186156	20	3.0	20	83	4	79	55	11	14	18	1.68
1185899--1186370	181	2.6	182	90	0	705	42	13	16	27	1.86
1186291--1186337	20	2.4	19	79	10	58	53	8	17	21	1.70
1188555--1188619	21	3.1	21	93	0	103	41	10	30	16	1.83
1188653--1188718	33	2.0	33	85	5	89	28	0	46	24	1.52
1190514--1190562	19	2.6	19	96	0	89	32	2	10	55	1.45
1190799--1191521	200	3.6	200	93	0	1241	36	15	17	30	1.91

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