genome.fa.s7847.2.7.7.80.10.50.1000.5.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: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1444154

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 668 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)
1039478--1039511	18	1.9	18	88	5	52	50	0	20	29	1.49
1046847--1046888	20	2.1	20	86	0	57	45	0	0	54	0.99
1048055--1048147	41	2.3	41	92	0	159	32	19	17	31	1.95
1054310--1054346	14	2.6	14	91	4	56	35	0	2	62	1.10
1054717--1054768	26	2.0	27	88	11	81	36	3	11	48	1.58
1058875--1058919	21	2.1	21	83	0	54	51	2	8	37	1.46
1059989--1060027	15	2.6	15	91	0	60	53	0	0	46	1.00
1060062--1060142	6	13.5	6	98	0	144	13	67	0	18	1.22
1061955--1061994	17	2.3	18	86	4	55	37	2	0	60	1.11
1061180--1062724	519	3.0	518	93	2	2633	39	6	5	48	1.53
1062474--1062513	17	2.3	18	86	4	55	37	2	0	60	1.11
1065507--1065843	168	2.0	169	95	4	610	37	10	9	42	1.73
1065807--1065835	2	15.0	2	92	7	51	48	0	0	51	1.00
1075000--1075039	18	2.1	20	86	9	57	65	7	12	15	1.47
1076633--1076663	16	1.9	16	93	0	53	54	6	32	6	1.51
1080377--1080407	16	1.9	16	93	0	53	54	6	32	6	1.51
1085115--1085194	41	2.0	41	97	0	151	47	12	25	15	1.80
1087998--1088036	15	2.7	15	84	4	53	41	2	25	30	1.69
1103047--1103093	23	2.0	23	91	0	76	23	27	23	25	2.00
1103072--1103376	150	2.0	149	94	0	538	34	21	17	26	1.95
1104418--1104454	19	1.9	20	88	5	58	62	0	35	2	1.10
1109988--1110032	23	2.0	23	90	0	72	24	26	26	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110000--1110315	150	2.1	149	92	1	535	34	20	17	27	1.95
1111354--1111416	8	8.0	8	79	10	60	61	0	34	3	1.12
1111355--1111412	24	2.4	24	100	0	116	62	0	34	3	1.12
1112564--1112613	19	2.7	19	96	3	93	58	0	20	22	1.40
1113750--1113843	31	3.0	31	89	3	136	20	18	23	38	1.93
1116142--1116222	39	2.1	38	81	6	92	43	0	4	51	1.23
1116285--1116357	15	5.1	15	69	15	64	42	1	2	53	1.23
1116267--1116358	42	2.2	42	94	1	159	44	2	4	48	1.34
1132419--1132474	29	1.9	29	92	0	94	39	1	8	50	1.44
1132415--1132482	29	2.3	29	82	9	93	39	1	7	51	1.39
1133102--1133163	23	2.8	22	80	7	72	59	8	14	17	1.58
1133103--1133171	23	3.0	23	77	10	70	59	8	14	17	1.60
1133534--1133615	21	4.0	21	83	3	94	18	23	18	40	1.91
1133612--1133705	20	4.7	20	86	2	143	38	20	21	20	1.94
1133612--1133705	41	2.3	40	89	3	143	38	20	21	20	1.94
1134252--1134344	33	2.8	33	85	1	114	43	22	21	12	1.87
1134345--1134466	33	3.5	33	82	8	145	11	22	18	46	1.81
1134403--1134466	20	3.1	21	82	8	78	10	25	17	46	1.80
1136102--1136477	94	4.1	93	93	3	582	22	11	18	47	1.80
1136570--1136612	20	2.2	20	100	0	86	51	13	23	11	1.74
1136651--1136734	19	4.6	19	75	15	79	7	19	26	47	1.74
1138635--1138666	14	2.3	14	94	0	55	37	0	21	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138862--1139012	19	8.7	19	69	21	107	12	23	19	44	1.85
1138868--1138992	33	3.8	33	95	0	223	12	23	18	46	1.82
1138920--1138974	14	3.6	14	73	21	56	10	23	20	45	1.82
1138965--1139058	20	4.7	20	72	13	68	21	20	23	35	1.96
1141460--1141513	24	2.2	24	90	6	83	42	20	16	20	1.89
1142388--1142525	21	6.7	21	84	5	174	39	15	23	21	1.91
1142388--1142525	41	3.3	42	84	5	174	39	15	23	21	1.91
1142388--1142526	62	2.2	62	91	2	226	39	15	23	22	1.91
1142388--1142547	62	2.6	61	84	7	207	38	15	23	22	1.93
1143467--1143556	21	4.3	20	81	14	101	22	21	34	22	1.97
1143467--1143565	42	2.4	41	84	6	119	23	21	32	23	1.98
1143787--1143826	21	1.9	21	89	0	62	47	7	10	35	1.65
1145475--1145522	22	2.2	22	77	3	53	33	27	29	10	1.90
1146423--1146500	31	2.5	31	91	2	122	17	20	20	41	1.91
1146431--1146514	31	2.7	31	85	3	89	21	19	22	36	1.95
1146895--1147014	60	2.0	61	96	3	226	35	5	20	39	1.76
1154476--1154511	17	2.2	16	95	5	63	69	5	5	19	1.29
1161303--1161336	16	2.1	17	88	5	52	70	2	0	26	1.01
1173545--1174003	228	2.0	229	99	0	911	35	17	10	36	1.85
1175797--1175993	53	3.7	53	93	4	326	23	28	17	30	1.97
1176597--1176703	42	2.6	41	80	2	133	31	22	21	24	1.98
1176811--1176917	42	2.6	41	79	2	124	30	22	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177023--1177129	42	2.6	41	80	2	133	28	22	23	25	1.99
1176432--1177246	214	3.8	214	95	0	1427	31	19	15	33	1.93
1176432--1177246	426	1.9	429	94	0	1438	31	19	15	33	1.93
1193166--1193196	3	10.3	3	92	0	53	64	0	3	32	1.09
1195108--1195149	20	2.2	20	87	12	61	66	2	2	28	1.16
1195457--1195500	16	2.8	16	92	0	70	50	22	13	13	1.77
1195508--1195545	11	3.4	11	80	20	51	23	18	26	31	1.97
1195590--1195667	14	5.6	14	70	17	54	47	1	1	50	1.17
1197320--1197357	2	19.0	2	100	0	76	50	0	0	50	1.00
1197872--1197897	13	2.0	13	100	0	52	53	0	0	46	1.00
1199265--1199414	81	1.9	81	86	8	216	44	2	14	40	1.56
1204969--1205022	20	2.7	20	77	11	74	27	31	14	25	1.95
1205046--1205102	20	2.8	20	81	0	69	40	22	15	21	1.91
1208664--1208705	20	2.1	20	95	0	75	16	21	26	35	1.94
1208714--1208755	20	2.1	20	95	0	75	16	23	16	42	1.88
1209252--1209288	18	2.1	18	89	0	56	32	5	10	51	1.60
1209244--1209296	24	2.2	24	86	0	70	35	3	13	47	1.61
1209531--1209606	35	2.2	35	80	4	91	40	25	10	23	1.86
1209598--1209679	39	2.2	36	87	10	114	50	18	13	18	1.79
1210032--1210171	61	2.2	62	85	7	176	50	17	1	31	1.55
1210207--1210240	16	2.1	16	94	0	59	44	20	26	8	1.81
1211547--1211616	34	2.1	34	86	5	99	24	31	14	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211900--1211942	21	2.0	21	95	0	77	27	27	20	23	1.99
1212049--1212091	22	2.0	22	90	0	68	13	27	37	20	1.91
1212181--1212240	29	2.0	31	93	6	106	43	16	6	33	1.74
1213479--1213526	20	2.5	19	83	12	62	29	12	4	54	1.56
1214385--1214454	34	2.1	32	84	5	86	25	30	14	30	1.95
1214669--1214708	21	1.9	22	90	10	66	12	10	40	37	1.77
1214736--1214778	21	2.0	21	95	0	77	27	27	20	23	1.99
1214816--1214857	21	2.0	21	100	0	84	19	28	38	14	1.90
1214908--1214949	21	2.0	21	90	0	66	14	28	35	21	1.92
1215039--1215098	29	2.0	31	93	6	106	43	16	6	33	1.74
1216321--1216368	20	2.5	19	83	12	62	29	12	4	54	1.56
1217228--1217297	34	2.1	34	86	5	99	24	31	14	30	1.94
1217579--1217621	21	2.0	21	95	0	77	27	27	20	23	1.99
1217750--1217791	21	2.0	21	90	0	66	14	23	35	26	1.93
1217881--1217940	29	2.0	31	93	6	106	43	16	6	33	1.74
1218490--1218515	12	2.2	12	100	0	52	23	19	34	23	1.96
1219645--1219763	21	5.8	21	68	8	57	29	15	25	29	1.96
1224306--1224346	18	2.3	18	91	4	66	63	2	4	29	1.28
1224387--1224417	10	3.1	10	90	0	53	41	0	29	29	1.56
1225004--1225047	12	3.8	12	90	3	63	11	9	47	31	1.71
1225002--1225047	24	2.0	24	91	4	76	10	10	47	30	1.73
1225065--1225160	2	51.0	2	75	12	78	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226731--1226784	2	27.5	2	88	3	83	46	0	3	50	1.19
1227996--1228041	24	1.9	24	86	0	65	36	0	2	60	1.09
1228618--1228678	2	30.5	2	100	0	122	49	0	0	50	1.00
1230765--1230801	18	2.1	18	94	0	65	21	24	27	27	1.99
1234079--1234131	23	2.2	24	90	3	81	33	18	18	28	1.95
1236407--1236448	21	2.0	21	95	0	75	30	14	7	47	1.71
1236443--1236541	33	3.0	33	94	1	164	32	6	15	46	1.70
1237240--1237293	21	2.6	21	93	0	99	20	24	37	18	1.94
1237335--1237389	21	2.6	21	100	0	110	14	20	43	21	1.87
1237690--1237746	15	3.7	15	75	9	60	36	12	10	40	1.77

Tables:   1   2   3   4   5   6