genome.fa.s8439.2.7.7.80.10.50.1000.4.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: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2703160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1013 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)
873100--873124	12	2.1	12	100	0	50	32	0	8	60	1.26
875753--875791	18	2.1	18	85	9	51	23	0	7	69	1.14
885028--885566	39	13.8	39	77	1	353	37	19	25	17	1.94
885040--885561	78	6.7	77	83	3	415	36	19	26	17	1.94
885062--885565	156	3.2	155	83	2	582	36	20	25	17	1.94
885674--885794	39	3.1	39	90	0	188	34	19	18	28	1.95
886203--886305	12	8.6	12	67	8	66	49	13	31	5	1.66
886199--886318	24	5.0	24	83	7	145	49	14	30	6	1.68
886200--886318	48	2.5	48	88	0	175	49	14	30	5	1.67
913921--913971	2	26.0	2	96	4	95	50	0	0	49	1.00
917883--917919	6	6.2	6	87	0	56	18	2	64	13	1.39
918757--919055	114	2.6	114	83	7	367	15	25	18	41	1.89
933195--933320	63	2.0	63	88	0	189	21	25	15	37	1.93
940605--940693	29	3.0	29	68	12	72	31	17	7	42	1.78
941317--941495	60	2.9	59	81	4	180	32	22	6	38	1.79
941644--941886	60	4.1	60	78	4	224	38	5	24	31	1.79
941676--941917	60	4.0	60	82	4	263	38	5	24	32	1.78
941678--941916	120	2.0	119	82	2	291	37	5	24	32	1.78
941965--942044	40	2.0	40	90	0	124	41	13	17	27	1.87
946147--946185	19	2.1	19	100	0	78	46	15	12	25	1.81
957741--957802	2	31.0	2	100	0	124	50	0	0	50	1.00
964404--964525	37	3.2	37	93	5	192	31	10	4	53	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969280--969403	61	2.0	61	93	0	212	23	35	8	32	1.86
970170--970232	31	2.0	31	100	0	126	25	14	28	31	1.95
974832--974903	36	2.0	36	97	0	135	20	11	25	43	1.85
978284--978320	20	1.9	19	89	10	58	45	10	24	18	1.81
978436--978483	18	2.7	18	74	9	53	41	0	6	52	1.27
982785--982834	25	2.2	23	82	13	59	36	26	6	32	1.81
989371--989399	2	14.5	2	100	0	58	0	48	0	51	1.00
989399--989430	2	16.0	2	100	0	64	50	0	0	50	1.00
1005094--1005161	14	4.5	16	72	18	56	39	0	1	58	1.07
1005094--1005163	15	4.6	16	73	16	60	40	0	1	58	1.07
1006889--1006936	21	2.3	21	85	0	60	25	39	12	22	1.89
1006940--1007012	21	3.5	21	85	7	103	17	32	27	21	1.96
1006927--1007021	42	2.3	41	78	8	102	20	30	22	27	1.98
1007534--1007630	33	2.9	34	85	3	133	58	4	0	37	1.17
1007532--1007637	34	3.2	33	82	8	133	57	4	0	37	1.20
1008034--1009168	128	8.9	128	95	0	1983	31	19	25	23	1.98
1008034--1009163	381	3.0	382	95	0	2003	31	19	25	23	1.98
1009239--1009279	8	5.2	8	82	5	57	36	29	0	34	1.58
1030035--1030079	22	2.0	22	100	0	90	42	13	8	35	1.75
1045174--1045255	28	2.9	28	100	0	164	46	24	7	21	1.77
1046967--1047116	45	3.3	45	91	1	239	24	17	24	33	1.96
1051816--1051885	28	2.4	29	83	9	81	32	25	7	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052305--1052344	20	2.0	20	85	0	53	50	2	2	45	1.28
1052422--1052484	29	2.2	29	94	2	110	46	11	9	33	1.72
1052450--1052703	107	2.3	110	90	3	397	40	14	12	33	1.83
1052669--1052733	29	2.2	30	91	2	105	47	12	7	32	1.69
1052562--1052859	136	2.2	135	92	3	492	42	12	10	34	1.77
1053767--1053807	12	3.2	13	77	22	50	51	9	0	39	1.35
1054363--1054411	21	2.3	21	89	6	73	42	24	0	32	1.55
1055847--1055979	23	5.7	23	87	1	122	28	18	25	27	1.98
1055891--1055979	11	7.6	11	73	12	79	25	20	28	25	1.99
1055904--1055947	13	3.5	13	75	12	56	18	22	29	29	1.97
1055893--1055989	24	4.0	24	86	9	144	22	19	27	29	1.98
1055845--1055989	71	2.0	71	85	2	193	26	17	24	31	1.97
1068042--1068138	31	3.2	31	86	2	151	44	4	2	49	1.33
1072734--1072795	20	3.0	19	71	17	52	33	0	4	61	1.17
1076676--1076732	30	1.9	30	92	0	96	40	7	7	45	1.58
1076758--1076806	22	2.2	22	85	3	62	55	12	0	32	1.37
1076761--1077064	77	3.9	79	87	6	390	51	13	0	33	1.46
1076890--1076960	21	3.2	21	70	18	63	53	18	0	28	1.45
1076931--1077015	31	2.7	31	87	8	129	51	11	0	36	1.39
1076996--1077086	22	4.0	22	73	14	76	49	12	1	37	1.47
1076844--1077117	53	5.2	53	69	17	214	51	12	0	35	1.46
1077049--1077345	155	1.9	156	90	4	476	51	13	0	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077176--1077248	22	3.2	22	74	11	74	57	15	0	27	1.38
1077049--1077345	77	3.8	77	90	4	431	51	13	0	33	1.46
1077122--1077307	25	7.3	25	67	19	98	52	14	0	32	1.46
1077281--1077497	53	4.1	54	88	8	322	52	11	0	35	1.42
1077348--1077444	22	3.4	31	72	27	106	53	9	1	36	1.40
1077382--1077474	22	4.0	22	74	15	96	51	12	1	34	1.47
1077290--1077495	50	4.0	50	83	13	265	51	11	0	36	1.42
1077477--1077507	14	2.1	15	94	5	55	58	0	0	41	0.98
1095675--1095719	21	2.1	21	84	8	56	20	8	35	35	1.84
1100945--1100993	20	2.5	20	96	0	89	48	0	40	10	1.37
1105900--1105967	28	2.4	28	97	0	127	50	7	7	35	1.58
1105917--1105974	28	2.1	28	90	0	89	53	8	8	29	1.61
1106338--1106532	21	9.3	21	72	14	152	23	20	21	34	1.97
1106320--1106526	84	2.5	83	83	8	253	23	20	21	35	1.96
1106320--1106526	42	5.0	41	82	8	224	23	20	21	35	1.96
1106616--1106648	6	5.7	6	92	7	59	33	51	15	0	1.43
1107396--1107507	21	5.3	21	75	16	124	34	27	18	18	1.95
1107390--1107530	21	6.7	21	73	16	123	36	24	19	19	1.94
1107390--1107534	42	3.5	42	99	0	281	37	24	19	18	1.94
1107544--1107596	21	2.5	21	90	0	79	16	18	32	32	1.94
1108141--1108200	29	2.0	31	90	6	97	33	5	16	45	1.69
1108663--1108704	18	2.3	18	100	0	84	19	19	0	61	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108796--1108865	34	2.1	32	82	10	79	32	15	27	24	1.95
1109363--1109429	31	2.1	33	88	5	102	20	2	7	68	1.28
1109385--1109431	21	2.2	21	85	7	60	21	2	6	70	1.20
1109373--1109429	10	5.5	10	77	6	60	21	1	8	68	1.26
1109682--1109751	30	2.2	30	85	12	88	65	4	8	21	1.37
1109760--1109810	26	1.9	27	88	11	79	43	0	1	54	1.11
1110844--1110901	23	2.6	23	94	5	102	39	3	12	44	1.58
1110915--1110949	13	2.8	13	91	4	54	57	0	0	42	0.99
1113939--1113979	8	5.2	8	82	5	57	34	0	29	36	1.58
1114047--1114407	126	2.9	126	99	0	706	21	25	20	32	1.98
1115433--1115532	34	3.0	33	80	2	119	40	3	4	53	1.35
1115433--1115532	33	3.0	33	82	2	119	40	3	4	53	1.35
1116046--1116115	21	3.3	20	90	5	95	18	27	35	18	1.94
1116119--1116166	21	2.3	21	85	0	60	22	12	39	25	1.89
1117888--1117962	30	2.4	31	80	10	91	61	1	0	37	1.05
1117924--1117989	14	4.5	14	76	10	60	63	6	0	30	1.18
1129706--1129741	3	12.0	3	93	0	63	63	0	0	36	0.94
1138421--1138454	14	2.4	14	85	0	50	55	2	5	35	1.39
1142278--1142354	30	2.6	30	95	0	136	32	18	20	28	1.96
1143395--1143458	32	2.0	32	96	0	119	51	18	6	23	1.69
1144052--1144160	31	3.3	31	69	18	94	50	11	11	25	1.73
1144005--1144162	68	2.3	68	92	0	253	48	12	12	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144003--1144130	37	3.6	36	70	18	108	47	13	14	25	1.79
1144122--1144167	16	2.9	16	72	15	51	56	8	6	28	1.54
1147087--1147119	9	3.7	9	91	0	57	48	0	51	0	1.00
1151341--1151398	5	10.8	5	75	14	53	8	20	51	18	1.72
1151334--1151398	22	3.0	22	95	0	121	10	21	49	18	1.78
1151401--1151492	9	9.7	10	76	15	81	30	26	25	18	1.98
1151401--1151491	29	3.2	30	82	11	52	30	26	25	17	1.97
1158591--1158633	22	2.0	22	100	0	86	9	23	48	18	1.76
1158643--1158681	21	1.9	21	89	5	62	30	23	25	20	1.98
1167149--1167389	119	2.0	121	94	4	427	34	29	16	20	1.94

Tables:   1   2   3   4   5   6   7   8   9