genome.fa.s9014.2.7.7.80.10.50.1000.5.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1552 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)
963421--963484	17	3.2	20	63	20	53	40	10	23	25	1.87
963318--963754	91	4.8	91	92	1	686	35	15	23	25	1.94
963760--964108	96	3.7	96	87	5	476	28	25	17	28	1.97
967327--967360	16	2.1	16	100	0	68	23	11	26	38	1.89
969211--969272	9	6.6	9	78	10	61	79	0	14	6	0.93
969204--969278	20	3.8	20	84	7	91	77	0	16	6	0.97
969209--969280	31	2.4	31	81	11	87	77	0	16	5	0.94
971173--971198	2	13.0	2	100	0	52	50	0	0	50	1.00
976674--976723	19	2.6	19	81	18	59	70	0	8	22	1.13
977390--977612	76	2.9	75	93	3	376	59	11	1	28	1.40
977511--977572	32	1.9	32	84	12	83	62	11	0	25	1.28
979443--979481	10	3.5	11	86	10	53	79	0	5	15	0.90
982382--982432	15	3.1	16	76	18	52	70	0	5	23	1.09
983104--983312	76	2.8	76	94	0	366	59	11	1	27	1.43
983183--983309	44	3.2	43	64	28	116	59	11	2	25	1.44
987158--987213	15	3.7	15	92	2	85	62	12	19	5	1.49
993124--993149	2	13.0	2	100	0	52	50	0	0	50	1.00
1001533--1001565	14	2.2	16	89	10	52	72	0	9	18	1.10
1011483--1012702	609	2.0	611	99	0	2417	34	13	18	33	1.90
1018589--1018624	2	18.0	2	100	0	72	50	0	0	50	1.00
1029667--1029725	21	2.7	23	82	10	79	23	23	16	35	1.95
1033155--1033203	20	2.4	20	80	10	55	48	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039664--1039701	20	1.9	20	100	0	76	23	23	10	42	1.85
1056292--1056324	16	2.1	16	100	0	66	39	24	6	30	1.79
1056426--1056469	21	2.1	21	86	0	61	38	20	18	22	1.93
1064747--1064792	20	2.3	19	85	14	58	26	15	8	50	1.73
1069334--1069394	20	2.9	21	85	7	70	18	24	34	22	1.96
1080971--1081085	2	59.5	2	73	13	62	46	4	2	46	1.36
1080974--1081037	25	2.5	26	80	10	78	39	7	4	48	1.53
1080999--1081085	13	6.4	14	66	11	56	49	3	1	45	1.26
1081261--1081351	48	1.9	47	86	2	128	46	14	15	24	1.83
1090303--1090338	2	18.5	2	88	5	56	44	0	0	55	0.99
1090878--1090935	27	2.1	27	100	0	116	22	41	13	22	1.89
1097604--1097653	25	2.0	25	100	0	100	36	12	16	36	1.85
1106593--1106629	16	2.3	16	95	0	65	27	5	24	43	1.76
1116624--1116675	22	2.5	20	77	17	52	36	26	13	23	1.92
1119400--1119449	25	2.0	25	100	0	100	36	12	16	36	1.85
1126405--1126463	31	1.9	31	92	0	100	40	6	10	42	1.65
1126490--1126538	22	2.2	22	85	3	62	55	12	0	32	1.37
1126478--1127077	54	11.0	54	74	19	368	52	12	0	34	1.43
1126510--1127055	32	19.7	31	68	26	267	52	12	0	34	1.43
1126492--1126884	80	4.8	80	81	11	419	53	12	0	33	1.39
1126544--1126618	22	3.2	22	75	14	69	54	16	0	29	1.42
1126622--1126664	22	2.0	22	95	0	77	51	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126624--1126672	22	2.2	22	85	3	62	55	12	0	32	1.37
1126730--1126786	18	3.4	17	72	18	57	54	10	0	35	1.35
1126708--1126753	22	2.0	22	87	4	65	56	13	0	30	1.37
1126748--1126800	14	3.5	14	72	18	52	56	5	0	37	1.23
1126493--1127077	112	5.3	112	83	8	649	52	12	0	34	1.42
1127035--1127088	22	2.5	22	96	0	99	50	11	0	38	1.38
1127076--1127178	15	7.0	15	80	4	111	46	1	1	49	1.24
1127076--1127150	30	2.5	30	93	0	123	45	0	2	52	1.15
1127131--1127201	28	2.6	28	93	2	117	47	5	1	45	1.35
1127677--1127719	22	2.0	22	100	0	86	51	13	0	34	1.42
1127679--1127727	22	2.2	22	88	3	71	55	14	0	30	1.40
1127699--1128521	32	29.7	32	70	25	509	52	11	0	35	1.40
1127672--1128020	81	4.3	79	83	13	307	52	12	0	34	1.42
1127682--1128590	216	4.3	217	78	16	928	52	11	0	35	1.40
1128032--1128087	22	2.6	20	94	5	76	51	8	0	39	1.33
1128319--1128371	14	3.5	14	72	18	52	56	5	0	37	1.23
1127731--1128591	54	15.8	54	77	14	714	52	11	0	35	1.40
1128416--1128464	22	2.2	22	85	3	62	55	12	0	32	1.37
1128472--1128577	22	5.2	22	68	21	61	57	12	0	30	1.35
1128571--1128673	15	6.5	15	78	15	109	51	2	0	45	1.16
1128491--1128658	52	3.5	47	79	13	148	53	7	0	38	1.30
1134277--1134418	30	4.8	30	81	4	155	64	9	9	16	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134277--1134418	58	2.4	58	84	5	180	64	9	9	16	1.48
1135233--1135280	12	4.0	12	78	5	53	45	2	0	52	1.12
1137945--1137990	22	2.1	22	95	0	83	32	10	17	39	1.84
1138851--1139043	42	4.5	43	68	16	132	35	15	21	27	1.94
1139281--1139348	26	2.6	26	86	4	84	36	23	23	16	1.94
1141989--1142301	130	2.4	131	83	3	396	26	15	31	26	1.96
1143351--1143453	13	8.1	13	70	12	70	1	15	3	78	0.98
1143361--1143435	15	4.8	15	75	15	71	1	16	2	80	0.90
1143382--1143453	21	3.5	22	78	19	66	2	18	4	75	1.09
1143368--1143436	35	2.0	35	83	11	88	1	17	4	76	1.02
1143355--1143448	48	2.0	48	85	4	127	1	17	4	77	0.98
1144083--1144132	20	2.5	20	96	0	91	32	36	14	18	1.90
1145379--1145523	59	2.5	58	81	7	152	40	2	20	35	1.67
1147220--1147272	27	2.0	27	84	0	70	35	15	13	35	1.86
1150916--1150949	16	2.1	16	100	0	68	61	23	8	5	1.47
1152541--1152651	54	2.1	54	91	0	177	21	24	19	34	1.97
1152549--1152663	54	2.1	54	90	0	176	21	26	18	33	1.96
1152570--1152828	55	4.7	55	83	5	201	27	24	14	33	1.94
1152649--1152828	55	3.3	55	89	1	272	31	24	12	32	1.92
1152840--1153140	54	5.5	55	88	3	430	21	25	17	35	1.95
1152840--1153140	109	2.8	109	91	1	469	21	25	17	35	1.95
1152843--1153194	109	3.2	107	87	4	447	23	24	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153484--1153588	37	2.8	37	84	5	124	24	20	23	31	1.98
1154719--1154974	125	2.0	126	90	1	408	24	27	17	30	1.97
1158765--1158877	21	5.4	21	90	0	172	18	15	21	45	1.86
1158824--1158952	21	6.0	22	79	7	106	13	21	20	43	1.87
1158824--1158952	64	2.0	64	82	5	154	13	21	20	43	1.87
1164536--1164756	117	1.9	114	81	9	268	45	8	8	38	1.64
1176096--1176154	22	2.7	21	82	12	75	25	23	27	23	2.00
1181910--1181982	37	2.0	37	97	0	137	21	12	19	46	1.82
1184028--1184085	30	1.9	31	89	3	91	37	8	10	43	1.70
1184110--1184170	22	2.8	22	95	5	106	50	9	1	37	1.45
1184112--1184182	22	3.2	22	86	6	72	53	11	1	33	1.45
1184154--1185653	22	58.4	29	66	31	335	52	13	0	34	1.42
1184217--1185653	54	28.1	54	79	14	1208	52	13	0	34	1.42
1184434--1185677	48	24.8	47	77	15	730	52	13	0	33	1.42
1184648--1184690	21	2.0	21	82	8	52	60	2	0	37	1.10
1184609--1185682	300	3.7	293	84	9	1430	52	13	0	34	1.42
1184481--1185523	101	10.4	100	76	15	745	52	13	0	33	1.42
1185238--1185530	26	12.2	23	71	19	183	52	15	0	31	1.43
1185588--1185682	22	4.2	22	69	7	82	50	9	0	40	1.35
1185633--1185750	15	7.5	15	79	13	130	50	2	0	46	1.14
1185579--1185735	67	2.3	67	86	5	210	50	5	0	43	1.25
1185080--1185686	149	4.0	144	90	6	765	51	13	0	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185676--1185773	45	2.3	43	85	5	126	47	1	0	51	1.07
1197172--1197203	3	10.7	3	93	0	55	0	31	3	65	1.08
1202905--1202939	17	2.0	18	88	5	54	20	20	5	54	1.64
1219743--1219850	43	2.5	43	87	3	146	26	21	9	42	1.83
1229908--1229971	31	2.1	31	84	0	83	20	28	3	48	1.64
1243697--1244063	46	8.0	46	88	3	506	21	21	13	43	1.87
1243762--1243926	20	7.3	20	66	22	69	20	22	14	43	1.88
1243992--1244071	20	3.7	20	74	18	70	21	23	13	41	1.89
1247326--1247396	20	3.2	20	68	21	61	19	23	8	47	1.77
1247325--1247707	46	8.3	46	89	0	550	22	20	12	44	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13