genome.fa.s761.2.7.7.80.10.50.1000.4.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  4  of  23  ( 2686 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)
916589--916786	101	2.0	101	94	0	351	30	26	19	22	1.98
919679--919720	18	2.3	18	95	0	75	42	7	23	26	1.80
922312--922353	16	2.6	16	100	0	84	33	0	11	54	1.37
926413--926460	22	2.2	22	100	0	96	25	8	12	54	1.65
927566--927608	23	1.9	22	90	4	68	51	2	0	46	1.13
927635--927714	28	3.0	25	76	16	63	43	6	1	48	1.36
927955--928011	23	2.3	26	85	8	75	42	0	5	52	1.24
927947--928026	26	3.0	26	76	7	81	43	1	5	50	1.32
930481--930530	19	2.6	19	80	0	55	18	20	22	40	1.92
932194--932330	71	1.9	70	83	1	175	29	18	18	33	1.95
937368--937691	37	8.5	38	83	8	385	45	8	3	41	1.52
937368--937691	76	4.3	74	83	7	375	45	8	3	41	1.52
940443--940515	22	3.3	22	75	7	85	61	4	16	17	1.49
945097--945140	23	1.9	23	86	9	63	63	13	0	22	1.29
945657--945694	15	2.7	15	92	8	62	21	15	23	39	1.92
949689--949731	20	2.2	20	91	0	68	32	11	20	34	1.89
978479--978526	20	2.3	22	89	7	73	75	0	4	20	0.97
978550--978589	20	1.9	22	90	10	66	55	7	2	35	1.42
978628--978665	19	2.0	19	100	0	76	47	5	0	47	1.24
978622--978676	19	2.6	21	68	26	53	45	7	0	47	1.30
978587--978699	54	2.0	57	88	10	169	46	7	2	44	1.45
978651--978734	44	1.9	44	92	0	141	44	7	1	47	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980163--980194	17	2.0	17	88	11	50	21	18	18	40	1.91
981452--981531	37	2.2	37	95	4	144	16	17	18	47	1.83
995730--995791	26	2.5	24	80	17	72	8	14	4	72	1.24
995732--995784	26	2.0	28	85	14	76	9	15	3	71	1.26
995746--995803	17	3.6	15	80	13	62	3	15	5	75	1.11
1000334--1000395	26	2.5	24	80	17	72	8	14	4	72	1.24
1000336--1000388	26	2.0	28	85	14	76	9	15	3	71	1.26
1000350--1000407	17	3.6	15	80	13	62	3	15	5	75	1.11
1001725--1001866	71	2.0	71	98	0	275	30	28	9	30	1.89
1004613--1004653	3	14.3	3	80	19	52	65	0	0	34	0.93
1007386--1007431	22	2.1	22	84	8	58	69	2	0	28	1.00
1015790--1015871	9	8.9	9	73	15	53	74	4	3	17	1.14
1015789--1015871	5	16.8	5	68	20	50	74	4	3	16	1.13
1016399--1016453	7	7.7	7	77	18	60	74	1	0	23	0.91
1016398--1016453	11	5.2	11	79	18	64	75	1	0	23	0.90
1016391--1016453	22	2.9	22	90	6	94	76	1	0	22	0.88
1017489--1017554	24	2.6	25	83	7	71	59	0	3	37	1.13
1018293--1019299	85	11.8	85	83	2	1148	27	17	19	35	1.94
1020540--1020736	99	2.0	99	87	7	285	30	16	16	36	1.91
1024408--1024504	6	14.8	6	68	19	52	75	4	4	16	1.12
1024408--1024504	15	7.4	12	69	18	52	75	4	4	16	1.12
1024426--1024467	17	2.4	18	84	11	61	76	2	4	16	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025009--1025057	3	16.7	3	78	19	50	75	0	0	24	0.80
1024994--1025060	25	2.7	24	82	13	64	74	1	2	20	1.03
1025005--1025067	25	2.4	25	84	12	83	76	1	0	22	0.88
1025005--1025067	24	2.6	25	80	12	69	76	1	0	22	0.88
1026009--1026065	16	3.5	16	80	4	51	61	1	0	36	1.07
1026032--1026085	24	2.3	23	81	9	63	55	0	3	40	1.17
1027463--1027492	13	2.2	14	94	5	53	30	33	0	36	1.58
1027746--1027783	18	2.2	17	86	13	51	15	10	2	71	1.25
1027751--1027789	18	2.2	19	90	9	64	17	7	2	71	1.21
1028400--1028435	15	2.4	15	82	17	56	41	0	0	58	0.98
1028404--1028435	15	2.2	15	94	5	57	43	0	0	56	0.99
1035934--1035960	13	2.1	13	100	0	54	37	7	7	48	1.59
1036269--1036345	7	10.6	7	90	8	118	74	0	14	11	1.08
1036310--1036355	9	5.4	9	80	15	53	78	0	15	6	0.95
1037529--1037554	12	2.2	12	100	0	52	46	0	34	19	1.50
1038729--1038803	10	7.7	10	69	21	61	9	12	21	57	1.62
1038735--1038799	16	4.1	16	95	0	121	7	12	23	56	1.61
1038869--1038901	16	2.1	16	100	0	66	6	12	24	57	1.57
1039736--1039765	13	2.2	14	94	5	53	30	33	0	36	1.58
1041366--1041462	23	4.2	23	75	16	74	42	16	20	20	1.89
1041366--1041455	46	1.9	47	84	6	121	42	16	20	21	1.89
1041365--1041476	46	2.4	46	80	4	118	42	17	19	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041413--1041483	23	3.1	23	86	6	90	43	18	19	18	1.88
1044899--1044980	43	1.9	43	100	0	164	29	9	26	34	1.88
1048310--1048555	55	4.5	55	86	2	352	32	18	19	29	1.95
1048349--1048555	108	1.9	108	93	2	353	32	16	19	30	1.95
1058546--1058597	23	2.3	23	86	0	68	23	25	19	32	1.97
1058705--1058742	18	2.1	19	85	5	51	57	5	7	28	1.49
1064097--1064165	36	1.9	36	93	0	120	23	23	7	46	1.77
1064103--1064180	36	2.2	36	81	4	86	25	23	6	44	1.76
1065463--1065521	24	2.5	24	97	0	109	47	1	23	27	1.61
1065463--1065522	12	5.0	12	72	0	57	48	1	23	26	1.60
1081933--1081984	24	2.2	24	82	6	61	51	0	34	13	1.41
1085602--1085637	14	2.6	14	91	4	56	25	16	22	36	1.94
1091366--1091430	34	1.9	34	90	0	103	29	26	10	33	1.90
1091339--1091549	109	1.9	109	86	0	296	27	22	12	36	1.90
1096460--1096522	22	3.0	22	81	6	69	33	14	26	25	1.94
1096401--1096589	94	2.0	95	82	2	227	34	15	22	27	1.94
1096710--1096855	68	2.1	68	84	2	186	33	13	26	26	1.94
1096816--1097119	81	3.8	81	86	1	412	39	12	20	28	1.88
1101248--1101431	95	1.9	95	82	4	228	32	15	23	28	1.95
1101778--1101913	59	2.3	58	86	3	193	33	11	19	34	1.89
1102158--1102481	68	4.8	68	89	0	441	31	14	23	30	1.95
1102434--1102739	81	3.9	81	81	6	367	37	12	21	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102488--1102716	73	3.0	73	79	9	278	38	11	21	28	1.89
1102434--1102716	154	1.8	154	93	0	485	37	12	21	28	1.89
1112091--1112386	79	3.7	79	90	0	441	29	22	10	37	1.87
1112148--1112377	45	5.6	43	68	23	158	30	22	10	36	1.88
1112883--1112961	19	4.0	19	76	12	79	25	29	15	30	1.96
1114313--1114369	23	2.5	23	77	5	71	35	19	19	26	1.95
1114441--1114550	57	1.9	57	90	0	175	39	17	6	37	1.75
1114441--1114535	30	3.3	29	67	24	74	37	16	6	38	1.74
1119784--1119941	82	1.9	83	80	11	182	29	9	19	41	1.83
1124667--1124738	30	2.4	29	90	4	108	20	22	22	34	1.97
1126755--1126839	24	3.5	24	80	0	80	23	17	15	43	1.87
1136535--1136569	14	2.4	14	90	4	52	82	0	11	5	0.82
1139903--1139951	12	4.3	12	80	15	59	48	6	40	4	1.47
1139895--1139949	21	2.6	21	85	5	58	49	7	40	3	1.48
1141822--1141885	16	3.9	16	72	2	56	35	29	14	20	1.92
1141824--1141890	32	2.1	33	91	2	109	38	29	14	16	1.89
1141954--1142009	18	3.1	19	77	12	55	53	0	5	41	1.24
1142228--1142275	24	2.0	24	83	4	60	60	0	2	37	1.09
1149690--1149753	19	3.7	18	70	19	55	70	3	0	26	1.02
1149690--1149755	34	1.9	34	82	17	84	69	3	0	27	1.03
1149698--1149817	15	8.2	15	72	18	51	59	2	3	35	1.27
1149852--1150033	37	4.9	37	81	6	172	37	9	6	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155468--1155521	20	2.7	21	83	13	69	62	1	1	33	1.16
1155452--1155539	15	5.8	16	74	15	53	62	1	3	32	1.19
1156547--1156935	137	2.9	132	73	10	370	42	14	13	29	1.84
1157216--1157300	16	5.6	14	80	12	71	62	4	9	23	1.44
1157214--1157249	14	2.5	15	90	9	65	58	5	13	22	1.56
1158290--1158326	19	1.9	19	88	0	56	29	21	5	43	1.75
1176347--1176395	24	2.0	24	100	0	98	55	12	8	24	1.64
1178229--1178338	54	2.0	54	100	0	220	30	12	19	37	1.89
1178245--1178330	27	3.2	27	64	23	72	31	12	17	38	1.87
1181232--1181268	19	2.0	19	89	5	58	2	27	0	70	1.01

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23