genome.fa.s9585.2.7.7.80.10.50.1000.6.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  6  of  35  ( 4106 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)
1084287--1084343	22	2.6	22	82	0	78	31	17	14	36	1.89
1084701--1085269	113	5.0	113	82	4	556	37	13	19	29	1.90
1084722--1085265	226	2.4	230	84	5	676	38	12	19	29	1.89
1087116--1087157	3	14.0	3	94	0	75	33	2	0	64	1.07
1087471--1087512	19	2.2	19	86	0	57	57	0	0	42	0.99
1088204--1088253	21	2.3	22	80	13	59	56	4	2	38	1.30
1088215--1088260	21	2.3	21	85	10	62	60	2	0	36	1.09
1094917--1094941	10	2.5	10	100	0	50	92	0	0	8	0.40
1094910--1094945	18	2.0	18	94	0	63	88	0	2	8	0.59
1097362--1097423	33	1.9	32	90	3	97	50	9	19	20	1.76
1104573--1104650	29	2.7	29	89	0	111	25	7	20	46	1.77
1104629--1104696	29	2.3	29	89	0	100	27	4	23	44	1.72
1111986--1112038	18	3.0	18	94	2	90	16	47	22	13	1.82
1112046--1112125	29	2.8	29	98	0	151	21	10	23	45	1.82
1112046--1112148	29	3.6	29	90	0	116	22	8	25	43	1.81
1112104--1112170	28	2.3	29	87	2	91	26	5	22	44	1.75
1114756--1114804	21	2.4	21	89	3	73	28	16	28	26	1.97
1114793--1115154	20	18.5	20	68	15	152	17	21	22	38	1.93
1114750--1114912	81	2.0	82	81	2	193	18	20	25	36	1.95
1114832--1114948	22	5.6	22	71	13	79	18	20	24	35	1.95
1114877--1114966	41	2.2	41	96	4	164	18	21	23	36	1.95
1114899--1114966	19	3.4	19	73	11	73	19	20	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114833--1115197	136	2.7	136	84	5	486	19	21	22	36	1.95
1115006--1115201	95	2.1	95	93	0	329	20	21	20	37	1.95
1115809--1115851	6	7.7	6	97	2	65	0	18	53	27	1.45
1115950--1116042	22	4.4	22	74	9	95	36	24	18	20	1.95
1116034--1116188	20	7.6	20	67	4	103	36	22	21	19	1.95
1116054--1116209	21	7.6	20	66	4	96	34	23	19	21	1.96
1115991--1116210	41	5.4	41	90	3	313	36	22	20	20	1.95
1116344--1116405	32	1.9	32	87	6	90	38	3	0	58	1.15
1116676--1116719	23	2.0	23	82	13	56	25	15	9	50	1.74
1119509--1119611	51	2.0	51	90	3	163	21	18	15	44	1.86
1120843--1120901	28	2.1	28	87	6	84	22	10	8	59	1.56
1125377--1125406	2	15.0	2	100	0	60	50	0	0	50	1.00
1126059--1126121	13	5.5	13	65	27	52	19	26	26	26	1.99
1126055--1126135	22	3.6	22	96	1	144	18	27	29	24	1.98
1129178--1129222	21	2.1	21	87	0	63	31	28	24	15	1.96
1130239--1130278	2	20.0	2	100	0	80	50	0	0	50	1.00
1130933--1130995	13	5.5	13	65	27	52	19	26	26	26	1.99
1130929--1131009	22	3.6	22	96	1	144	18	27	29	24	1.98
1134058--1134102	21	2.1	21	87	0	63	31	28	24	15	1.96
1135125--1135150	2	13.0	2	100	0	52	50	0	0	50	1.00
1135805--1135867	13	5.5	13	65	27	52	19	26	26	26	1.99
1135801--1135881	22	3.6	22	96	1	144	18	27	29	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138084--1138108	2	12.5	2	100	0	50	52	0	48	0	1.00
1140692--1141146	144	3.2	144	88	1	680	37	9	19	34	1.83
1142341--1142490	78	1.9	78	84	4	203	32	17	10	39	1.84
1142888--1142917	2	15.0	2	100	0	60	50	0	0	50	1.00
1142940--1142977	19	2.0	19	89	0	58	47	0	0	52	1.00
1143446--1143495	22	2.3	23	83	10	61	42	2	2	54	1.23
1143458--1143501	22	2.0	22	86	8	63	40	2	0	56	1.11
1143457--1143525	32	2.2	32	82	10	79	44	2	0	52	1.16
1143689--1143732	22	2.0	22	81	4	52	54	2	2	40	1.25
1144038--1144071	14	2.4	14	90	0	50	38	14	11	35	1.83
1144218--1144264	3	15.7	3	100	0	94	65	0	0	34	0.93
1146102--1146135	16	2.1	16	88	0	50	50	0	2	47	1.16
1146175--1146208	16	2.0	18	88	11	54	26	2	5	64	1.30
1146676--1146923	130	1.9	130	93	0	424	35	12	14	36	1.85
1147320--1147395	35	2.2	35	90	0	116	36	1	22	39	1.63
1149015--1149146	20	6.6	20	89	0	192	25	26	21	25	2.00
1152344--1152613	140	1.9	140	96	0	495	28	12	15	43	1.83
1152584--1152848	20	13.9	20	77	10	250	33	21	18	27	1.96
1152612--1152823	74	2.9	73	84	4	282	33	21	18	26	1.96
1152590--1152888	94	3.2	90	81	10	318	34	21	18	25	1.96
1153023--1153084	14	4.3	14	77	6	61	46	14	0	38	1.45
1154481--1154592	42	2.7	42	76	2	118	23	18	36	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155078--1155144	20	3.5	18	78	11	71	35	23	19	20	1.95
1155089--1155144	20	2.8	20	86	0	76	35	21	19	23	1.96
1155189--1155231	20	2.2	20	100	0	86	13	18	25	41	1.88
1155515--1155562	20	2.4	20	92	0	78	18	20	27	33	1.96
1155749--1155816	20	3.4	20	95	0	118	32	26	20	20	1.97
1155425--1156057	344	1.8	348	94	1	1139	34	19	17	28	1.95
1155099--1156057	328	2.9	327	88	6	1271	34	19	17	28	1.94
1155859--1155906	20	2.4	20	92	0	78	16	20	29	33	1.95
1157811--1157877	19	3.5	20	89	6	102	50	22	16	10	1.75
1158481--1158573	20	4.7	20	94	0	150	23	23	25	26	2.00
1159813--1159866	24	2.2	25	84	12	69	46	0	3	50	1.19
1161954--1161988	16	2.2	16	94	0	61	31	22	14	31	1.94
1172847--1172999	74	2.1	74	90	2	236	41	3	7	47	1.49
1175566--1175600	15	2.5	15	90	9	56	31	5	0	62	1.18
1185198--1185290	26	3.6	26	68	18	70	34	0	4	61	1.16
1185456--1185492	18	2.1	18	89	0	56	43	2	0	54	1.14
1188996--1189045	26	2.0	26	84	4	66	34	10	4	52	1.54
1195940--1195979	15	2.7	15	88	0	62	52	10	22	15	1.71
1196605--1196657	21	2.5	21	84	0	70	22	22	20	33	1.97
1196647--1196717	20	3.5	20	98	0	133	40	16	18	23	1.90
1196647--1196819	20	8.6	20	87	5	122	32	21	19	26	1.97
1196585--1196737	40	3.8	40	73	12	123	32	20	18	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196706--1196819	40	2.8	40	87	0	165	27	24	21	27	1.99
1196686--1196817	60	2.2	62	80	10	157	30	23	20	25	1.99
1196977--1197031	22	2.6	22	80	5	69	25	40	10	23	1.87
1197417--1197469	20	2.7	20	90	0	79	16	18	26	37	1.93
1199205--1199254	18	2.8	18	96	0	91	32	18	6	44	1.74
1199402--1199469	20	3.4	20	91	0	109	36	26	19	17	1.94
1199512--1199558	18	2.5	19	82	6	60	21	19	25	34	1.96
1200043--1200084	21	2.2	19	87	12	59	21	35	19	23	1.96
1201543--1201604	14	4.3	14	79	6	70	37	0	16	46	1.47
1201545--1201599	29	1.9	29	85	3	76	34	0	18	47	1.49
1201703--1201756	20	2.7	20	85	5	74	42	27	18	11	1.84
1201800--1201907	20	5.4	20	87	0	144	25	18	23	32	1.97
1201759--1201941	54	3.3	54	78	10	179	23	18	22	36	1.95
1201878--1201975	34	2.9	34	90	0	160	21	16	24	37	1.93
1201800--1201983	20	9.8	20	71	15	117	25	16	21	35	1.95
1204434--1204487	24	2.2	24	93	0	90	40	20	18	20	1.91
1204434--1204501	24	2.8	24	84	0	64	38	20	17	23	1.93
1205308--1205395	20	4.4	20	91	0	140	26	20	27	26	1.99
1205322--1205476	40	3.8	40	75	9	118	30	19	22	27	1.98
1205414--1205454	21	1.9	22	95	5	75	43	17	14	24	1.86
1205512--1205554	19	2.3	19	100	0	86	25	20	23	30	1.99
1206718--1206775	30	1.9	30	82	0	71	5	24	18	51	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210707--1210754	22	2.2	22	100	0	96	60	0	0	39	0.97
1210713--1210760	22	2.2	22	92	0	78	66	0	2	31	1.03
1210802--1210849	23	2.1	23	100	0	96	52	12	8	27	1.67
1211735--1211872	23	6.0	23	84	0	168	35	27	23	13	1.93
1211735--1211872	46	3.0	46	92	0	213	35	27	23	13	1.93
1214060--1214269	65	3.2	64	79	12	232	25	19	24	30	1.98
1215259--1215302	21	2.1	21	86	0	61	34	15	40	9	1.79
1215734--1215763	15	2.0	15	93	0	51	40	30	0	30	1.57
1216854--1216932	23	3.6	23	74	8	83	27	24	21	26	1.99
1222721--1222862	65	2.2	65	85	6	182	27	18	22	31	1.97

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