genome.fa.s8356.2.7.7.80.10.50.1000.7.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  7  of  56  ( 6656 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)
1093134--1093247	46	2.5	46	92	2	185	34	21	21	23	1.97
1093235--1093309	31	2.4	31	95	0	132	38	20	17	24	1.93
1093180--1093385	107	1.9	106	96	1	376	35	21	20	22	1.96
1093363--1093452	45	2.0	46	91	4	146	33	18	23	24	1.97
1094504--1094722	54	4.1	54	83	5	266	25	21	15	38	1.92
1094528--1094721	52	3.7	52	84	8	257	24	21	14	39	1.91
1095790--1095862	35	2.1	34	87	2	101	34	20	10	34	1.88
1096734--1096962	114	2.0	114	92	0	377	30	20	15	33	1.94
1099123--1099164	1	42.0	1	90	0	66	0	2	2	95	0.32
1099123--1099165	15	2.9	15	92	0	77	0	4	2	93	0.43
1099461--1099490	2	15.0	2	100	0	60	50	0	0	50	1.00
1105714--1105749	18	2.0	18	100	0	72	61	0	0	38	0.96
1107238--1107336	5	18.8	5	74	13	83	9	22	50	18	1.74
1107231--1107337	17	6.3	17	82	10	114	11	22	48	17	1.79
1107204--1107241	7	5.4	7	93	0	67	28	28	26	15	1.96
1107238--1107336	22	4.4	22	80	12	121	9	22	50	18	1.74
1107255--1107317	27	2.3	27	97	0	117	7	22	50	19	1.72
1107285--1107345	19	3.3	19	86	6	90	11	24	47	16	1.79
1107333--1107393	9	6.3	9	76	14	59	29	29	26	14	1.95
1107336--1107373	19	2.0	19	100	0	76	26	36	26	10	1.89
1114467--1114534	16	4.3	16	83	12	79	13	23	45	17	1.84
1114530--1114567	18	2.2	17	90	4	58	26	28	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115756--1115845	20	4.4	20	91	1	135	34	12	20	33	1.89
1116422--1116473	21	2.5	21	96	0	95	30	13	13	42	1.83
1121978--1122014	15	2.6	15	91	8	60	48	8	8	35	1.62
1122234--1122258	2	12.5	2	100	0	50	52	0	0	48	1.00
1127207--1127352	73	2.0	71	97	2	274	32	9	17	41	1.81
1138365--1138429	31	2.1	31	94	0	112	27	15	20	36	1.92
1142711--1142841	66	2.0	65	95	1	235	25	21	12	40	1.88
1143245--1143296	20	2.7	20	84	3	70	40	15	15	28	1.88
1143311--1143350	20	2.0	20	95	4	73	30	15	17	37	1.90
1144964--1145003	15	2.5	16	84	12	55	0	22	5	72	1.04
1149654--1149831	60	3.0	59	78	4	180	32	19	4	43	1.71
1151696--1151769	21	3.6	21	78	7	80	18	20	25	35	1.96
1151702--1151836	42	3.3	41	82	11	161	21	19	22	36	1.95
1151777--1151846	21	3.3	21	95	0	131	24	22	20	32	1.97
1152955--1153075	21	6.0	21	85	13	173	33	22	23	20	1.97
1154119--1154838	245	2.9	244	93	3	1189	52	10	13	22	1.71
1161504--1161547	18	2.4	18	88	0	70	25	13	2	59	1.46
1161793--1161865	28	2.6	28	88	0	119	34	28	13	23	1.93
1163887--1163917	11	2.8	11	100	0	62	19	25	9	45	1.81
1165106--1165139	16	2.2	16	89	5	52	41	5	8	44	1.60
1166836--1166877	18	2.3	18	91	0	66	21	21	28	28	1.99
1171499--1171555	20	2.8	20	83	5	69	29	22	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192507--1192833	22	15.2	22	85	6	438	40	0	10	48	1.41
1192704--1192732	15	1.9	15	100	0	58	44	0	0	55	0.99
1192507--1192833	81	3.8	85	83	7	385	40	0	10	48	1.41
1194672--1194724	22	2.3	23	93	6	99	41	0	11	47	1.39
1199492--1199534	14	3.1	13	86	6	50	55	16	9	18	1.67
1201805--1201850	2	23.0	2	100	0	92	50	0	0	50	1.00
1207473--1207543	35	2.0	35	91	0	115	26	14	28	30	1.95
1211032--1211265	90	2.6	90	85	1	326	25	17	20	37	1.93
1211275--1211344	22	3.3	22	69	15	74	24	18	24	32	1.97
1211248--1211413	42	4.0	42	91	1	262	25	20	21	32	1.97
1211255--1211320	20	3.2	20	68	16	62	21	19	24	34	1.96
1211441--1211883	136	3.3	136	91	0	699	34	18	20	26	1.96
1211963--1212176	91	2.4	91	91	3	344	42	14	17	25	1.87
1214619--1214716	2	51.0	2	86	11	143	47	0	1	51	1.07
1216471--1216534	22	2.9	22	90	0	101	51	25	10	12	1.72
1216644--1216706	18	3.5	19	72	12	53	58	0	4	36	1.19
1227105--1227134	2	15.0	2	100	0	60	50	0	0	50	1.00
1227936--1228328	155	2.5	155	82	3	452	28	18	7	45	1.76
1228592--1228625	2	17.0	2	100	0	68	50	0	0	50	1.00
1229548--1230033	254	1.9	252	88	8	675	27	13	19	39	1.88
1230339--1230437	17	5.7	17	84	4	117	29	26	9	35	1.87
1230339--1230437	52	1.9	52	91	0	162	29	26	9	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230339--1230437	35	2.8	35	84	3	110	29	26	9	35	1.87
1237216--1237255	19	2.1	19	100	0	80	55	15	5	25	1.60
1248515--1248552	19	2.0	19	94	0	67	39	26	21	13	1.89
1249589--1249621	2	17.0	2	93	6	59	48	0	0	51	1.00
1256238--1256279	13	3.2	13	82	0	57	26	19	16	38	1.92
1258656--1258689	17	2.1	16	88	5	50	14	8	0	76	1.01
1260445--1260488	21	2.1	21	86	0	61	34	15	18	31	1.92
1265015--1265058	21	2.1	21	83	4	54	11	18	0	70	1.16
1267841--1267890	23	2.2	23	92	0	82	24	20	32	24	1.98
1268875--1268908	15	2.3	15	90	10	52	17	8	0	73	1.08
1282654--1282701	13	3.7	13	94	0	78	33	12	20	33	1.90
1292853--1293208	180	2.0	177	97	1	667	40	22	12	24	1.88
1293759--1293786	2	14.0	2	100	0	56	50	0	0	50	1.00
1294378--1294402	12	2.1	12	100	0	50	40	24	0	36	1.55
1295453--1295685	115	2.0	117	93	5	402	33	6	6	53	1.52
1295964--1296001	2	19.0	2	100	0	76	50	0	0	50	1.00
1296306--1296365	21	2.9	21	82	2	77	31	6	10	51	1.61
1296582--1296624	21	2.0	23	86	9	63	67	0	0	32	0.91
1303752--1303805	23	2.5	20	75	18	54	42	18	1	37	1.61
1303767--1303829	23	2.7	23	90	0	90	38	19	6	36	1.77
1305015--1305068	20	2.8	19	76	15	56	16	14	14	53	1.73
1308128--1308173	3	15.3	3	95	0	83	32	2	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308570--1308599	9	3.3	9	100	0	60	10	30	23	36	1.87
1309552--1309615	23	2.8	23	85	0	83	20	14	14	51	1.76
1316042--1316110	22	3.1	22	93	4	113	44	0	0	55	0.99
1316054--1316110	8	7.8	8	72	18	52	47	0	0	52	1.00
1319006--1319163	36	4.4	35	70	18	103	46	5	2	45	1.40
1319006--1319141	36	3.7	37	77	19	119	46	5	2	45	1.39
1319823--1321219	84	16.8	84	78	6	1220	25	19	24	30	1.98
1319822--1321219	165	8.4	163	79	6	1215	25	19	24	30	1.98
1319782--1321219	421	3.4	412	82	6	1513	25	19	23	31	1.98
1327773--1327969	36	5.3	35	76	12	141	45	6	3	45	1.43
1327820--1327907	39	2.3	39	88	2	124	44	7	2	45	1.45
1327944--1327995	27	1.9	27	92	0	86	46	5	3	44	1.45
1327956--1328024	35	2.0	36	85	5	97	49	5	1	43	1.35
1332016--1332802	348	2.3	348	84	3	1048	35	16	12	35	1.87
1334137--1334179	16	2.8	16	78	3	52	27	4	4	62	1.35
1335346--1335424	5	15.8	5	72	13	56	78	1	5	15	0.99
1335592--1335625	2	17.0	2	100	0	68	50	0	0	50	1.00
1337527--1337568	20	2.1	20	86	0	57	61	7	9	21	1.50
1339143--1339196	23	2.3	23	93	0	99	29	25	27	16	1.97
1339771--1339812	18	2.3	18	91	0	66	35	21	0	42	1.53
1339778--1339813	18	2.0	18	100	0	72	33	22	0	44	1.53
1340671--1340733	20	2.9	20	77	15	63	23	26	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340671--1340735	24	2.9	22	80	13	71	24	26	18	30	1.98
1344462--1344523	23	2.7	23	84	0	88	27	25	24	22	2.00
1349053--1349136	40	2.1	40	95	2	152	54	13	15	16	1.71
1350325--1350376	23	2.3	23	93	0	86	17	23	26	32	1.96
1351841--1351921	32	2.5	32	80	7	101	34	19	12	33	1.89
1352946--1353102	63	2.5	64	87	3	210	30	24	16	28	1.97
1352946--1353122	63	2.8	61	81	10	189	29	25	16	27	1.97
1354114--1354265	19	7.8	19	74	7	135	33	17	17	32	1.93
1354114--1354265	40	3.9	40	86	3	177	33	17	17	32	1.93
1354295--1354328	17	2.1	17	88	5	52	32	23	8	35	1.86

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56