genome.fa.s9001.2.7.7.80.10.50.1000.6.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  6  of  24  ( 2777 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)
1226144--1226182	20	2.0	19	85	14	53	30	12	2	53	1.52
1226147--1226188	22	1.9	22	85	9	59	28	14	2	54	1.52
1227813--1227912	52	1.9	52	84	8	132	50	25	7	18	1.71
1240564--1240599	3	12.3	3	94	5	65	69	0	0	30	0.89
1242748--1242794	6	7.5	6	88	7	67	51	14	19	14	1.77
1245268--1245317	17	2.9	17	84	0	64	42	8	14	36	1.74
1250373--1250430	26	2.2	27	79	11	66	8	6	5	79	1.06
1251642--1251680	17	2.3	17	86	0	51	41	7	17	33	1.79
1252556--1252630	31	2.4	32	91	6	118	68	6	9	16	1.38
1253963--1253997	3	12.0	3	93	6	63	65	0	0	34	0.93
1255374--1255425	21	2.5	21	81	3	61	38	19	25	17	1.93
1255414--1255547	20	6.7	20	86	5	153	31	25	18	24	1.98
1256105--1256146	19	2.2	19	86	0	57	50	28	16	4	1.66
1256153--1256324	19	9.5	19	79	13	202	11	22	19	46	1.82
1256194--1256299	33	3.1	33	87	6	131	11	23	21	43	1.85
1258469--1258619	21	7.2	21	63	13	51	23	36	18	21	1.95
1258417--1258580	42	3.9	41	76	4	166	22	37	17	23	1.94
1258414--1258589	84	2.1	84	96	0	325	22	36	17	23	1.94
1258469--1258619	42	3.6	41	74	8	142	23	36	18	21	1.95
1258414--1258619	84	2.5	84	91	1	288	22	35	17	23	1.95
1260632--1260697	20	3.3	20	84	0	69	40	25	18	15	1.89
1260651--1260718	20	3.5	20	81	2	75	39	23	22	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260766--1260823	14	3.9	14	79	16	71	10	17	24	48	1.78
1260749--1260839	32	2.8	33	94	3	166	12	18	21	47	1.81
1260824--1260867	20	2.2	20	88	4	63	18	25	20	36	1.95
1261354--1261398	18	2.5	18	88	0	72	13	15	44	26	1.83
1262720--1262793	20	3.8	20	81	1	69	43	22	17	16	1.88
1263026--1263069	22	2.0	22	100	0	88	18	13	45	22	1.84
1263237--1263371	20	6.7	20	80	7	121	24	17	24	33	1.96
1263237--1263374	61	2.3	61	85	0	195	23	17	23	34	1.96
1263237--1263392	61	2.6	61	82	4	181	23	18	23	34	1.96
1263442--1263482	21	2.0	21	85	0	55	34	31	17	17	1.93
1267494--1267522	15	1.9	15	100	0	58	48	0	3	48	1.18
1267734--1267772	15	2.8	13	78	14	51	43	0	2	53	1.14
1267762--1267801	15	2.6	16	88	4	55	57	2	0	40	1.12
1269468--1269515	25	1.9	25	83	8	62	27	29	4	39	1.75
1270293--1270342	17	3.1	17	68	26	54	52	22	6	20	1.68
1270655--1270696	20	2.1	20	86	0	57	30	0	35	33	1.58
1270649--1270697	24	2.0	26	88	8	75	32	0	32	34	1.58
1277491--1277550	30	2.0	30	93	6	104	35	6	15	43	1.72
1277631--1277704	20	3.7	20	76	7	78	20	28	21	29	1.98
1281231--1281282	22	2.5	20	84	6	59	28	23	23	25	1.99
1281304--1281377	20	3.7	20	75	8	71	29	17	27	25	1.97
1281416--1281473	22	2.7	21	80	12	73	29	13	27	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281401--1281476	22	3.7	21	75	17	72	32	13	26	27	1.93
1281796--1282126	59	5.6	59	90	1	520	35	11	22	29	1.90
1288391--1288451	21	2.9	21	80	17	65	31	16	26	26	1.96
1288771--1289158	59	6.6	59	90	1	607	35	12	21	30	1.90
1289386--1289433	24	2.0	24	91	0	78	29	10	31	29	1.90
1290213--1290298	32	2.7	32	85	0	109	39	12	15	32	1.85
1290212--1290318	32	3.2	32	81	4	97	36	14	15	32	1.89
1293804--1293873	20	3.5	20	84	5	81	37	12	18	31	1.89
1297645--1297694	20	2.5	20	90	0	73	36	18	16	30	1.92
1298124--1298186	33	1.9	32	83	3	81	31	15	28	23	1.96
1302821--1303213	79	5.0	79	91	0	581	30	23	11	35	1.90
1302989--1303205	45	5.3	45	62	28	124	31	24	11	32	1.91
1303587--1303643	22	2.7	21	84	12	80	24	28	17	29	1.97
1303587--1303812	95	2.4	93	80	5	247	27	26	15	30	1.95
1314133--1314182	25	2.0	25	96	0	91	30	30	16	24	1.96
1315683--1315730	25	1.9	25	100	0	96	35	27	12	25	1.92
1322645--1322733	5	17.8	5	95	0	151	43	0	15	40	1.47
1324546--1324635	10	9.2	9	70	20	56	76	2	16	4	1.05
1326348--1326409	5	12.0	5	77	13	63	75	1	1	20	0.97
1326348--1326385	14	2.6	14	91	4	58	76	0	0	23	0.79
1326350--1326386	19	1.9	19	94	0	65	78	0	0	21	0.75
1326350--1326393	19	2.3	19	88	0	61	75	2	2	20	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326443--1326496	27	2.0	27	92	3	92	51	5	1	40	1.36
1326423--1326586	36	4.7	37	73	21	131	44	6	2	46	1.43
1326444--1326508	27	2.6	26	85	9	82	49	6	3	41	1.43
1326459--1326577	36	3.3	36	89	5	186	42	6	3	47	1.46
1327187--1327217	14	2.2	14	94	0	53	41	19	12	25	1.87
1327222--1327849	260	2.4	260	89	0	943	28	20	18	33	1.96
1334541--1334631	5	17.4	5	79	12	78	71	2	1	25	1.04
1334541--1334628	14	5.7	15	74	15	63	71	2	1	25	1.04
1334544--1334631	9	10.4	9	70	27	52	71	2	1	25	1.04
1334702--1334751	2	25.5	2	95	4	93	48	0	0	52	1.00
1334629--1335099	37	12.6	37	77	12	359	45	7	1	46	1.40
1334629--1334820	103	1.9	102	87	8	282	46	5	0	46	1.30
1334629--1335093	73	6.2	73	77	13	391	44	6	1	46	1.40
1334995--1335099	39	2.7	39	86	0	165	41	5	1	50	1.37
1340330--1340610	141	2.0	141	90	1	447	34	10	8	46	1.70
1341629--1341662	2	17.0	2	100	0	68	50	0	0	50	1.00
1343136--1343483	43	8.1	41	71	14	215	51	6	16	25	1.69
1343131--1343451	127	2.5	125	79	8	290	51	6	16	25	1.68
1343618--1343662	2	22.5	2	100	0	90	51	0	0	48	1.00
1343771--1343829	28	2.1	28	81	12	68	69	3	1	25	1.13
1345113--1345152	20	2.1	19	90	9	64	52	5	17	25	1.64
1345200--1345265	30	2.2	29	94	2	114	48	6	15	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346303--1346350	2	24.0	2	100	0	96	50	0	0	50	1.00
1347902--1347932	3	10.3	3	100	0	62	67	0	0	32	0.91
1347866--1347932	6	10.5	6	87	6	71	58	0	0	41	0.98
1347866--1347932	9	7.0	9	80	9	71	58	0	0	41	0.98
1351544--1351585	20	2.1	20	90	0	66	21	30	21	26	1.98
1354101--1354139	20	2.0	20	89	0	60	30	0	5	64	1.15
1374595--1374639	15	2.9	15	81	15	56	48	0	0	51	1.00
1374613--1374668	19	3.1	19	74	5	53	48	0	0	51	1.00
1386797--1387862	45	23.6	45	94	0	1738	24	23	19	33	1.97
1388043--1388093	3	16.3	3	80	8	57	39	0	1	58	1.09
1389503--1389558	21	2.7	19	77	20	58	33	1	3	60	1.24
1389668--1389738	37	1.9	37	85	2	99	52	2	1	43	1.24
1389853--1389905	22	2.6	20	78	18	56	52	0	7	39	1.30
1393963--1394008	24	2.0	23	91	8	76	45	28	13	13	1.80
1399414--1399442	2	14.5	2	100	0	58	0	0	48	51	1.00
1401939--1401991	21	2.5	21	96	0	97	26	15	11	47	1.79
1414483--1414530	19	2.3	21	80	20	57	33	4	6	56	1.44
1418985--1419603	194	3.2	194	91	2	996	30	14	12	43	1.82
1420840--1420872	16	2.0	17	88	5	50	33	6	0	60	1.21
1424374--1424416	18	2.4	18	80	0	50	25	0	9	65	1.22
1427433--1427496	30	2.1	30	82	0	74	21	15	26	35	1.94
1429779--1429810	15	2.1	15	94	0	55	46	0	15	37	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430453--1430576	66	1.9	66	91	0	203	25	15	26	32	1.95
1430952--1430978	12	2.2	12	100	0	54	77	0	0	22	0.76
1431294--1431324	15	2.1	15	100	0	62	25	6	19	48	1.72
1433185--1433214	8	3.9	8	95	4	53	66	0	0	33	0.92
1433161--1433229	23	3.1	22	78	15	61	68	1	1	28	1.07
1433187--1433235	16	3.1	16	72	21	50	69	0	0	30	0.89
1437062--1437086	2	12.5	2	100	0	50	52	0	0	48	1.00
1438953--1438994	20	2.0	20	86	4	57	40	28	11	19	1.87
1441861--1441906	24	1.9	24	90	0	74	23	17	8	50	1.74
1442293--1442343	24	2.2	24	85	3	68	33	9	17	39	1.83

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