genome.fa.s8755.2.7.7.80.10.50.1000.7.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: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030620

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1657 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)
1308555--1308747	30	6.4	30	98	0	368	32	23	20	23	1.98
1308555--1308772	90	2.4	90	92	0	346	33	23	19	22	1.97
1308947--1310642	4	424.2	4	99	0	3198	48	25	1	25	1.57
1311545--1311663	64	1.9	63	83	1	157	23	20	18	37	1.94
1312737--1312789	22	2.4	21	78	9	61	26	3	1	67	1.17
1312855--1312894	21	2.0	21	85	5	55	20	10	0	70	1.16
1317266--1317297	6	5.3	6	92	0	55	34	46	0	18	1.49
1318676--1318778	31	3.4	27	75	16	80	37	5	2	53	1.40
1318678--1318743	31	2.1	31	83	10	82	37	7	3	51	1.46
1318761--1318788	13	2.2	13	100	0	56	50	0	0	50	1.00
1321147--1321246	41	2.5	41	84	14	129	34	7	23	36	1.82
1322146--1322176	15	2.0	16	93	6	55	64	9	0	25	1.24
1326579--1326640	3	20.7	3	90	6	99	33	0	3	62	1.11
1326639--1326665	3	9.0	3	100	0	54	33	33	0	33	1.58
1332371--1332433	12	5.2	12	72	14	58	26	12	22	38	1.90
1332356--1332470	24	4.8	24	88	4	160	26	14	19	40	1.90
1332686--1332710	2	12.5	2	100	0	50	48	0	0	52	1.00
1334576--1334629	21	2.6	21	93	0	90	18	18	20	42	1.89
1337066--1337104	12	3.2	12	79	13	53	28	12	23	35	1.91
1337051--1337165	24	4.8	24	87	4	169	26	13	19	40	1.89
1341659--1341765	42	2.6	41	85	4	135	28	19	23	28	1.98
1341947--1342046	42	2.4	42	88	5	141	31	22	22	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341964--1342040	20	3.8	20	69	16	59	31	22	23	23	1.99
1341638--1342469	275	3.0	272	86	3	1105	34	19	16	29	1.94
1342357--1342525	51	3.1	54	80	14	179	42	17	8	31	1.79
1342357--1342568	58	3.8	56	78	12	188	41	18	8	32	1.79
1342358--1342558	109	1.9	108	83	5	262	41	18	8	31	1.80
1344520--1344595	4	19.2	4	79	12	70	0	19	0	80	0.72
1344519--1344602	15	5.5	14	74	18	69	0	19	0	80	0.70
1344528--1344601	26	2.8	26	80	12	80	0	18	0	81	0.70
1344524--1344601	18	4.2	18	79	14	61	0	19	0	80	0.71
1349509--1349541	15	2.1	17	88	11	52	51	0	3	45	1.16
1349576--1349609	15	2.4	14	95	5	59	50	0	0	50	1.00
1356344--1356749	96	4.2	96	86	3	532	39	13	23	23	1.90
1358421--1358453	15	2.1	17	88	11	52	51	0	3	45	1.16
1359736--1359798	32	1.9	32	83	3	81	60	11	9	19	1.57
1365973--1366814	124	6.9	122	78	7	754	28	23	15	32	1.95
1365973--1366814	59	13.8	59	74	9	611	28	23	15	32	1.95
1365973--1366510	182	3.0	182	89	0	806	27	23	16	32	1.96
1365975--1366814	183	4.6	177	78	10	639	27	23	15	32	1.95
1367087--1367126	3	13.7	3	86	5	55	35	2	2	60	1.24
1372120--1372241	24	5.2	25	60	15	71	34	22	4	37	1.76
1372115--1372255	46	3.1	46	96	0	264	34	23	4	37	1.77
1372145--1372216	21	3.2	21	67	14	63	31	25	5	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375993--1376055	19	3.2	19	73	13	65	25	0	6	68	1.13
1376031--1376073	13	3.2	13	83	6	50	27	0	4	67	1.10
1375994--1376087	19	5.2	18	70	21	54	27	0	6	65	1.16
1376027--1376106	32	2.5	33	85	8	110	27	0	7	65	1.20
1376079--1376121	14	3.3	13	79	20	54	23	0	11	65	1.25
1376076--1376211	26	5.3	26	70	15	93	24	1	10	63	1.34
1376076--1376211	13	10.5	13	67	10	82	24	1	10	63	1.34
1376100--1376211	40	2.8	39	82	9	111	24	1	9	64	1.34
1376695--1376759	26	2.6	25	80	4	69	75	4	6	13	1.15
1376711--1376756	21	2.2	21	84	7	58	76	4	6	13	1.14
1376793--1376817	2	12.5	2	100	0	50	48	0	0	52	1.00
1376904--1376989	33	2.6	33	80	10	95	73	2	6	17	1.16
1376928--1377006	26	3.2	24	75	22	74	75	2	5	16	1.08
1378071--1378104	17	2.0	17	88	11	52	55	0	2	41	1.15
1380035--1380076	17	2.5	18	81	14	54	2	14	0	83	0.75
1382231--1382409	99	1.8	99	88	2	279	29	17	18	34	1.95
1386654--1386691	10	3.7	10	83	16	51	60	2	0	36	1.11
1387195--1387239	23	1.9	24	86	4	65	26	11	0	62	1.29
1387872--1387905	17	2.0	17	88	0	50	55	2	0	41	1.15
1388733--1388758	3	8.7	3	100	0	52	34	0	0	65	0.93
1388756--1389025	20	13.5	20	66	21	74	45	6	5	42	1.52
1388756--1388785	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388846--1388939	42	2.3	42	83	3	111	43	7	7	41	1.61
1388927--1389007	31	2.6	31	80	9	85	45	7	4	41	1.53
1388954--1389066	46	2.5	46	81	9	126	46	7	4	41	1.51
1388998--1389061	13	4.7	13	70	11	56	48	6	3	42	1.44
1393319--1393348	14	2.1	14	93	0	51	10	13	33	43	1.77
1395955--1396006	3	17.0	3	84	4	59	28	3	38	28	1.75
1399548--1399684	49	2.9	46	76	9	134	25	21	5	46	1.74
1399812--1399937	65	1.9	65	91	0	207	28	27	13	30	1.94
1399877--1400418	81	6.7	81	86	0	762	27	24	11	35	1.91
1399877--1400418	242	2.2	243	87	0	762	27	24	11	35	1.91
1400369--1400552	68	2.7	67	87	1	260	29	24	14	30	1.95
1400770--1400911	55	2.6	55	87	4	200	33	16	13	36	1.88
1401317--1401370	20	2.8	20	81	13	67	24	25	16	33	1.96
1401742--1401794	20	2.7	20	88	5	72	22	26	16	33	1.96
1404560--1404591	17	1.9	17	93	6	57	12	12	12	62	1.55
1407501--1407552	21	2.3	23	80	9	63	21	19	42	17	1.89
1412374--1412405	17	1.9	17	93	6	57	12	12	12	62	1.55
1415166--1415293	63	2.0	65	93	6	226	40	28	10	20	1.86
1417089--1417165	39	2.0	39	100	0	154	12	7	12	66	1.45
1427453--1427813	106	3.4	106	86	3	516	34	25	18	21	1.96
1441469--1441513	19	2.4	19	96	0	81	44	15	17	22	1.86
1441477--1441526	19	2.5	19	90	6	73	52	18	12	18	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1448140--1448185	23	2.0	24	86	4	67	39	2	4	54	1.32
1454395--1454422	2	14.0	2	100	0	56	50	0	0	50	1.00
1455971--1455999	15	1.9	15	100	0	58	37	0	0	62	0.96
1457331--1457401	25	2.9	24	82	15	92	45	4	0	50	1.21
1457331--1457401	23	2.9	23	85	8	88	45	4	0	50	1.21
1457331--1457418	25	3.4	27	80	16	91	44	3	0	52	1.18
1457332--1457444	27	4.3	27	79	15	98	41	3	0	54	1.17
1460452--1460794	172	2.0	171	86	4	476	39	9	18	32	1.83
1460623--1461426	185	4.3	186	83	4	911	41	10	16	31	1.82
1460623--1461426	371	2.1	377	82	5	968	41	10	16	31	1.82
1463821--1463867	25	1.9	25	86	4	69	31	17	17	34	1.92
1465423--1465861	100	4.4	98	76	10	385	36	14	12	35	1.84
1465700--1465912	100	2.1	100	79	1	221	37	15	10	36	1.82
1470228--1471111	296	3.0	296	87	2	1234	28	31	4	35	1.78
1473216--1473261	16	2.8	17	84	12	60	36	2	0	60	1.09
1474602--1474637	18	2.0	18	88	0	54	33	33	11	22	1.89
1475022--1475060	18	2.2	17	86	4	51	64	0	2	33	1.08
1475188--1475302	60	1.9	59	83	1	149	29	13	16	40	1.87
1481103--1481137	15	2.4	15	95	4	63	34	0	2	62	1.10
1481170--1481222	24	2.1	26	82	10	65	49	1	1	47	1.23
1481164--1481227	27	2.3	27	75	20	62	50	1	1	46	1.20
1481230--1481324	39	2.5	36	77	9	100	48	1	1	49	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481423--1481516	43	2.1	47	84	15	128	54	6	3	36	1.42
1481485--1481534	21	2.3	21	82	3	55	56	4	0	40	1.18
1485460--1485502	19	2.3	19	84	4	52	53	4	4	37	1.43
1486649--1486751	50	2.1	50	84	0	134	23	13	14	48	1.79
1501228--1501662	45	9.6	45	92	0	692	21	21	12	44	1.84
1506033--1506073	20	2.0	20	100	0	82	19	29	21	29	1.98
1506207--1506247	18	2.3	19	79	12	50	29	7	2	60	1.36
1515969--1516380	81	5.1	81	85	2	479	37	11	20	31	1.87
1523893--1523948	23	2.4	23	78	0	67	25	12	46	16	1.81
1524216--1524268	19	2.9	18	86	5	63	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14