genome.fa.s7748.2.7.7.80.10.50.1000.7.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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  7  of  24  ( 2778 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)
1202667--1202691	12	2.1	12	100	0	50	24	20	24	32	1.98
1214400--1214492	18	4.9	18	78	10	96	27	30	20	21	1.98
1214399--1214495	20	5.1	20	79	8	112	27	28	20	22	1.99
1214402--1214492	38	2.4	38	85	3	121	28	30	19	20	1.97
1216658--1216697	13	2.9	14	85	14	57	57	0	42	0	0.98
1216668--1216697	10	3.0	10	100	0	60	60	0	40	0	0.97
1217763--1217801	20	2.0	20	94	0	69	38	20	20	20	1.94
1226452--1226483	16	2.0	16	100	0	64	37	18	18	25	1.94
1230328--1230529	87	2.3	87	81	6	225	50	6	19	24	1.71
1230328--1230687	43	8.3	44	74	10	228	49	6	17	26	1.71
1230557--1230643	45	1.9	45	83	6	113	51	5	12	29	1.63
1230935--1230972	20	1.9	20	88	0	58	73	5	0	21	1.02
1240748--1240790	21	2.0	21	86	0	59	13	20	4	60	1.51
1241214--1241282	32	2.2	32	84	5	86	42	7	13	37	1.71
1241164--1241531	143	2.6	144	72	13	372	37	6	17	38	1.76
1241384--1241454	32	2.2	32	82	5	81	43	9	18	28	1.81
1241400--1241635	103	2.2	108	88	7	351	37	7	19	35	1.80
1241601--1241667	32	2.1	32	83	10	84	43	8	14	32	1.77
1241400--1241667	103	2.5	101	83	12	274	38	7	19	35	1.80
1249602--1249698	24	4.0	23	77	7	86	22	11	16	49	1.77
1249588--1249698	48	2.3	48	84	6	127	21	13	16	48	1.80
1249874--1249980	2	53.5	2	98	0	205	50	48	0	0	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249980--1250007	2	14.0	2	100	0	56	50	0	0	50	1.00
1252165--1252198	7	4.9	7	96	0	50	38	41	0	20	1.53
1252165--1252204	14	2.9	14	88	0	53	37	37	0	25	1.56
1252979--1253017	20	2.0	20	90	10	62	43	10	5	41	1.61
1254742--1257408	891	3.0	891	98	0	5084	28	14	20	36	1.92
1265916--1265964	14	3.5	14	82	0	62	14	10	16	59	1.61
1265903--1265965	28	2.2	28	80	0	72	12	12	17	57	1.66
1266140--1266183	23	1.9	23	85	0	61	13	11	15	59	1.62
1266136--1266206	33	2.1	34	89	2	108	14	11	15	59	1.62
1266951--1267006	29	1.9	29	96	0	103	39	16	25	19	1.91
1268261--1268300	18	2.2	18	86	4	53	77	2	0	20	0.88
1268894--1268930	8	4.6	8	89	0	56	32	0	0	67	0.91
1275030--1275080	22	2.3	22	93	0	84	33	5	21	39	1.78
1280157--1280187	2	15.5	2	100	0	62	48	0	0	51	1.00
1280860--1280909	22	2.3	22	92	0	82	36	8	20	36	1.82
1288236--1288265	2	15.0	2	100	0	60	50	0	0	50	1.00
1289721--1290218	55	9.1	54	82	6	375	32	23	15	27	1.95
1289721--1290218	110	4.5	109	83	6	508	32	23	15	27	1.95
1289721--1290218	219	2.3	219	82	5	587	32	23	15	27	1.95
1290229--1290300	37	1.9	38	91	2	119	22	22	18	37	1.94
1291594--1291741	7	21.7	7	69	26	56	8	16	0	75	1.05
1291591--1291688	45	2.2	45	89	7	146	8	13	0	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291616--1291693	8	9.9	8	73	14	56	6	12	0	80	0.88
1291601--1291695	13	7.6	12	76	13	61	7	14	0	77	0.97
1291583--1291739	44	3.5	43	78	16	124	8	16	0	74	1.06
1302977--1303001	2	12.5	2	100	0	50	48	0	0	52	1.00
1305354--1305402	17	2.9	17	85	8	57	26	2	0	71	0.97
1305367--1305402	17	2.1	18	90	10	58	27	0	0	72	0.85
1308307--1308361	22	2.5	22	77	16	62	30	16	29	23	1.96
1310700--1310731	14	2.3	14	94	0	55	43	3	0	53	1.16
1311066--1311133	23	3.0	23	75	0	73	20	26	23	29	1.99
1311339--1311691	179	2.0	174	95	3	636	33	4	18	42	1.71
1313263--1313299	18	2.1	18	94	0	65	27	16	32	24	1.96
1314464--1314518	20	2.8	20	86	2	76	32	21	20	25	1.97
1314664--1314706	21	2.0	21	86	8	61	39	9	23	27	1.85
1316643--1316693	23	2.2	23	89	0	84	43	27	0	29	1.55
1316987--1317033	23	2.0	23	83	4	58	36	4	8	51	1.52
1318684--1319010	157	2.0	163	92	6	553	39	15	15	29	1.88
1328776--1328844	21	3.5	20	67	15	54	24	24	24	26	2.00
1328757--1328852	38	2.5	38	93	0	156	25	26	20	28	1.99
1329756--1329825	30	2.3	31	82	7	90	32	22	8	35	1.85
1330750--1330810	30	2.1	30	84	9	81	32	11	4	50	1.60
1333476--1333673	99	2.0	99	98	0	387	43	18	5	32	1.73
1333659--1333691	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341085--1341124	19	2.2	18	86	8	55	27	20	30	22	1.98
1341109--1341265	65	2.4	65	85	4	201	33	18	20	28	1.96
1342487--1342529	21	2.0	21	86	0	59	23	18	37	20	1.94
1344678--1344718	13	3.1	13	92	3	64	41	7	14	36	1.74
1344742--1344787	22	2.1	21	84	4	56	65	8	0	26	1.21
1345196--1345256	23	2.7	22	85	7	86	24	21	31	22	1.98
1350122--1350163	21	2.0	21	90	0	66	16	21	40	21	1.91
1351862--1351912	24	2.1	24	92	0	84	15	0	31	52	1.43
1352187--1352222	16	2.2	16	90	0	54	47	5	0	47	1.25
1352604--1352656	21	2.6	20	78	3	61	24	16	24	33	1.96
1352604--1352703	20	4.8	21	71	10	71	28	16	23	33	1.95
1358472--1358595	65	1.9	65	91	0	203	31	16	23	29	1.96
1359246--1359302	2	28.5	2	100	0	114	49	0	0	50	1.00
1359429--1359496	25	2.8	25	95	4	122	48	0	11	39	1.40
1366715--1366766	20	2.6	20	100	0	104	21	21	19	38	1.94
1367903--1367929	14	1.9	14	100	0	54	29	11	7	51	1.64
1369056--1369088	2	16.5	2	100	0	66	48	0	0	51	1.00
1369675--1369795	28	4.6	27	73	15	92	76	1	9	12	1.10
1369662--1369795	18	7.6	17	71	18	71	76	1	10	11	1.10
1369661--1369749	36	2.4	35	82	14	92	77	2	8	11	1.07
1369874--1369923	26	1.9	26	88	8	75	74	0	8	18	1.06
1370091--1370117	14	1.9	14	100	0	54	74	3	0	22	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370097--1370154	16	3.7	16	80	8	57	68	1	1	27	1.08
1372271--1372395	43	3.0	41	77	5	135	21	21	27	29	1.99
1385724--1385764	14	2.9	14	82	13	57	73	2	9	14	1.19
1385679--1385769	37	2.5	37	82	10	107	74	2	12	10	1.15
1385764--1385818	26	2.2	26	78	18	62	72	1	12	12	1.20
1385758--1385818	25	2.5	25	80	15	67	73	1	11	13	1.16
1386112--1386169	16	3.7	16	80	8	57	68	1	1	27	1.08
1388670--1388735	34	1.9	34	84	0	87	18	6	19	56	1.62
1394780--1394819	2	20.0	2	100	0	80	50	0	0	50	1.00
1395497--1395527	2	15.5	2	93	0	53	48	0	0	51	1.00
1396899--1396987	3	29.0	3	86	8	126	61	0	0	38	0.96
1397171--1397602	45	9.6	45	93	0	693	34	19	22	23	1.97
1397273--1397344	20	3.3	20	66	23	56	31	18	27	22	1.97
1397846--1397883	19	2.0	19	85	10	51	26	23	5	44	1.74
1398251--1398307	22	2.6	22	94	0	96	38	12	15	33	1.85
1408103--1408154	2	28.0	2	85	14	76	53	0	0	46	1.00
1408103--1408154	19	2.8	19	94	5	90	53	0	0	46	1.00
1407810--1408140	150	2.2	148	79	6	398	49	6	5	38	1.50
1409471--1409535	3	21.0	3	87	6	94	61	0	0	38	0.96
1412639--1412667	14	2.0	15	93	6	51	20	0	27	51	1.47
1412670--1412716	20	2.3	21	81	3	60	27	0	25	46	1.53
1415729--1415770	19	2.2	19	95	0	75	21	23	9	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416060--1416108	24	2.0	24	84	11	64	48	2	2	46	1.25
1416157--1416206	23	2.2	23	96	0	91	40	2	4	54	1.31
1417274--1417463	73	2.6	74	84	5	201	41	5	13	39	1.67
1417303--1417463	73	2.2	73	85	4	209	40	5	14	38	1.70
1417447--1417518	33	2.2	33	100	0	144	36	5	13	44	1.68
1417712--1417748	2	18.5	2	100	0	74	48	0	0	51	1.00
1418522--1418839	170	1.9	169	81	3	388	33	15	11	39	1.84
1419227--1419280	22	2.6	21	80	8	56	57	3	1	37	1.27
1420288--1420405	43	2.8	43	85	3	150	25	22	15	36	1.93
1423297--1423349	25	2.1	25	96	0	97	20	11	50	16	1.76

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