genome.fa.s9344.2.7.7.80.10.50.1000.8.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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  8  of  24  ( 2784 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)
1177203--1177275	21	3.5	21	96	0	128	17	32	30	19	1.95
1177793--1177871	28	2.8	28	88	5	106	55	3	0	40	1.18
1177794--1177894	34	3.2	32	77	17	111	54	4	1	38	1.33
1178288--1178915	128	4.9	128	95	1	1109	33	19	24	22	1.97
1178986--1179026	8	5.2	8	82	5	57	36	29	0	34	1.58
1190458--1190501	23	2.0	22	86	4	61	11	0	13	75	1.06
1191315--1191351	16	2.2	18	90	9	60	45	2	0	51	1.15
1191410--1191448	16	2.4	16	95	0	69	17	20	25	35	1.95
1194636--1194668	16	2.1	16	94	0	57	57	0	6	36	1.23
1194676--1194727	18	2.8	18	85	2	68	36	0	15	48	1.45
1197674--1197732	27	2.2	27	78	0	64	8	47	5	38	1.56
1199300--1199365	29	2.3	30	92	5	109	48	0	6	45	1.27
1199790--1199832	12	3.6	12	77	22	54	72	6	2	18	1.19
1199788--1199838	24	2.1	24	100	0	102	72	7	3	15	1.23
1201107--1201137	16	1.9	16	93	0	53	45	35	0	19	1.51
1201248--1201291	17	2.6	17	85	7	54	54	4	2	38	1.33
1201339--1201376	18	2.2	17	86	13	51	60	0	10	28	1.30
1202434--1202468	13	2.6	13	86	4	52	40	0	0	60	0.97
1202434--1202473	14	2.9	14	85	3	55	42	0	0	57	0.98
1202434--1202500	29	2.4	27	75	20	66	41	1	0	56	1.08
1203455--1203481	14	1.9	14	100	0	54	51	0	3	44	1.19
1214405--1214454	17	3.1	17	68	26	54	52	22	4	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223854--1223903	20	2.5	20	100	0	100	14	16	34	36	1.88
1224116--1224502	200	1.9	204	93	2	665	34	10	6	48	1.63
1226199--1226626	213	2.0	214	99	0	849	39	11	7	42	1.68
1228229--1228263	18	2.0	18	94	5	63	22	34	11	31	1.90
1239189--1239285	26	4.0	23	80	14	106	37	11	8	43	1.71
1239167--1239285	27	4.6	27	87	9	176	37	11	7	42	1.70
1241091--1241141	22	2.3	22	82	3	57	41	19	17	21	1.91
1241832--1241972	21	6.7	21	91	1	212	29	22	21	25	1.99
1248223--1248291	23	3.0	23	83	10	88	24	27	26	21	1.99
1248291--1248518	103	2.2	100	93	3	386	36	23	13	26	1.91
1250142--1250185	12	4.0	12	77	22	60	47	18	0	34	1.49
1250146--1250192	20	2.3	20	100	0	94	42	21	0	36	1.53
1252014--1252066	24	2.2	24	83	3	63	41	26	5	26	1.78
1257164--1257205	16	2.5	17	80	7	50	42	0	0	57	0.99
1264354--1264394	22	1.9	22	90	5	66	65	14	9	9	1.46
1268346--1268429	24	3.5	24	80	3	107	27	15	21	35	1.94
1270824--1270852	3	9.7	3	100	0	58	65	0	0	34	0.93
1270851--1270881	3	10.3	3	100	0	62	32	0	0	67	0.91
1271836--1271866	15	2.1	15	93	0	53	54	0	0	45	0.99
1273094--1273136	22	2.0	22	90	0	68	30	16	9	44	1.79
1274774--1274831	21	2.8	21	89	5	91	8	31	39	20	1.83
1281100--1281575	200	2.4	202	81	5	536	35	9	18	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283911--1283955	21	2.1	21	87	0	63	31	28	24	15	1.96
1284696--1284747	2	26.0	2	100	0	104	50	0	0	50	1.00
1285471--1285767	146	2.1	148	86	8	425	27	18	19	35	1.95
1287684--1287736	11	4.6	11	79	9	61	26	26	24	22	2.00
1289874--1289909	16	2.2	17	90	5	56	27	0	16	55	1.42
1290183--1290226	7	6.3	7	81	0	52	40	31	0	27	1.56
1290183--1290226	14	3.1	14	83	0	61	40	31	0	27	1.56
1290651--1290682	5	6.8	5	89	10	50	34	0	0	65	0.93
1290649--1290682	9	3.7	9	92	7	59	32	0	0	67	0.91
1292443--1292596	73	2.1	72	91	1	245	19	18	22	39	1.92
1312216--1312266	23	2.1	26	79	17	65	58	0	0	41	0.98
1312218--1312274	22	2.6	21	78	8	60	64	0	0	35	0.93
1312727--1312774	22	2.1	23	88	11	73	60	8	8	22	1.52
1312862--1313525	330	2.0	331	97	0	1240	33	15	14	36	1.88
1315608--1315653	13	3.3	13	84	9	56	69	4	0	26	1.07
1317409--1317452	21	2.1	21	82	0	52	59	13	0	27	1.35
1324421--1324450	3	10.0	3	92	0	51	33	3	0	63	1.11
1324754--1324808	22	2.5	22	82	8	58	54	1	1	41	1.21
1325228--1325272	2	22.5	2	100	0	90	48	0	0	51	1.00
1325414--1325452	20	2.0	20	89	0	60	43	10	0	46	1.37
1331569--1331776	105	2.0	105	95	0	371	26	20	16	36	1.94
1331859--1331894	17	2.0	19	89	10	58	50	5	5	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332256--1332292	17	2.2	17	90	9	58	29	0	0	70	0.88
1333241--1333283	24	1.9	24	86	13	65	41	0	2	55	1.12
1333280--1333329	2	25.0	2	100	0	100	50	0	0	50	1.00
1334625--1334674	22	2.3	22	82	6	57	22	4	12	62	1.46
1336419--1336611	82	2.3	83	83	4	221	35	13	12	38	1.83
1336502--1336857	83	4.3	81	78	7	308	30	16	15	37	1.90
1336896--1336951	8	7.0	8	77	6	51	41	26	0	32	1.56
1336905--1336951	15	3.1	15	77	17	51	40	27	0	31	1.57
1336906--1336974	8	8.6	8	75	15	54	44	28	0	26	1.54
1341248--1341296	19	2.5	20	80	12	57	42	2	0	55	1.11
1341252--1341311	30	1.9	31	90	6	95	48	1	0	50	1.11
1343265--1343302	19	2.0	19	94	0	67	23	21	13	42	1.88
1343319--1343369	21	2.4	21	90	0	75	21	19	27	31	1.97
1343789--1343897	19	5.4	19	74	17	94	32	27	4	35	1.77
1345371--1345703	111	3.0	110	94	1	567	35	8	10	45	1.68
1347211--1347251	18	2.3	18	86	0	64	31	31	14	21	1.94
1347584--1347631	9	5.3	9	82	0	51	31	22	35	10	1.88
1347842--1347926	35	2.5	33	78	14	91	25	8	10	55	1.62
1361499--1361915	85	4.9	83	75	12	312	50	5	17	26	1.68
1361499--1361801	42	7.2	42	81	8	314	48	5	19	26	1.71
1363214--1363302	22	4.0	22	97	1	160	25	26	26	20	1.99
1363229--1363290	10	5.4	13	64	28	50	27	25	27	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365013--1365057	21	2.1	21	87	0	63	15	24	28	31	1.96
1368193--1368281	22	4.0	22	97	1	160	25	28	26	19	1.99
1368207--1368269	10	5.5	13	65	27	52	26	26	26	19	1.99
1369997--1370041	21	2.1	21	87	0	63	15	24	28	31	1.96
1372323--1372357	18	1.9	18	88	0	52	28	34	17	20	1.95
1383030--1383054	7	3.6	7	100	0	50	16	0	28	56	1.41
1383819--1383846	2	14.0	2	100	0	56	50	0	0	50	1.00
1383903--1383947	24	2.0	22	86	8	63	42	22	4	31	1.73
1384072--1384586	259	2.0	255	96	3	953	44	10	7	37	1.67
1385741--1385817	27	2.8	27	88	2	109	28	16	11	42	1.84
1389763--1389815	21	2.5	21	96	0	97	30	18	11	39	1.86
1399523--1399586	32	2.0	32	100	0	128	31	18	28	21	1.97
1401486--1401727	81	3.0	81	95	0	430	25	26	9	38	1.86
1405173--1405227	20	2.8	20	82	0	74	29	21	12	36	1.91
1406009--1406062	24	2.2	24	90	0	81	22	18	16	42	1.89
1408292--1408327	18	2.0	18	88	0	54	58	22	2	16	1.51
1408620--1408662	20	2.2	20	86	0	59	18	18	20	41	1.90
1410182--1410232	21	2.4	21	90	0	75	21	17	37	23	1.94
1410242--1410285	21	2.1	21	95	0	79	29	15	31	22	1.95
1410569--1410619	21	2.4	21	86	0	66	35	31	13	19	1.91
1410582--1410678	42	2.3	43	77	8	119	35	35	7	22	1.82
1410695--1410738	21	2.1	21	91	0	70	38	36	6	18	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410837--1410985	42	3.5	42	85	0	172	20	14	36	28	1.91
1412517--1412548	14	2.3	14	94	0	55	43	25	18	12	1.85
1412484--1412549	34	1.9	34	81	6	80	46	21	13	18	1.83
1412923--1412994	22	3.3	22	94	0	117	22	20	41	15	1.89
1413022--1413089	27	2.5	27	90	0	109	20	2	29	47	1.65
1413231--1413269	20	1.9	21	89	5	62	35	10	20	33	1.86
1423692--1423761	31	2.3	31	82	7	81	54	5	8	31	1.54
1425849--1425894	24	1.9	24	82	8	58	36	17	21	23	1.94
1426503--1426530	13	2.2	13	100	0	56	32	7	28	32	1.84
1426775--1426820	23	2.0	24	86	4	67	50	0	0	50	1.00

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