genome.fa.s7923.2.7.7.80.10.50.1000.6.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  6  of  40  ( 4704 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)
1313015--1313063	25	2.0	25	83	0	62	57	18	16	8	1.63
1313558--1313699	55	2.6	56	82	3	189	26	16	13	43	1.84
1314116--1314145	13	2.2	14	94	5	53	70	6	0	23	1.11
1317624--1317659	18	2.1	17	94	5	63	22	5	8	63	1.43
1318356--1318644	41	7.0	41	94	0	488	22	23	23	30	1.99
1319545--1319610	33	2.0	33	96	0	123	33	21	22	22	1.97
1319579--1319669	20	4.4	21	76	12	91	34	20	24	20	1.97
1320640--1320694	21	2.6	21	74	8	58	36	12	12	38	1.82
1326556--1326610	23	2.4	23	84	0	74	36	27	21	14	1.93
1330288--1330326	3	13.3	3	94	5	71	69	0	0	30	0.89
1330526--1330564	3	12.7	3	94	5	69	66	0	0	33	0.92
1330302--1330730	225	1.9	224	86	4	605	42	11	15	30	1.82
1334309--1334447	31	4.5	31	89	5	210	37	12	24	25	1.90
1334309--1334447	61	2.2	60	87	7	199	37	12	24	25	1.90
1334423--1334485	29	2.2	29	82	5	74	38	4	23	33	1.76
1334520--1334585	10	6.5	10	75	18	57	18	1	6	74	1.10
1334541--1334579	18	2.2	18	90	9	62	15	0	7	76	0.99
1334690--1334744	23	2.3	24	81	12	69	50	0	7	41	1.30
1335424--1335531	31	3.5	31	90	0	171	25	26	12	35	1.91
1337672--1337721	18	2.8	18	93	0	82	20	2	60	18	1.46
1337672--1337721	6	8.3	6	90	0	73	20	2	60	18	1.46
1337843--1337900	29	2.0	29	89	0	89	13	34	27	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337964--1338024	10	5.7	10	76	14	59	27	36	24	11	1.90
1337957--1338024	20	3.7	20	70	22	67	26	36	26	10	1.88
1337949--1338038	34	2.6	34	98	0	171	25	38	25	10	1.87
1338113--1338168	29	1.9	29	96	0	103	19	30	37	12	1.89
1338377--1338459	44	1.9	43	87	2	121	27	28	3	39	1.73
1338516--1338562	24	2.0	24	91	0	76	19	12	27	40	1.88
1350288--1350346	28	2.1	28	90	0	91	30	18	10	40	1.84
1358398--1358428	16	1.9	16	100	0	62	25	19	6	48	1.72
1365341--1365415	10	7.7	10	68	21	52	58	21	10	9	1.59
1365345--1365409	16	4.1	16	91	0	112	58	23	10	7	1.57
1366499--1366554	14	4.3	14	78	17	75	50	26	16	7	1.70
1366495--1366553	24	2.5	24	94	0	100	50	27	13	8	1.70
1373633--1373830	21	9.5	21	75	9	156	30	19	23	26	1.98
1373637--1373810	62	2.8	62	84	3	251	32	17	23	26	1.97
1373716--1373830	41	2.8	42	80	9	128	29	20	22	26	1.99
1373763--1373918	21	7.5	21	77	12	117	25	22	23	28	1.99
1373840--1373929	21	4.2	21	85	1	99	27	22	23	26	1.99
1374636--1374722	21	4.1	21	86	0	120	25	22	22	28	1.99
1374636--1374751	42	2.8	42	84	6	155	29	20	22	27	1.99
1374734--1374911	21	8.5	21	81	8	193	25	22	22	29	1.99
1374707--1374884	83	2.1	83	89	6	272	26	22	21	29	1.99
1374734--1374888	83	1.9	83	97	0	292	23	23	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374732--1374911	83	2.2	83	89	5	265	26	22	22	29	1.99
1375662--1375771	47	2.4	45	85	7	141	33	22	5	38	1.77
1377120--1377254	67	2.0	67	97	0	252	42	16	8	32	1.79
1383068--1383120	23	2.3	23	93	0	88	24	24	20	30	1.99
1383606--1383643	13	3.0	13	88	3	60	34	13	7	44	1.72
1389006--1389054	26	2.0	25	88	8	73	67	4	10	18	1.36
1389845--1389901	3	19.0	3	89	7	89	66	1	0	31	1.02
1394110--1394141	2	16.0	2	100	0	64	50	0	0	50	1.00
1396870--1397054	30	6.2	30	82	0	163	29	15	45	9	1.77
1396894--1397054	60	2.7	60	73	1	180	28	16	45	9	1.79
1400072--1400158	10	9.0	9	73	14	66	18	25	26	29	1.98
1400072--1400157	29	2.9	30	86	6	113	18	25	26	29	1.98
1400095--1400171	10	8.1	9	77	9	73	14	27	29	28	1.95
1400072--1400169	19	5.1	19	78	13	83	18	24	27	29	1.98
1407355--1407402	22	2.2	22	96	0	87	20	47	22	8	1.77
1407361--1407413	27	2.0	27	92	0	88	20	47	24	7	1.76
1407403--1407433	7	4.4	7	100	0	62	16	29	29	25	1.96
1411030--1411071	15	2.8	15	75	13	50	59	0	4	35	1.19
1413806--1413871	28	2.4	28	97	0	123	25	15	9	50	1.73
1417128--1417169	18	2.6	16	81	11	50	35	14	0	50	1.43
1417223--1417307	26	3.4	26	65	21	63	43	25	2	28	1.67
1417220--1417323	49	2.1	49	94	0	181	43	25	2	28	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417457--1417501	23	2.0	23	95	0	81	28	26	24	20	1.99
1422257--1422300	21	2.1	21	83	8	54	34	18	0	47	1.49
1422352--1422447	26	3.4	26	66	20	66	43	26	2	28	1.66
1422339--1422460	60	2.0	61	95	1	219	43	24	2	29	1.67
1422595--1422687	23	4.0	23	84	0	114	26	25	26	20	1.99
1424180--1424217	19	2.0	19	89	0	58	15	28	21	34	1.94
1424292--1424334	21	2.0	21	86	8	61	34	18	23	23	1.96
1429921--1430122	100	2.0	103	90	5	322	43	10	7	39	1.67
1434956--1434985	15	2.0	15	93	0	51	20	10	26	43	1.83
1437286--1437372	20	4.3	20	80	2	95	40	18	17	24	1.91
1437286--1437372	40	2.2	40	83	8	115	40	18	17	24	1.91
1437366--1437411	20	2.3	20	96	0	83	45	26	10	17	1.81
1437566--1437608	22	2.0	22	90	0	68	20	41	18	18	1.90
1437935--1437996	20	3.0	20	90	7	88	48	19	19	12	1.81
1438000--1438039	20	2.0	20	90	0	62	12	17	22	47	1.81
1439818--1439869	21	2.5	21	93	0	86	21	15	26	36	1.93
1440149--1440267	21	5.7	21	80	0	112	23	34	17	24	1.96
1440149--1440256	42	2.6	42	84	0	126	23	35	16	25	1.95
1440175--1440267	42	2.2	42	90	0	141	22	36	19	21	1.95
1441761--1441801	20	2.0	20	90	0	64	43	26	17	12	1.84
1441797--1441826	14	2.1	14	93	0	51	6	16	26	50	1.70
1441810--1441862	20	2.7	20	90	0	79	11	13	26	49	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442316--1442351	18	2.0	18	94	0	63	16	0	25	58	1.38
1444619--1444710	24	3.8	24	88	0	121	36	18	19	25	1.94
1445629--1445696	20	3.4	20	74	22	70	33	11	20	33	1.89
1445741--1445901	20	8.1	18	71	17	72	24	16	18	39	1.91
1445791--1445877	40	2.2	40	91	4	140	24	18	18	39	1.92
1446963--1447007	20	2.2	20	88	7	65	51	20	13	15	1.76
1447407--1447519	36	3.3	36	65	16	103	28	18	20	32	1.96
1447444--1447553	31	3.4	31	67	16	96	24	20	22	31	1.98
1447400--1447550	67	2.2	67	97	1	284	26	19	21	33	1.97
1447441--1447496	26	2.2	26	80	6	60	25	17	19	37	1.94
1453822--1453909	11	7.9	11	79	12	99	26	23	19	30	1.98
1453846--1453907	22	2.8	22	100	0	124	27	27	14	30	1.95
1456654--1456715	21	2.9	21	79	13	56	12	20	25	40	1.89
1457597--1458125	22	24.0	22	86	3	726	48	10	0	40	1.39
1459976--1460014	19	2.1	19	85	4	53	35	2	2	58	1.25
1463885--1463923	2	19.0	2	94	5	69	48	0	2	48	1.15
1464072--1464130	21	2.7	21	78	5	55	28	16	16	37	1.92
1471044--1471337	83	3.6	83	78	1	286	34	17	14	33	1.91
1471562--1471711	73	2.1	73	96	0	273	51	14	5	28	1.64
1476599--1476638	20	2.0	20	90	4	64	37	0	7	55	1.29
1476832--1476901	36	1.9	36	88	0	104	21	32	27	18	1.97
1481785--1481826	19	2.2	19	86	0	57	30	2	23	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1482007--1482052	23	2.0	23	83	12	58	39	0	0	60	0.97
1482601--1482752	12	13.6	12	70	21	66	45	5	3	46	1.42
1482640--1482753	2	59.5	2	72	20	75	47	4	3	44	1.40
1482640--1482676	19	1.9	19	88	0	56	45	2	5	45	1.40
1483012--1483067	2	28.0	2	100	0	112	50	0	0	50	1.00
1483138--1483401	137	2.0	132	79	13	287	29	8	7	54	1.58
1487243--1487295	24	2.2	24	79	0	61	41	7	33	16	1.77
1490220--1490298	39	2.0	40	95	5	142	18	7	29	44	1.78
1490671--1490784	42	2.7	43	85	5	144	37	18	5	38	1.73
1497854--1497911	27	2.1	27	96	0	107	29	15	44	10	1.79

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