genome.fa.s15381.2.7.7.80.10.50.1000.6.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: NTFQ01015381.1 Kokia drynarioides strain JFW-HI SEQ_130428, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2291099

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 908 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)
1347484--1347578	29	3.3	29	69	14	70	28	25	6	40	1.80
1357917--1358009	30	3.1	30	76	0	96	19	25	20	34	1.96
1359094--1359124	15	2.1	15	93	0	53	45	19	16	19	1.86
1364715--1364739	5	5.0	5	100	0	50	0	20	0	80	0.72
1366264--1366338	19	4.3	19	72	19	81	36	2	24	37	1.69
1366408--1366452	19	2.4	19	84	0	63	37	2	22	37	1.67
1371950--1372024	23	3.3	22	77	1	69	34	16	13	36	1.87
1378362--1378512	29	5.1	29	71	16	96	31	3	28	36	1.74
1378339--1378521	59	3.1	59	87	3	226	32	3	28	36	1.73
1378376--1378525	30	5.1	29	80	13	153	32	2	29	36	1.72
1379507--1379542	18	2.0	18	94	0	63	36	0	0	63	0.94
1379511--1379607	12	8.2	12	64	11	56	39	5	3	52	1.39
1379505--1379566	21	3.0	21	78	4	63	38	3	0	58	1.15
1380244--1380353	17	6.4	17	81	7	123	52	3	0	42	1.25
1380244--1380321	6	13.5	6	73	17	67	51	1	1	46	1.17
1380262--1380320	11	5.2	11	80	10	66	54	1	1	42	1.20
1380244--1380353	52	2.1	52	86	0	148	52	3	0	42	1.25
1380244--1380353	35	3.2	35	80	12	120	52	3	0	42	1.25
1380746--1381539	205	3.9	205	89	1	1191	21	22	20	35	1.96
1380757--1381539	409	1.9	408	89	1	1221	21	22	20	34	1.96
1392872--1393056	96	1.9	96	81	6	223	34	15	19	31	1.93
1393357--1393725	30	12.4	30	72	18	187	35	4	26	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393364--1393725	59	6.1	56	81	8	339	35	4	26	33	1.77
1393357--1393717	118	3.0	113	84	7	398	35	4	26	33	1.76
1393564--1393662	29	3.4	29	72	10	85	38	2	26	33	1.68
1394735--1394778	21	2.1	21	91	0	70	43	0	0	56	0.99
1395475--1395550	18	4.4	17	77	11	73	51	5	1	42	1.33
1395502--1395549	17	2.8	17	77	3	51	56	6	0	37	1.25
1401861--1401947	23	3.9	22	77	4	93	33	17	16	33	1.92
1404440--1404625	51	3.6	51	90	0	273	34	13	22	30	1.92
1405527--1405806	51	5.4	51	82	3	294	32	15	23	29	1.95
1409499--1409538	18	2.2	18	86	8	55	55	7	10	27	1.60
1415257--1415289	17	1.9	17	88	11	50	30	0	6	63	1.18
1420416--1420443	13	2.2	13	100	0	56	35	0	42	21	1.53
1422308--1422387	32	2.5	31	88	6	108	23	18	15	42	1.88
1423092--1423130	20	2.0	20	89	0	60	56	17	0	25	1.41
1423311--1423356	21	2.1	22	88	4	67	36	2	8	52	1.45
1426063--1426107	21	2.2	20	92	7	74	44	24	15	15	1.85
1430004--1430048	21	2.2	20	88	7	65	42	24	17	15	1.88
1436645--1436677	15	2.3	15	89	5	50	42	0	0	57	0.98
1439598--1439647	21	2.3	22	86	10	68	48	40	0	12	1.40
1439762--1439821	21	2.9	21	85	9	61	21	16	26	35	1.95
1439770--1439821	14	3.7	14	84	0	59	21	15	26	36	1.93
1445556--1445584	14	2.1	14	100	0	58	27	20	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446867--1446916	22	2.3	21	87	12	75	54	30	0	16	1.42
1447013--1447074	21	3.0	21	87	0	88	22	22	22	32	1.98
1447007--1447071	7	9.3	7	79	0	76	20	24	24	30	1.98
1447008--1447084	14	5.5	14	77	9	59	19	22	24	33	1.97
1449977--1450003	12	2.2	12	100	0	54	66	14	7	11	1.43
1454860--1455041	90	2.1	87	84	3	229	37	18	8	35	1.82
1455158--1455239	16	4.8	17	68	19	62	28	1	0	70	0.95
1455160--1455236	28	3.0	25	80	12	75	27	1	0	71	0.94
1455169--1455232	8	7.5	8	79	19	67	26	0	0	73	0.84
1455360--1455573	89	2.4	89	83	5	254	34	8	19	37	1.83
1456665--1456846	89	2.0	88	83	8	226	37	15	11	35	1.84
1456908--1456955	17	2.8	18	78	15	57	58	0	4	37	1.18
1456907--1456975	10	7.4	9	73	11	59	62	1	2	33	1.19
1456908--1456975	19	3.7	17	76	20	57	61	1	2	33	1.20
1456929--1457013	19	4.4	19	71	8	73	61	1	2	35	1.17
1457327--1457380	16	3.2	17	73	7	56	27	0	0	72	0.85
1457335--1457414	34	2.4	33	80	2	79	28	5	0	66	1.13
1457360--1457416	25	2.3	26	72	9	64	33	7	0	59	1.24
1457707--1457906	90	2.2	88	82	1	238	35	18	9	37	1.83
1458220--1458416	89	2.2	90	80	8	224	35	10	15	39	1.81
1458454--1458488	3	11.7	3	100	0	70	68	0	0	31	0.90
1460823--1461063	52	4.7	52	86	2	306	29	14	21	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468360--1468388	15	1.9	15	100	0	58	34	0	6	58	1.25
1476004--1476064	26	2.3	27	85	2	79	42	1	0	55	1.09
1477256--1477601	173	2.0	173	89	2	525	43	8	15	31	1.78
1490580--1490617	17	2.3	17	86	13	53	50	0	2	47	1.15
1492738--1492792	27	2.0	27	96	0	101	29	23	18	29	1.98
1492881--1492956	28	2.8	28	88	4	102	32	0	15	51	1.44
1492887--1493001	26	4.3	26	86	2	140	32	0	12	54	1.43
1498181--1498219	20	2.0	20	85	10	53	53	0	0	46	1.00
1505562--1505615	17	3.1	17	89	10	74	38	16	11	33	1.84
1508654--1508706	2	26.5	2	92	0	88	49	3	0	47	1.19
1512096--1512120	12	2.1	12	100	0	50	8	8	40	44	1.63
1526290--1526350	32	1.9	32	82	0	77	16	11	6	65	1.44
1526535--1526563	15	1.9	15	100	0	58	13	3	0	82	0.79
1538016--1538053	19	2.1	19	85	5	51	55	7	36	0	1.29
1542851--1542894	12	3.4	12	77	17	52	56	0	40	2	1.11
1543142--1543180	20	1.9	21	89	5	62	69	5	25	0	1.09
1547272--1547297	3	8.7	3	100	0	52	69	30	0	0	0.89
1553338--1553386	18	2.6	19	90	6	73	69	8	22	0	1.14
1553342--1553389	19	2.5	20	83	10	64	70	8	20	0	1.12
1559369--1559414	23	2.0	23	91	0	74	45	6	19	28	1.75
1571781--1571827	21	2.2	21	100	0	94	23	23	12	40	1.89
1586156--1586309	59	2.6	60	82	3	177	30	13	17	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586301--1586506	113	1.8	113	82	8	265	35	13	17	33	1.89
1586337--1586561	114	2.0	113	80	10	253	36	14	15	33	1.88
1589077--1589204	58	2.2	58	83	9	152	38	18	13	29	1.89
1589949--1590001	18	2.9	18	77	5	61	60	1	5	32	1.31
1605585--1605611	3	9.0	3	100	0	54	33	0	0	66	0.92
1605765--1605828	25	2.6	25	89	0	101	50	1	7	40	1.41
1605934--1605993	25	2.4	25	83	5	68	48	1	1	48	1.21
1606395--1606431	14	2.5	15	84	16	51	59	2	0	37	1.12
1608886--1608932	18	2.4	20	79	17	62	42	4	0	53	1.20
1611377--1611757	52	7.4	52	88	4	558	25	15	24	34	1.94
1611377--1611686	152	2.0	154	93	2	525	25	14	24	34	1.94
1611385--1611757	152	2.4	154	86	5	511	25	15	24	34	1.94
1611377--1611757	204	1.9	204	89	2	595	25	15	24	34	1.94
1613514--1613746	113	2.1	113	78	10	264	31	15	20	33	1.93
1613677--1613829	56	2.7	56	78	9	152	32	15	23	28	1.95
1613728--1613892	56	2.9	56	77	16	160	34	12	21	31	1.91
1615500--1615542	14	2.9	15	82	10	52	46	2	4	46	1.36
1616265--1616289	13	1.9	13	100	0	50	44	0	0	56	0.99
1618034--1618101	32	2.1	32	81	13	77	14	16	22	47	1.82
1622276--1622306	16	2.0	16	93	6	55	51	0	16	32	1.44
1629740--1629769	12	2.5	12	94	0	51	70	0	30	0	0.88
1636510--1636596	7	12.7	7	89	9	135	82	1	1	14	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636510--1636580	1	71.0	1	71	0	52	85	0	0	14	0.59
1636510--1636596	13	6.4	13	95	4	138	82	1	1	14	0.78
1638136--1638354	107	2.0	107	96	0	402	26	14	12	46	1.80
1648254--1648283	16	1.9	16	93	6	53	20	16	3	60	1.50
1657594--1657646	12	4.2	12	75	13	52	1	35	0	62	1.06
1669014--1669059	3	15.3	3	100	0	92	32	0	0	67	0.91
1672364--1672396	15	2.2	15	94	0	57	30	24	9	36	1.86
1673039--1673064	13	2.0	13	100	0	52	46	23	15	15	1.83
1686668--1686740	31	2.4	31	95	2	130	45	9	10	34	1.72
1688493--1688538	11	4.2	11	80	0	56	4	4	21	69	1.24

Tables:   1   2   3   4   5   6   7   8