genome.fa.s498.2.7.7.80.10.50.1000.13.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  13  of  17  ( 1953 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)
1270094--1270143	15	3.2	15	75	8	55	54	0	0	46	1.00
1272045--1272108	27	2.3	26	80	20	69	43	1	1	53	1.19
1272175--1272214	18	2.1	20	86	9	57	50	0	2	47	1.14
1272200--1272246	18	2.5	19	75	10	51	57	0	0	42	0.98
1272195--1272237	22	2.0	21	86	4	59	58	0	0	41	0.98
1273625--1273736	38	3.1	38	81	14	116	41	8	2	47	1.49
1273680--1273759	31	2.6	31	88	2	99	41	6	1	51	1.35
1274196--1274225	7	4.3	7	100	0	60	60	0	0	40	0.97
1274325--1274358	12	2.7	13	90	9	61	41	0	0	58	0.98
1275101--1275150	21	2.4	22	80	12	52	42	2	0	56	1.11
1275396--1275449	16	3.3	16	76	2	54	50	9	3	37	1.52
1275442--1275486	16	3.1	14	87	9	56	57	4	2	35	1.31
1275570--1275648	16	5.0	15	68	14	52	63	5	1	30	1.24
1275578--1275612	17	2.1	17	89	10	54	71	5	0	22	1.07
1275852--1275933	32	2.6	32	88	5	121	51	3	3	41	1.37
1276808--1276841	2	17.0	2	87	0	50	47	2	0	50	1.16
1277823--1277982	50	3.2	50	82	3	196	33	16	18	31	1.93
1282308--1282467	50	3.2	50	94	0	266	33	21	17	27	1.96
1288688--1288728	2	20.5	2	94	0	55	51	7	0	41	1.30
1294372--1294413	2	21.0	2	100	0	84	50	0	0	50	1.00
1295078--1295276	9	19.9	10	67	25	79	46	0	3	49	1.20
1295122--1295316	43	4.6	43	71	15	138	47	1	2	49	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295090--1295270	83	2.2	81	80	9	201	46	0	2	50	1.20
1295132--1295222	34	2.8	33	83	5	121	48	0	3	48	1.18
1295194--1295299	24	4.1	25	78	11	108	44	1	0	52	1.18
1295203--1295265	32	1.9	33	87	9	94	47	0	0	52	1.00
1295209--1295314	16	6.2	16	75	14	70	45	1	0	51	1.18
1295262--1295313	18	2.9	18	77	11	61	42	3	1	51	1.31
1295079--1295299	111	2.0	112	79	11	240	46	1	3	49	1.26
1295254--1295337	33	2.4	35	80	9	91	42	3	1	52	1.26
1295736--1295772	19	2.0	18	89	5	56	37	0	0	62	0.96
1295721--1295812	20	4.6	20	72	18	75	31	1	2	65	1.12
1295726--1295814	11	8.6	11	72	18	59	31	0	2	66	1.04
1296005--1296051	20	2.3	20	85	0	58	44	0	0	55	0.99
1308923--1308973	22	2.3	22	80	6	59	45	3	9	41	1.56
1313421--1313459	18	2.2	18	86	9	53	41	0	5	53	1.23
1313486--1313581	48	2.0	48	97	0	183	51	0	5	43	1.24
1313814--1313878	20	3.4	18	73	16	51	43	1	0	55	1.09
1313852--1313905	16	3.3	17	76	7	58	35	1	1	61	1.18
1317779--1317824	19	2.4	19	82	10	58	60	0	2	36	1.09
1317961--1318112	53	2.9	53	97	0	286	28	9	14	47	1.76
1318985--1319032	3	16.0	3	91	0	78	31	0	4	64	1.12
1320173--1320204	4	8.0	4	100	0	64	50	25	0	25	1.50
1325723--1325826	53	1.9	53	81	9	122	49	5	6	38	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327190--1327214	2	12.5	2	100	0	50	52	0	0	48	1.00
1328182--1328230	20	2.5	20	86	0	62	55	0	0	44	0.99
1328230--1328273	18	2.4	18	80	3	52	54	0	2	43	1.12
1333451--1333527	28	2.8	27	77	12	77	61	1	2	35	1.18
1333483--1333527	20	2.2	20	80	7	56	62	2	0	35	1.08
1333894--1333932	19	2.1	19	85	9	53	56	0	0	43	0.99
1334659--1334720	18	3.7	18	74	22	55	59	3	0	37	1.13
1338056--1338108	20	2.9	18	78	13	63	64	13	9	13	1.50
1338622--1338689	4	16.5	4	77	17	68	69	0	0	30	0.89
1338628--1338726	33	3.0	32	77	14	85	64	0	0	35	0.94
1338615--1338722	8	12.6	8	73	19	51	66	0	0	33	0.92
1338653--1338886	90	2.8	81	76	19	191	59	0	0	38	1.09
1338943--1338990	23	2.0	23	88	8	69	52	4	0	43	1.20
1339077--1339124	13	3.5	14	86	10	64	50	4	0	45	1.21
1341643--1341670	3	9.3	3	100	0	56	32	0	0	67	0.91
1341670--1341708	12	3.4	12	82	10	55	58	0	0	41	0.98
1341692--1341745	25	2.1	27	89	6	85	44	0	0	55	0.99
1341973--1342006	9	3.4	10	88	12	52	61	0	0	38	0.96
1343987--1344031	21	2.2	20	84	15	56	66	0	0	33	0.92
1344023--1344156	60	2.3	57	79	15	141	55	0	5	38	1.28
1348592--1348805	114	1.9	114	89	1	331	37	12	12	38	1.80
1352808--1352849	2	21.0	2	100	0	84	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)
1353139--1353174	18	2.0	18	89	10	56	61	0	0	38	0.96
1353142--1353189	21	2.3	21	85	7	62	62	0	0	37	0.95
1353131--1353206	26	2.9	26	76	9	82	57	0	0	42	0.98
1353249--1353306	16	3.5	17	79	15	59	37	0	0	62	0.96
1353249--1353294	18	2.6	18	86	3	67	39	0	0	60	0.97
1353250--1353313	19	3.5	19	80	18	66	39	0	0	60	0.97
1356953--1356997	22	2.0	22	82	0	54	28	6	4	60	1.42
1365989--1366034	2	23.5	2	91	4	76	52	0	47	0	1.00
1366480--1366557	21	4.1	20	71	20	60	55	0	1	43	1.08
1369326--1369369	21	2.0	22	83	12	56	52	4	4	38	1.42
1370187--1370232	14	3.5	13	82	11	58	36	0	0	63	0.95
1370691--1370747	30	1.9	29	85	3	78	38	1	0	59	1.08
1372318--1372390	27	2.7	27	86	0	101	21	10	23	43	1.84
1376752--1376830	27	2.9	27	82	0	95	24	10	20	45	1.81
1377244--1377272	2	14.5	2	100	0	58	48	0	0	51	1.00
1377764--1377836	30	2.5	28	82	13	76	39	13	6	39	1.72
1378356--1378441	29	2.9	29	83	10	111	51	1	2	45	1.21
1378356--1378402	16	3.1	16	73	17	55	55	0	0	44	0.99
1378358--1378406	14	3.4	14	76	15	55	53	0	0	46	1.00
1379775--1379800	2	13.0	2	100	0	52	0	50	0	50	1.00
1386941--1386973	3	11.0	3	100	0	66	66	0	0	33	0.92
1387001--1387036	7	5.3	7	96	3	65	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388660--1388702	21	2.0	22	86	4	61	46	6	2	44	1.43
1392364--1392409	21	2.2	21	84	7	58	36	2	4	56	1.31
1392375--1392421	21	2.2	21	92	0	76	36	0	8	55	1.31
1392833--1392889	19	3.1	18	85	7	60	45	1	0	52	1.11
1392833--1392889	18	3.1	19	87	7	73	45	1	0	52	1.11
1393305--1393341	19	1.9	19	88	0	56	37	0	2	59	1.12
1393398--1393467	25	2.7	26	77	16	65	51	1	2	44	1.25
1393483--1393551	30	2.3	29	80	11	77	60	1	1	36	1.14
1393865--1393917	17	2.9	19	75	13	58	54	0	0	45	0.99
1393872--1393964	32	2.7	34	77	15	95	50	0	0	49	1.00
1393896--1393961	15	4.1	16	75	22	59	50	0	0	50	1.00
1394260--1394294	12	3.0	11	88	12	52	51	0	0	48	1.00
1399140--1399182	14	3.1	14	86	6	52	46	0	0	53	1.00
1400323--1400354	16	1.9	17	93	6	57	50	0	3	46	1.17
1400444--1400502	18	4.1	14	75	25	52	37	0	1	61	1.07
1400465--1400502	14	2.9	13	84	7	51	34	0	0	65	0.93
1402206--1402231	13	2.0	13	100	0	52	30	15	15	38	1.88
1402802--1402839	2	19.5	2	89	5	60	47	2	0	50	1.15
1403696--1403765	33	2.1	33	84	10	88	54	0	0	45	0.99
1403907--1403939	16	1.9	18	88	11	52	30	0	3	66	1.06
1404272--1404298	2	13.5	2	100	0	54	51	0	0	48	1.00
1404492--1404534	14	2.9	14	82	6	50	65	0	2	32	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406069--1406125	21	2.7	21	86	5	71	35	3	28	33	1.74
1406090--1406133	21	2.1	21	82	0	52	36	4	20	38	1.73
1411104--1411157	21	2.6	21	85	8	67	37	5	25	31	1.79
1411121--1411163	20	2.1	21	86	4	61	34	6	20	37	1.80
1411121--1411163	21	2.0	21	86	8	61	34	6	20	37	1.80
1417174--1417247	28	2.5	29	91	6	114	40	0	1	58	1.07
1417175--1417271	29	3.2	28	84	11	106	41	0	3	55	1.15
1417525--1417568	23	2.0	22	83	12	56	45	0	0	54	0.99
1420819--1420857	19	2.0	20	85	14	55	38	5	0	56	1.22
1421923--1421966	22	2.0	22	81	0	52	6	13	27	52	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17