genome.fa.s283.2.7.7.80.10.50.1000.8.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

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

This is table  8  of  15  ( 1700 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)
1229120--1229158	19	2.1	19	100	0	78	46	0	5	48	1.24
1232299--1232327	7	4.1	7	100	0	58	41	0	0	58	0.98
1240781--1240809	12	2.4	12	100	0	58	51	13	6	27	1.66
1246169--1246251	44	1.9	43	87	2	121	53	2	0	44	1.13
1248749--1248773	13	1.9	13	100	0	50	8	0	8	84	0.79
1252121--1252150	2	15.0	2	100	0	60	50	0	0	50	1.00
1257080--1257302	112	2.0	112	95	0	401	32	15	8	43	1.76
1260965--1260994	7	4.3	7	91	0	51	56	0	0	43	0.99
1260964--1260997	14	2.5	13	86	9	50	50	0	0	50	1.00
1261811--1261852	2	21.0	2	100	0	84	50	0	0	50	1.00
1262304--1262368	15	3.8	18	73	21	59	40	1	0	58	1.07
1262291--1262368	18	4.6	17	73	17	56	42	1	0	56	1.07
1262300--1262407	19	5.7	20	73	13	70	39	2	0	56	1.20
1262914--1262943	2	15.0	2	100	0	60	50	0	0	50	1.00
1263466--1263496	2	15.5	2	100	0	62	0	51	0	48	1.00
1268622--1268731	39	2.8	39	89	5	177	41	21	15	20	1.89
1290992--1291083	20	4.7	20	69	15	57	36	23	7	31	1.83
1291142--1291189	22	2.1	23	96	3	89	54	20	4	20	1.61
1294436--1294721	74	3.8	74	79	5	292	29	28	17	23	1.97
1294441--1294721	148	1.9	150	81	5	345	30	28	17	23	1.97
1296801--1296826	2	13.0	2	100	0	52	50	0	0	50	1.00
1302310--1302362	16	3.4	15	73	19	54	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302405--1302439	9	4.0	9	85	7	54	51	0	0	48	1.00
1306892--1306916	4	6.2	4	100	0	50	76	0	24	0	0.80
1307518--1307559	19	2.1	21	86	8	61	40	4	0	54	1.21
1308164--1308230	31	2.1	30	83	8	80	49	2	0	47	1.16
1308249--1308287	13	2.9	14	85	14	55	41	0	0	58	0.98
1313629--1314311	342	2.0	340	96	0	1249	32	20	23	23	1.98
1315491--1315574	32	2.5	35	74	21	90	51	0	0	48	1.00
1315564--1315599	19	2.0	18	89	10	56	55	0	0	44	0.99
1318562--1318591	2	15.0	2	100	0	60	50	0	0	50	1.00
1318744--1318787	23	2.0	22	90	4	70	56	2	0	40	1.11
1321338--1321369	15	2.1	15	94	0	55	43	34	6	15	1.72
1322419--1322460	18	2.3	19	87	4	59	61	2	4	30	1.29
1329118--1329157	21	1.9	21	84	0	53	47	5	10	37	1.59
1330103--1330128	2	13.0	2	100	0	52	0	50	0	50	1.00
1331254--1331280	14	1.9	14	100	0	54	55	0	0	44	0.99
1332575--1332604	14	2.1	14	93	0	51	30	0	0	70	0.88
1336262--1336310	15	3.3	14	80	11	53	20	0	12	67	1.22
1336269--1336311	15	2.9	15	85	0	59	20	0	9	69	1.15
1337644--1337688	16	2.8	16	83	6	56	48	0	0	51	1.00
1338500--1338557	6	10.3	6	81	10	54	53	0	1	44	1.10
1339092--1339124	2	16.5	2	100	0	66	48	0	0	51	1.00
1339186--1339235	14	3.5	14	74	20	50	30	0	2	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339270--1339316	23	1.9	26	83	12	64	48	2	2	46	1.25
1340166--1340205	12	3.4	12	82	3	55	45	2	0	52	1.14
1341811--1341858	17	2.9	16	73	14	53	56	0	0	43	0.99
1341814--1341868	21	2.6	22	74	8	60	52	0	0	47	1.00
1344844--1344869	3	8.7	3	100	0	52	65	0	0	34	0.93
1345782--1345812	16	1.9	16	93	0	53	54	0	0	45	0.99
1345778--1345822	23	2.0	23	86	8	65	53	2	0	44	1.13
1346732--1346940	50	4.2	50	87	0	274	31	15	19	33	1.93
1351333--1351491	50	3.2	48	90	7	237	28	18	22	31	1.97
1352248--1352320	33	2.2	33	90	0	110	47	2	8	41	1.47
1355721--1355760	2	20.0	2	100	0	80	0	50	0	50	1.00
1356040--1356064	2	12.5	2	100	0	50	0	0	48	52	1.00
1359741--1359789	19	2.7	18	78	9	55	48	0	0	51	1.00
1360800--1360833	13	2.6	14	86	13	54	70	0	0	29	0.87
1360899--1360959	20	3.1	19	73	15	52	44	4	3	47	1.41
1361757--1361799	15	2.8	15	82	10	52	46	0	2	51	1.13
1363714--1363758	2	22.5	2	100	0	90	51	0	48	0	1.00
1364886--1364924	16	2.4	17	82	8	53	69	0	0	30	0.89
1375654--1375687	2	17.0	2	100	0	68	50	0	50	0	1.00
1375932--1375973	3	14.0	3	84	0	57	61	4	2	30	1.29
1376178--1376202	2	12.5	2	100	0	50	0	48	0	52	1.00
1376373--1376411	20	1.9	21	89	5	62	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377575--1377607	2	16.5	2	100	0	66	51	0	0	48	1.00
1383519--1383549	14	2.2	14	94	0	53	41	6	9	41	1.63
1385519--1385544	2	13.0	2	100	0	52	50	0	0	50	1.00
1387720--1387753	6	5.7	6	96	0	59	17	17	11	52	1.73
1391651--1391717	34	2.0	33	82	8	82	41	2	0	55	1.15
1392574--1392620	6	7.8	6	92	0	76	36	31	29	2	1.70
1395235--1395264	2	15.0	2	100	0	60	50	0	0	50	1.00
1396336--1396360	2	12.5	2	100	0	50	52	0	0	48	1.00
1398506--1398536	3	10.3	3	100	0	62	32	0	0	67	0.91
1402321--1402372	25	2.0	25	81	11	59	34	1	11	51	1.49
1404396--1404426	2	15.5	2	100	0	62	51	0	0	48	1.00
1404540--1404584	22	2.0	22	86	0	63	44	4	6	44	1.50
1410143--1410192	12	4.2	12	80	10	57	68	2	6	24	1.23
1410158--1410194	13	2.9	13	92	4	58	67	0	8	24	1.17
1412688--1412749	20	3.1	21	73	15	60	69	0	0	30	0.89
1412685--1412731	16	3.0	15	84	15	60	68	0	0	31	0.90
1412691--1412762	22	3.3	22	80	7	67	63	0	1	34	1.03
1413494--1413550	28	2.1	27	87	6	80	45	0	0	54	0.99
1413492--1413596	28	3.7	27	72	19	79	43	0	2	53	1.15
1415424--1415456	17	1.9	17	88	11	50	60	6	0	33	1.21
1415435--1415476	11	3.5	12	80	9	50	61	2	2	33	1.21
1415450--1415488	19	2.1	19	90	0	60	58	0	7	33	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415441--1415495	19	2.7	20	77	13	58	56	0	5	38	1.23
1415480--1415515	16	2.3	15	85	4	54	47	2	0	50	1.15
1415854--1415910	26	2.2	26	87	0	87	35	8	1	54	1.42
1416082--1416120	19	2.2	18	86	9	53	64	2	0	33	1.08
1428208--1428264	25	2.2	25	79	11	62	31	0	0	68	0.90
1428217--1428264	15	3.1	16	85	8	64	31	0	0	68	0.90
1429723--1429772	11	4.9	10	75	20	50	38	0	0	62	0.96
1429723--1429790	30	2.2	30	86	7	91	38	1	0	60	1.06
1429792--1429840	13	3.8	13	82	12	57	36	0	2	61	1.08
1429778--1429844	27	2.5	26	77	18	73	35	0	1	62	1.04
1436278--1436308	16	1.9	16	93	0	53	45	0	0	54	0.99
1436771--1436825	24	2.4	23	78	6	58	72	1	1	23	1.04
1436945--1436993	22	2.2	22	78	7	55	28	2	67	2	1.13
1447382--1447436	22	2.6	21	77	5	65	67	0	0	32	0.91
1448575--1448638	25	2.5	25	73	14	60	51	1	0	46	1.10
1453485--1453520	14	2.4	16	81	18	58	25	19	16	38	1.92
1453490--1453565	14	5.6	14	75	7	50	28	18	21	31	1.97
1453563--1453634	36	2.0	36	97	0	135	29	22	15	33	1.94
1453622--1453831	13	16.0	14	77	13	214	26	18	25	29	1.98
1456079--1456592	67	7.7	66	76	7	403	25	24	15	34	1.95
1456825--1456861	2	18.5	2	100	0	74	48	0	0	51	1.00
1456922--1456977	28	2.0	28	89	0	85	26	21	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457186--1457508	39	8.2	39	79	8	309	26	21	25	26	1.99
1457192--1457508	118	2.7	116	79	8	325	27	21	25	26	1.99
1457189--1457491	13	23.2	13	77	9	269	26	21	25	26	1.99
1462011--1462040	2	15.0	2	100	0	60	0	50	0	50	1.00
1464321--1464371	23	2.2	23	86	13	70	64	0	0	35	0.94
1464387--1464424	15	2.5	15	87	8	51	47	0	0	52	1.00
1464395--1464425	15	2.0	16	93	6	55	51	0	0	48	1.00
1464413--1464464	26	2.0	26	85	7	70	44	0	0	55	0.99
1464944--1464986	22	2.0	22	86	9	61	53	0	2	44	1.13
1465351--1465375	4	6.2	4	100	0	50	76	0	0	24	0.80

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