genome.fa.s92.2.7.7.80.10.50.1000.10.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  10  of  19  ( 2187 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)
1269568--1269612	20	2.3	20	88	3	65	44	2	0	53	1.13
1269607--1269653	17	2.6	18	83	10	60	46	0	0	53	1.00
1269607--1269648	17	2.4	17	92	4	66	47	0	0	52	1.00
1270492--1270547	25	2.2	26	81	15	64	48	0	1	50	1.11
1270573--1270611	21	1.9	21	89	5	62	41	2	2	53	1.28
1270573--1270617	20	2.2	20	84	7	56	40	2	2	55	1.24
1270595--1270655	19	3.2	19	72	9	52	55	0	0	44	0.99
1270628--1270653	13	2.0	13	100	0	52	61	0	0	38	0.96
1271566--1271597	16	2.0	16	93	0	55	50	3	0	46	1.17
1272179--1272249	18	4.0	18	68	17	58	63	0	4	32	1.14
1272516--1272546	2	15.5	2	100	0	62	48	0	0	51	1.00
1275562--1275659	42	2.3	42	77	8	101	52	0	0	47	1.00
1275635--1275667	17	2.0	17	88	5	50	57	0	0	42	0.98
1276494--1276533	20	2.0	20	90	9	64	45	0	0	55	0.99
1276494--1276540	22	2.2	21	85	14	62	46	0	0	53	1.00
1276746--1276790	11	4.1	12	83	13	53	42	2	0	55	1.12
1277338--1277382	22	2.0	23	86	4	65	44	2	0	53	1.13
1277344--1277408	23	3.0	22	82	15	73	46	3	0	50	1.17
1277391--1277439	18	2.7	18	70	0	53	44	0	0	55	0.99
1277558--1277595	15	2.4	16	83	16	53	52	2	0	44	1.14
1278624--1278664	16	2.7	16	81	7	50	56	0	0	43	0.99
1279605--1279642	3	12.7	3	100	0	76	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279881--1279918	8	4.5	8	90	9	58	36	0	0	63	0.95
1280475--1280527	27	1.9	28	88	3	81	54	0	9	35	1.33
1281007--1281051	20	2.2	20	80	7	56	26	0	6	66	1.16
1282118--1282195	34	2.3	34	79	12	90	56	2	0	41	1.13
1283194--1283242	23	2.3	21	86	10	64	48	0	0	51	1.00
1283200--1283242	23	1.9	23	90	4	70	51	0	0	48	1.00
1283329--1283362	15	2.3	15	90	5	52	58	0	0	41	0.98
1283290--1283387	44	2.2	44	83	7	119	52	1	2	44	1.19
1283552--1283597	24	1.9	24	90	0	74	69	2	0	28	1.00
1283855--1283933	23	3.1	27	81	15	98	65	0	0	34	0.93
1283856--1283941	21	3.8	21	73	21	66	63	0	0	36	0.94
1283856--1283979	13	10.6	12	66	20	57	59	0	0	40	0.97
1283889--1283986	16	5.8	17	66	25	57	56	0	0	43	0.99
1283866--1283981	36	3.1	36	76	12	92	59	0	0	40	0.97
1284256--1284285	5	5.8	5	92	7	51	0	36	0	63	0.95
1284256--1284285	16	1.9	16	93	6	53	0	36	0	63	0.95
1288545--1288575	6	5.2	6	92	0	53	48	0	3	48	1.17
1289735--1289764	15	2.0	15	100	0	60	26	0	6	66	1.16
1290457--1290499	13	3.3	13	84	12	61	53	0	0	46	1.00
1290462--1290534	36	2.0	38	86	5	105	52	0	0	47	1.00
1291577--1291644	27	2.4	27	83	9	75	60	0	1	38	1.06
1292436--1292477	12	3.5	12	78	12	50	61	0	9	28	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293604--1293691	19	4.5	19	84	13	108	29	1	0	69	0.96
1293604--1293692	42	2.1	41	95	2	160	30	1	0	68	0.97
1293621--1293690	31	2.2	33	84	7	90	28	0	0	71	0.86
1293621--1293694	33	2.3	32	81	9	87	29	0	0	70	0.88
1293621--1293694	23	3.4	23	76	19	95	29	0	0	70	0.88
1295578--1295612	18	1.9	18	94	0	61	25	11	51	11	1.71
1297215--1297239	2	12.5	2	100	0	50	48	52	0	0	1.00
1298561--1298680	40	3.0	40	97	0	231	32	13	22	31	1.92
1302782--1302812	16	1.9	16	93	0	53	22	3	0	74	0.96
1302323--1302848	288	1.8	287	90	4	844	44	5	3	46	1.45
1303009--1303038	15	2.0	15	100	0	60	26	20	13	40	1.89
1304279--1304323	21	2.1	21	100	0	90	48	4	8	37	1.55
1304674--1304766	41	2.2	41	83	11	109	65	4	2	27	1.23
1306618--1306694	34	2.3	35	80	11	88	59	2	2	35	1.25
1307354--1307420	23	2.8	24	80	14	77	47	0	1	50	1.10
1310950--1311007	21	2.8	21	94	2	100	60	0	0	39	0.97
1311274--1311317	18	2.5	17	78	7	52	45	0	0	54	0.99
1315097--1315168	33	2.2	34	82	9	87	47	8	1	43	1.42
1315215--1315255	21	2.0	21	85	9	57	36	0	2	60	1.10
1315492--1315517	2	13.0	2	100	0	52	50	0	0	50	1.00
1315728--1315779	7	7.4	7	82	8	52	34	0	0	65	0.93
1316128--1316196	18	3.8	18	69	5	50	47	0	1	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316444--1316474	15	2.1	15	100	0	62	51	0	0	48	1.00
1318012--1318039	14	2.0	14	100	0	56	28	7	14	50	1.69
1318424--1318566	34	4.3	34	75	19	131	57	0	2	40	1.11
1318471--1318578	32	3.3	32	81	13	123	57	0	1	40	1.09
1318430--1318570	9	15.8	9	66	19	55	57	0	2	40	1.11
1319665--1319697	16	2.0	17	88	5	50	39	0	0	60	0.97
1319668--1319744	26	2.9	27	72	18	72	41	0	0	58	0.98
1320176--1320223	21	2.3	19	80	16	51	25	2	4	68	1.18
1320582--1320608	3	9.0	3	100	0	54	66	0	0	33	0.92
1321035--1321127	35	2.6	35	93	1	150	52	1	0	46	1.07
1321322--1321354	15	2.2	15	94	0	57	48	6	0	45	1.27
1321347--1321375	15	1.9	15	100	0	58	55	3	0	41	1.17
1321493--1321539	2	23.5	2	100	0	94	48	0	0	51	1.00
1323440--1323508	25	2.8	25	82	4	68	46	2	0	50	1.16
1324727--1324761	14	2.5	14	90	0	52	2	48	2	45	1.32
1325136--1325174	19	2.2	18	90	9	62	25	17	15	41	1.89
1331372--1331397	3	8.7	3	100	0	52	65	0	0	34	0.93
1333540--1333589	22	2.3	22	89	6	75	60	0	0	40	0.97
1334201--1334242	22	1.9	22	100	0	84	61	4	4	28	1.36
1334237--1334277	18	2.3	18	80	12	50	41	0	0	58	0.98
1335946--1335997	27	2.0	25	85	11	68	63	0	0	36	0.95
1336150--1336196	14	3.5	14	77	5	53	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336315--1336372	31	1.9	29	83	13	73	60	1	0	37	1.07
1336353--1336422	24	2.8	25	78	8	72	61	2	0	35	1.11
1336936--1336981	23	2.0	23	87	8	67	32	0	6	60	1.22
1337844--1337892	16	2.9	16	84	6	53	59	0	0	40	0.98
1341484--1341542	24	2.6	23	76	7	66	61	0	0	38	0.96
1341462--1341522	10	5.6	11	75	9	54	60	0	0	39	0.97
1341509--1341567	32	1.9	30	86	6	82	54	0	0	45	0.99
1341755--1341838	43	1.9	45	81	13	104	45	3	1	50	1.27
1342768--1342841	32	2.3	33	81	6	80	62	6	1	29	1.29
1342800--1342848	21	2.3	20	83	10	62	61	6	0	32	1.21
1348504--1348575	35	2.1	34	84	10	92	30	6	0	62	1.21
1348979--1349018	21	2.0	20	85	5	53	57	0	0	42	0.98
1351151--1351189	19	2.0	20	85	14	55	33	0	0	66	0.92
1351873--1351917	12	3.6	13	80	14	51	55	2	4	37	1.32
1352631--1352663	3	11.0	3	100	0	66	33	0	0	66	0.92
1352988--1353015	2	14.0	2	100	0	56	50	0	0	50	1.00
1353335--1353376	19	2.2	20	86	4	59	47	0	4	47	1.23
1353460--1353525	32	2.1	32	94	0	114	43	6	12	37	1.67
1353741--1353771	15	2.0	16	93	6	55	51	3	0	45	1.17
1353914--1353957	20	2.2	20	84	8	54	61	0	0	38	0.96
1353937--1353961	12	2.1	12	100	0	50	68	0	0	32	0.90
1354468--1354513	22	2.1	21	84	4	56	34	4	2	58	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355977--1356037	18	3.4	18	78	15	63	67	0	0	32	0.91
1356075--1356108	2	17.0	2	87	0	50	50	5	0	44	1.26
1356360--1356385	13	2.0	13	100	0	52	38	0	0	61	0.96
1356417--1356484	33	2.1	35	86	10	99	35	0	8	55	1.31
1358287--1358337	24	2.1	25	85	3	68	29	0	0	70	0.87
1360079--1360420	110	3.1	110	82	1	382	37	12	10	39	1.77
1361586--1361651	33	1.9	35	85	11	93	46	3	3	46	1.33
1361628--1361677	18	2.9	18	85	5	68	56	0	0	44	0.99
1362843--1362930	12	7.2	12	72	13	54	51	0	0	48	1.00
1362848--1362915	6	11.7	6	80	7	61	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