genome.fa.s126.2.7.7.80.10.50.1000.8.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: Scaffold126
Parameters: 2 7 7 80 10 50 1000
Length:  2080828

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

This is table  8  of  13  ( 1448 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)
1123437--1123487	20	2.5	20	87	0	66	39	9	9	41	1.71
1123577--1123616	21	1.9	21	89	0	62	35	10	12	42	1.76
1124496--1124541	23	2.0	22	83	4	56	36	8	4	50	1.53
1132189--1132295	53	2.0	53	98	0	205	34	26	17	21	1.96
1140025--1140093	28	2.5	27	77	13	77	43	17	18	20	1.88
1140836--1140898	33	1.9	33	86	0	90	30	30	20	19	1.97
1141023--1141650	52	12.0	52	75	8	416	24	23	15	36	1.94
1141043--1141319	153	1.8	154	86	2	405	27	24	14	33	1.94
1141023--1141579	103	5.4	104	79	6	499	24	23	16	35	1.94
1141527--1141663	61	2.3	60	84	2	184	24	24	12	37	1.90
1144769--1144949	97	1.9	95	84	2	245	29	24	10	34	1.89
1148460--1148541	35	2.4	34	74	13	78	39	8	0	52	1.32
1150795--1150833	2	19.5	2	100	0	78	48	0	0	51	1.00
1151820--1151849	15	2.0	15	100	0	60	60	13	13	13	1.60
1152416--1152510	34	2.9	33	84	6	124	32	23	11	32	1.90
1152948--1153015	20	3.3	20	76	15	84	35	17	14	32	1.91
1153344--1153666	160	2.0	159	99	0	637	38	15	7	38	1.76
1154194--1154239	2	23.0	2	100	0	92	50	0	0	50	1.00
1155160--1155217	25	2.4	25	83	13	68	53	0	0	46	1.00
1156497--1156528	16	2.0	16	100	0	64	43	6	31	18	1.75
1156724--1156757	17	2.0	17	100	0	68	52	29	0	17	1.45
1156943--1156981	13	3.0	13	80	0	51	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162384--1162447	29	2.2	30	94	2	112	20	9	0	70	1.14
1173473--1173532	30	2.0	30	100	0	120	16	10	23	50	1.75
1176765--1176830	25	2.7	25	79	9	64	68	3	1	27	1.13
1176780--1176830	25	2.0	25	85	7	68	72	0	1	25	0.95
1177107--1177178	17	4.2	16	76	16	65	66	1	1	30	1.08
1178621--1178688	24	2.8	24	97	2	127	58	2	0	38	1.13
1178968--1179007	20	2.0	20	90	0	62	12	0	12	75	1.06
1179101--1179152	25	2.1	25	100	0	104	53	7	3	34	1.48
1179233--1179257	12	2.1	12	100	0	50	24	16	8	52	1.70
1180491--1180549	14	4.5	13	75	8	57	77	0	20	1	0.85
1180912--1180938	12	2.2	12	100	0	54	40	0	7	51	1.30
1186942--1187022	36	2.3	35	81	10	85	71	9	13	4	1.28
1188352--1189142	27	28.9	27	90	2	1161	23	33	13	29	1.93
1188352--1189142	82	9.6	81	89	2	1161	23	33	13	29	1.93
1188328--1189142	109	7.4	110	89	2	1180	23	33	13	29	1.94
1188328--1189142	55	14.9	55	90	3	1171	23	33	13	29	1.94
1189128--1189538	32	12.8	32	93	1	662	31	33	18	16	1.94
1190773--1190825	10	4.9	10	80	13	52	75	0	22	1	0.90
1190771--1190825	20	2.5	23	77	11	62	76	0	21	1	0.88
1190793--1190827	16	2.1	17	89	5	54	82	0	17	0	0.66
1191191--1191219	14	2.1	14	100	0	58	41	0	6	51	1.28
1193556--1193619	28	2.3	27	81	5	74	50	1	0	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194039--1194099	1	61.0	1	100	0	122	0	0	0	100	0.00
1336004--1336029	13	2.0	13	100	0	52	30	15	15	38	1.88
1335984--1336047	33	2.0	32	90	3	101	26	14	20	39	1.90
1336089--1336141	20	2.6	21	82	8	65	32	16	13	37	1.88
1336129--1336153	13	1.9	13	100	0	50	36	16	16	32	1.90
1336163--1336201	20	2.0	19	95	5	69	30	10	23	35	1.88
1337178--1337233	19	3.3	18	72	27	59	35	12	16	35	1.86
1337190--1337214	13	1.9	13	100	0	50	36	16	16	32	1.90
1337169--1337241	32	2.3	32	90	0	119	36	10	15	36	1.82
1337258--1337299	21	2.0	21	100	0	84	42	9	19	28	1.82
1337289--1337333	21	2.1	21	83	0	54	31	17	11	40	1.85
1339663--1339849	51	3.6	51	81	7	207	31	25	10	32	1.90
1339663--1339847	52	3.6	51	82	7	203	31	25	10	32	1.89
1339854--1340262	76	5.3	76	85	6	536	26	26	14	32	1.94
1339860--1340262	155	2.6	155	92	1	664	27	26	14	32	1.94
1340197--1340363	51	3.4	48	79	7	127	28	26	13	32	1.93
1340246--1340363	51	2.3	51	89	0	182	27	28	13	29	1.94
1340295--1340442	79	1.9	79	87	2	217	29	28	12	30	1.93
1352834--1352904	6	12.5	6	81	10	71	84	12	1	1	0.76
1352836--1352910	13	5.6	14	74	16	70	84	12	2	1	0.80
1353884--1354062	94	1.8	97	86	9	258	24	29	21	25	1.99
1353984--1354175	55	3.4	55	85	6	233	27	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354034--1354324	154	1.9	155	91	0	476	25	29	18	26	1.98
1353883--1354385	209	2.4	212	86	5	668	25	29	19	25	1.99
1354197--1354442	55	4.4	55	83	8	332	26	29	21	22	1.99
1354197--1354442	116	2.2	112	86	7	347	26	29	21	22	1.99
1354579--1354758	42	4.1	42	79	12	177	18	27	12	41	1.86
1354579--1354758	89	2.1	85	84	6	227	18	27	12	41	1.86
1354579--1354758	43	4.1	44	78	11	176	18	27	12	41	1.86
1354778--1354877	42	2.4	42	78	8	107	20	30	10	40	1.85
1355531--1355593	19	3.7	18	72	24	64	34	12	15	36	1.86
1355529--1355599	32	2.2	32	94	0	124	36	11	15	36	1.83
1355617--1355659	21	2.0	21	100	0	86	41	9	18	30	1.82
1355646--1355671	13	2.0	13	100	0	52	30	15	15	38	1.88
1358000--1358186	51	3.6	51	79	5	214	30	25	11	32	1.91
1358191--1358472	76	3.7	76	84	5	388	25	26	16	31	1.96
1358427--1358500	28	2.6	28	82	0	94	21	32	22	22	1.98
1358351--1358547	104	1.9	104	93	2	342	25	28	16	29	1.97
1358483--1358650	51	3.4	50	78	8	164	29	27	12	30	1.93
1358528--1358650	51	2.4	51	86	2	176	29	29	13	28	1.94
1358581--1358728	79	1.9	79	87	2	217	29	27	12	30	1.93
1361352--1361389	13	2.9	13	96	0	67	34	18	15	31	1.92
1367523--1367584	33	1.9	32	90	3	97	27	11	19	41	1.85
1369315--1369348	12	3.1	11	88	12	52	67	2	0	29	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369537--1369572	2	18.0	2	100	0	72	50	0	0	50	1.00
1374824--1374879	27	2.1	27	90	6	87	39	0	3	57	1.16
1375663--1375717	28	1.9	30	85	10	80	40	1	0	58	1.09
1375684--1375715	11	2.8	12	86	13	50	37	0	0	62	0.95
1378521--1378565	23	2.1	21	84	12	56	44	0	0	55	0.99
1379838--1379916	39	1.9	39	82	12	97	48	1	0	50	1.08
1380447--1380547	14	6.9	15	65	18	52	60	0	0	39	0.97
1382691--1382752	27	2.3	27	85	0	88	45	4	22	27	1.73
1384839--1384865	2	13.5	2	100	0	54	48	0	0	51	1.00
1387480--1387504	8	3.1	8	100	0	50	64	0	12	24	1.27
1392663--1392716	24	2.2	24	100	0	108	37	7	16	38	1.77
1392715--1392788	20	3.7	19	78	7	85	40	12	13	33	1.82
1393353--1394014	28	22.9	28	86	7	855	22	18	30	27	1.97
1393353--1394014	85	7.6	85	86	5	859	22	18	30	27	1.97
1393353--1394014	57	11.5	57	87	5	870	22	18	30	27	1.97
1395223--1395298	12	6.3	12	79	11	84	1	3	9	85	0.78
1395223--1395299	22	3.7	20	80	17	77	1	3	9	85	0.77
1395254--1395299	1	46.0	1	82	0	56	0	0	8	91	0.43
1395229--1395297	11	5.9	11	81	11	84	1	2	10	85	0.76
1395228--1395301	13	6.0	13	76	12	75	1	2	10	85	0.77
1395229--1395301	24	3.0	24	85	0	101	1	2	10	84	0.78
1409260--1409334	20	3.8	19	78	7	87	41	12	13	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409257--1409334	40	2.0	39	89	2	120	41	12	12	33	1.82
1412177--1412228	20	2.7	20	85	8	72	26	17	17	38	1.92
1412298--1412322	13	1.9	13	100	0	50	44	16	8	32	1.76
1412878--1412939	24	2.7	24	92	7	103	41	32	0	25	1.56
1414802--1414840	13	3.0	13	92	0	69	33	15	20	30	1.94
1421028--1421053	13	2.0	13	100	0	52	38	15	15	30	1.88
1421006--1421073	33	2.1	32	91	8	111	32	16	16	35	1.91
1421142--1421166	13	1.9	13	100	0	50	36	16	16	32	1.90
1421125--1421187	33	1.9	32	87	3	90	30	15	20	33	1.94
1422412--1422438	2	13.5	2	100	0	54	51	0	0	48	1.00

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