genome.fa.s169.2.7.7.80.10.50.1000.9.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: Scaffold169
Parameters: 2 7 7 80 10 50 1000
Length:  2015121

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

This is table  9  of  14  ( 1635 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)
1257595--1257662	21	3.2	21	65	19	59	30	17	25	26	1.97
1257818--1257891	32	2.4	31	91	6	123	17	16	36	29	1.92
1257878--1258571	34	20.3	34	83	8	756	33	11	33	20	1.89
1258035--1258094	27	2.2	27	87	0	84	28	15	38	18	1.91
1258349--1258761	125	3.2	126	82	10	356	30	14	31	22	1.94
1258544--1258758	31	6.9	30	87	6	236	29	17	29	23	1.97
1258519--1258761	94	2.6	94	85	7	291	29	16	29	23	1.97
1259963--1260007	7	6.9	7	82	12	60	0	0	13	86	0.57
1259963--1260007	19	2.4	19	88	3	65	0	0	13	86	0.57
1259974--1260011	9	4.0	10	83	10	53	0	0	15	84	0.63
1259978--1260018	19	2.2	19	86	0	55	2	2	14	80	0.92
1259963--1260017	26	2.1	26	86	0	74	1	1	12	83	0.80
1266908--1267032	52	2.4	52	94	2	216	29	17	18	34	1.94
1266908--1267052	52	2.8	50	87	8	193	31	17	18	33	1.94
1267041--1267065	13	1.9	13	100	0	50	36	16	16	32	1.90
1267105--1267174	33	2.1	33	89	0	104	40	14	11	34	1.82
1267130--1267154	13	1.9	13	100	0	50	32	16	16	36	1.90
1267934--1267965	14	2.1	16	88	11	50	59	0	3	37	1.13
1269014--1269092	28	2.9	28	87	7	101	24	6	22	46	1.75
1269073--1269118	24	1.9	24	82	8	58	23	8	28	39	1.84
1273591--1273645	28	2.0	28	96	0	101	20	10	20	49	1.78
1273650--1273695	24	1.9	24	86	0	65	23	6	28	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274070--1274100	5	6.2	5	100	0	62	58	0	0	41	0.98
1274122--1274171	21	2.2	21	82	10	55	56	6	6	32	1.48
1275162--1275189	14	2.0	14	100	0	56	28	0	7	64	1.20
1275377--1275416	21	1.9	21	94	0	71	50	0	0	50	1.00
1275373--1275420	21	2.4	19	83	12	69	45	0	0	54	0.99
1275614--1275638	11	2.3	11	100	0	50	52	0	0	48	1.00
1278160--1278194	17	2.0	17	88	5	52	57	0	0	42	0.99
1279381--1279426	17	2.8	17	87	6	60	80	0	8	10	0.91
1279387--1279432	24	1.9	24	86	8	67	80	0	4	15	0.86
1281563--1281639	39	2.0	39	94	0	136	44	25	1	28	1.62
1281849--1281900	11	4.8	11	80	17	56	76	0	1	21	0.87
1281848--1281908	28	2.2	29	80	19	76	72	0	6	21	1.07
1282285--1282326	22	1.9	22	85	9	59	40	0	0	59	0.97
1282859--1282975	32	3.7	32	82	4	141	40	4	7	47	1.52
1282933--1282979	21	2.2	22	77	11	53	42	8	8	40	1.66
1283851--1283900	20	2.4	21	76	6	57	56	4	0	40	1.18
1285745--1285775	14	2.2	14	100	0	62	25	0	22	51	1.48
1285759--1286026	136	2.0	137	91	2	441	41	2	11	44	1.54
1286193--1286232	15	2.6	15	88	4	53	62	0	0	37	0.95
1286158--1286269	58	2.0	52	83	10	134	49	5	5	40	1.48
1287393--1287577	34	5.5	34	88	3	266	40	27	7	25	1.82
1287393--1287577	102	1.8	101	94	1	325	40	27	7	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291643--1291705	19	3.3	19	90	0	90	34	19	17	28	1.94
1292007--1292190	34	5.4	34	88	3	264	40	27	7	25	1.82
1292007--1292190	102	1.8	101	93	1	323	40	27	7	25	1.82
1292336--1292422	8	10.4	8	73	15	61	37	0	0	62	0.96
1292536--1292561	3	8.7	3	100	0	52	69	0	0	30	0.89
1293087--1293130	14	3.1	14	86	0	61	47	0	4	47	1.22
1295389--1295435	19	2.6	18	75	15	51	68	2	4	25	1.19
1296313--1296352	2	20.0	2	100	0	80	50	0	0	50	1.00
1297035--1297074	17	2.4	16	83	4	53	55	15	0	30	1.41
1299843--1299920	5	16.8	5	70	15	51	62	2	2	32	1.22
1299848--1299917	18	3.8	19	77	9	83	65	2	1	30	1.15
1299955--1300020	28	2.3	29	82	12	75	46	0	6	46	1.27
1301062--1301106	24	2.0	22	82	8	54	62	0	4	33	1.15
1301106--1301153	16	3.0	16	74	20	55	50	0	0	50	1.00
1301082--1301134	23	2.2	25	80	10	65	54	0	1	43	1.11
1301107--1301169	15	4.0	16	73	17	51	55	0	0	44	0.99
1301109--1301174	16	4.1	17	74	14	50	59	0	0	40	0.98
1301140--1301179	17	2.3	18	83	16	57	67	0	0	32	0.91
1301108--1301179	18	4.3	18	74	20	59	59	0	0	40	0.97
1301824--1301870	23	2.1	23	84	4	60	46	6	2	44	1.40
1303675--1303721	19	2.4	19	82	7	58	65	0	0	34	0.93
1306034--1306086	26	2.1	25	82	3	61	47	7	1	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306610--1306652	17	2.6	17	77	3	52	44	0	2	53	1.13
1307112--1307150	2	19.5	2	94	0	69	48	2	0	48	1.15
1307812--1308027	34	6.4	34	88	1	292	24	7	27	40	1.83
1307812--1308029	67	3.2	67	88	1	319	24	7	27	40	1.82
1308332--1308394	19	3.3	19	90	0	90	28	17	19	34	1.94
1312460--1312677	34	6.5	34	88	1	296	24	7	27	40	1.82
1312460--1312679	67	3.3	67	88	1	323	24	7	27	40	1.82
1315014--1315056	22	2.0	22	90	0	68	32	6	6	53	1.55
1315157--1315212	15	3.7	15	80	17	55	60	0	3	35	1.14
1315426--1315460	17	2.1	17	100	0	70	45	11	0	42	1.40
1316764--1316809	22	2.1	22	83	0	56	32	4	0	63	1.14
1322898--1322941	20	2.2	20	87	0	61	38	4	45	11	1.61
1327472--1327515	20	2.2	20	83	0	52	36	4	47	11	1.60
1328084--1328173	30	3.0	27	68	26	74	45	8	5	40	1.59
1328098--1328169	29	2.5	30	82	12	82	45	8	5	40	1.57
1329638--1329687	20	2.5	20	80	6	57	30	0	2	68	1.01
1330361--1330828	232	2.0	232	90	0	731	33	19	15	31	1.93
1331069--1331164	34	2.8	34	93	1	165	21	0	39	38	1.54
1331131--1331186	22	2.5	22	97	0	103	19	0	41	39	1.52
1331104--1331215	56	2.0	56	94	0	197	22	0	38	39	1.54
1331055--1331188	22	5.9	23	72	16	102	21	0	38	39	1.54
1332308--1332409	51	2.0	51	100	0	204	45	19	19	15	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335866--1335961	34	2.8	34	93	1	165	21	0	39	38	1.54
1335928--1335983	22	2.5	22	97	0	103	19	0	41	39	1.52
1335901--1336012	56	2.0	56	96	0	206	21	0	39	39	1.54
1338417--1338541	27	4.9	24	76	13	106	20	7	25	46	1.76
1338474--1338543	24	2.8	25	89	6	99	21	8	25	44	1.80
1343011--1343135	27	4.9	24	76	13	106	20	7	25	46	1.76
1343068--1343137	24	2.8	25	89	6	99	21	8	25	44	1.80
1344916--1344967	26	2.0	26	81	7	61	44	0	0	55	0.99
1345443--1345467	2	12.5	2	100	0	50	48	0	0	52	1.00
1345770--1345803	16	2.0	18	88	11	54	47	0	0	52	1.00
1346304--1346343	21	1.9	21	90	10	64	40	0	0	60	0.97
1347154--1347368	34	6.4	34	83	2	218	27	6	24	41	1.80
1347150--1347367	102	2.1	101	87	0	301	27	6	23	41	1.80
1351776--1351994	34	6.5	34	85	2	271	25	7	26	41	1.81
1351776--1351994	102	2.2	101	89	1	330	25	7	26	41	1.81
1353608--1353648	16	2.6	16	92	0	64	65	0	0	34	0.93
1353865--1353905	17	2.3	18	80	16	50	43	9	0	46	1.36
1355225--1355266	22	1.9	22	85	0	57	38	4	0	57	1.20
1356721--1356777	2	29.5	2	77	13	57	47	5	0	47	1.24
1356722--1356777	19	2.9	19	89	5	78	46	5	0	48	1.25
1356948--1356995	18	2.7	17	78	9	51	52	2	0	45	1.12
1358440--1358479	21	1.9	21	85	10	55	37	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359503--1359562	28	2.1	29	84	9	79	50	1	0	48	1.11
1359941--1359988	23	2.1	22	84	3	60	54	0	0	45	0.99
1362399--1362428	15	2.0	15	100	0	60	26	13	13	46	1.80
1362771--1362818	20	2.4	20	85	0	60	37	2	0	60	1.09
1362915--1363130	34	6.4	34	88	1	292	24	7	27	40	1.83
1362915--1363132	67	3.2	67	88	1	319	24	7	27	40	1.82
1363432--1363494	19	3.3	19	90	0	90	28	17	19	34	1.94
1367560--1367777	34	6.5	34	88	1	296	24	7	27	40	1.82
1367560--1367779	67	3.3	67	88	1	323	24	7	27	40	1.82
1369442--1369508	27	2.5	27	81	9	75	46	2	4	46	1.38

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