genome.fa.s5.2.7.7.80.10.50.1000.11.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

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

This is table  11  of  14  ( 1571 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)
1229732--1229773	23	1.9	23	85	9	61	38	0	0	61	0.96
1231043--1231073	2	15.5	2	100	0	62	51	0	0	48	1.00
1231123--1231147	3	8.3	3	100	0	50	68	0	0	32	0.90
1232230--1232327	47	2.2	42	81	12	108	50	0	0	50	1.00
1232301--1232361	13	4.6	13	79	20	65	62	0	0	37	0.96
1232320--1232361	17	2.8	15	83	16	52	64	0	0	35	0.94
1232703--1232788	24	3.9	23	69	17	65	52	0	1	46	1.08
1232717--1232788	6	12.2	6	71	19	53	56	0	0	43	0.99
1232702--1232794	41	2.2	45	86	9	140	50	0	1	48	1.07
1232824--1232875	23	2.1	26	86	10	74	32	1	1	63	1.16
1233012--1233051	16	2.5	17	84	15	59	57	0	0	42	0.98
1233027--1233085	23	2.4	25	83	11	77	52	0	1	45	1.10
1235904--1235932	2	15.0	2	92	7	51	48	0	0	51	1.00
1236515--1236563	20	2.5	19	81	15	55	32	2	2	63	1.17
1237863--1237917	18	3.2	17	79	20	62	58	0	0	41	0.98
1238190--1238228	19	2.1	19	85	9	53	28	0	0	71	0.86
1238190--1238249	25	2.4	26	83	10	72	33	0	0	66	0.92
1238281--1238325	23	1.9	24	90	4	74	35	0	0	64	0.94
1238945--1238983	18	2.3	16	86	8	51	66	2	0	30	1.05
1240295--1240346	23	2.4	20	81	12	59	48	0	0	51	1.00
1240991--1241032	20	2.1	20	82	8	50	45	2	7	45	1.44
1246571--1246615	14	3.0	15	77	9	56	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247286--1247359	15	4.9	15	79	12	71	64	0	0	35	0.94
1247372--1247422	16	3.2	15	79	20	59	54	0	0	45	0.99
1247366--1247415	16	3.1	16	78	21	59	52	0	0	48	1.00
1247344--1247427	33	2.5	33	79	14	102	57	1	0	41	1.06
1247306--1247426	7	15.2	8	70	21	69	60	0	0	38	1.03
1247714--1247797	28	3.0	29	77	10	75	38	0	1	60	1.04
1247757--1247809	5	11.2	5	78	15	51	30	0	1	67	1.01
1247757--1247810	11	5.0	12	70	25	57	29	0	1	68	1.00
1247728--1247813	30	3.0	28	78	8	84	34	0	1	63	1.02
1248069--1248143	18	4.6	16	76	11	55	60	0	0	40	0.97
1248809--1248854	19	2.2	20	85	11	58	56	4	8	30	1.49
1248810--1248863	21	2.5	20	74	14	54	59	3	9	27	1.45
1248866--1248954	19	4.7	19	71	15	67	52	4	7	34	1.51
1252003--1252027	7	3.6	7	100	0	50	60	0	0	40	0.97
1252443--1252482	20	2.0	20	85	4	55	52	0	2	45	1.14
1253122--1253168	24	2.0	24	100	0	94	23	34	8	34	1.85
1253779--1253811	14	2.3	15	89	5	50	48	0	0	51	1.00
1254222--1254268	18	2.5	19	79	3	60	55	6	4	34	1.45
1254484--1254522	19	2.1	19	85	0	51	30	5	0	64	1.15
1254600--1254678	41	1.9	41	81	0	95	51	0	3	44	1.19
1254870--1254913	16	2.8	16	89	6	63	27	0	0	72	0.85
1255344--1255388	14	3.0	15	80	9	56	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256199--1256309	42	2.6	42	82	0	123	28	13	16	41	1.86
1256931--1257043	57	2.0	57	94	1	201	23	14	20	41	1.89
1258481--1258505	12	2.1	12	100	0	50	16	8	40	36	1.77
1259619--1259674	27	2.1	27	93	6	96	30	25	3	41	1.72
1265815--1265892	23	3.1	24	68	22	61	56	1	0	42	1.07
1265813--1265872	29	2.1	29	87	6	86	53	0	0	46	1.00
1265831--1265892	23	2.8	22	82	4	70	58	1	0	40	1.08
1265827--1265904	29	2.7	29	75	13	72	58	1	1	38	1.14
1265884--1265909	13	2.0	13	100	0	52	61	0	7	30	1.24
1268471--1268548	40	1.9	39	80	14	88	57	1	1	39	1.15
1273998--1274034	2	18.5	2	94	0	65	51	2	0	45	1.15
1274414--1274454	11	3.5	11	81	12	55	2	19	0	78	0.87
1274414--1274468	24	2.3	22	77	17	56	9	20	0	70	1.13
1274809--1274855	23	2.0	23	83	4	58	17	17	14	51	1.77
1275688--1275809	32	3.8	32	87	1	156	18	17	32	31	1.94
1275792--1276365	27	21.0	27	92	1	950	27	14	35	21	1.93
1275792--1276365	82	7.0	81	93	1	950	27	14	35	21	1.93
1276329--1276417	46	1.9	46	97	0	169	38	11	26	23	1.89
1276385--1276442	30	1.9	31	89	3	91	32	15	27	24	1.95
1283835--1283869	2	17.5	2	93	0	61	51	2	0	45	1.16
1284250--1284290	11	3.5	11	81	12	55	2	19	0	78	0.87
1284250--1284304	24	2.3	22	77	17	56	9	20	0	70	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284645--1284691	23	2.0	23	83	4	58	17	17	14	51	1.77
1286807--1286942	67	2.0	66	94	1	236	33	24	14	27	1.94
1288532--1288565	18	1.9	18	88	5	52	67	5	5	20	1.33
1289020--1289056	2	18.5	2	100	0	74	51	0	48	0	1.00
1290310--1290348	10	3.8	10	86	6	51	61	0	0	38	0.96
1290374--1290398	13	1.9	13	100	0	50	48	0	0	52	1.00
1290764--1290828	11	6.1	11	82	10	82	30	0	1	67	1.00
1291085--1291114	13	2.4	13	94	5	53	40	6	13	40	1.71
1291165--1291241	32	2.3	34	80	14	90	42	0	2	54	1.14
1291777--1291843	20	3.1	21	78	8	64	49	0	0	50	1.00
1292298--1292359	23	2.6	22	80	17	63	46	1	1	50	1.20
1292319--1292376	21	2.8	20	78	16	57	46	0	0	53	1.00
1292747--1292829	33	2.6	32	76	16	82	48	2	0	49	1.14
1292757--1292829	33	2.2	33	82	7	85	50	2	0	46	1.15
1293822--1293881	31	1.9	32	86	3	86	6	33	0	60	1.23
1295694--1295737	22	2.0	22	86	0	61	27	2	9	61	1.38
1296220--1296261	21	2.1	20	82	8	50	54	0	0	45	0.99
1296230--1296300	31	2.4	31	88	9	103	49	0	0	50	1.00
1296235--1296296	30	2.1	30	85	8	83	50	0	0	50	1.00
1296572--1296637	23	2.9	22	69	10	53	46	0	1	51	1.10
1296623--1296697	23	3.3	22	75	10	71	52	0	0	48	1.00
1296623--1296697	12	6.6	11	74	7	62	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296807--1296847	20	2.0	21	85	4	57	43	0	0	56	0.99
1296819--1296864	20	2.3	21	81	11	60	45	0	0	54	0.99
1297284--1297327	23	1.9	23	85	0	61	45	0	0	54	0.99
1297870--1297911	11	3.8	12	81	15	54	50	4	0	45	1.23
1297867--1297911	22	2.0	22	87	8	65	51	4	0	44	1.21
1298200--1298243	17	2.7	16	80	13	54	45	0	0	54	0.99
1298223--1298261	20	2.0	20	89	0	60	51	0	0	48	1.00
1298785--1298822	2	20.0	2	86	10	53	52	0	0	47	1.00
1299536--1299573	2	19.5	2	94	5	69	50	0	0	50	1.00
1301769--1301810	22	1.9	22	90	9	68	59	0	0	40	0.97
1301769--1301824	23	2.5	23	80	8	62	53	0	0	46	1.00
1301951--1301991	17	2.4	18	80	8	50	63	26	0	9	1.25
1304839--1304892	18	3.1	17	75	17	56	48	0	0	51	1.00
1304838--1304913	35	2.2	35	80	4	91	51	0	0	48	1.00
1304901--1304945	23	2.0	24	86	8	67	55	8	4	31	1.51
1305693--1305767	22	3.3	22	88	3	96	37	16	10	36	1.83
1309242--1309296	17	3.1	17	75	14	56	61	3	3	30	1.30
1310706--1310868	81	2.0	81	95	0	290	33	13	25	27	1.93
1314006--1314044	19	2.1	19	100	0	78	53	20	10	15	1.70
1318715--1318774	20	3.1	18	73	19	57	53	1	0	45	1.10
1319305--1319344	21	1.9	21	85	10	55	50	0	0	50	1.00
1320449--1320486	18	2.1	18	90	5	58	84	2	5	7	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320945--1320986	14	2.9	14	77	16	50	50	0	2	47	1.14
1325244--1325278	18	1.9	18	88	0	52	40	2	2	54	1.30
1326904--1326990	20	4.4	19	66	24	54	47	0	0	52	1.00
1326901--1326994	32	3.1	30	72	14	86	46	0	0	53	1.00
1326923--1326974	11	4.5	11	79	9	59	48	0	0	51	1.00
1327112--1327136	4	6.2	4	100	0	50	24	0	0	76	0.80
1354917--1354977	5	11.6	5	83	10	52	50	0	0	49	1.00
1354917--1354981	24	2.7	25	74	13	64	52	0	0	47	1.00
1354917--1354977	19	2.9	20	83	11	70	50	0	0	49	1.00
1354937--1354986	24	2.1	23	85	14	66	58	0	0	42	0.98

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