genome.fa.s30.2.7.7.80.10.50.1000.9.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: Scaffold30
Parameters: 2 7 7 80 10 50 1000
Length:  2650045

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

This is table  9  of  17  ( 1999 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)
1302177--1302295	52	2.3	52	95	0	220	26	16	18	37	1.92
1302859--1303188	43	7.0	48	77	13	330	32	16	25	25	1.96
1302868--1303190	92	3.5	92	92	1	511	31	17	25	25	1.97
1303204--1303539	29	11.5	29	85	5	399	22	16	30	30	1.96
1303252--1303535	59	4.8	59	94	0	496	22	17	30	28	1.97
1304980--1305046	8	7.9	9	77	14	54	0	2	14	82	0.79
1304991--1305086	25	3.8	25	75	17	83	1	6	10	82	0.89
1304986--1305087	35	2.9	34	80	12	107	0	5	11	81	0.91
1304977--1305084	44	2.4	43	82	16	114	0	5	12	81	0.90
1304987--1305084	34	2.8	35	83	4	101	1	6	11	81	0.91
1305461--1305536	37	2.1	37	97	0	143	30	21	18	30	1.97
1305627--1305843	2	118.5	2	73	20	145	45	2	2	49	1.27
1305617--1305843	7	31.9	7	70	16	78	46	2	2	48	1.28
1306598--1306842	134	1.8	134	87	0	364	41	18	16	23	1.90
1306876--1306915	18	2.2	18	91	8	64	57	7	22	12	1.60
1307276--1307300	13	1.9	13	100	0	50	20	0	0	80	0.72
1308814--1308866	8	6.8	8	78	20	58	71	0	1	26	0.96
1308823--1308860	11	3.4	11	82	17	51	71	0	2	26	1.00
1308880--1308904	13	1.9	13	100	0	50	68	0	8	24	1.16
1312084--1312170	22	4.0	22	80	7	90	64	11	20	3	1.41
1312594--1312647	21	2.6	21	94	5	92	29	1	29	38	1.68
1313276--1313852	156	3.7	155	83	4	691	23	16	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313247--1313852	157	3.9	156	83	4	706	23	16	21	38	1.93
1317870--1317903	16	2.2	16	89	5	52	64	0	8	26	1.22
1318044--1318088	21	2.1	21	84	8	56	53	4	20	22	1.63
1319892--1319922	15	2.1	15	93	0	53	48	16	22	12	1.80
1321993--1322018	13	2.0	13	100	0	52	30	15	15	38	1.88
1323865--1323962	48	2.0	49	94	2	171	37	9	22	30	1.85
1330796--1330830	17	2.1	17	100	0	70	28	20	28	22	1.98
1331742--1331909	52	3.2	52	100	0	336	30	19	20	29	1.97
1331898--1331922	13	1.9	13	100	0	50	36	16	16	32	1.90
1331969--1332030	19	3.6	19	73	24	73	40	17	11	30	1.85
1331985--1332009	13	1.9	13	100	0	50	32	16	16	36	1.90
1331964--1332028	32	2.0	32	93	0	112	36	16	13	32	1.89
1335201--1335242	14	3.1	14	82	6	59	47	0	4	47	1.23
1335201--1335241	13	3.1	13	85	3	55	46	0	4	48	1.23
1337250--1337314	29	2.2	29	97	0	121	29	16	3	50	1.60
1342219--1342339	30	4.0	30	84	4	145	28	33	13	25	1.93
1342219--1342339	60	2.0	60	85	0	161	28	33	13	25	1.93
1342386--1342623	62	3.8	62	77	2	244	26	23	16	33	1.96
1342583--1342703	36	3.3	37	77	7	140	23	23	10	42	1.85
1342380--1342618	124	1.9	124	82	5	293	28	23	16	31	1.96
1345096--1345210	30	3.8	31	82	4	130	26	28	14	29	1.95
1345101--1345229	29	4.3	29	85	2	150	28	28	13	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345098--1345254	29	5.3	29	80	4	129	28	26	14	31	1.94
1345245--1345484	62	3.9	61	78	4	239	26	19	17	36	1.94
1345528--1345815	62	4.6	62	83	1	333	26	23	15	34	1.94
1345807--1345876	37	1.9	37	82	2	88	24	27	12	35	1.92
1346065--1346138	29	2.5	30	84	2	96	27	27	17	28	1.98
1346065--1346147	29	2.8	28	80	8	85	27	26	15	30	1.96
1346141--1346356	62	3.4	61	85	5	263	27	19	17	35	1.94
1346322--1346515	37	5.3	36	77	5	210	21	21	15	41	1.89
1346322--1346515	36	5.3	36	77	5	201	21	21	15	41	1.89
1346322--1346515	73	2.7	73	85	4	257	21	21	15	41	1.89
1345521--1346683	620	1.9	609	84	6	1567	25	23	15	34	1.95
1350203--1350467	81	3.2	81	81	8	279	30	28	9	31	1.88
1355986--1356038	22	2.4	22	84	6	63	35	1	3	58	1.27
1357855--1357912	17	3.5	16	77	15	64	41	0	0	58	0.98
1357860--1357915	28	2.0	27	86	10	78	42	0	0	57	0.99
1359817--1359847	3	10.7	3	93	6	55	32	0	0	67	0.91
1360055--1360088	6	5.7	6	86	13	52	29	14	2	52	1.56
1363704--1363853	79	1.9	81	81	10	184	46	4	2	46	1.35
1363843--1363893	6	8.3	6	77	12	50	54	0	0	45	0.99
1363849--1363979	26	4.9	27	72	14	85	54	1	0	44	1.09
1363913--1363975	25	2.5	26	82	10	76	52	1	0	46	1.10
1364001--1364050	14	3.5	15	74	17	52	46	2	0	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363894--1364085	104	1.8	104	81	10	239	48	3	0	47	1.21
1364153--1364209	17	3.1	17	79	20	62	43	1	1	52	1.21
1364237--1364275	18	2.2	18	85	0	51	48	2	0	48	1.15
1367027--1367064	18	2.1	18	90	0	58	42	0	21	36	1.53
1376999--1377053	20	2.8	20	83	5	67	32	14	12	40	1.84
1385696--1385996	152	2.0	152	97	0	566	32	19	19	28	1.96
1391130--1391192	20	3.0	20	82	17	83	85	11	1	1	0.73
1391130--1391192	10	5.8	11	78	14	69	85	11	1	1	0.73
1391131--1391178	25	1.9	25	91	8	80	89	8	2	0	0.56
1391131--1391179	1	49.0	1	79	0	53	89	8	2	0	0.55
1392604--1392758	28	5.5	28	87	9	185	32	31	16	18	1.94
1392599--1392717	29	4.2	28	90	9	181	30	32	16	20	1.95
1392599--1392758	57	2.8	55	85	11	184	32	32	16	18	1.93
1392775--1393011	49	4.9	49	80	7	252	25	24	17	32	1.97
1392828--1393010	101	1.8	101	86	0	267	25	24	18	32	1.97
1392823--1393047	101	2.2	101	80	1	236	25	25	16	32	1.96
1393946--1393973	13	2.2	13	100	0	56	28	14	17	39	1.89
1400771--1400815	18	2.5	18	100	0	90	46	15	15	22	1.83
1400771--1400814	9	4.9	9	82	17	56	45	15	15	22	1.85
1402652--1402952	152	2.0	152	97	0	566	32	19	19	28	1.96
1408088--1408149	10	5.7	11	77	14	67	87	9	1	1	0.69
1408087--1408135	25	2.0	25	92	8	82	89	8	2	0	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408087--1408136	1	50.0	1	79	0	55	90	8	2	0	0.54
1409561--1409715	28	5.5	28	87	9	185	32	31	16	18	1.94
1409556--1409674	29	4.2	28	90	9	181	30	32	16	20	1.95
1409556--1409715	57	2.8	55	85	11	184	32	32	16	18	1.93
1409732--1409968	49	4.9	49	80	7	252	25	24	17	32	1.97
1409785--1409967	101	1.8	101	86	0	267	25	24	18	32	1.97
1409780--1410004	101	2.2	101	80	1	236	25	25	16	32	1.96
1410904--1410931	13	2.2	13	100	0	56	28	14	17	39	1.89
1417924--1417966	21	2.0	21	86	0	59	25	32	0	41	1.56
1418209--1418247	15	2.6	16	84	12	55	28	2	30	38	1.70
1418347--1418372	6	4.3	6	100	0	52	50	0	30	19	1.48
1546208--1546555	52	6.6	51	71	13	215	33	13	24	28	1.93
1546378--1546450	27	2.7	26	83	10	85	24	23	30	21	1.99
1552475--1553107	165	3.8	165	83	6	802	29	11	8	50	1.66
1552491--1553251	328	2.3	327	82	5	797	29	10	8	50	1.67
1554052--1554368	155	2.1	155	79	5	338	21	15	21	40	1.91
1559147--1559267	52	2.3	52	95	2	217	28	18	19	34	1.95
1559147--1559287	52	2.7	51	86	10	205	29	17	19	33	1.95
1559276--1559300	13	1.9	13	100	0	50	36	16	16	32	1.90
1559365--1559389	13	1.9	13	100	0	50	32	16	16	36	1.90
1559343--1559409	33	2.0	33	88	0	98	40	13	11	34	1.81
1559991--1560554	226	2.5	226	95	1	979	36	13	26	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560605--1560738	43	2.9	45	86	8	191	31	18	23	26	1.98
1560562--1560748	49	3.9	49	82	10	233	33	17	23	26	1.96
1560561--1560738	92	1.9	94	93	3	306	32	17	23	25	1.97
1560751--1561293	52	11.0	51	78	12	566	32	16	25	25	1.96
1560424--1561007	266	2.2	266	96	0	1069	34	15	24	24	1.95
1560871--1561293	43	8.9	43	76	17	387	30	17	26	25	1.97
1560827--1561293	95	4.9	95	92	4	769	31	17	25	25	1.97
1561360--1562079	71	10.5	69	83	9	776	32	12	34	20	1.90
1561360--1562080	34	21.1	34	79	11	717	32	12	34	20	1.90
1561365--1562079	141	5.2	138	83	11	786	32	12	34	20	1.90

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