genome.fa.s312.2.7.7.80.10.50.1000.9.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: Scaffold312
Parameters: 2 7 7 80 10 50 1000
Length:  1822960

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

This is table  9  of  12  ( 1415 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)
1300723--1300748	13	2.0	13	100	0	52	30	15	15	38	1.88
1303084--1303214	51	2.6	51	88	2	201	29	28	12	29	1.93
1303199--1303270	25	2.7	25	82	17	92	20	31	19	27	1.97
1315694--1315772	11	7.3	11	80	12	92	87	10	1	1	0.66
1315694--1315777	28	3.2	26	83	13	100	86	10	1	1	0.67
1315696--1315781	21	4.1	21	80	11	97	86	11	1	1	0.70
1315694--1315787	1	94.0	1	73	0	71	86	10	2	1	0.72
1316784--1318346	61	26.8	59	86	6	1843	25	29	21	23	1.99
1316784--1318346	116	13.4	115	81	11	1714	25	29	21	23	1.99
1317514--1317597	26	3.2	26	64	12	71	26	30	21	21	1.98
1319150--1319207	19	2.9	19	73	14	55	41	12	17	29	1.85
1319177--1319249	32	2.3	32	95	0	128	34	10	17	36	1.85
1319179--1319241	19	3.7	18	76	24	73	33	11	17	38	1.85
1319266--1319307	21	2.0	21	90	0	66	45	7	16	30	1.74
1321674--1321793	51	2.4	51	82	2	152	30	25	12	30	1.93
1323505--1323723	33	6.7	32	82	4	215	22	17	27	31	1.97
1323513--1323724	66	3.2	64	83	5	246	22	16	28	32	1.96
1323729--1324987	32	41.7	30	71	15	296	35	13	28	22	1.92
1323790--1323842	27	2.0	26	85	10	72	33	15	28	22	1.94
1323729--1324992	92	14.0	88	71	14	324	35	13	28	22	1.92
1324010--1324153	31	4.7	31	84	5	177	26	17	31	24	1.97
1324010--1324161	61	2.5	62	80	8	168	29	16	30	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324192--1324804	27	21.2	27	72	14	209	35	12	27	23	1.91
1324177--1324439	140	1.9	140	86	1	375	33	13	28	23	1.93
1324225--1324437	113	1.9	113	81	3	259	32	14	29	23	1.94
1324463--1324997	93	5.7	95	76	10	352	38	12	27	21	1.89
1324443--1324997	218	2.5	216	81	4	650	38	12	27	21	1.90
1324573--1324991	65	6.8	59	76	12	256	38	12	27	21	1.90
1324869--1324928	27	2.2	27	84	0	75	35	15	30	20	1.93
1324837--1324961	59	2.1	59	86	4	171	39	14	28	18	1.90
1324697--1325009	155	2.0	160	86	6	451	37	13	28	20	1.90
1324463--1325004	32	17.3	32	75	11	460	38	12	27	21	1.89
1324969--1325057	44	2.0	44	82	6	108	32	17	31	17	1.94
1325112--1325204	28	3.2	29	80	10	118	34	16	23	25	1.95
1325911--1325969	29	2.1	28	81	9	68	37	8	20	33	1.83
1328689--1328720	6	5.3	6	100	0	64	18	0	0	81	0.70
1329418--1329456	20	2.0	20	84	0	51	56	7	17	17	1.64
1329589--1329616	2	14.0	2	100	0	56	50	0	0	50	1.00
1329715--1329809	30	3.2	30	89	0	145	8	20	29	42	1.81
1330106--1330138	16	2.1	16	94	0	57	15	24	21	39	1.91
1330363--1330410	14	3.3	14	80	11	51	20	0	2	77	0.88
1330378--1330425	20	2.3	20	82	3	60	22	4	2	70	1.15
1330928--1331426	42	11.8	42	75	5	414	37	19	27	15	1.92
1330928--1331528	42	14.1	43	74	6	393	37	18	26	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330928--1331528	85	7.1	85	74	7	461	37	18	26	16	1.92
1330898--1331591	128	5.4	128	82	4	685	37	18	26	17	1.92
1331879--1331933	21	2.6	22	75	18	62	16	10	9	63	1.51
1344046--1344150	20	4.7	20	75	22	102	28	19	11	40	1.86
1348775--1348824	22	2.2	23	86	10	68	8	16	18	58	1.62
1348964--1349017	22	2.5	22	81	0	63	12	14	27	44	1.82
1348996--1349074	30	2.6	30	89	0	122	8	18	31	40	1.82
1356684--1356785	21	4.9	20	73	16	84	39	12	0	48	1.42
1356684--1356797	43	2.7	41	81	10	142	41	12	0	46	1.41
1360102--1360150	21	2.5	20	81	15	57	42	0	0	57	0.99
1360093--1360153	24	2.7	23	82	12	65	42	0	0	57	0.98
1361208--1361233	2	13.0	2	100	0	52	0	50	0	50	1.00
1361682--1361790	34	3.2	34	89	3	150	14	26	10	48	1.75
1363142--1363217	38	2.0	38	94	0	134	42	10	9	38	1.71
1364784--1365036	58	4.3	58	74	4	143	47	11	13	27	1.77
1364827--1365036	58	3.6	58	77	2	206	48	10	13	28	1.74
1371043--1371082	21	1.9	21	84	0	53	40	2	5	52	1.37
1371054--1371099	21	2.2	21	88	7	67	36	0	2	60	1.09
1372754--1372800	11	4.5	11	76	17	55	44	0	0	55	0.99
1372764--1372804	20	2.1	20	95	4	75	41	0	0	58	0.98
1373071--1373102	15	2.1	15	94	5	55	68	0	0	31	0.90
1373518--1373623	53	2.0	53	96	0	194	33	5	10	50	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374647--1374717	34	2.1	34	92	5	119	47	7	11	33	1.66
1374702--1374851	81	1.9	81	91	0	246	38	10	18	32	1.84
1374783--1374980	103	1.9	103	92	0	333	40	14	15	30	1.86
1376125--1376150	13	2.0	13	100	0	52	30	0	15	53	1.42
1379669--1379877	87	2.4	87	91	0	337	9	22	13	55	1.66
1379729--1379867	43	3.2	42	66	9	118	8	20	15	54	1.67
1380063--1380255	14	14.9	14	67	20	66	42	8	21	26	1.82
1380082--1380152	25	2.8	25	77	8	90	43	7	21	28	1.78
1380020--1380231	114	1.8	115	94	2	381	41	8	21	28	1.83
1380024--1380255	114	2.0	113	88	4	338	42	8	21	27	1.82
1380322--1380361	3	13.3	3	94	0	71	30	0	0	70	0.88
1380320--1380385	9	7.4	9	81	8	64	27	0	0	72	0.85
1380726--1380757	17	2.0	17	88	11	50	62	12	21	3	1.43
1380833--1381480	42	15.4	42	77	6	542	36	18	29	15	1.92
1380840--1381490	127	5.1	127	82	3	681	37	18	29	14	1.91
1380833--1381490	85	7.8	83	79	4	527	36	18	29	15	1.91
1384573--1384701	52	2.5	52	90	0	213	29	17	17	36	1.92
1384710--1384734	13	1.9	13	100	0	50	36	16	16	32	1.90
1384777--1384874	19	5.8	18	69	28	81	37	17	11	33	1.85
1384772--1384872	32	3.1	32	95	1	175	36	17	10	34	1.85
1384796--1384852	13	3.9	13	74	24	51	35	17	12	35	1.87
1385100--1385196	42	2.3	43	87	7	137	35	16	32	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386455--1386555	19	6.0	18	70	26	87	37	11	14	35	1.83
1386458--1386552	32	3.0	32	96	0	172	36	12	15	34	1.86
1386477--1386533	13	3.9	13	76	24	60	36	14	15	33	1.88
1386575--1386641	34	2.0	33	85	2	89	28	14	11	44	1.81
1388985--1389369	52	7.4	51	72	9	267	29	26	13	30	1.94
1389090--1389163	27	2.7	28	85	2	96	24	35	20	20	1.96
1401839--1401875	13	2.8	13	87	4	56	89	8	2	0	0.58
1401831--1401884	13	4.1	12	77	17	54	87	5	7	0	0.68
1403531--1403588	21	2.8	21	81	5	73	36	15	15	32	1.89
1403623--1403723	19	6.0	18	69	26	78	37	11	13	36	1.82
1403626--1403720	32	3.0	32	95	0	163	36	12	14	35	1.85
1403645--1403701	13	3.9	13	76	24	60	36	14	15	33	1.88
1403763--1403788	13	2.0	13	100	0	52	30	15	15	38	1.88
1403743--1403809	34	2.0	33	88	2	98	26	16	11	44	1.82
1406150--1406275	52	2.4	52	80	3	148	31	24	13	30	1.93
1406313--1406534	52	4.3	52	78	2	135	30	25	12	31	1.93
1406360--1406534	52	3.4	51	77	7	183	30	25	12	31	1.92
1406522--1406596	28	2.7	28	85	4	89	22	34	18	24	1.96
1418585--1418614	2	15.0	2	100	0	60	50	0	0	50	1.00
1420418--1420622	85	2.4	86	93	2	340	9	20	13	56	1.64
1420809--1420846	14	2.8	14	92	4	60	50	7	21	21	1.74
1420828--1420898	25	2.8	25	77	8	90	43	7	21	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420766--1420976	114	1.8	115	91	2	352	42	9	20	27	1.83
1420877--1421000	43	2.8	43	73	10	117	45	10	19	24	1.81
1421093--1421136	21	2.2	20	84	12	54	22	0	2	75	0.92
1423895--1424042	79	1.9	79	81	5	183	33	14	25	26	1.95
1423974--1424092	51	2.3	51	85	2	159	33	14	25	26	1.94
1424026--1424327	79	3.8	79	81	4	333	31	15	25	27	1.95
1423894--1424170	130	2.1	130	78	5	292	32	14	25	27	1.95
1424268--1424384	51	2.3	51	86	4	166	29	11	29	29	1.92
1426820--1426873	21	2.7	20	77	8	65	38	14	12	33	1.85
1430032--1430062	14	2.1	15	94	5	55	38	6	6	48	1.55

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