genome.fa.s163.2.7.7.80.10.50.1000.10.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

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

This is table  10  of  13  ( 1505 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)
1278209--1278270	28	2.3	27	78	18	74	54	0	0	45	0.99
1278206--1278256	19	2.6	20	81	9	61	56	0	0	43	0.99
1278702--1278743	17	2.4	17	84	4	57	42	0	2	54	1.13
1278710--1278798	29	3.1	29	80	12	103	39	1	3	56	1.23
1278750--1278801	15	3.6	14	75	15	52	32	1	3	61	1.25
1280411--1280467	18	3.2	18	70	9	53	56	1	1	40	1.20
1280411--1280472	22	2.7	23	75	20	67	53	1	1	43	1.20
1280455--1280513	9	7.0	9	77	14	63	40	0	1	57	1.09
1280455--1280536	41	2.0	42	88	7	123	37	0	1	60	1.04
1281096--1281141	3	15.7	3	95	4	85	69	0	0	30	0.89
1281187--1281251	32	2.0	32	96	0	121	35	10	21	32	1.88
1281403--1281432	2	15.0	2	100	0	60	50	0	0	50	1.00
1282290--1282323	18	1.9	18	88	5	52	64	0	0	35	0.94
1282538--1282582	22	2.0	22	83	8	56	26	0	0	73	0.84
1282534--1282584	19	2.7	19	80	14	61	29	0	0	70	0.87
1282702--1282762	32	1.9	32	86	0	86	55	0	0	44	0.99
1283210--1283261	22	2.3	23	80	6	63	48	0	0	51	1.00
1283700--1284029	162	2.0	162	93	0	561	40	14	27	16	1.88
1287350--1287423	5	15.4	5	74	13	66	33	0	0	66	0.92
1287350--1287403	18	2.9	19	91	5	92	29	0	0	70	0.88
1287341--1287457	24	4.8	25	74	18	88	34	0	0	64	0.99
1287341--1287457	30	3.8	30	73	15	105	34	0	0	64	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287339--1287459	19	6.5	19	73	12	74	35	0	0	63	1.00
1287586--1287636	12	4.5	11	80	9	66	49	0	1	49	1.12
1288024--1288069	16	2.9	16	81	12	51	58	0	2	39	1.10
1289512--1289573	21	3.0	21	77	13	67	59	0	0	40	0.97
1289928--1289999	5	13.4	5	72	18	56	63	0	0	36	0.94
1289927--1290001	11	7.4	11	74	19	74	64	0	0	36	0.94
1289952--1290022	27	2.5	28	80	13	83	60	0	1	38	1.06
1290195--1290235	14	3.1	14	80	16	52	63	0	0	36	0.95
1290771--1290810	19	2.2	18	86	4	53	62	2	2	32	1.22
1291503--1291536	16	2.1	17	88	5	52	61	2	0	35	1.11
1292671--1292763	48	2.0	47	87	6	134	35	7	8	48	1.62
1293212--1293252	16	2.7	16	77	7	50	46	0	0	53	1.00
1294371--1294417	22	2.2	22	85	11	62	63	0	0	36	0.94
1294359--1294417	23	2.5	23	84	13	68	62	0	1	35	1.05
1294902--1294944	14	3.2	14	77	12	54	67	2	0	30	1.03
1295025--1295079	4	14.8	4	81	11	64	0	23	0	76	0.79
1295026--1295082	22	2.6	22	83	5	71	0	24	0	75	0.80
1295025--1295079	26	2.1	26	96	0	101	0	23	0	76	0.79
1295036--1295091	26	2.2	26	80	6	60	3	26	0	69	1.04
1295721--1295761	20	2.0	21	85	4	57	17	2	17	63	1.42
1295751--1295819	36	1.9	36	82	5	86	40	4	4	50	1.42
1296357--1296394	16	2.4	16	86	4	60	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296617--1296676	20	2.9	21	75	9	61	56	6	3	33	1.42
1296636--1296715	37	2.2	37	82	8	92	60	3	3	32	1.32
1296708--1296755	21	2.3	20	82	3	60	60	0	0	39	0.97
1296909--1296997	14	6.3	14	69	18	51	59	0	0	40	0.97
1297002--1297057	24	2.5	23	86	11	80	67	1	0	30	1.01
1297006--1297061	11	5.0	11	78	18	62	66	1	0	32	1.03
1297054--1297095	22	2.0	21	90	4	66	59	0	7	33	1.25
1298041--1298087	25	2.0	25	87	8	71	4	19	0	76	0.95
1298446--1298520	29	2.6	29	83	6	82	72	0	2	25	0.98
1298472--1298512	21	2.0	21	90	0	64	68	0	2	29	1.03
1299904--1299959	21	2.7	21	81	13	62	60	0	0	39	0.97
1299917--1299959	22	2.0	22	90	4	70	58	0	0	41	0.98
1299901--1299976	26	3.1	26	74	18	72	64	1	0	34	1.02
1299977--1300010	15	2.4	14	85	9	50	2	8	2	85	0.80
1300105--1300140	12	2.9	12	87	4	54	55	0	13	30	1.39
1300105--1300135	6	5.2	6	92	0	53	54	0	12	32	1.38
1300304--1300357	7	7.7	7	83	8	74	79	0	0	20	0.73
1300458--1300540	41	2.0	41	80	4	94	56	0	1	42	1.07
1301685--1301751	19	3.5	21	78	11	56	55	1	0	43	1.09
1301694--1301755	19	3.2	19	80	15	74	59	0	0	40	0.97
1301727--1301769	14	3.1	14	80	9	52	65	0	0	34	0.93
1301729--1301770	22	2.0	22	90	4	68	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301939--1301980	10	3.9	11	79	17	52	50	0	0	50	1.00
1306426--1306452	13	2.1	13	100	0	54	7	7	25	59	1.51
1308631--1308752	14	8.7	14	67	23	62	37	0	1	60	1.07
1308634--1308727	15	6.3	15	71	16	79	36	0	2	61	1.08
1308638--1308693	21	2.7	21	76	13	53	39	0	3	57	1.16
1308602--1308725	31	4.1	30	73	20	91	37	0	2	60	1.10
1308608--1308753	29	5.0	28	70	21	88	38	0	1	60	1.06
1308670--1308742	38	1.9	38	83	5	94	35	0	0	64	0.94
1308682--1308753	31	2.3	32	77	18	80	36	0	0	63	0.94
1308640--1308753	29	4.0	29	75	19	98	36	0	1	61	1.07
1308678--1308758	28	3.0	28	77	12	73	37	0	0	62	0.95
1309791--1309834	11	4.1	11	82	5	54	56	0	0	43	0.99
1309809--1309885	24	3.0	24	74	18	75	59	1	0	38	1.06
1309859--1309892	17	2.0	17	100	0	68	70	0	0	29	0.87
1309929--1309971	22	2.0	22	90	9	70	65	0	0	34	0.93
1310098--1310133	2	18.0	2	100	0	72	50	0	0	50	1.00
1311454--1311510	17	3.6	16	72	15	55	36	0	0	63	0.95
1311454--1311503	17	3.1	17	88	5	68	40	0	0	60	0.97
1311438--1311501	20	3.4	19	74	12	60	37	0	0	62	0.95
1311461--1311503	16	2.7	16	86	10	61	39	0	0	60	0.97
1311476--1311536	14	4.1	15	75	14	56	49	0	0	50	1.00
1313418--1313451	15	2.4	14	85	5	50	61	2	0	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313662--1313694	3	11.0	3	100	0	66	66	0	0	33	0.92
1314175--1314269	28	3.2	30	70	19	83	51	1	1	46	1.15
1314739--1314789	16	3.2	16	74	20	61	43	0	3	52	1.19
1314738--1314787	17	3.1	17	78	21	70	42	0	4	54	1.19
1316996--1317039	21	2.0	21	86	4	61	77	0	2	20	0.88
1317057--1317120	33	1.9	33	90	0	101	51	1	3	43	1.26
1317180--1317231	22	2.4	22	90	0	77	42	0	0	57	0.98
1317696--1317757	26	2.3	26	79	17	74	40	0	1	58	1.08
1317696--1317759	27	2.4	28	82	15	82	40	0	1	57	1.08
1318000--1318025	2	13.0	2	100	0	52	50	0	0	50	1.00
1318103--1318138	2	18.0	2	100	0	72	50	0	0	50	1.00
1318305--1318344	19	2.2	18	90	4	62	35	7	0	57	1.27
1318305--1318469	8	20.1	8	66	26	62	36	2	0	60	1.14
1318297--1318374	28	2.9	27	79	7	86	35	3	1	58	1.24
1318355--1318483	19	6.8	19	65	21	56	37	1	0	59	1.12
1318350--1318479	62	2.1	61	79	14	144	38	1	0	59	1.12
1318423--1318456	11	3.1	11	84	16	52	26	0	0	73	0.83
1318417--1318466	22	2.3	22	83	10	68	30	0	0	70	0.88
1319463--1319529	11	5.7	11	73	13	62	46	1	7	44	1.40
1320266--1320303	17	2.3	17	81	4	51	44	0	2	52	1.14
1320507--1320558	19	2.5	22	79	11	58	48	0	0	51	1.00
1321929--1321954	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322214--1322255	16	2.6	17	81	11	52	40	0	2	57	1.12
1324900--1324960	22	2.7	24	77	12	65	49	0	0	50	1.00
1325474--1325518	23	2.0	23	86	4	65	55	2	0	42	1.12
1325472--1325527	22	2.7	21	75	17	55	53	1	0	44	1.11
1325683--1325722	2	20.0	2	100	0	80	50	0	0	50	1.00
1329057--1329106	24	2.0	24	84	7	64	40	4	4	52	1.39
1331164--1331218	25	2.2	26	83	3	67	12	5	7	74	1.20
1332932--1333105	75	2.4	75	76	13	191	32	0	10	56	1.34
1333162--1333191	15	2.0	15	93	0	51	76	0	23	0	0.78
1333252--1333315	30	2.1	30	94	0	110	21	34	26	17	1.95

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