genome.fa.s103.2.7.7.80.10.50.1000.12.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  12  of  21  ( 2458 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)
1242719--1242783	34	1.9	34	84	12	89	44	0	1	53	1.09
1242783--1242847	26	2.4	29	82	10	75	55	1	1	41	1.18
1242790--1242847	28	2.2	25	84	12	71	56	1	1	39	1.19
1243884--1243910	2	13.5	2	100	0	54	51	0	0	48	1.00
1244798--1244831	2	17.5	2	93	6	61	50	0	0	50	1.00
1244973--1245017	22	2.0	22	83	8	56	22	0	11	66	1.22
1245827--1245889	15	4.1	15	79	2	63	42	0	6	50	1.27
1251405--1251447	17	2.7	15	80	16	50	60	2	0	37	1.10
1252210--1252257	15	3.2	15	85	8	62	16	4	0	79	0.89
1252210--1252257	7	6.4	7	79	11	51	16	4	0	79	0.89
1252438--1252502	2	32.5	2	90	0	76	40	0	9	50	1.34
1252960--1252992	2	16.5	2	100	0	66	51	0	0	48	1.00
1252965--1253108	75	1.9	76	85	7	204	52	2	1	43	1.21
1253067--1253111	15	3.0	14	81	15	54	62	0	2	35	1.08
1253074--1253111	15	2.5	15	91	4	58	65	0	0	34	0.93
1255654--1255699	19	2.3	20	82	14	60	39	0	2	58	1.10
1257079--1257167	25	3.6	25	74	10	69	42	1	0	56	1.06
1257081--1257161	15	5.9	14	80	13	89	39	1	0	59	1.05
1257042--1257128	13	6.8	13	69	7	63	45	2	0	51	1.13
1258754--1258791	11	3.9	10	80	19	53	63	0	0	36	0.95
1258754--1258791	19	2.1	18	90	5	58	63	0	0	36	0.95
1258994--1259026	15	2.1	16	88	5	50	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258985--1259052	10	6.9	10	72	24	56	33	0	0	66	0.92
1259000--1259067	22	3.1	22	79	8	68	32	0	2	64	1.08
1260067--1260103	2	18.5	2	100	0	74	51	0	0	48	1.00
1260491--1260589	33	3.0	33	84	10	107	56	1	1	41	1.13
1260621--1260649	2	14.5	2	100	0	58	48	0	0	51	1.00
1260984--1261026	22	2.0	22	85	0	59	11	9	6	72	1.29
1261006--1261042	17	2.2	17	90	0	56	13	10	5	70	1.32
1261281--1261310	2	15.0	2	100	0	60	50	0	0	50	1.00
1261612--1261679	9	8.1	9	71	15	56	39	1	0	58	1.07
1261614--1261674	16	3.5	16	72	14	50	39	1	0	59	1.08
1263387--1263426	20	2.0	20	85	9	55	60	5	0	35	1.19
1263652--1263701	24	2.1	24	84	0	64	30	4	4	62	1.32
1263884--1263941	21	2.9	19	82	5	62	41	3	5	50	1.42
1263898--1263941	20	2.3	19	80	7	52	38	2	4	54	1.33
1264228--1264269	2	21.0	2	95	0	75	47	0	2	50	1.14
1264319--1264430	46	2.4	46	79	5	111	38	0	0	61	0.96
1264397--1264426	14	2.2	13	94	5	51	33	0	0	66	0.92
1264347--1264442	46	2.1	45	83	7	115	40	0	0	59	0.97
1264419--1264475	20	2.8	21	84	10	73	56	0	0	43	0.99
1265455--1265502	3	16.0	3	77	0	51	29	35	0	35	1.58
1274043--1274095	24	2.2	24	83	3	63	41	0	0	58	0.98
1277130--1277164	18	1.9	18	88	0	52	22	8	54	14	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277927--1277968	21	2.0	21	100	0	84	28	19	14	38	1.90
1279927--1279984	13	4.2	14	72	18	50	48	0	0	51	1.00
1281645--1281835	65	2.9	63	86	5	265	37	17	12	32	1.87
1282883--1282917	11	3.4	11	84	15	56	65	0	0	34	0.93
1282883--1282923	20	2.1	19	95	4	73	65	0	0	34	0.93
1282931--1282977	19	2.6	18	86	3	58	27	6	0	65	1.16
1283967--1283991	13	1.9	13	100	0	50	36	0	0	64	0.94
1286348--1286399	26	2.0	26	85	7	70	48	0	0	51	1.00
1286329--1286383	21	2.6	22	73	23	55	43	0	0	56	0.99
1286358--1286413	26	2.2	26	81	9	62	51	1	0	46	1.11
1286388--1286438	13	4.0	13	85	7	61	62	3	0	33	1.13
1287586--1287627	15	2.8	16	80	20	54	30	9	0	59	1.29
1288008--1288059	20	2.5	21	81	12	63	65	1	0	32	1.04
1296056--1296107	2	26.5	2	84	3	52	50	9	0	40	1.35
1296282--1296327	15	3.1	15	75	12	51	65	2	0	32	1.05
1296584--1296662	22	3.4	25	74	20	73	48	1	0	50	1.08
1296597--1296644	16	3.0	16	79	8	53	45	0	0	54	0.99
1296599--1296662	26	2.6	22	79	13	65	45	1	0	53	1.10
1300017--1300281	89	3.0	90	86	2	363	30	16	14	38	1.88
1301676--1301715	18	2.2	18	86	8	55	42	0	10	47	1.37
1306992--1307047	26	2.1	27	83	9	71	39	1	0	58	1.08
1307011--1307047	13	2.7	14	84	16	51	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307098--1307183	21	4.2	21	80	4	95	39	4	0	55	1.20
1307137--1307195	21	2.7	21	82	10	66	38	6	0	54	1.27
1307368--1307419	14	3.7	14	75	10	52	50	0	1	48	1.12
1310711--1310832	61	2.0	61	100	0	244	29	14	19	36	1.92
1321196--1321457	134	2.0	134	89	1	400	43	15	16	25	1.87
1321575--1321861	142	2.0	144	85	6	388	39	20	14	25	1.91
1326333--1326399	30	2.2	32	86	5	93	55	1	1	41	1.18
1326415--1326465	17	2.9	18	76	5	50	50	3	3	41	1.39
1330095--1330160	34	1.9	34	84	6	89	39	7	13	39	1.73
1330994--1331042	25	2.0	25	84	7	66	55	0	0	44	0.99
1331708--1331736	2	14.5	2	100	0	58	48	0	0	51	1.00
1333923--1333948	2	13.0	2	100	0	52	50	0	0	50	1.00
1336423--1336469	23	2.0	23	100	0	94	34	17	8	40	1.79
1338511--1338556	22	2.1	22	84	8	58	56	0	0	43	0.99
1339026--1339055	3	10.0	3	100	0	60	66	0	33	0	0.92
1339335--1339392	26	2.3	26	88	8	84	53	0	0	46	1.00
1343819--1343852	17	2.0	17	88	0	50	64	0	0	35	0.94
1343944--1343974	2	15.5	2	100	0	62	48	0	0	51	1.00
1344150--1344178	14	2.0	15	93	6	51	41	0	3	55	1.17
1344181--1344236	5	11.2	5	77	7	60	58	0	0	41	0.98
1344625--1344672	16	3.0	16	75	19	55	50	0	0	50	1.00
1344589--1344681	27	3.2	27	67	20	62	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344690--1344768	5	14.5	6	75	13	66	31	0	0	68	0.90
1344690--1344729	11	3.6	11	83	12	55	30	0	0	70	0.88
1344687--1344795	10	11.1	10	65	21	52	33	0	0	65	1.05
1344677--1344775	22	4.4	22	71	15	67	31	1	1	66	1.05
1346280--1346594	172	1.8	174	92	1	535	29	11	18	40	1.86
1348133--1348172	18	2.2	18	86	0	53	37	2	10	50	1.50
1353523--1353556	17	2.0	17	100	0	68	35	5	17	41	1.74
1353763--1353823	7	8.4	8	72	18	53	37	0	0	62	0.96
1353770--1353827	23	2.7	22	73	19	59	41	0	0	58	0.98
1353763--1353823	15	4.2	15	75	10	56	37	0	0	62	0.96
1355110--1355148	20	2.0	19	90	5	60	51	0	0	48	1.00
1355166--1355206	21	1.9	21	85	5	55	53	12	4	29	1.58
1355285--1355322	19	2.0	19	85	10	51	73	2	0	23	0.95
1358338--1358365	3	9.3	3	100	0	56	35	32	0	32	1.58
1358509--1358549	20	2.0	20	85	0	55	68	9	2	19	1.29
1360950--1360979	3	10.0	3	100	0	60	66	0	0	33	0.92
1361747--1361777	3	10.3	3	92	0	53	67	3	0	29	1.06
1363543--1363584	16	2.6	16	88	11	59	0	38	0	61	0.96
1365871--1365913	21	2.0	21	100	0	86	23	18	20	37	1.94
1374185--1374272	43	2.0	43	100	0	176	27	25	9	38	1.86
1385751--1385799	7	7.4	7	82	13	59	28	16	14	40	1.87
1385751--1385798	25	1.9	25	95	0	87	29	16	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390777--1390801	9	2.8	9	100	0	50	24	32	8	36	1.84
1391970--1392045	2	38.0	2	100	0	152	0	50	0	50	1.00
1400019--1400084	24	2.7	26	75	15	68	48	4	0	46	1.22
1400256--1400294	19	2.0	21	85	10	55	56	10	2	30	1.46
1400768--1400817	27	1.9	26	84	15	68	62	0	0	38	0.96
1406395--1406427	11	3.2	11	87	12	52	48	0	0	51	1.00
1406416--1406465	15	3.3	15	78	13	57	50	0	0	50	1.00
1406402--1406480	30	2.5	31	78	17	92	48	0	0	51	1.00
1407660--1407686	3	9.0	3	100	0	54	66	0	0	33	0.92
1407659--1407709	18	2.8	18	79	8	50	54	0	1	43	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21