genome.fa.s57.2.7.7.80.10.50.1000.10.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  10  of  27  ( 3137 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)
1166842--1166941	34	2.9	34	98	0	191	36	16	18	30	1.92
1172228--1172277	18	2.5	21	78	18	61	50	2	2	46	1.24
1173516--1173553	10	3.8	10	86	10	51	34	0	0	65	0.93
1173484--1173583	44	2.3	44	78	13	102	37	2	1	60	1.15
1173716--1173757	20	2.2	20	87	12	61	35	4	4	54	1.42
1177532--1177564	2	16.5	2	93	0	57	48	3	48	0	1.17
1183255--1183280	2	13.0	2	100	0	52	50	0	0	50	1.00
1183356--1183409	22	2.3	24	81	9	58	55	1	1	40	1.21
1183445--1183483	20	2.1	18	85	9	51	61	2	0	35	1.10
1187465--1187533	31	2.2	32	89	2	104	42	0	1	56	1.08
1187511--1187579	14	4.9	14	74	11	61	36	1	0	62	1.04
1187487--1187581	43	2.2	44	83	9	124	38	1	0	60	1.04
1188739--1188776	17	2.2	18	85	4	51	68	0	2	28	1.03
1190488--1190579	46	2.0	46	97	0	175	48	17	18	15	1.81
1201140--1201210	17	4.1	17	74	13	63	61	2	0	35	1.10
1201140--1201242	53	1.9	53	80	7	120	62	1	0	35	1.07
1201543--1201623	6	14.3	6	69	21	59	54	0	0	45	0.99
1201545--1201623	10	7.5	11	72	24	64	54	0	0	45	0.99
1201542--1201605	25	2.7	24	74	11	69	54	0	0	45	0.99
1201686--1201779	47	2.0	49	80	4	111	40	4	2	53	1.32
1206205--1206238	2	17.0	2	100	0	68	50	0	0	50	1.00
1206640--1206670	15	2.1	15	100	0	62	38	6	25	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207164--1207208	18	2.5	18	96	0	81	33	2	0	64	1.06
1207164--1207211	13	4.0	12	80	17	55	33	2	0	64	1.05
1209506--1209693	96	2.0	95	93	1	322	40	9	9	40	1.69
1210717--1210756	22	1.9	20	85	10	53	40	2	0	57	1.12
1210806--1210865	31	1.9	31	93	0	102	61	1	3	33	1.22
1210806--1210907	31	3.4	30	81	6	100	59	2	3	33	1.30
1210923--1210960	20	1.9	20	100	0	76	26	10	21	42	1.85
1211398--1211454	17	3.2	17	76	14	62	45	0	1	52	1.11
1211402--1211454	18	3.1	17	76	15	56	45	0	1	52	1.11
1211571--1211657	13	6.0	14	67	25	56	52	0	1	45	1.08
1211987--1212034	23	2.1	23	84	7	62	33	0	0	66	0.92
1218410--1218444	18	1.9	18	94	0	61	22	25	17	34	1.96
1219684--1219723	2	20.0	2	100	0	80	50	0	0	50	1.00
1231272--1231595	110	2.9	110	89	0	486	33	17	19	30	1.94
1234165--1234198	16	2.1	16	100	0	68	26	41	8	23	1.83
1257411--1257458	26	1.9	24	100	0	78	16	33	2	47	1.58
1258054--1258118	32	2.0	32	90	0	103	43	20	15	21	1.88
1272948--1273009	27	2.3	27	91	0	97	32	22	16	29	1.95
1277860--1277893	17	1.9	17	88	5	50	32	5	0	61	1.20
1278153--1278194	2	21.0	2	100	0	84	50	0	0	50	1.00
1280333--1280374	21	2.0	21	86	13	61	40	0	0	59	0.97
1288914--1289004	39	2.4	38	87	9	123	56	0	1	42	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289099--1289154	16	3.5	16	87	0	76	55	0	1	42	1.10
1289142--1289203	11	5.5	11	74	12	54	54	0	1	43	1.09
1298621--1298794	94	1.9	92	86	7	253	33	12	15	39	1.84
1303730--1303778	2	24.5	2	95	0	89	48	0	2	48	1.12
1303962--1303993	2	16.0	2	100	0	64	50	0	0	50	1.00
1304740--1304770	2	15.5	2	100	0	62	51	0	0	48	1.00
1307078--1307120	2	21.5	2	100	0	86	48	0	0	51	1.00
1310063--1310096	3	11.3	3	100	0	68	32	0	0	67	0.91
1310869--1310894	13	2.0	13	100	0	52	30	15	15	38	1.88
1310849--1310912	32	2.0	33	90	3	103	28	14	15	42	1.86
1311586--1311631	21	2.2	21	84	7	58	26	30	4	39	1.75
1312003--1312070	30	2.2	31	89	5	102	36	29	4	29	1.77
1312885--1312909	13	1.9	13	100	0	50	32	16	16	36	1.90
1314432--1314596	84	2.0	84	82	7	201	24	19	3	52	1.62
1316106--1316172	37	1.9	35	88	11	102	29	25	11	32	1.92
1316631--1316656	13	2.0	13	100	0	52	30	15	15	38	1.88
1316611--1316674	32	2.0	33	90	3	103	28	14	15	42	1.86
1317029--1317069	3	13.7	3	100	0	82	34	0	0	65	0.93
1318547--1318605	28	2.1	28	87	6	84	54	16	5	23	1.62
1321541--1321571	13	2.4	13	94	0	53	38	0	0	61	0.96
1324125--1324168	23	1.9	22	86	9	61	18	11	2	68	1.30
1324318--1324361	17	2.5	19	82	14	58	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324256--1324357	19	5.1	21	67	19	58	37	0	0	62	0.95
1324963--1325025	32	1.9	32	83	3	81	52	4	0	42	1.22
1326935--1326963	2	14.5	2	100	0	58	48	0	0	51	1.00
1327984--1328010	1	27.0	1	100	0	54	0	0	0	100	0.00
1328082--1328132	4	12.0	4	89	6	66	74	1	0	23	0.92
1328430--1328502	32	2.3	29	77	20	76	47	1	0	50	1.09
1329160--1329214	21	2.5	21	79	5	56	40	1	0	58	1.09
1329616--1329675	20	3.0	20	77	15	54	65	0	0	35	0.93
1338034--1338060	14	1.9	14	100	0	54	66	0	0	33	0.92
1338697--1338877	90	2.0	89	96	1	335	25	23	12	38	1.90
1343943--1343983	21	2.0	21	90	0	64	41	4	0	53	1.22
1344338--1344377	15	2.7	15	88	0	62	45	12	0	42	1.42
1344493--1344522	2	15.0	2	100	0	60	50	0	0	50	1.00
1355799--1355872	28	2.6	29	82	8	89	54	0	0	45	1.00
1355803--1355848	23	2.0	24	91	4	76	54	0	0	45	0.99
1357265--1357301	6	6.0	6	90	3	56	29	32	18	18	1.96
1362632--1362662	15	2.0	15	93	6	53	54	0	0	45	0.99
1362652--1362706	26	2.0	28	86	6	78	60	5	5	29	1.42
1364838--1364962	43	2.9	43	97	0	232	29	7	14	48	1.70
1366400--1366436	15	2.5	15	90	0	56	13	2	2	81	0.92
1372674--1372699	9	2.9	9	100	0	52	46	23	30	0	1.53
1374594--1374686	49	1.9	48	84	2	123	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374701--1374725	12	2.1	12	100	0	50	40	20	16	24	1.91
1376583--1376623	14	3.1	14	79	6	50	75	0	7	17	1.02
1383597--1383648	2	26.0	2	88	7	79	50	0	1	48	1.12
1385938--1386013	29	2.4	32	82	8	86	52	2	0	44	1.14
1385960--1386027	16	4.2	17	70	20	56	50	1	0	48	1.10
1386247--1386286	20	2.0	21	90	5	64	35	0	0	65	0.93
1386253--1386301	20	2.5	20	79	0	62	32	2	2	63	1.17
1386319--1386395	33	2.3	33	80	17	88	45	2	1	50	1.23
1386244--1386367	10	12.0	10	68	19	51	38	1	2	57	1.22
1386600--1386651	22	2.2	24	83	10	72	65	0	0	34	0.93
1386604--1386654	11	4.5	11	80	4	57	64	0	0	35	0.94
1386613--1386648	19	1.9	18	88	5	54	61	0	0	38	0.96
1389292--1389331	6	6.3	6	83	11	53	42	2	2	52	1.28
1389364--1389407	20	2.1	22	87	8	65	40	0	0	59	0.98
1394298--1394354	20	3.0	18	80	12	69	66	0	0	33	0.92
1394311--1394352	14	2.9	14	89	3	57	66	0	0	33	0.92
1395327--1395356	2	15.0	2	100	0	60	50	0	0	50	1.00
1397251--1397291	21	2.0	21	85	9	57	14	0	12	73	1.11
1397337--1397370	18	1.9	18	88	5	52	61	0	0	38	0.96
1399785--1399814	16	1.9	16	93	6	53	40	6	6	46	1.56
1399962--1400024	20	3.2	19	73	8	63	26	6	7	58	1.50
1399950--1400048	40	2.5	40	90	4	155	30	6	6	57	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400070--1400153	16	5.2	16	80	1	105	40	2	2	54	1.26
1400461--1400544	32	2.6	33	79	11	84	39	1	0	59	1.05
1400646--1400679	17	1.9	18	88	5	52	23	0	14	61	1.33
1401418--1401461	22	2.0	22	86	0	61	36	6	9	47	1.62
1401640--1401700	16	3.8	16	73	4	61	31	3	4	60	1.34
1401644--1401725	32	2.6	32	80	7	96	35	3	4	56	1.39
1401644--1401721	16	4.9	15	72	9	57	33	3	5	57	1.39
1409929--1409953	2	12.5	2	100	0	50	52	48	0	0	1.00
1410179--1410204	11	2.4	11	100	0	52	23	0	0	76	0.78
1411137--1411178	17	2.4	18	76	11	52	38	2	9	50	1.48

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27