genome.fa.s15.2.7.7.80.10.50.1000.8.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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   

This is table  8  of  25  ( 2909 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)
1198671--1198714	21	2.1	21	83	8	54	27	31	2	38	1.69
1200354--1200400	21	2.3	21	76	23	55	42	4	19	34	1.70
1200521--1200559	13	3.0	13	92	0	60	35	12	17	33	1.88
1202637--1202667	15	2.1	15	93	0	53	12	22	16	48	1.80
1204471--1204515	21	2.1	21	84	8	56	22	20	4	53	1.63
1206733--1206758	13	2.0	13	100	0	52	30	15	15	38	1.88
1219105--1219306	79	2.6	78	81	5	201	30	14	28	26	1.95
1219263--1219332	28	2.5	28	88	4	97	25	18	32	22	1.97
1221249--1221282	17	2.0	17	88	0	50	0	2	14	82	0.79
1221811--1221836	13	2.0	13	100	0	52	38	15	15	30	1.88
1221790--1221856	33	2.0	33	88	0	98	43	16	14	25	1.86
1221876--1221940	19	3.8	18	76	23	77	35	15	12	36	1.85
1221898--1221922	13	1.9	13	100	0	50	32	16	16	36	1.90
1221879--1221940	32	1.9	32	96	0	115	35	16	12	35	1.87
1221999--1222055	21	2.7	21	97	0	105	36	19	10	33	1.86
1223339--1223866	155	3.4	155	82	4	530	40	19	14	25	1.89
1225441--1225484	13	3.3	13	81	6	52	56	0	2	40	1.11
1228746--1228785	2	20.0	2	94	0	71	50	0	2	47	1.14
1228865--1228902	14	2.6	15	87	4	51	73	7	7	10	1.24
1229261--1229323	24	2.7	22	83	13	81	42	0	1	55	1.09
1230541--1230578	19	1.9	19	85	15	51	73	5	0	21	1.02
1237123--1237167	23	2.0	22	86	4	63	26	6	0	66	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241848--1242049	79	2.6	79	81	6	221	29	15	28	26	1.96
1242001--1242077	28	2.8	28	86	7	95	22	18	35	24	1.96
1244502--1244527	13	2.0	13	100	0	52	38	15	15	30	1.88
1244514--1244555	21	2.0	21	100	0	84	28	19	9	42	1.82
1244580--1244693	19	6.6	19	77	22	144	35	22	12	29	1.91
1244599--1244695	32	3.0	32	100	0	194	34	21	12	31	1.91
1244618--1244674	13	3.9	13	76	24	60	33	19	14	33	1.91
1244574--1244674	51	2.1	48	89	10	154	35	21	11	30	1.90
1245495--1245579	42	2.1	42	84	8	113	43	14	22	20	1.87
1245603--1246024	55	7.3	61	83	4	358	24	20	27	27	1.99
1245718--1246024	55	5.5	55	86	4	416	22	20	28	28	1.99
1245894--1246178	149	1.9	149	93	1	491	23	20	28	27	1.99
1246043--1246589	61	9.4	59	82	8	560	25	20	27	27	1.99
1246046--1246568	177	3.0	173	86	6	678	26	20	26	26	1.99
1246400--1246502	36	3.2	36	62	28	93	28	18	26	27	1.98
1246608--1247403	61	13.4	60	81	9	829	26	19	27	26	1.99
1246811--1246892	26	2.9	29	66	23	84	19	20	30	29	1.97
1246614--1247373	177	4.3	173	84	7	906	27	19	26	26	1.99
1246910--1247012	36	3.2	36	61	28	84	29	18	25	27	1.98
1246098--1247373	510	2.4	515	90	4	1906	27	19	26	26	1.99
1246608--1247402	238	3.3	235	82	8	911	26	19	27	26	1.99
1246614--1247408	116	6.7	121	83	9	885	27	18	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251186--1251211	13	2.0	13	100	0	52	38	15	15	30	1.88
1253428--1253472	21	2.1	21	84	8	56	53	4	20	22	1.63
1255278--1255308	15	2.1	15	93	0	53	48	16	22	12	1.80
1257380--1257418	13	3.0	13	100	0	78	30	15	15	38	1.88
1257539--1257584	21	2.2	20	81	11	58	32	19	4	43	1.71
1274352--1274396	21	2.1	21	84	8	56	22	20	4	53	1.63
1276610--1276635	13	2.0	13	100	0	52	30	15	15	38	1.88
1276674--1276749	21	3.7	21	82	3	109	28	18	11	40	1.86
1276694--1276767	20	3.7	20	81	3	103	31	20	13	35	1.91
1276674--1276767	41	2.3	41	100	0	188	29	19	12	38	1.89
1278612--1278712	47	2.1	47	96	0	184	25	15	16	41	1.88
1279400--1279424	13	1.9	13	100	0	50	36	16	16	32	1.90
1281699--1281754	27	2.1	27	86	0	76	25	30	16	28	1.96
1283387--1283445	13	4.0	13	73	26	55	33	13	18	33	1.90
1283381--1283465	33	2.6	33	94	1	145	30	11	21	36	1.89
1283545--1283569	13	1.9	13	100	0	50	36	16	16	32	1.90
1284125--1284169	22	2.0	22	91	8	74	35	28	0	35	1.58
1285543--1285594	20	2.4	21	81	12	61	3	25	50	21	1.65
1292094--1292119	13	2.0	13	100	0	52	38	15	15	30	1.88
1292072--1292139	33	2.1	32	91	2	109	32	13	19	35	1.90
1292180--1292231	21	2.5	21	81	9	63	28	17	15	38	1.90
1297384--1297550	20	7.8	20	71	15	111	32	13	11	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297384--1297549	40	3.9	40	72	17	145	32	13	12	41	1.82
1297425--1297600	51	3.7	51	72	18	187	30	16	11	42	1.83
1297374--1297600	91	2.5	91	94	0	382	30	15	11	42	1.82
1311253--1311340	14	6.6	13	75	12	81	34	11	19	35	1.87
1311349--1311836	28	17.6	28	80	6	528	28	29	17	25	1.97
1311351--1311836	83	5.8	83	81	8	551	28	29	17	25	1.97
1311351--1311836	111	4.4	110	85	4	604	28	29	17	25	1.97
1311351--1311836	139	3.5	137	85	5	638	28	29	17	25	1.97
1313854--1313892	20	2.0	20	85	10	53	23	17	12	46	1.83
1325966--1326019	21	2.7	19	85	5	72	37	12	16	33	1.87
1325966--1326050	19	4.7	19	76	19	83	36	12	16	34	1.87
1326007--1326096	13	6.9	13	69	26	66	35	15	14	34	1.88
1325988--1326116	32	4.0	33	86	3	165	34	14	14	36	1.87
1326693--1326718	13	2.0	13	100	0	52	38	15	15	30	1.88
1326675--1326738	32	2.0	33	87	3	94	42	14	14	29	1.84
1328944--1328995	21	2.4	21	78	9	61	63	3	9	23	1.41
1330790--1330820	15	2.1	15	93	0	53	48	16	22	12	1.80
1332902--1332939	13	2.9	13	96	0	67	34	18	15	31	1.92
1333380--1333422	20	2.1	20	82	4	50	18	44	25	11	1.84
1333417--1333729	156	2.0	157	94	4	553	29	32	14	23	1.94
1334705--1334747	22	2.0	20	86	8	59	13	9	13	62	1.53
1335616--1335641	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335598--1335661	32	2.0	33	90	3	103	42	15	14	28	1.86
1342176--1342295	58	2.1	56	92	6	197	31	15	15	37	1.89
1346389--1346452	13	4.9	13	88	0	92	34	15	15	34	1.90
1346391--1346452	26	2.4	26	100	0	124	35	16	14	33	1.89
1348534--1348564	15	2.1	15	93	0	53	12	22	16	48	1.80
1352609--1352634	13	2.0	13	100	0	52	30	15	15	38	1.88
1352589--1352652	32	2.0	33	87	3	94	28	14	17	40	1.88
1354869--1354980	20	5.6	20	79	8	120	35	12	13	38	1.82
1365925--1365961	15	2.5	15	95	0	65	18	24	29	27	1.98
1371300--1371356	19	3.0	20	79	7	64	35	17	15	31	1.92
1373466--1373503	15	2.5	15	87	12	60	57	0	10	31	1.32
1376976--1377114	50	2.8	51	90	4	203	27	18	14	39	1.90
1391743--1391791	22	2.2	22	88	0	71	42	10	18	28	1.83
1393207--1393843	120	5.3	121	83	3	680	28	25	18	28	1.98
1393204--1393826	302	2.1	302	86	1	874	28	25	18	28	1.98
1393207--1393843	61	10.5	61	82	4	661	28	25	18	28	1.98
1396731--1396883	78	1.9	79	85	3	211	29	22	11	35	1.90
1401290--1401345	20	2.8	20	86	2	78	33	14	16	35	1.88
1401373--1401435	33	1.9	33	86	0	90	39	11	15	33	1.83
1402393--1402440	24	2.0	24	100	0	96	33	4	29	33	1.77
1404815--1404885	36	2.0	36	88	0	106	9	26	32	30	1.89
1408647--1408672	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408627--1408693	33	2.0	33	88	0	98	25	14	16	43	1.86
1411797--1411836	20	2.0	21	95	5	73	32	15	12	40	1.84
1413444--1413491	18	2.7	17	81	18	62	83	0	14	2	0.74
1413447--1413492	23	2.0	24	91	4	76	80	0	15	4	0.86
1413826--1413860	15	2.5	13	86	13	52	91	0	8	0	0.42
1413826--1413860	9	3.8	9	88	7	52	91	0	8	0	0.42
1414760--1414959	89	2.3	89	88	2	305	26	25	14	34	1.94
1414760--1414992	89	2.6	88	85	4	254	27	25	13	33	1.94
1415530--1415732	42	4.8	42	75	7	160	15	30	19	35	1.92
1415633--1415746	42	2.7	42	86	2	167	16	27	21	35	1.95

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