genome.fa.s295.2.7.7.80.10.50.1000.9.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: Scaffold295
Parameters: 2 7 7 80 10 50 1000
Length:  1524207

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

This is table  9  of  10  ( 1174 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)
1144623--1145147	236	2.2	237	83	5	661	28	23	12	35	1.91
1145079--1145193	51	2.3	50	83	3	149	29	24	9	36	1.87
1148422--1148677	121	2.1	121	85	2	345	39	15	11	33	1.83
1149606--1149683	40	2.0	39	84	2	102	33	12	14	39	1.84
1149606--1149682	20	3.9	19	76	6	73	33	12	12	40	1.82
1150591--1150646	22	2.5	23	94	5	105	17	10	8	62	1.52
1150599--1150653	22	2.6	21	88	5	58	20	9	9	61	1.52
1163705--1163751	11	4.3	11	86	7	69	89	10	0	0	0.49
1163705--1163771	13	5.2	13	77	12	66	86	8	2	1	0.73
1163706--1163758	16	3.4	15	84	7	70	88	9	1	0	0.58
1163705--1163771	20	3.3	20	79	8	73	86	8	2	1	0.73
1163704--1163770	9	7.0	9	75	18	64	85	10	2	1	0.78
1163705--1163758	1	54.0	1	77	0	54	88	9	1	0	0.58
1164991--1166193	29	41.9	29	89	2	1728	28	32	17	21	1.96
1164991--1166205	229	5.3	229	89	2	1750	28	32	17	22	1.96
1166681--1166757	20	3.9	19	76	6	73	33	12	12	40	1.82
1166681--1166758	40	2.0	39	84	2	102	33	12	14	39	1.84
1167666--1167721	22	2.5	23	94	5	105	17	10	8	62	1.52
1167674--1167728	22	2.6	21	88	5	58	20	9	9	61	1.52
1171337--1171410	20	3.7	20	78	3	94	35	12	20	32	1.89
1171355--1171430	21	3.7	21	80	3	100	40	10	18	30	1.84
1171337--1171430	41	2.3	41	98	0	179	38	11	19	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171469--1171494	13	2.0	13	100	0	52	38	15	15	30	1.88
1171952--1172018	37	1.9	35	88	11	102	32	11	25	29	1.92
1173544--1173708	84	2.0	84	83	4	208	52	4	18	24	1.63
1175153--1175177	13	1.9	13	100	0	50	36	16	16	32	1.90
1176954--1177027	20	3.7	20	78	3	94	35	12	20	32	1.89
1176972--1177047	21	3.7	21	80	3	100	40	10	18	30	1.84
1176954--1177047	41	2.3	41	98	0	179	38	11	19	30	1.87
1177086--1177111	13	2.0	13	100	0	52	38	15	15	30	1.88
1177569--1177635	37	1.9	35	88	11	102	32	11	25	29	1.92
1180852--1180877	13	2.0	13	100	0	52	30	15	15	38	1.88
1180833--1180895	32	1.9	33	87	9	94	28	14	20	36	1.92
1180977--1181001	13	1.9	13	100	0	50	36	16	16	32	1.90
1181011--1181049	20	2.0	19	95	5	69	30	10	23	35	1.88
1181597--1181628	16	2.0	16	93	0	55	40	18	6	34	1.76
1183478--1183515	13	2.9	13	88	0	58	34	15	15	34	1.90
1189650--1189675	13	2.0	13	100	0	52	30	15	15	38	1.88
1189630--1189693	33	2.0	32	87	9	94	28	14	20	37	1.91
1189708--1189740	11	3.0	11	100	0	66	27	36	18	18	1.94
1189820--1189858	20	2.0	19	95	5	69	30	10	23	35	1.88
1197923--1197976	20	2.7	20	85	2	63	33	20	7	38	1.80
1199922--1200030	56	1.9	56	88	3	166	31	16	11	41	1.83
1200370--1200623	128	2.0	127	89	3	384	47	9	6	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202338--1202404	29	2.3	30	81	2	73	40	0	2	56	1.14
1202891--1202915	3	8.3	3	100	0	50	32	32	36	0	1.58
1207122--1207166	2	22.5	2	100	0	90	48	0	0	51	1.00
1214310--1214373	20	3.2	19	74	10	56	56	0	3	40	1.15
1214317--1214372	20	2.8	20	78	7	60	55	0	3	41	1.17
1214546--1214596	14	3.6	14	70	15	50	60	1	0	37	1.08
1214550--1214617	29	2.4	29	90	2	102	54	4	0	41	1.20
1218538--1218663	31	4.1	31	83	0	144	24	13	12	49	1.77
1218540--1218662	62	2.0	62	85	0	165	25	13	10	50	1.74
1218717--1218767	21	2.4	21	90	6	77	37	3	17	41	1.68
1219276--1219432	50	3.1	49	81	11	183	24	18	19	36	1.94
1219211--1219443	101	2.3	101	82	3	263	26	18	19	35	1.95
1219305--1219443	50	2.7	51	89	2	217	25	19	20	35	1.96
1219732--1219872	36	4.0	36	80	6	130	33	12	19	34	1.89
1219673--1219872	72	2.9	72	75	10	191	34	12	19	34	1.89
1219986--1220168	37	5.0	37	66	15	103	33	8	20	37	1.84
1219879--1220537	108	6.1	107	77	7	557	33	9	20	36	1.84
1219881--1220539	217	3.0	215	78	9	633	33	9	20	36	1.84
1219756--1220510	36	20.9	36	69	11	332	33	9	20	36	1.84
1232247--1232272	13	2.0	13	100	0	52	46	15	7	30	1.74
1232125--1232387	126	2.1	125	90	2	420	30	14	16	38	1.89
1234452--1234617	81	2.0	81	98	0	323	36	16	10	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239432--1239462	13	2.4	13	94	0	53	41	12	9	35	1.76
1249864--1249913	19	2.6	19	87	9	66	36	16	14	34	1.88
1249945--1250000	19	2.9	19	83	2	67	37	16	14	32	1.88
1258251--1258374	52	2.4	51	94	1	212	28	19	19	33	1.96
1258383--1258407	13	1.9	13	100	0	50	36	16	16	32	1.90
1258448--1258514	33	2.0	33	88	0	98	40	13	11	34	1.81
1258470--1258494	13	1.9	13	100	0	50	32	16	16	36	1.90
1262217--1262241	13	1.9	13	100	0	50	32	16	16	36	1.90
1262272--1262347	19	3.9	19	79	8	82	34	14	17	34	1.90
1265487--1265582	23	4.4	21	76	19	72	67	1	2	29	1.08
1265529--1265580	3	17.7	3	88	11	81	67	0	0	32	0.91
1265514--1265580	23	3.0	23	87	12	95	65	1	0	32	1.02
1265955--1266030	28	2.8	28	85	2	100	42	11	26	19	1.86
1276080--1276136	13	3.9	13	72	24	51	38	14	15	31	1.87
1276060--1276163	32	3.2	32	91	1	172	35	12	17	34	1.87
1276058--1276155	19	5.8	18	69	28	72	35	12	16	35	1.86
1276207--1276231	13	1.9	13	100	0	50	32	16	16	36	1.90
1276240--1276368	52	2.5	52	89	0	195	34	15	20	30	1.93
1281494--1281564	20	3.6	19	79	7	72	35	18	12	33	1.89
1281595--1281659	33	2.0	33	87	6	96	32	15	20	32	1.93
1282507--1282558	21	2.5	21	90	9	81	34	9	21	34	1.86
1285166--1285215	19	2.6	19	93	3	82	30	20	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285243--1285294	20	2.7	20	93	3	88	28	15	23	32	1.95
1295072--1295125	20	2.7	20	88	0	72	38	14	12	33	1.85
1296159--1296222	32	2.0	33	87	3	94	28	18	21	31	1.97
1296202--1297626	28	50.9	28	84	2	1388	24	17	28	30	1.97
1306968--1307007	2	21.0	2	85	10	57	47	2	0	50	1.14
1311069--1311122	20	2.7	20	94	2	90	40	9	18	31	1.82
1313885--1313951	33	2.0	33	88	0	98	34	11	13	40	1.81
1313905--1313929	13	1.9	13	100	0	50	36	16	16	32	1.90
1313995--1314019	13	1.9	13	100	0	50	32	16	16	36	1.90
1314028--1314147	52	2.3	52	97	0	222	35	18	17	29	1.94
1318541--1318607	20	3.7	20	74	25	85	26	14	14	43	1.85
1318560--1318619	13	5.1	13	73	22	69	28	15	15	41	1.86
1318541--1318638	33	3.0	33	95	1	171	28	15	15	40	1.87
1318603--1318660	19	3.1	18	88	11	89	34	15	17	32	1.91
1318604--1318659	20	2.8	20	92	7	89	32	16	17	33	1.92
1318689--1318751	33	1.9	33	90	6	101	33	11	19	36	1.87
1318794--1318881	20	4.8	19	69	21	71	34	10	17	38	1.83
1318688--1318951	125	2.1	125	96	0	483	35	13	13	37	1.84
1318834--1318858	13	1.9	13	100	0	50	36	8	16	40	1.77
1318814--1318876	33	1.9	33	87	6	92	33	9	19	38	1.84
1327214--1327337	63	2.0	63	85	7	171	42	8	15	33	1.76
1327640--1327691	19	2.7	20	87	6	79	38	19	13	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329889--1329935	21	2.2	21	84	3	58	53	4	21	21	1.63
1333845--1333883	13	3.0	13	100	0	78	30	15	15	38	1.88
1336430--1336455	13	2.0	13	100	0	52	38	15	15	30	1.88
1336412--1336475	32	2.0	33	90	3	103	39	18	14	28	1.90
1337460--1337516	19	2.9	20	82	12	73	35	10	17	36	1.84
1338900--1338925	13	2.0	13	100	0	52	38	15	15	30	1.88
1338882--1338945	32	2.0	33	87	3	94	40	17	14	28	1.88
1341141--1341185	21	2.1	22	88	8	67	55	4	17	22	1.60
1345101--1345126	13	2.0	13	100	0	52	30	15	15	38	1.88
1350944--1351013	26	2.8	25	82	8	88	68	0	0	31	0.90

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