genome.fa.s1737.2.7.7.80.10.50.1000.4.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: scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  3416254

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

This is table  4  of  10  ( 1130 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)
1048523--1048582	25	2.4	25	77	20	72	60	3	1	35	1.23
1049354--1049412	30	2.0	30	83	3	75	47	10	5	37	1.59
1055772--1055800	13	2.1	14	93	6	51	65	0	27	6	1.18
1057230--1057300	21	3.4	21	84	0	88	19	33	28	18	1.95
1059856--1059892	9	4.1	9	85	0	56	32	10	10	45	1.74
1063110--1063227	58	2.0	58	96	0	218	30	11	12	44	1.78
1074671--1074900	117	2.0	117	94	1	408	36	17	14	31	1.90
1075880--1075922	18	2.3	19	92	4	70	74	2	0	23	0.93
1075877--1075928	10	5.4	9	78	19	52	69	1	1	26	1.10
1076322--1076451	66	2.0	66	98	0	251	33	26	7	32	1.85
1089775--1089824	12	4.0	13	75	15	52	36	0	40	24	1.55
1090917--1091143	27	8.4	26	80	5	238	46	18	15	19	1.84
1090917--1091140	54	4.1	54	84	5	292	46	18	15	19	1.84
1090916--1091143	81	2.8	79	82	5	287	46	18	15	19	1.84
1096365--1096522	63	2.5	63	85	4	210	46	17	5	30	1.70
1101395--1101810	75	5.8	74	69	18	263	31	26	19	21	1.97
1101430--1101733	102	3.0	102	89	2	459	31	27	20	21	1.98
1101578--1101833	33	7.5	33	70	22	158	33	26	19	20	1.96
1101634--1101808	75	2.3	75	94	1	296	34	25	18	21	1.96
1101785--1101837	27	2.0	27	100	0	106	26	30	24	18	1.98
1123704--1123889	102	1.8	102	91	0	309	31	26	20	20	1.98
1123806--1123981	75	2.3	75	93	0	298	33	27	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123681--1124009	177	1.9	177	91	1	543	31	28	19	20	1.97
1148989--1149149	76	2.1	75	90	1	250	31	26	18	22	1.97
1153793--1154013	63	3.4	63	81	7	282	44	17	8	29	1.77
1160086--1160226	33	4.2	33	79	1	147	38	30	13	17	1.88
1164722--1164784	25	2.4	27	84	7	78	49	19	1	30	1.58
1169352--1169394	22	2.1	19	83	12	50	39	4	16	39	1.69
1173230--1173287	27	2.1	28	81	9	66	22	12	15	50	1.77
1173373--1173422	19	2.6	19	100	0	100	20	12	26	42	1.86
1181918--1181976	26	2.3	26	82	5	66	27	6	6	59	1.48
1186938--1186964	14	1.9	14	100	0	54	48	0	7	44	1.31
1197549--1197606	19	2.7	22	87	10	77	36	10	17	36	1.84
1197572--1197616	23	2.0	23	86	4	65	33	8	15	42	1.78
1200041--1200287	44	5.7	44	66	13	125	29	25	17	27	1.97
1200325--1200742	131	3.2	131	89	0	640	22	24	21	31	1.99
1200732--1201087	87	4.1	87	92	0	577	23	24	23	29	1.99
1203002--1203071	35	2.0	35	100	0	140	28	22	22	25	1.99
1203246--1203286	14	3.0	13	86	10	55	4	19	0	75	0.98
1208952--1209013	22	2.6	24	82	10	74	12	6	40	40	1.69
1209792--1209846	29	1.9	28	82	10	67	30	10	7	50	1.64
1212713--1212748	17	2.1	17	100	0	72	41	16	5	36	1.72
1214351--1214383	15	2.2	16	89	10	52	81	9	3	6	0.95
1216299--1216338	20	2.0	20	85	9	55	65	2	12	20	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219942--1219999	24	2.4	24	80	5	64	18	36	6	37	1.78
1221324--1221496	88	2.0	88	93	2	294	42	5	8	43	1.58
1224153--1224218	5	12.8	5	84	6	78	37	21	0	40	1.53
1224515--1224760	123	2.0	124	96	0	458	34	21	10	32	1.88
1236950--1237008	26	2.3	26	93	0	100	37	15	11	35	1.84
1242084--1242110	5	5.4	5	100	0	54	37	22	0	40	1.54
1247427--1247461	18	1.9	18	94	0	61	60	8	11	20	1.57
1250417--1250445	11	2.6	11	100	0	58	6	24	31	37	1.82
1261573--1261607	17	2.1	17	94	0	61	54	2	0	42	1.15
1266363--1266479	59	2.0	60	88	5	175	41	16	20	22	1.90
1266363--1266538	59	2.9	59	81	6	165	42	16	17	23	1.89
1271199--1271438	50	4.7	50	80	3	212	23	27	21	27	1.99
1278031--1278080	18	2.8	18	81	6	66	34	2	2	62	1.18
1280770--1280825	28	2.0	28	100	0	112	28	14	21	35	1.92
1282365--1282549	101	1.8	102	89	3	293	23	18	27	30	1.98
1282365--1282557	51	3.8	50	78	4	183	23	19	27	30	1.98
1283413--1283489	40	1.9	40	89	0	118	20	33	29	15	1.94
1285429--1285532	42	2.5	42	85	3	138	16	25	18	40	1.90
1285467--1285533	21	3.2	21	78	0	80	14	26	16	41	1.87
1287375--1287437	25	2.5	25	76	5	65	28	19	25	26	1.98
1287518--1287560	21	2.0	21	100	0	86	32	13	23	30	1.93
1289107--1289147	21	2.0	21	85	9	57	58	2	4	34	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292354--1292401	23	2.0	24	84	4	62	27	2	4	66	1.21
1293125--1293159	18	1.9	18	94	0	61	45	0	0	54	0.99
1294171--1294257	27	3.2	27	91	0	129	24	31	34	10	1.89
1294289--1294319	3	10.3	3	92	0	53	61	0	38	0	0.96
1294393--1294442	24	2.0	26	85	14	70	16	2	10	72	1.21
1294586--1294723	37	3.7	37	68	13	102	31	5	13	50	1.62
1294585--1294750	76	2.2	77	81	7	196	31	4	12	50	1.61
1299755--1300811	152	7.0	149	80	9	1042	31	10	7	51	1.63
1299755--1300812	453	2.3	445	81	9	1248	31	10	6	51	1.63
1301143--1301260	10	11.0	10	68	16	67	0	32	0	67	0.91
1301161--1301276	28	4.2	28	72	14	73	0	36	0	63	0.94
1301180--1301275	20	4.7	20	80	17	108	0	33	0	66	0.92
1301198--1301276	15	5.1	15	72	24	74	0	35	0	64	0.94
1301192--1301274	17	5.2	16	67	28	61	0	32	0	67	0.91
1302311--1302531	21	10.5	21	100	0	442	28	0	9	61	1.27
1302555--1302630	20	3.9	19	80	11	82	39	1	2	56	1.21
1302554--1302638	39	2.2	38	81	6	100	37	1	4	56	1.28
1302325--1302639	21	15.6	20	88	3	97	32	0	8	58	1.32
1302732--1302793	19	3.2	19	65	13	54	38	19	4	37	1.73
1302733--1302812	39	2.1	39	97	0	151	38	17	6	37	1.75
1303619--1303653	17	2.1	17	89	10	54	34	5	0	60	1.21
1304297--1304351	24	2.3	24	81	6	58	10	21	1	65	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306153--1306184	16	2.0	16	93	0	55	59	0	15	25	1.36
1308149--1308323	62	2.8	61	81	5	181	22	26	29	22	1.99
1321592--1321650	31	1.9	31	82	0	73	42	13	10	33	1.78
1326267--1326365	30	3.3	29	71	10	76	48	18	9	24	1.76
1328686--1328753	28	2.4	29	88	7	97	13	36	8	41	1.75
1330101--1330143	21	2.0	21	86	8	61	34	6	11	46	1.67
1331416--1331509	45	2.1	45	86	4	127	43	12	21	22	1.86
1333903--1334177	136	2.0	137	97	1	516	36	28	8	28	1.85
1334205--1334233	2	14.5	2	100	0	58	51	0	0	48	1.00
1336677--1336705	2	14.5	2	100	0	58	51	0	0	48	1.00
1339377--1339418	21	2.0	21	95	0	75	23	23	26	26	2.00
1343318--1343372	28	2.0	26	86	13	76	63	0	1	34	1.05
1345568--1345705	40	3.5	40	74	8	104	35	23	14	26	1.93
1345863--1345909	24	2.0	24	84	16	62	51	17	0	31	1.46
1346610--1346677	32	2.2	32	84	7	88	47	2	1	48	1.26
1360662--1360798	47	2.9	47	100	0	274	20	13	20	45	1.84
1380049--1380078	3	10.0	3	100	0	60	0	33	0	66	0.92
1380465--1380509	23	2.0	23	86	8	65	44	0	37	17	1.49
1385927--1385963	20	1.9	20	94	5	67	56	8	0	35	1.29
1385945--1386002	19	3.1	19	75	5	55	51	6	0	41	1.28
1386058--1387178	374	3.0	373	95	1	1968	37	14	10	38	1.79
1390175--1390210	18	1.9	19	88	5	56	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398334--1398452	60	2.0	60	93	0	202	34	0	12	52	1.39
1398714--1398968	116	2.2	117	88	5	374	29	0	12	57	1.40
1399614--1399921	169	1.8	168	99	0	607	29	0	17	52	1.49
1401975--1402040	33	2.0	33	87	0	96	19	46	7	25	1.76
1402233--1402455	71	3.0	75	84	7	292	29	8	8	52	1.63
1406539--1406565	13	2.1	13	100	0	54	48	22	0	29	1.51
1410362--1410489	38	3.4	38	87	0	184	31	14	19	35	1.91
1411369--1411411	16	2.6	16	85	3	50	72	0	23	4	1.04
1412060--1412105	24	1.9	24	86	8	67	56	6	6	30	1.50
1414092--1414226	49	2.8	49	87	0	198	25	22	20	31	1.98

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