genome.fa.s1821.2.7.7.80.10.50.1000.4.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: scaffold62
Parameters: 2 7 7 80 10 50 1000
Length:  1680050

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 510 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)
1174301--1174337	2	19.0	2	94	5	67	48	0	0	51	1.00
1174484--1174563	29	2.8	28	80	16	83	46	2	8	42	1.48
1174588--1174644	30	1.9	30	85	0	78	45	7	10	36	1.66
1174704--1174782	31	2.6	31	82	11	92	46	5	11	36	1.62
1175645--1175732	6	14.5	6	93	2	113	76	6	0	17	1.00
1175729--1175755	6	4.5	6	100	0	54	51	0	0	48	1.00
1175686--1175738	12	4.3	12	87	2	61	66	11	0	22	1.24
1175680--1175738	18	3.2	18	85	2	73	67	10	0	22	1.20
1178294--1178323	7	4.1	7	95	4	51	56	0	3	40	1.16
1178263--1178420	78	2.0	79	97	2	300	47	7	6	38	1.57
1178372--1178401	7	4.1	7	95	4	51	56	0	3	40	1.16
1184960--1184992	11	3.1	11	91	4	50	81	0	0	18	0.68
1184959--1184992	16	2.1	16	88	5	50	82	0	0	17	0.67
1188839--1189681	89	9.6	89	75	7	576	32	25	19	22	1.98
1188839--1189650	177	4.6	177	76	5	461	32	25	19	22	1.97
1191579--1191643	31	2.1	31	85	5	87	32	10	15	41	1.81
1201197--1201429	114	2.1	113	83	6	294	33	20	7	38	1.81
1209466--1209519	24	2.4	22	75	9	56	46	16	3	33	1.65
1225292--1225343	21	2.5	22	75	9	54	36	1	0	61	1.07
1225984--1226041	24	2.3	26	79	8	66	32	0	1	65	1.03
1225996--1226046	16	3.1	16	80	8	59	29	0	1	68	1.00
1228661--1228708	11	4.4	11	82	17	64	45	2	2	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228659--1228724	11	5.9	10	75	20	60	45	3	1	50	1.26
1228660--1228732	23	3.2	23	86	5	87	39	2	1	56	1.22
1235868--1235934	22	3.2	21	74	13	68	61	0	1	37	1.05
1235862--1235966	51	2.0	52	92	5	178	58	0	1	40	1.09
1235862--1236013	39	3.8	38	82	12	155	60	0	2	36	1.11
1235862--1235925	10	6.1	10	74	16	58	54	0	1	43	1.09
1239455--1239481	2	13.5	2	100	0	54	48	0	0	51	1.00
1244984--1245012	7	4.3	7	95	4	51	13	0	0	86	0.58
1245316--1245354	21	1.9	20	85	15	53	25	10	10	53	1.66
1261410--1261636	113	2.0	113	99	0	445	30	16	17	34	1.93
1271288--1271480	105	1.9	101	85	4	269	32	16	23	27	1.96
1271289--1271504	105	2.1	101	82	6	247	33	17	23	25	1.96
1274117--1274165	22	2.3	22	89	3	73	67	2	0	30	1.02
1277862--1278554	81	8.6	81	99	0	1350	54	3	6	36	1.43
1282066--1282140	39	1.9	39	97	0	141	49	2	8	40	1.46
1282731--1282909	99	1.9	94	82	8	225	31	5	11	51	1.60
1291448--1291496	3	16.3	3	100	0	98	67	0	0	32	0.91
1294322--1294407	43	2.0	43	95	0	154	48	4	18	27	1.68
1294560--1294585	5	5.2	5	100	0	52	76	0	0	23	0.78
1297156--1297204	25	1.9	25	83	4	62	48	4	14	32	1.62
1298074--1298109	16	2.2	16	90	0	54	58	0	2	38	1.13
1298338--1298669	166	2.0	166	99	0	655	38	6	13	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301760--1301794	3	11.7	3	100	0	70	31	0	34	34	1.58
1319219--1320857	816	2.0	816	99	0	3244	32	13	13	40	1.84
1321274--1321950	338	2.0	339	99	0	1347	36	10	12	39	1.79
1322688--1322805	60	2.0	60	96	0	218	27	22	12	36	1.91
1330956--1331120	81	2.0	81	92	0	276	37	12	4	45	1.63
1348723--1348754	16	2.0	16	100	0	64	31	0	0	68	0.90
1348721--1348808	40	2.2	42	84	12	130	34	2	0	63	1.07
1348750--1348816	30	2.3	29	84	7	82	37	2	0	59	1.13
1349734--1349767	17	2.0	17	88	0	50	35	17	11	35	1.87
1350578--1350734	25	6.5	24	86	5	194	40	21	21	16	1.91
1351713--1351769	2	32.5	2	74	25	58	56	0	0	43	0.99
1351713--1351769	7	8.1	8	76	23	58	56	0	0	43	0.99
1351713--1351769	8	6.3	9	83	16	66	56	0	0	43	0.99
1351733--1351798	24	2.7	25	81	9	73	59	4	0	36	1.18
1352337--1352382	22	2.2	22	88	7	69	52	13	10	23	1.71
1353202--1353226	13	1.9	13	100	0	50	60	0	8	32	1.26
1360591--1360657	34	1.9	35	84	3	91	32	8	13	44	1.75
1363405--1363464	24	2.5	24	82	15	79	51	13	5	30	1.62
1371633--1371675	16	2.5	17	81	7	52	55	2	2	39	1.25
1371632--1371678	17	2.8	17	78	12	60	53	2	4	40	1.32
1372519--1372558	20	2.0	20	90	9	64	35	20	15	30	1.93
1379292--1379320	14	2.1	14	100	0	58	72	0	6	20	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1389872--1389965	29	3.1	29	78	6	80	36	20	10	32	1.87
1389893--1389948	29	1.9	29	88	0	85	35	21	8	33	1.85
1391874--1391931	29	2.0	29	86	0	80	41	18	15	24	1.89
1394393--1394431	19	2.1	19	100	0	78	35	12	15	35	1.86
1398732--1398822	42	2.1	43	97	2	175	45	0	2	52	1.13
1402808--1402857	23	2.1	24	82	10	59	26	6	2	66	1.26
1408811--1408923	55	2.0	56	98	1	219	47	7	3	41	1.48
1408823--1408940	55	2.1	54	89	7	166	48	5	3	42	1.44
1414517--1414703	43	4.4	42	82	9	200	25	23	21	29	1.99
1415071--1415108	3	12.7	3	100	0	76	65	0	0	34	0.93
1415118--1415196	37	2.1	37	88	4	115	49	7	15	27	1.71
1416449--1416483	14	2.4	15	90	4	54	5	0	20	74	1.02
1418754--1418792	4	9.8	4	94	0	69	48	23	2	25	1.63
1421853--1421894	22	2.0	22	85	4	59	50	19	9	21	1.75
1422950--1422993	6	7.3	6	82	10	54	29	6	47	15	1.72
1428771--1428816	12	3.8	12	82	0	56	19	15	15	50	1.79
1428778--1428846	24	2.9	24	77	0	75	21	18	14	44	1.85
1441086--1441117	6	5.5	6	96	3	57	71	12	0	15	1.14
1453662--1453799	37	3.7	37	83	0	168	16	14	26	42	1.87
1458065--1458098	17	2.0	18	88	11	54	47	0	11	41	1.40
1459228--1459279	19	3.1	17	74	17	54	61	0	1	36	1.07
1466981--1467029	21	2.5	19	80	9	55	61	10	4	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467647--1467685	17	2.3	17	95	0	69	15	43	25	15	1.86
1472477--1472525	22	2.2	22	88	0	71	34	18	16	30	1.93
1474179--1474239	30	2.0	30	90	6	97	24	16	24	34	1.95
1476535--1476573	18	2.2	17	86	13	53	33	0	20	46	1.51
1476805--1476902	23	4.3	23	83	5	126	22	19	25	32	1.97
1476781--1476895	46	2.5	46	92	2	187	22	20	24	32	1.98
1478543--1478597	26	2.1	26	86	0	74	29	20	9	41	1.82
1478557--1478616	26	2.3	27	82	5	79	26	16	13	43	1.85
1485948--1485984	9	4.1	9	92	0	65	29	10	13	45	1.77
1490824--1490993	42	4.0	42	100	0	340	43	16	21	18	1.88
1500547--1500589	20	2.1	20	83	12	52	51	6	6	34	1.56
1500962--1500995	16	2.1	16	88	5	50	41	8	0	50	1.34
1502038--1502096	31	1.9	31	100	0	118	18	22	11	47	1.81
1507263--1507336	29	2.5	29	82	4	85	25	14	13	45	1.82
1509785--1509833	7	7.0	7	78	17	57	30	14	2	53	1.52
1509785--1509841	21	2.8	20	83	5	69	29	17	1	50	1.56
1509785--1509839	14	3.9	15	79	13	62	30	18	1	49	1.58
1509991--1510037	24	2.0	24	83	8	60	29	0	10	59	1.31
1511327--1511369	18	2.2	20	88	8	63	23	2	2	72	1.08
1519501--1521452	69	28.3	69	67	8	442	31	25	15	27	1.96
1519498--1521473	138	14.3	138	76	4	1316	31	25	15	27	1.96
1519501--1521474	276	7.2	276	77	4	1507	31	25	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524895--1524949	21	2.6	21	88	0	74	20	41	21	16	1.90
1526036--1526078	13	3.3	13	80	0	50	39	20	2	37	1.66
1525971--1526078	53	2.1	52	82	5	128	36	20	2	40	1.67
1534174--1534219	17	2.7	17	90	9	76	13	17	32	36	1.88
1534272--1534332	18	3.4	18	79	2	70	14	16	26	42	1.87
1555547--1555571	12	2.1	12	100	0	50	56	16	0	28	1.41
1557169--1557282	41	2.7	43	83	2	133	26	29	17	26	1.97
1557435--1557873	64	6.9	64	89	1	614	41	14	10	33	1.81
1557435--1557873	32	13.7	32	78	1	405	41	14	10	33	1.81
1560972--1561009	19	2.1	19	90	5	60	36	0	5	57	1.21

Tables:   1   2   3   4   5