genome.fa.s475.2.7.7.80.10.50.1000.9.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: Scaffold475
Parameters: 2 7 7 80 10 50 1000
Length:  1773841

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1353 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)
1295034--1295097	18	3.7	18	75	12	62	50	0	17	32	1.46
1297751--1297793	15	2.8	15	92	3	68	48	0	11	39	1.40
1297751--1297793	16	2.8	16	89	3	61	48	0	11	39	1.40
1301862--1301886	13	1.9	13	100	0	50	36	16	16	32	1.90
1303994--1304041	15	3.2	15	75	0	60	41	41	0	16	1.48
1311290--1311488	28	7.1	27	78	5	146	27	30	17	25	1.97
1311292--1311488	56	3.5	56	82	4	245	26	29	17	25	1.98
1311785--1311857	20	3.7	19	87	7	85	27	16	17	38	1.91
1311886--1311954	33	2.1	33	86	5	95	28	11	20	39	1.87
1312695--1312823	28	4.5	28	88	3	204	30	31	17	21	1.96
1312690--1312823	58	2.3	58	92	2	218	29	31	16	22	1.96
1312695--1312867	86	2.0	89	83	8	221	30	27	19	23	1.98
1313902--1313976	30	2.5	30	86	4	98	28	18	12	41	1.86
1315167--1315208	19	2.2	19	91	0	66	66	7	0	26	1.17
1321974--1322020	14	3.6	14	77	11	55	80	8	10	0	0.89
1322945--1324255	62	21.1	62	83	3	1388	24	24	18	32	1.97
1324222--1324291	32	2.3	30	82	7	79	30	24	15	30	1.96
1324363--1324501	61	2.3	61	82	6	156	24	22	14	38	1.91
1324476--1324578	52	2.0	52	80	3	118	26	21	13	38	1.90
1325411--1325455	19	2.4	19	84	0	54	71	4	2	22	1.15
1328010--1328050	22	2.0	22	85	9	59	24	19	9	46	1.80
1330063--1330196	67	2.0	67	100	0	268	19	35	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333303--1333430	52	2.5	52	94	3	224	30	17	17	33	1.94
1333439--1333463	13	1.9	13	100	0	50	36	16	16	32	1.90
1333504--1333570	33	2.0	33	88	0	98	40	13	11	34	1.81
1333526--1333550	13	1.9	13	100	0	50	32	16	16	36	1.90
1334484--1334513	10	3.0	10	95	0	51	43	10	26	20	1.83
1336985--1337030	23	2.0	24	83	12	60	60	19	4	15	1.51
1337931--1337975	21	2.1	21	87	0	63	20	17	0	62	1.33
1337945--1337989	21	2.1	21	91	0	72	20	17	0	62	1.33
1340077--1340126	24	2.1	24	85	3	66	48	12	18	22	1.80
1340212--1340378	53	3.2	53	66	19	161	38	13	15	31	1.87
1340160--1340376	102	2.1	102	100	0	434	39	13	15	31	1.87
1340163--1340323	49	3.2	49	66	19	141	39	14	14	31	1.86
1341879--1342414	272	2.0	271	92	0	901	29	34	15	20	1.94
1344726--1345222	34	15.3	33	68	15	182	20	26	13	39	1.90
1344775--1344959	30	5.9	30	68	13	113	20	27	16	35	1.94
1344733--1345087	64	5.6	64	86	5	409	20	25	14	38	1.91
1345049--1345210	32	4.9	33	72	8	132	22	25	12	39	1.89
1344986--1345216	66	3.5	67	79	7	192	22	25	12	40	1.88
1345223--1346322	33	33.9	33	78	8	879	31	33	15	20	1.93
1345223--1346329	66	17.1	66	78	7	975	31	33	15	19	1.93
1345223--1346329	260	4.3	260	81	4	1154	31	33	15	19	1.93
1346381--1346681	52	5.8	51	84	3	370	21	25	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346381--1346681	104	2.9	104	88	1	435	21	25	17	35	1.95
1346373--1346681	156	2.0	154	88	2	458	20	25	17	36	1.94
1346667--1346831	61	2.7	61	76	7	165	21	26	15	36	1.93
1347593--1347671	40	2.0	40	89	2	122	35	12	12	39	1.81
1347595--1347672	20	3.8	20	79	1	84	34	12	11	41	1.80
1352000--1352038	20	2.0	20	89	0	60	33	15	7	43	1.75
1355227--1355252	13	2.0	13	100	0	52	38	15	15	30	1.88
1355209--1355272	32	2.0	33	90	3	103	42	15	14	28	1.86
1357473--1357522	21	2.3	21	80	10	57	56	4	18	22	1.58
1359314--1359344	15	2.1	15	93	0	53	45	19	22	12	1.84
1361376--1361414	13	3.0	13	92	0	69	30	12	15	41	1.85
1363963--1363988	13	2.0	13	100	0	52	38	15	15	30	1.88
1363945--1364008	32	2.0	33	87	3	94	40	17	14	28	1.88
1366303--1366339	4	9.8	4	88	11	60	48	24	0	27	1.51
1370181--1370225	21	2.0	24	84	16	62	6	24	0	68	1.13
1373867--1373891	13	1.9	13	100	0	50	36	16	16	32	1.90
1373844--1373911	33	2.1	33	88	2	102	32	14	17	35	1.91
1373944--1373996	20	2.7	20	90	0	79	30	15	13	41	1.85
1374560--1374603	21	2.2	20	83	4	52	29	29	2	38	1.69
1374629--1374666	19	2.0	19	100	0	76	21	36	0	42	1.53
1375987--1376027	20	2.0	21	90	4	66	4	26	48	19	1.69
1376289--1376330	22	2.0	22	86	13	63	42	0	21	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376453--1376491	13	3.0	13	92	0	60	38	15	15	30	1.88
1382652--1382676	13	1.9	13	100	0	50	36	16	16	32	1.90
1382629--1382696	33	2.1	33	88	2	102	32	14	17	35	1.91
1382729--1382781	20	2.7	20	84	0	70	30	13	15	41	1.85
1383632--1384107	81	5.9	78	77	11	405	32	10	26	30	1.90
1383585--1384122	81	6.7	81	73	12	364	32	10	26	30	1.90
1386572--1386626	20	2.7	21	91	2	85	29	21	10	38	1.88
1386662--1386703	21	2.0	21	85	0	57	38	19	19	23	1.93
1388670--1388718	17	3.1	15	82	8	53	81	4	14	0	0.83
1388673--1388718	8	5.8	8	82	10	58	84	2	13	0	0.71
1388673--1388720	23	2.1	23	88	7	71	85	2	12	0	0.69
1390928--1391136	80	2.6	79	82	7	242	34	11	26	27	1.91
1390928--1391548	79	7.8	79	79	5	522	35	11	24	28	1.91
1391371--1391420	27	1.9	26	84	8	66	32	14	26	28	1.94
1393909--1393981	20	3.6	20	70	7	58	36	8	19	35	1.81
1394055--1394125	20	3.5	20	80	5	72	33	16	8	40	1.79
1394628--1395230	70	8.4	72	81	6	647	37	16	22	23	1.93
1397012--1397067	21	2.7	21	100	0	112	35	10	17	35	1.85
1397101--1397190	19	5.1	18	69	22	66	36	12	14	36	1.84
1397126--1397197	32	2.2	32	95	0	126	36	12	15	36	1.85
1397221--1397274	20	2.7	20	94	0	99	25	14	12	46	1.81
1397263--1397288	13	2.0	13	100	0	52	30	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397243--1397309	34	2.0	33	91	2	107	26	19	11	41	1.86
1399634--1399769	52	2.6	52	80	6	168	30	25	10	33	1.89
1399752--1399828	28	2.8	28	82	7	86	23	35	19	22	1.96
1399782--1400003	79	2.8	80	78	8	238	25	29	16	29	1.96
1399703--1399907	107	1.9	108	82	5	254	25	29	16	28	1.96
1407440--1407502	29	2.2	29	94	0	108	33	19	0	47	1.49
1418303--1418823	69	7.6	69	73	8	357	31	28	14	26	1.95
1418443--1418809	134	2.7	134	81	5	425	31	27	14	26	1.95
1418443--1418794	136	2.6	134	81	7	417	31	27	14	26	1.95
1418803--1418845	22	2.0	22	90	0	68	25	27	9	37	1.87
1422192--1422233	21	2.0	21	90	0	66	0	23	0	76	0.79
1422192--1422234	11	4.0	11	87	6	61	0	25	0	74	0.82
1422856--1423269	164	2.5	164	83	6	480	50	8	10	30	1.67
1434432--1434767	158	2.2	157	86	4	459	32	6	9	51	1.61
1437036--1437143	50	2.1	51	93	1	182	28	12	12	47	1.76
1440062--1440359	159	1.9	158	86	3	429	35	13	9	41	1.77
1443415--1443615	76	2.6	75	87	4	287	20	18	13	46	1.83
1444217--1444401	33	5.6	33	83	9	200	13	21	21	44	1.86
1444317--1444548	32	7.2	32	70	12	150	14	20	18	45	1.85
1444303--1444875	65	8.8	65	78	4	476	16	21	18	43	1.87
1444414--1444527	33	3.5	33	71	9	99	15	20	21	42	1.88
1447575--1448167	165	3.6	166	85	4	781	32	11	13	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451911--1451951	7	5.9	7	85	0	55	82	4	2	9	0.89
1451911--1451958	14	3.4	14	85	5	60	83	6	2	8	0.88
1466488--1466527	18	2.2	18	90	0	62	20	17	0	62	1.33
1467501--1467688	65	2.9	65	86	0	223	15	18	17	48	1.82
1467564--1467954	66	5.9	65	76	3	255	18	22	17	41	1.90
1467618--1467954	133	2.5	131	81	2	359	18	24	17	40	1.91
1468129--1468352	123	1.8	123	80	3	272	20	23	12	44	1.84
1468088--1468573	41	11.9	41	72	11	187	20	22	12	44	1.85
1468251--1468493	123	2.0	123	83	3	310	21	23	11	43	1.85
1468277--1468677	82	4.9	82	73	3	261	21	23	11	42	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12