genome.fa.s117.2.7.7.80.10.50.1000.8.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  8  of  18  ( 2101 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)
1206650--1206681	12	2.5	13	90	10	57	87	0	12	0	0.54
1207373--1207401	2	14.5	2	100	0	58	48	0	0	51	1.00
1210412--1210437	2	13.0	2	100	0	52	50	0	0	50	1.00
1211129--1211166	2	19.0	2	100	0	76	50	0	0	50	1.00
1211249--1211302	6	9.0	6	97	0	99	50	35	0	14	1.44
1211974--1212015	16	2.4	17	80	19	50	61	0	0	38	0.96
1211993--1212032	19	2.0	21	90	9	66	62	0	0	37	0.95
1211954--1212032	17	4.2	20	72	25	66	59	1	0	39	1.06
1211991--1212044	21	2.7	18	81	18	63	59	0	1	38	1.08
1212053--1212084	16	2.0	16	100	0	64	56	0	18	25	1.42
1217954--1217985	3	10.7	3	100	0	64	68	0	0	31	0.90
1218857--1218924	31	2.2	31	89	0	100	35	27	11	25	1.91
1221920--1222003	21	3.8	22	74	13	73	52	0	0	47	1.00
1221926--1221992	15	4.5	15	70	18	59	55	0	0	44	0.99
1227083--1227109	2	13.5	2	100	0	54	48	0	0	51	1.00
1227300--1227482	34	5.4	34	88	0	260	25	7	26	39	1.83
1231895--1232079	34	5.5	34	88	0	264	25	7	26	40	1.82
1236159--1236193	6	5.8	6	86	0	52	34	37	11	17	1.85
1236727--1236765	16	2.4	16	88	12	62	66	0	0	33	0.92
1236718--1236814	29	3.4	27	71	18	74	63	0	0	36	0.94
1236736--1236856	22	5.7	22	73	16	89	60	0	0	38	1.08
1236744--1236833	34	2.7	33	75	14	85	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236721--1236830	21	5.4	21	73	20	67	63	0	0	36	0.95
1236721--1236828	42	2.6	41	76	14	105	62	0	0	37	0.95
1236760--1236837	18	3.9	21	72	21	60	58	0	0	41	0.98
1244018--1244062	20	2.1	23	84	12	60	48	2	0	48	1.13
1246547--1246579	14	2.2	16	89	10	52	54	3	0	42	1.15
1247909--1247938	12	2.5	12	100	0	60	56	0	10	33	1.32
1249201--1249250	23	2.2	23	88	0	73	44	18	4	34	1.68
1253217--1253257	13	3.2	13	92	0	73	31	29	9	29	1.89
1256534--1256575	19	2.2	20	86	4	59	76	4	9	9	1.15
1260161--1260199	2	19.5	2	100	0	78	51	0	48	0	1.00
1261484--1261742	129	2.0	129	97	0	491	30	25	13	30	1.94
1261507--1261774	129	2.1	128	87	2	385	31	24	13	30	1.94
1261730--1261929	100	2.0	102	86	4	280	45	20	10	24	1.82
1272087--1272130	20	2.1	21	83	4	54	75	9	9	6	1.20
1274275--1274318	20	2.1	21	83	4	54	75	6	9	9	1.20
1275545--1275588	3	14.7	3	90	0	70	63	2	0	34	1.07
1279551--1279579	3	10.0	3	92	7	51	68	0	0	31	0.89
1283111--1283251	55	2.6	55	96	0	255	56	9	28	4	1.53
1283301--1283325	2	12.5	2	100	0	50	52	0	48	0	1.00
1283580--1283694	55	2.2	51	80	13	126	41	0	1	55	1.16
1284117--1284162	23	2.0	22	84	12	58	41	0	0	58	0.98
1284292--1284333	16	2.5	17	84	3	59	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284659--1284703	24	1.9	23	81	4	54	71	0	0	28	0.87
1285928--1285973	19	2.4	19	79	17	51	76	0	8	15	1.02
1287297--1287361	33	2.0	33	96	0	121	32	23	12	32	1.91
1288607--1288714	30	3.7	30	72	14	91	54	0	6	37	1.33
1289765--1289806	22	1.9	22	85	0	57	38	2	2	57	1.25
1293111--1293190	22	3.6	22	66	14	58	40	5	1	53	1.31
1293505--1293544	21	1.9	21	89	0	62	52	0	0	47	1.00
1295770--1295812	2	21.5	2	100	0	86	51	0	0	48	1.00
1297892--1297930	19	2.1	19	100	0	78	41	10	20	28	1.85
1299144--1299170	2	13.5	2	100	0	54	51	48	0	0	1.00
1304136--1304204	32	2.1	33	81	7	79	73	7	8	10	1.24
1305610--1305658	2	24.5	2	87	0	71	44	0	4	51	1.20
1309002--1309078	2	38.5	2	92	0	118	46	48	3	1	1.28
1319519--1319553	2	17.5	2	100	0	70	51	0	0	48	1.00
1329544--1329589	22	2.1	22	84	8	58	65	10	15	8	1.47
1329598--1329644	18	2.5	19	82	6	60	70	8	10	10	1.35
1331241--1331274	2	17.0	2	100	0	68	50	0	50	0	1.00
1335111--1335137	2	13.5	2	100	0	54	51	0	48	0	1.00
1343914--1343946	3	11.0	3	93	0	57	66	3	0	30	1.06
1347737--1347878	55	2.6	56	93	1	232	54	11	28	4	1.57
1349114--1349189	29	2.6	27	71	20	64	48	2	5	43	1.39
1349264--1349521	128	2.0	128	100	0	516	54	7	2	35	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349700--1349735	18	1.9	19	94	5	65	33	0	0	66	0.92
1350702--1350735	9	3.9	9	84	7	52	85	0	0	14	0.60
1351077--1351181	50	2.1	51	96	1	194	47	15	13	23	1.80
1354713--1354741	2	14.5	2	100	0	58	51	48	0	0	1.00
1357633--1357692	2	30.5	2	93	3	104	53	0	0	46	1.00
1361980--1362016	17	2.2	17	90	9	58	32	0	0	67	0.91
1362729--1362760	5	6.8	5	96	3	50	0	0	12	87	0.54
1364450--1364507	9	6.4	9	77	0	62	22	15	46	15	1.83
1364450--1364509	27	2.2	27	87	0	84	21	16	46	15	1.83
1364450--1364507	18	3.2	18	85	0	71	22	15	46	15	1.83
1365914--1365943	13	2.3	13	100	0	60	56	0	0	43	0.99
1366518--1366567	24	2.0	25	92	3	84	24	8	12	56	1.62
1366608--1366650	21	2.0	21	86	0	59	48	20	4	25	1.69
1371784--1371815	2	16.0	2	100	0	64	50	0	0	50	1.00
1372014--1372046	17	1.9	17	88	11	50	45	0	3	51	1.16
1372780--1372829	24	2.0	25	85	11	68	46	0	0	54	1.00
1373913--1373951	19	1.9	20	85	15	53	61	2	0	35	1.10
1374695--1374719	6	4.2	6	100	0	50	36	48	16	0	1.46
1374720--1374747	14	2.0	14	100	0	56	50	21	14	14	1.78
1376029--1376062	14	2.3	15	90	5	52	38	0	0	61	0.96
1376233--1376287	6	9.3	6	88	4	76	0	74	0	25	0.82
1376234--1376287	17	3.1	17	91	2	81	0	74	0	25	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377472--1377532	24	2.7	23	85	7	79	55	0	1	42	1.09
1378178--1378221	14	3.0	16	75	18	51	59	0	0	40	0.98
1378547--1378592	2	23.0	2	100	0	92	50	0	0	50	1.00
1379436--1379507	36	2.1	34	89	7	110	20	9	41	27	1.84
1379551--1379630	33	2.4	33	80	0	88	25	11	37	26	1.89
1379581--1379820	57	4.2	57	89	0	345	25	9	37	28	1.86
1379701--1379915	33	6.5	33	69	16	142	24	11	37	26	1.89
1379746--1379879	72	1.9	72	90	0	214	24	11	38	25	1.90
1379760--1379987	33	6.5	33	68	14	132	24	11	38	25	1.89
1379761--1379987	108	2.1	105	87	2	319	24	11	38	25	1.89
1379931--1380085	33	5.2	32	63	25	99	23	10	38	27	1.88
1379965--1380011	24	2.0	24	86	0	67	23	6	40	29	1.79
1379926--1380098	57	3.0	57	93	0	274	23	12	39	24	1.89
1380055--1380134	33	2.4	33	81	10	92	22	15	42	20	1.88
1380079--1380353	57	4.8	57	91	0	388	24	12	38	24	1.90
1380163--1380308	27	5.2	27	64	28	72	22	11	39	26	1.88
1379967--1380245	147	1.9	147	82	5	350	24	11	40	24	1.88
1380247--1380338	30	3.2	30	64	30	72	21	9	40	28	1.85
1380240--1380330	27	3.3	27	65	24	71	24	9	41	24	1.85
1381759--1381791	2	16.5	2	93	0	57	51	0	0	48	1.00
1383698--1383747	15	3.5	15	78	10	52	64	0	0	36	0.94
1388027--1388056	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1405832--1405873	22	2.0	22	85	4	59	38	4	7	50	1.51
1414440--1414491	9	5.3	10	76	19	56	40	0	0	59	0.97
1414430--1414504	20	3.8	20	70	18	59	40	0	1	58	1.06
1421484--1421529	21	2.2	22	88	7	69	56	0	0	43	0.99
1421492--1421536	21	2.1	21	87	4	63	68	0	0	31	0.89
1422686--1422889	101	2.0	102	96	0	374	25	17	22	34	1.95
1423126--1423154	2	14.5	2	100	0	58	0	51	0	48	1.00
1423840--1423889	26	1.9	26	95	0	91	26	10	14	50	1.73
1433873--1433897	13	1.9	13	100	0	50	48	0	0	52	1.00
1434116--1434150	2	17.5	2	100	0	70	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18