genome.fa.s125.2.7.7.80.10.50.1000.8.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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  ( 2131 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)
1187718--1187743	6	4.3	6	100	0	52	65	0	0	34	0.93
1189606--1189637	2	16.0	2	100	0	64	50	0	0	50	1.00
1190157--1190192	9	3.9	9	92	3	54	44	8	0	47	1.33
1190769--1190805	18	1.9	18	89	10	56	37	0	0	62	0.96
1191911--1191963	14	3.5	15	82	15	65	50	5	0	43	1.25
1197219--1197415	97	2.0	97	85	3	263	35	31	13	20	1.91
1201554--1201677	38	3.5	35	73	16	112	50	0	5	43	1.31
1201532--1201669	70	2.0	71	88	1	206	51	1	5	42	1.33
1201532--1201648	32	3.5	32	73	13	108	49	1	5	42	1.37
1207332--1207365	18	2.0	16	88	11	50	47	0	0	52	1.00
1207327--1207369	17	2.4	19	81	18	56	46	2	0	51	1.13
1208423--1208471	2	24.5	2	100	0	98	48	0	51	0	1.00
1213618--1213651	9	3.7	9	88	7	50	26	0	0	73	0.83
1217958--1218008	10	4.8	10	77	17	50	72	1	0	25	0.95
1218436--1218492	28	2.0	28	83	6	71	47	0	0	52	1.00
1223055--1223082	12	2.3	12	100	0	56	17	0	0	82	0.68
1223895--1223953	2	30.0	2	82	3	66	47	1	1	49	1.21
1225119--1225195	17	4.7	16	68	12	50	67	5	0	27	1.12
1235164--1235207	21	2.2	20	84	12	54	45	4	0	50	1.22
1236917--1236958	22	2.0	22	90	4	68	40	2	2	54	1.26
1239359--1239418	29	2.1	29	93	0	102	38	18	10	33	1.84
1241014--1241049	2	18.0	2	100	0	72	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)
1241049--1241094	2	23.5	2	95	4	85	52	0	47	0	1.00
1241226--1241272	22	2.0	24	88	8	71	65	0	6	27	1.16
1243868--1243954	45	1.9	45	86	9	124	47	16	6	29	1.72
1244834--1245330	258	1.9	259	82	4	617	34	26	19	19	1.96
1255088--1255162	39	1.9	39	81	10	91	60	0	2	37	1.11
1255186--1255280	37	2.7	34	78	15	95	56	1	2	40	1.18
1255241--1255294	26	2.1	25	86	3	72	55	0	0	44	0.99
1255131--1255318	29	6.1	30	71	20	111	56	1	1	40	1.18
1255331--1255371	17	2.5	17	80	7	50	48	2	0	48	1.14
1256599--1256644	24	1.9	24	95	0	83	41	15	15	28	1.87
1259176--1259211	19	1.9	18	88	5	54	66	0	0	33	0.92
1259628--1259666	8	4.9	8	84	12	53	64	0	0	35	0.94
1259626--1259665	15	2.5	16	88	8	55	62	0	0	37	0.95
1259628--1259686	24	2.6	23	81	7	66	59	1	0	38	1.08
1261651--1261675	3	8.3	3	100	0	50	68	0	0	32	0.90
1262912--1262936	6	4.2	6	100	0	50	36	0	0	64	0.94
1263554--1263598	19	2.6	18	86	10	58	46	4	2	46	1.35
1263661--1263738	25	3.2	23	82	15	95	42	2	0	55	1.13
1263674--1263750	19	4.1	18	74	12	57	44	3	0	51	1.19
1265505--1265546	3	14.0	3	94	0	75	33	2	30	33	1.71
1266486--1266525	20	2.1	19	85	4	53	67	2	0	30	1.04
1270750--1270774	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271690--1271742	16	3.1	17	78	15	56	30	5	0	64	1.17
1271873--1271910	2	19.0	2	100	0	76	50	0	0	50	1.00
1275790--1275825	2	18.0	2	100	0	72	50	0	0	50	1.00
1276272--1276339	27	2.5	27	79	13	68	57	0	0	42	0.98
1279469--1279552	44	1.9	43	85	4	114	51	0	2	46	1.14
1279511--1279553	20	2.2	20	82	0	50	53	0	2	44	1.13
1280001--1280030	3	10.0	3	100	0	60	0	33	0	66	0.92
1280294--1280345	2	26.0	2	96	0	95	48	1	50	0	1.12
1286004--1286044	21	2.0	20	85	9	55	41	2	0	56	1.13
1286638--1286664	9	3.0	9	100	0	54	44	0	0	55	0.99
1287270--1287423	75	2.1	75	80	4	168	33	12	14	40	1.83
1287548--1287602	26	2.1	26	86	0	74	23	41	12	21	1.88
1287548--1287774	104	2.2	104	79	4	262	22	33	17	26	1.96
1287764--1287945	52	3.5	51	78	6	181	24	25	17	31	1.97
1287709--1288301	180	3.3	180	86	1	796	25	26	17	30	1.97
1287835--1288073	128	1.9	129	84	2	329	25	25	18	30	1.98
1287944--1288125	51	3.5	51	85	0	229	26	27	17	28	1.98
1288124--1288369	52	4.8	51	78	3	201	29	25	15	30	1.95
1288143--1288369	104	2.2	103	83	5	280	29	24	15	29	1.96
1288204--1288599	156	2.5	155	81	1	461	30	27	13	28	1.94
1288195--1288599	52	7.8	52	77	2	350	30	27	13	28	1.94
1289255--1289431	75	2.4	75	83	2	232	25	28	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291040--1291081	3	14.0	3	94	0	75	33	2	0	64	1.07
1298376--1298410	15	2.5	14	86	13	54	45	0	0	54	0.99
1300265--1300309	2	22.5	2	95	0	81	0	46	2	51	1.13
1306642--1306689	22	2.1	22	84	7	60	31	2	0	66	1.03
1307030--1307117	38	2.3	38	88	3	133	37	5	0	56	1.23
1307365--1307396	4	8.0	4	92	0	55	50	0	3	46	1.17
1312773--1312800	2	14.0	2	100	0	56	50	0	0	50	1.00
1313428--1313488	30	2.0	30	90	6	97	14	14	40	29	1.86
1314175--1314215	2	21.5	2	90	9	68	53	0	0	46	1.00
1314175--1314215	19	2.2	19	100	0	82	53	0	0	46	1.00
1314312--1314353	3	14.0	3	100	0	84	66	0	0	33	0.92
1321155--1321209	3	18.3	3	100	0	110	32	0	0	67	0.91
1322030--1322090	30	2.0	30	90	6	97	29	40	14	14	1.86
1322748--1322792	22	2.0	22	86	0	63	66	2	0	31	1.04
1323669--1323717	24	2.0	24	88	4	71	63	0	2	34	1.06
1324037--1324089	19	2.7	19	88	2	70	45	0	0	54	0.99
1324772--1324820	16	2.9	17	79	11	57	46	0	0	53	1.00
1326280--1326374	39	2.5	38	83	5	113	57	3	0	38	1.14
1326371--1326420	26	1.9	26	84	8	66	28	2	2	68	1.12
1326391--1326424	16	2.1	17	88	5	52	26	2	5	64	1.30
1327022--1327071	19	2.5	20	78	12	59	38	2	0	60	1.09
1327015--1327068	20	2.6	21	82	11	67	38	1	0	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328263--1328297	17	2.0	17	88	5	52	45	0	0	54	0.99
1328272--1328306	17	2.1	17	89	5	54	48	0	0	51	1.00
1328680--1328727	24	2.0	24	87	0	69	47	0	0	52	1.00
1328716--1328764	22	2.2	23	85	10	66	55	0	0	44	0.99
1328750--1328808	17	3.5	17	70	9	50	55	3	0	40	1.16
1328759--1328846	33	2.8	31	80	11	99	59	2	1	37	1.18
1329433--1329462	7	4.4	7	91	8	53	13	0	0	86	0.57
1329640--1329670	2	15.5	2	100	0	62	0	48	0	51	1.00
1329670--1329699	2	15.0	2	100	0	60	50	0	0	50	1.00
1329699--1329729	2	16.0	2	93	6	55	51	48	0	0	1.00
1339947--1339989	22	2.0	22	90	9	70	46	0	0	53	1.00
1339965--1340013	17	3.1	16	85	8	64	38	0	2	59	1.09
1343707--1343752	24	2.0	23	82	4	56	54	0	0	45	0.99
1343751--1343793	12	3.6	12	78	9	52	30	0	0	69	0.88
1346205--1346237	2	16.5	2	100	0	66	48	0	0	51	1.00
1347117--1347157	20	2.0	21	86	13	59	53	0	0	46	1.00
1347119--1347153	17	2.0	18	88	5	54	57	0	0	42	0.99
1352545--1352619	18	4.1	19	70	16	59	40	1	2	56	1.22
1353686--1353752	31	2.1	32	83	8	84	53	1	0	44	1.09
1353709--1353752	18	2.8	15	78	21	54	54	0	0	45	0.99
1353715--1353757	18	2.4	18	88	7	61	53	0	0	46	1.00
1354226--1354281	26	2.1	27	83	9	71	41	1	3	53	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354514--1354578	34	1.9	34	81	12	80	60	0	0	40	0.97
1354723--1354748	3	8.7	3	100	0	52	69	0	0	30	0.89
1356843--1356898	16	3.4	16	75	4	67	44	0	0	55	0.99
1356844--1356913	33	2.1	33	86	5	97	45	0	0	54	0.99
1357335--1357373	20	2.0	21	85	10	55	58	2	0	38	1.12
1364861--1364971	34	3.2	34	67	10	89	46	7	1	44	1.41
1364872--1365008	71	1.9	71	90	0	220	42	8	2	46	1.47
1366353--1366384	2	16.0	2	100	0	64	50	0	0	50	1.00
1367190--1367230	17	2.4	17	88	12	57	63	0	0	36	0.95
1367301--1367698	99	4.0	99	86	2	456	40	8	12	38	1.72

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