genome.fa.s18.2.7.7.80.10.50.1000.9.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: Scaffold18
Parameters: 2 7 7 80 10 50 1000
Length:  4432388

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  9  of  27  ( 3197 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)
1249824--1249850	13	2.1	13	100	0	54	29	14	14	40	1.86
1249909--1250037	52	2.5	52	93	0	231	36	16	17	29	1.92
1263849--1263928	13	5.9	13	80	16	83	83	13	2	0	0.74
1263824--1263930	13	8.2	12	76	16	81	85	10	1	2	0.79
1263827--1263921	44	2.2	43	83	11	113	85	9	2	3	0.79
1263824--1263930	38	2.8	40	80	9	116	85	10	1	2	0.79
1263862--1263929	10	6.9	10	80	12	70	85	13	1	0	0.67
1263824--1263918	1	95.0	1	73	0	73	86	8	2	3	0.76
1265367--1265686	29	10.7	29	74	7	173	28	27	16	27	1.97
1265422--1265477	27	2.1	27	86	6	78	32	30	16	21	1.95
1265361--1265531	86	2.0	86	82	4	211	28	29	18	24	1.98
1265516--1265590	35	2.2	35	82	2	98	21	30	10	37	1.87
1265581--1265706	28	4.4	28	85	2	162	37	26	16	19	1.93
1265767--1266282	48	10.7	49	83	5	602	24	25	18	31	1.97
1265767--1266273	197	2.6	194	84	5	659	24	24	18	31	1.98
1267023--1267074	19	2.7	19	93	3	86	32	11	17	38	1.85
1267017--1267074	20	3.0	20	89	2	91	36	10	17	36	1.84
1267985--1268027	21	2.1	21	86	4	61	20	16	16	46	1.84
1273639--1273686	24	2.0	24	83	0	60	72	6	4	16	1.20
1283224--1283277	19	2.8	20	88	2	83	27	11	11	50	1.72
1283224--1283279	20	2.9	19	89	2	85	26	10	10	51	1.69
1290600--1290664	27	2.4	27	89	0	103	23	32	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290665--1290982	32	10.0	31	74	10	248	25	28	21	24	1.99
1290667--1290983	64	5.0	64	86	1	415	25	28	21	24	1.99
1290685--1290983	127	2.3	128	86	1	413	25	28	21	24	1.99
1292218--1292290	20	3.6	20	77	3	92	36	13	17	31	1.89
1292236--1292311	21	3.7	21	75	3	82	42	11	15	30	1.83
1292218--1292311	41	2.3	41	92	0	161	39	12	17	30	1.87
1292350--1292375	13	2.0	13	100	0	52	38	15	15	30	1.88
1294593--1294637	21	2.1	21	84	8	56	53	4	20	22	1.63
1296441--1296471	15	2.1	15	93	0	53	48	16	22	12	1.80
1298401--1298478	20	3.7	20	74	15	75	26	15	15	42	1.87
1298467--1298504	13	2.9	13	96	0	67	34	18	15	31	1.92
1298625--1298671	21	2.3	21	79	20	55	34	19	4	42	1.70
1298627--1298669	20	2.2	19	84	16	52	32	18	4	44	1.71
1301001--1301073	20	3.6	20	81	3	101	35	13	19	31	1.91
1301019--1301094	21	3.7	21	78	3	91	40	11	17	30	1.85
1301001--1301094	41	2.3	41	96	0	170	38	12	18	30	1.88
1301133--1301158	13	2.0	13	100	0	52	38	15	15	30	1.88
1304000--1304339	80	4.2	81	77	8	291	34	8	27	29	1.87
1304274--1304391	53	2.2	53	82	10	136	36	8	27	27	1.86
1304194--1304482	133	2.1	136	81	5	320	32	10	29	28	1.90
1304327--1304745	79	5.2	82	82	3	424	28	11	31	28	1.92
1304542--1304594	28	2.0	26	92	7	88	18	16	39	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304327--1304798	80	5.9	80	81	4	452	29	11	30	27	1.92
1306058--1306093	17	2.1	17	100	0	72	69	0	25	5	1.10
1307434--1307704	51	5.3	50	80	5	276	29	12	27	29	1.93
1307434--1307704	102	2.7	101	83	6	307	29	12	27	29	1.93
1307637--1307783	79	1.9	78	87	4	215	29	16	26	27	1.97
1310099--1310197	33	3.0	33	90	0	153	36	11	21	31	1.88
1311452--1311505	20	2.7	20	85	2	72	35	14	9	40	1.78
1312538--1312582	19	2.4	19	88	3	65	40	15	6	37	1.74
1313320--1313508	76	2.5	76	81	5	204	40	15	21	22	1.91
1317143--1317550	47	8.7	47	77	3	302	40	16	20	22	1.91
1317162--1317550	141	2.8	141	77	5	365	40	16	20	22	1.91
1317975--1318316	89	3.8	89	82	5	388	28	16	27	27	1.97
1319237--1319540	111	2.7	112	82	6	364	37	13	15	33	1.86
1319799--1319831	15	2.2	15	89	10	50	9	15	3	72	1.21
1321026--1321078	19	2.7	20	77	11	56	32	13	15	39	1.85
1322655--1322685	3	10.3	3	92	0	53	35	0	32	32	1.58
1325732--1325772	21	1.9	21	85	5	55	26	19	0	53	1.45
1327489--1327545	30	1.9	30	89	7	89	36	10	19	33	1.86
1328156--1328209	20	2.7	19	88	11	74	31	14	18	35	1.91
1332392--1332732	139	2.4	141	82	5	395	42	12	11	33	1.78
1333642--1333709	10	6.6	10	80	9	66	2	19	1	76	0.99
1333642--1333709	21	3.3	20	76	13	66	2	19	1	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333653--1333708	11	5.3	11	77	16	64	0	19	1	78	0.84
1334838--1334878	21	1.9	22	85	5	57	0	24	0	75	0.80
1335995--1336051	16	3.3	17	80	7	53	3	17	0	78	0.88
1336011--1336051	10	3.7	11	79	20	50	0	19	0	80	0.71
1335995--1336058	26	2.4	26	79	10	67	4	15	0	79	0.89
1335995--1336055	11	5.5	11	76	2	59	3	16	0	80	0.84
1337160--1337209	20	2.5	20	87	3	66	4	14	0	82	0.82
1337178--1337219	10	4.0	10	87	6	57	0	16	0	83	0.65
1337184--1337223	14	2.8	14	92	3	62	0	17	0	82	0.67
1337830--1338082	135	1.9	135	83	4	332	49	5	11	33	1.62
1342152--1342176	13	1.9	13	100	0	50	32	20	16	32	1.94
1344549--1344607	28	2.0	28	83	9	73	28	30	13	27	1.94
1344495--1344792	79	3.8	79	79	5	307	29	25	13	31	1.93
1344690--1344931	130	1.9	129	83	5	317	29	23	12	34	1.92
1344822--1345009	78	2.4	79	83	0	243	27	23	14	34	1.94
1344615--1345000	208	1.9	208	80	4	465	28	23	13	34	1.92
1346874--1347006	51	2.6	52	86	2	180	42	13	16	27	1.86
1347067--1347104	20	1.9	20	100	0	76	31	23	10	34	1.89
1347690--1347828	62	2.2	62	88	0	197	35	20	19	24	1.95
1347718--1347856	62	2.2	62	92	0	233	36	16	22	24	1.94
1347815--1347898	44	1.9	43	90	2	132	38	13	27	21	1.90
1354566--1354603	19	2.0	19	100	0	76	26	15	21	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361312--1361560	80	3.1	80	80	4	232	31	9	26	32	1.88
1361494--1361597	53	1.9	53	82	1	127	36	8	23	31	1.85
1363920--1363980	11	5.5	11	77	11	63	78	3	18	0	0.88
1363919--1363973	15	3.5	15	83	11	67	78	3	18	0	0.90
1365259--1365283	13	1.9	13	100	0	50	32	16	16	36	1.90
1365271--1365323	20	2.6	20	82	8	63	37	13	18	30	1.89
1365346--1365397	20	2.7	20	90	3	79	38	21	11	28	1.88
1375160--1375222	32	1.9	33	83	3	83	31	14	12	41	1.83
1375317--1375342	13	2.0	13	100	0	52	30	15	15	38	1.88
1377207--1377231	13	1.9	13	100	0	50	40	16	16	28	1.89
1377186--1377249	32	2.0	33	87	3	94	40	17	15	26	1.89
1381179--1381215	19	1.9	20	88	5	58	75	5	5	13	1.15
1381550--1381605	17	3.3	17	74	0	58	1	19	0	78	0.84
1382856--1383297	32	13.8	32	92	0	688	16	18	34	30	1.93
1383280--1383989	27	26.0	27	88	2	1044	29	14	33	22	1.94
1383283--1383982	191	3.7	190	92	1	1116	29	14	33	22	1.94
1391760--1391815	17	3.3	17	74	0	58	1	19	0	78	0.84
1396446--1396514	33	2.1	33	88	0	102	27	18	14	39	1.90
1396477--1396574	20	4.8	20	86	5	117	29	19	12	38	1.88
1396467--1396494	13	2.2	13	100	0	56	28	14	17	39	1.89
1396475--1396574	41	2.5	41	83	6	123	30	19	12	39	1.87
1398880--1399023	51	2.8	51	79	2	173	31	22	11	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399010--1399083	28	2.6	28	87	8	98	21	29	21	27	1.99
1398959--1399238	108	2.6	107	82	1	380	26	24	16	32	1.96
1399175--1399294	51	2.3	52	83	7	156	29	25	12	32	1.92
1399226--1399528	79	3.8	78	81	7	346	26	27	14	31	1.95
1399226--1399528	157	1.9	158	81	8	368	26	27	14	31	1.95
1413011--1413741	61	12.1	60	82	5	733	24	28	19	26	1.99
1413733--1413896	42	3.8	43	74	10	136	20	23	12	42	1.87
1413901--1414003	41	2.5	41	81	7	120	18	30	9	41	1.82
1414607--1414700	40	2.3	40	96	0	170	27	17	12	42	1.85
1414629--1414701	20	3.7	20	80	14	96	27	17	13	41	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27