genome.fa.s79.2.7.7.80.10.50.1000.9.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  9  of  26  ( 3105 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)
1223510--1223545	13	2.6	14	91	4	56	38	0	0	61	0.96
1224722--1224772	12	4.5	12	80	9	54	39	0	0	60	0.97
1225757--1225812	17	3.5	17	76	11	55	64	3	0	32	1.11
1226738--1226776	15	2.7	15	88	7	55	66	0	0	33	0.92
1226749--1226807	16	3.8	15	80	6	64	61	0	0	38	0.96
1230155--1230229	27	2.8	26	73	13	64	52	0	0	48	1.00
1230159--1230256	13	6.6	15	68	15	53	54	0	1	44	1.07
1230152--1230267	56	2.2	51	77	18	119	52	0	0	45	1.12
1231920--1231970	22	2.3	23	79	3	59	47	0	0	52	1.00
1233681--1233723	21	2.3	19	78	21	54	51	0	2	46	1.13
1233702--1233775	30	2.5	31	75	6	80	58	1	0	40	1.07
1234000--1234025	1	26.0	1	100	0	52	100	0	0	0	0.00
1235505--1235552	16	2.8	17	78	15	55	37	0	0	62	0.95
1235533--1235679	10	15.0	10	67	21	64	40	0	0	59	1.03
1235604--1235660	21	2.7	21	78	13	55	35	0	0	64	0.93
1235618--1235652	17	2.1	18	89	10	56	28	0	0	71	0.86
1235616--1235678	30	2.2	30	83	8	87	36	0	0	63	0.95
1235601--1235678	30	2.7	27	80	13	77	38	0	0	61	0.96
1236354--1236393	2	20.0	2	100	0	80	50	0	0	50	1.00
1237604--1237687	26	3.0	26	75	18	64	46	2	1	50	1.22
1242638--1242808	86	2.0	86	86	2	236	47	5	7	39	1.56
1244873--1244898	10	2.6	10	100	0	52	34	7	30	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245318--1245362	2	22.5	2	86	0	54	42	0	2	55	1.12
1245318--1245362	14	3.2	14	83	0	63	42	0	2	55	1.12
1245319--1245362	16	2.8	16	85	0	70	40	0	2	56	1.11
1245318--1245433	18	5.9	20	65	16	64	37	0	3	58	1.21
1245919--1245971	25	2.1	25	96	0	97	37	11	7	43	1.69
1245960--1246037	39	2.0	39	100	0	156	43	7	12	35	1.72
1248852--1248883	2	16.0	2	93	0	55	46	0	3	50	1.17
1250431--1250464	2	17.0	2	100	0	68	50	0	0	50	1.00
1251148--1251189	2	21.0	2	100	0	84	50	0	0	50	1.00
1252125--1252171	22	2.1	22	85	14	62	46	0	0	53	1.00
1252562--1252640	26	3.1	26	82	7	83	56	0	3	39	1.17
1255436--1255495	24	2.5	24	84	10	70	63	6	3	26	1.35
1257417--1257483	1	67.0	1	80	0	62	1	8	1	88	0.65
1257420--1257483	17	3.8	16	82	10	83	1	9	1	87	0.68
1258067--1258138	21	3.4	21	96	3	135	41	11	8	38	1.71
1271349--1271404	28	2.0	28	85	0	76	33	5	3	57	1.39
1271415--1271452	17	2.2	18	90	4	60	42	5	2	50	1.39
1280168--1280204	2	18.5	2	100	0	74	51	0	0	48	1.00
1282347--1282403	20	2.8	19	82	15	62	38	0	0	61	0.96
1282344--1282395	17	2.9	17	77	22	54	36	0	0	63	0.95
1282637--1282710	7	9.2	8	72	22	50	59	2	0	37	1.12
1282639--1282741	18	6.0	17	73	18	72	58	1	0	38	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282637--1282711	32	2.3	32	93	2	123	58	2	0	38	1.12
1283237--1283283	22	2.2	22	88	7	71	65	0	4	29	1.11
1283418--1283480	29	2.1	30	88	5	92	49	6	1	42	1.37
1285431--1285467	15	2.5	15	83	16	51	56	0	2	40	1.13
1286850--1286897	3	16.0	3	79	16	55	4	31	0	64	1.12
1289260--1289304	2	22.5	2	100	0	90	48	0	0	51	1.00
1289954--1290090	37	3.8	37	78	10	140	42	3	0	54	1.18
1290444--1290480	2	18.5	2	100	0	74	51	0	0	48	1.00
1290966--1291005	2	20.5	2	89	5	64	55	0	45	0	0.99
1293452--1293493	12	3.5	12	80	9	50	57	0	0	42	0.99
1293446--1293519	27	2.7	27	78	14	71	54	0	0	45	1.00
1293465--1293558	20	4.6	21	75	17	74	52	1	0	46	1.07
1295428--1295467	20	2.0	20	90	0	62	32	12	0	55	1.38
1297589--1297684	49	2.0	49	87	4	140	28	16	22	32	1.96
1298752--1298777	13	2.0	13	100	0	52	30	15	15	38	1.88
1298825--1298878	20	2.7	20	82	5	65	33	9	18	38	1.83
1300548--1300622	20	3.8	20	78	0	87	34	13	12	40	1.81
1300548--1300625	40	2.0	39	87	2	111	34	12	12	39	1.82
1305653--1305685	16	2.1	16	88	11	50	45	0	0	54	0.99
1305763--1305804	16	2.7	16	81	3	50	69	0	0	30	0.89
1305758--1305803	21	2.2	20	88	3	65	71	0	0	28	0.86
1305761--1305822	20	3.2	20	80	13	67	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305752--1305825	25	3.0	26	78	5	73	66	1	0	32	1.00
1305774--1305846	37	2.0	38	83	5	96	60	0	0	39	0.97
1309111--1309135	2	12.5	2	100	0	50	52	0	0	48	1.00
1310004--1310038	16	2.1	17	89	5	54	25	0	8	65	1.21
1312023--1312058	2	18.0	2	100	0	72	50	0	0	50	1.00
1316229--1316400	31	5.2	31	68	24	102	59	4	0	36	1.21
1316230--1316283	17	3.4	17	76	19	62	61	0	0	38	0.96
1317840--1317882	2	21.5	2	100	0	86	48	0	51	0	1.00
1319714--1319983	136	2.0	135	91	2	443	41	17	12	28	1.86
1321971--1322015	21	2.1	22	83	4	56	48	0	0	51	1.00
1321980--1322020	21	2.0	21	90	9	66	41	0	0	58	0.98
1323538--1323582	19	2.5	17	80	13	54	42	0	0	57	0.98
1323577--1323649	22	3.2	22	75	9	67	54	2	0	42	1.14
1323588--1323655	28	2.4	28	75	4	75	58	1	0	39	1.07
1324222--1324261	2	20.0	2	100	0	80	50	0	0	50	1.00
1326065--1326096	16	2.0	16	100	0	64	25	25	37	12	1.91
1326635--1326667	3	11.0	3	100	0	66	33	0	0	66	0.92
1331378--1331421	2	22.0	2	100	0	88	50	0	0	50	1.00
1333396--1333430	19	1.9	17	88	11	52	68	0	5	25	1.11
1337020--1337046	1	27.0	1	100	0	54	0	100	0	0	0.00
1337863--1337905	22	2.0	22	86	4	61	55	2	16	25	1.53
1337864--1337906	11	3.9	11	79	11	52	53	2	18	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340162--1340195	17	2.1	17	94	5	61	32	0	2	64	1.08
1340150--1340219	10	7.2	10	74	16	67	38	0	1	60	1.06
1340150--1340216	21	3.4	21	80	17	74	38	0	1	59	1.06
1342439--1342474	18	1.9	19	88	5	56	61	5	2	30	1.33
1345045--1345074	3	10.0	3	100	0	60	66	0	0	33	0.92
1345070--1345106	4	9.5	4	94	5	67	75	0	0	24	0.80
1345049--1345108	12	4.9	12	88	11	63	71	0	0	28	0.86
1345450--1345491	19	2.2	20	91	4	68	69	0	0	30	0.89
1345601--1345646	23	2.0	24	95	4	85	65	0	0	34	0.93
1345920--1345944	12	2.1	12	100	0	50	76	0	0	24	0.80
1347476--1347526	20	2.5	22	81	15	72	43	0	0	56	0.99
1347703--1347734	2	16.0	2	100	0	64	50	0	0	50	1.00
1348656--1348693	20	1.9	20	88	0	58	84	0	15	0	0.63
1348652--1348696	6	7.7	6	88	11	51	86	0	13	0	0.57
1349473--1349519	22	2.1	22	88	0	67	8	6	0	85	0.75
1349488--1349524	19	1.9	19	88	0	56	16	5	0	78	0.93
1355252--1355299	2	24.0	2	95	0	87	0	52	0	47	1.00
1357991--1358024	2	17.0	2	100	0	68	50	50	0	0	1.00
1360530--1360594	26	2.4	27	82	12	80	49	0	0	50	1.00
1360568--1360612	19	2.4	18	78	7	54	51	0	2	46	1.13
1360782--1360864	28	2.8	30	76	10	91	46	1	0	51	1.08
1361347--1361412	2	33.0	2	96	0	105	50	4	0	45	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365655--1365682	2	14.0	2	100	0	56	50	0	0	50	1.00
1365813--1365845	2	16.5	2	100	0	66	51	0	0	48	1.00
1366078--1366113	19	1.9	19	94	5	65	61	5	13	19	1.52
1367392--1367432	20	2.1	19	86	9	55	29	7	9	53	1.60
1368343--1368738	155	2.5	153	77	3	371	30	15	16	37	1.90
1368961--1369239	152	1.8	154	84	6	388	31	11	15	41	1.83
1370091--1370116	2	13.0	2	100	0	52	50	0	0	50	1.00
1370326--1370376	2	25.5	2	100	0	102	50	0	0	49	1.00
1370532--1370566	17	2.1	17	89	5	54	42	0	0	57	0.99
1370683--1370739	22	2.6	22	83	5	71	33	5	1	59	1.30

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