genome.fa.s11.2.7.7.80.10.50.1000.9.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   28   29   

This is table  9  of  29  ( 3461 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)
1218373--1218409	19	1.9	19	94	0	65	35	2	0	62	1.10
1218831--1218863	2	16.5	2	100	0	66	0	51	0	48	1.00
1222265--1222304	4	10.0	4	100	0	80	25	25	0	50	1.50
1229157--1229197	15	2.8	15	82	14	50	58	2	0	39	1.11
1230534--1230560	12	2.2	12	100	0	54	59	0	0	40	0.98
1230521--1230593	27	2.7	27	80	6	76	54	0	1	43	1.08
1230634--1230720	14	6.4	14	71	22	60	47	1	0	51	1.08
1230616--1230693	23	3.4	23	82	5	88	51	0	0	48	1.00
1231077--1231134	25	2.3	25	87	3	80	48	1	3	46	1.29
1231157--1231197	6	6.8	6	97	0	73	46	0	2	51	1.14
1231618--1231677	16	3.8	15	78	10	57	45	25	16	13	1.84
1231616--1231686	32	2.2	31	80	7	88	45	22	16	15	1.85
1231668--1231707	16	2.5	16	83	0	53	40	27	22	10	1.86
1232391--1232428	8	4.9	8	83	6	51	89	5	0	5	0.59
1232382--1232426	20	2.2	20	85	14	58	86	6	0	6	0.70
1232383--1232429	23	2.0	24	87	8	69	87	6	0	6	0.68
1232393--1232426	14	2.3	15	95	5	61	88	5	0	5	0.64
1232390--1232427	15	2.6	14	88	12	58	89	5	0	5	0.59
1235096--1235142	16	2.9	16	87	0	67	42	36	12	8	1.74
1235246--1235295	23	2.2	23	82	7	57	42	0	2	56	1.11
1235252--1235299	11	4.2	12	82	17	66	41	0	0	58	0.98
1235254--1235297	23	1.9	23	95	0	79	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235310--1235396	40	2.1	41	81	10	99	41	2	0	56	1.12
1235282--1235386	45	2.4	44	74	15	101	38	0	0	60	1.10
1235707--1235773	11	5.8	12	75	18	61	37	1	1	59	1.16
1235924--1235971	20	2.5	19	80	12	62	52	0	0	47	1.00
1236938--1236971	2	17.0	2	100	0	68	50	0	0	50	1.00
1243652--1243689	9	4.1	9	86	13	51	21	0	2	76	0.91
1243647--1243691	15	2.6	18	80	13	51	26	0	2	71	0.98
1248990--1249057	22	2.9	22	80	8	55	51	1	1	45	1.19
1248989--1249046	25	2.3	26	79	11	66	50	0	1	48	1.11
1249206--1249264	31	1.9	31	89	3	93	35	8	0	55	1.30
1252456--1252596	69	2.0	69	94	0	246	46	9	14	28	1.77
1257746--1257786	2	20.5	2	94	0	73	48	0	2	48	1.14
1257788--1257928	75	1.9	75	95	0	255	40	9	19	29	1.84
1259092--1259151	20	2.8	22	75	17	63	40	0	1	58	1.08
1259054--1259122	33	2.2	31	84	10	86	43	0	0	56	0.99
1261642--1261676	17	2.1	17	89	5	54	42	22	8	25	1.82
1267689--1267744	27	2.0	29	86	6	80	57	1	3	37	1.27
1267718--1267756	15	2.5	16	84	16	55	61	0	0	38	0.96
1270435--1270467	11	3.1	11	91	4	50	30	0	0	69	0.88
1271800--1271837	14	2.9	13	84	11	51	31	0	0	68	0.90
1272048--1272082	12	2.8	12	86	4	52	42	0	0	57	0.99
1272603--1272662	25	2.4	25	83	5	68	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273266--1273315	14	3.6	14	78	7	50	46	0	0	54	1.00
1274065--1274104	20	2.0	20	90	0	62	40	0	0	60	0.97
1275158--1275339	91	2.0	90	92	1	301	41	15	7	35	1.75
1275426--1275467	22	1.9	22	90	9	68	61	0	0	38	0.96
1278522--1278581	26	2.3	26	88	0	93	53	0	0	46	1.00
1278600--1278638	17	2.3	18	82	13	55	46	0	0	53	1.00
1278702--1278760	23	2.7	23	87	10	79	62	0	6	30	1.21
1279598--1279640	21	2.0	21	86	0	59	69	2	0	27	1.00
1282299--1282327	12	2.3	13	94	5	51	68	3	0	27	1.05
1283070--1283139	36	1.9	36	85	0	95	37	28	20	14	1.91
1283127--1283605	240	2.0	239	97	0	904	33	34	18	12	1.90
1289396--1289440	22	2.0	23	82	4	56	28	17	4	48	1.66
1297630--1298102	42	11.3	42	76	7	401	13	30	19	36	1.90
1297678--1298086	169	2.5	166	88	1	586	14	30	19	36	1.91
1297630--1298102	127	3.8	127	77	6	464	13	30	19	36	1.90
1298388--1298416	12	2.3	13	94	5	51	68	3	0	27	1.05
1302840--1302878	10	3.9	10	86	10	53	56	0	0	43	0.99
1308897--1308921	2	12.5	2	100	0	50	48	0	0	52	1.00
1311804--1311837	2	17.0	2	93	0	59	47	0	0	52	1.00
1312048--1312111	28	2.2	30	81	10	80	42	1	0	56	1.09
1312076--1312121	20	2.3	20	84	0	56	39	0	0	60	0.97
1315615--1315665	22	2.3	22	80	6	59	56	3	0	39	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315913--1316078	8	19.6	8	67	19	70	33	0	0	65	1.02
1315914--1315975	10	6.4	10	81	15	60	25	0	0	74	0.82
1315915--1316070	26	6.1	27	68	22	90	33	0	0	64	1.03
1315914--1316075	36	4.4	36	72	5	137	33	0	0	65	1.02
1315917--1316069	32	4.9	32	70	17	108	34	0	0	64	1.04
1327096--1327134	2	19.5	2	89	0	60	46	0	2	51	1.14
1327123--1327175	20	2.7	20	79	8	63	41	0	5	52	1.25
1327124--1327170	19	2.3	21	85	7	62	38	0	6	55	1.26
1329818--1329929	44	2.6	42	91	5	188	51	17	15	15	1.76
1335227--1335291	14	4.6	14	78	5	60	56	0	0	43	0.99
1335228--1335275	10	4.6	10	77	10	51	56	0	0	43	0.99
1335653--1335726	34	2.1	34	82	9	87	52	1	0	45	1.09
1335923--1335964	2	21.0	2	100	0	84	0	50	0	50	1.00
1336439--1336514	22	3.4	22	70	14	66	44	0	0	55	0.99
1336462--1336505	19	2.2	20	88	4	63	43	0	0	56	0.99
1336480--1336529	21	2.3	23	82	6	68	46	0	0	54	1.00
1336814--1336844	16	2.0	16	93	6	55	29	0	0	70	0.87
1336871--1336909	16	2.4	16	91	0	60	43	2	0	53	1.14
1341394--1341456	27	2.4	25	82	17	76	53	0	1	44	1.10
1341411--1341468	25	2.2	26	84	6	73	55	0	0	44	0.99
1341397--1341605	31	6.7	31	75	15	150	54	0	1	43	1.15
1341418--1341605	31	5.8	32	75	17	160	55	0	1	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341406--1341639	91	2.6	87	77	18	243	54	0	1	43	1.11
1341499--1341627	16	8.0	16	69	15	88	56	0	0	43	0.99
1341487--1341560	29	2.7	26	75	18	78	55	0	1	43	1.08
1341528--1341629	53	2.0	49	87	11	143	58	0	0	41	0.98
1341499--1341631	18	8.1	17	71	16	102	56	0	0	43	0.99
1341832--1341875	9	4.8	9	85	2	52	43	0	0	56	0.99
1341845--1341900	18	3.0	18	78	14	60	37	0	1	60	1.07
1341851--1341911	29	2.0	30	82	17	74	39	1	3	55	1.26
1342666--1342690	12	2.1	12	100	0	50	28	8	40	24	1.83
1343634--1343662	14	2.0	15	93	6	51	58	0	0	41	0.98
1348469--1348500	2	16.0	2	100	0	64	50	0	0	50	1.00
1348989--1349039	26	2.1	25	82	10	61	50	1	1	45	1.24
1351171--1351204	2	17.0	2	100	0	68	50	0	0	50	1.00
1352307--1352356	23	2.2	23	85	7	66	40	2	0	58	1.10
1352859--1352929	22	3.2	23	76	9	67	61	0	2	35	1.10
1352853--1352906	27	2.0	27	82	7	65	59	0	3	37	1.15
1352885--1352921	17	2.3	17	90	9	60	59	0	0	40	0.97
1353380--1353446	20	3.2	20	81	10	73	41	0	1	56	1.08
1353490--1353540	20	2.5	20	93	0	84	49	1	0	49	1.12
1353536--1353586	22	2.3	22	86	3	66	58	0	1	39	1.09
1353541--1353584	11	4.0	11	80	11	54	59	0	2	38	1.10
1357433--1357494	16	3.9	16	75	22	51	41	1	1	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358451--1358491	21	2.0	21	85	9	57	60	0	0	39	0.96
1358704--1358746	16	2.6	16	85	3	59	69	2	0	27	1.00
1358739--1358780	21	2.0	21	85	4	57	52	0	2	45	1.13
1358762--1358792	8	3.8	8	91	8	53	54	0	0	45	0.99
1358765--1358793	9	3.3	9	95	4	51	58	0	0	41	0.98
1361066--1361121	22	2.6	22	86	8	71	71	7	1	19	1.18
1361274--1361326	19	2.8	18	77	11	52	58	0	0	41	0.98
1361323--1361351	13	2.2	13	100	0	58	72	0	0	27	0.85
1361188--1361591	200	2.0	199	90	2	634	53	8	1	36	1.41
1361425--1361470	23	2.0	24	82	4	58	65	6	4	23	1.35

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   28   29