genome.fa.s14.2.7.7.80.10.50.1000.5.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: scaffold_14 ID=scaffold_14-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  2042280

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 804 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)
1202361--1202528	72	2.3	72	85	4	223	54	13	5	26	1.61
1202957--1203004	18	2.7	18	96	0	87	39	12	12	35	1.81
1203892--1203944	15	3.6	15	80	14	74	39	0	9	50	1.35
1203887--1203961	29	2.5	30	91	6	116	41	0	10	48	1.38
1203887--1203945	15	4.2	13	76	18	55	40	0	10	49	1.37
1207041--1207086	19	2.4	19	96	0	83	47	28	23	0	1.52
1207058--1207130	25	2.9	25	97	0	137	47	26	24	1	1.60
1207042--1207159	25	5.5	19	80	12	83	47	23	27	1	1.61
1209478--1209529	20	2.8	18	78	21	63	51	3	1	42	1.31
1209518--1209588	37	2.0	35	83	10	90	52	2	5	39	1.40
1217600--1217626	7	3.9	7	100	0	54	25	29	0	44	1.54
1229090--1229131	20	2.1	20	100	0	84	45	21	9	23	1.81
1238151--1238212	29	2.1	29	96	0	115	22	14	22	40	1.90
1244377--1244524	27	5.5	26	74	13	97	25	27	13	33	1.93
1244387--1244524	54	2.6	54	81	2	161	25	26	13	34	1.92
1247991--1248044	19	2.9	19	78	8	58	74	1	1	22	1.02
1249004--1249035	5	6.4	5	100	0	64	18	0	18	62	1.33
1249426--1250369	44	21.8	43	70	12	481	27	23	20	28	1.99
1249439--1250067	89	7.2	88	69	15	224	27	23	20	28	1.99
1249384--1250378	217	4.6	218	91	1	1507	27	23	20	28	1.99
1262133--1262182	19	2.6	19	81	6	57	74	2	2	22	1.03
1263136--1263162	5	5.4	5	100	0	54	18	0	18	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267923--1268172	52	4.9	52	89	5	386	34	14	23	27	1.94
1268027--1268220	46	4.3	46	78	15	217	37	13	21	27	1.92
1267915--1268183	98	2.7	98	90	4	412	34	14	23	27	1.94
1268147--1268255	37	3.0	37	91	2	177	36	15	22	25	1.93
1269319--1269848	50	10.6	51	67	8	254	23	20	21	33	1.97
1269319--1269894	100	5.8	100	83	3	653	24	20	21	33	1.97
1269319--1269894	198	2.9	199	82	3	656	24	20	21	33	1.97
1269655--1269904	50	5.0	50	74	4	139	25	21	20	32	1.98
1270016--1270288	44	6.0	44	73	13	131	26	21	19	32	1.97
1269959--1270245	142	2.0	142	93	0	493	27	21	18	33	1.96
1270015--1270460	186	2.4	186	90	0	696	28	20	18	32	1.96
1270157--1270460	44	6.7	44	75	12	256	28	20	19	31	1.97
1271793--1271849	14	4.0	14	75	11	53	8	15	0	75	1.04
1271796--1271859	21	3.0	21	76	19	62	9	12	0	78	0.97
1272636--1272722	15	5.6	15	66	16	52	5	18	1	74	1.07
1286210--1286245	8	4.9	8	80	19	51	33	0	0	66	0.92
1286218--1286248	12	2.5	12	94	5	53	32	0	0	67	0.91
1294612--1294652	12	3.4	12	96	0	73	19	17	34	29	1.94
1294750--1294791	17	2.5	17	96	3	77	54	0	9	35	1.33
1297276--1297329	22	2.5	22	87	6	74	42	16	22	18	1.89
1298836--1298986	41	3.6	41	83	6	178	35	19	14	30	1.91
1305819--1305856	16	2.4	16	90	0	58	68	2	7	21	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310184--1310424	50	4.8	50	89	0	347	20	30	22	26	1.98
1310523--1310549	13	2.1	13	100	0	54	62	7	0	29	1.22
1310761--1310818	30	1.9	30	85	0	80	27	22	10	39	1.86
1314532--1314584	26	2.1	26	82	3	63	15	9	15	60	1.58
1323110--1323247	43	3.2	43	88	4	206	24	25	18	31	1.97
1323110--1323247	44	3.2	43	87	8	192	24	25	18	31	1.97
1323235--1323260	13	2.0	13	100	0	52	15	15	23	46	1.83
1323192--1323305	56	2.0	57	86	1	158	21	24	19	34	1.96
1323681--1323725	21	2.1	21	83	0	54	6	40	20	33	1.78
1323762--1323812	21	2.4	21	80	0	57	7	45	11	35	1.70
1323676--1323852	87	2.0	87	88	0	264	14	31	15	38	1.87
1327108--1327265	72	2.2	72	81	11	189	37	20	13	28	1.91
1327361--1327403	13	3.2	13	87	9	59	53	37	0	9	1.33
1328340--1328507	74	2.3	73	88	1	246	26	25	22	25	2.00
1328423--1328781	113	3.1	114	89	1	558	26	26	22	24	2.00
1328713--1328826	41	2.8	41	85	2	158	28	31	19	21	1.97
1328599--1328936	155	2.2	155	93	0	568	25	27	22	25	2.00
1328754--1329007	114	2.2	113	87	0	364	24	25	24	25	2.00
1328486--1329007	269	1.9	267	89	1	812	24	26	23	25	2.00
1329429--1329491	28	2.3	27	83	8	81	55	3	3	38	1.32
1333434--1333547	17	6.7	17	66	21	69	36	1	0	61	1.07
1333453--1333525	29	2.5	29	86	8	103	35	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333492--1333557	11	6.4	11	73	21	54	36	3	0	60	1.12
1333463--1333590	39	3.1	39	91	7	184	35	2	0	61	1.09
1333503--1333556	28	1.9	28	81	7	65	35	3	0	61	1.14
1336822--1336879	18	3.5	17	75	22	61	37	0	58	3	1.15
1336831--1336881	13	4.0	13	84	5	59	39	0	56	3	1.18
1336822--1336881	25	2.4	25	80	2	68	38	0	58	3	1.15
1336851--1336887	18	2.1	18	89	0	56	45	0	54	0	1.00
1343116--1343292	43	4.1	43	80	2	194	31	28	16	23	1.96
1343115--1343280	86	1.9	86	86	2	235	29	28	16	25	1.97
1351599--1351650	27	1.9	27	88	0	77	28	19	42	9	1.82
1353655--1353862	48	4.5	47	74	13	173	19	5	33	42	1.73
1353751--1353878	23	5.6	22	73	12	89	19	4	32	42	1.72
1353650--1353864	93	2.3	93	87	4	292	20	5	33	40	1.74
1353730--1353878	22	6.5	22	67	14	79	20	4	32	42	1.73
1355802--1355946	27	5.4	27	78	8	152	44	17	16	20	1.86
1355798--1355946	54	2.7	55	81	3	185	44	17	16	20	1.86
1355799--1355970	54	3.2	53	78	6	154	43	17	16	22	1.88
1363931--1363978	20	2.4	20	75	0	51	50	12	29	8	1.69
1365005--1365086	42	2.0	42	85	4	112	18	36	23	21	1.95
1378838--1378903	25	2.6	25	92	0	114	45	16	12	25	1.82
1378945--1379087	27	5.3	26	78	6	151	21	15	18	44	1.86
1378945--1379087	54	2.6	54	91	0	214	21	15	18	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390151--1390183	6	5.7	6	96	3	59	51	18	18	12	1.76
1399222--1399262	16	2.9	15	82	17	52	31	2	0	65	1.05
1401508--1401672	48	3.5	46	73	9	129	43	30	6	20	1.76
1401491--1401694	93	2.2	93	85	5	270	44	31	4	19	1.71
1401492--1401624	23	5.8	23	70	6	81	43	33	5	18	1.72
1418301--1418356	26	2.2	26	93	0	94	41	14	14	30	1.85
1418308--1418369	26	2.4	25	86	10	81	40	11	20	27	1.87
1419997--1420047	17	2.8	18	76	8	50	31	15	1	50	1.55
1420141--1420180	21	1.9	21	84	0	53	37	5	0	57	1.21
1427507--1427668	40	4.1	40	79	4	132	36	16	26	20	1.94
1427564--1427669	20	5.3	20	65	0	59	38	17	26	16	1.92
1427545--1427671	40	3.2	40	85	0	146	37	18	25	18	1.94
1443529--1443801	137	2.0	137	92	1	458	35	13	8	43	1.73
1450896--1450973	2	39.0	2	86	0	111	44	1	50	3	1.28
1455093--1455117	13	1.9	13	100	0	50	8	8	20	64	1.46
1461811--1461854	11	3.9	11	84	3	52	34	9	0	56	1.31
1461907--1461962	28	2.0	29	82	3	69	39	0	7	53	1.28
1462653--1462687	16	2.2	16	90	10	54	77	0	5	17	0.96
1463483--1463527	22	2.0	22	95	0	81	35	6	0	57	1.25
1463600--1463664	27	2.4	27	92	5	105	26	27	27	18	1.98
1463744--1463783	11	3.7	11	86	6	64	70	0	30	0	0.88
1463915--1463958	3	14.7	3	100	0	88	0	0	31	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1464144--1464174	12	2.6	12	94	0	53	19	0	19	61	1.35
1469532--1469677	75	1.9	76	82	9	183	37	4	7	50	1.52
1470336--1470478	23	6.0	24	72	19	79	0	31	0	68	0.90
1470336--1470488	40	3.7	41	82	14	165	0	31	0	68	0.90
1470375--1470491	4	29.0	4	75	19	93	0	29	0	70	0.87
1470371--1470477	37	3.0	34	77	17	108	0	29	0	70	0.88
1470338--1470492	79	2.0	78	90	10	244	0	30	0	69	0.89
1470544--1470603	27	2.2	27	93	0	102	16	26	28	28	1.97
1470553--1470612	27	2.2	27	81	0	75	15	30	26	28	1.96
1471631--1471698	30	2.2	31	86	2	93	32	2	17	47	1.63

Tables:   1   2   3   4   5   6   7