genome.fa.s77.2.7.7.80.10.50.1000.9.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: Scaffold77
Parameters: 2 7 7 80 10 50 1000
Length:  1374688

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1055 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)
1198994--1199650	27	24.0	27	88	2	945	29	14	32	22	1.94
1200706--1200731	9	2.9	9	100	0	52	0	0	7	92	0.39
1200987--1201052	23	2.7	23	81	9	69	6	9	10	74	1.22
1200998--1201049	23	2.2	24	86	3	70	5	11	9	73	1.25
1208105--1208179	20	3.8	20	80	3	80	40	12	13	34	1.81
1208102--1208179	40	2.0	39	87	2	111	39	12	12	34	1.82
1209689--1209729	20	2.0	20	90	0	64	53	0	46	0	1.00
1209698--1209730	14	2.4	14	94	0	57	51	0	48	0	1.00
1219200--1219269	12	6.4	11	78	17	58	40	0	48	11	1.39
1219190--1219269	30	2.5	30	78	11	72	43	0	46	10	1.37
1219220--1219251	9	3.6	9	91	0	55	43	0	43	12	1.42
1219190--1219321	42	3.1	42	87	2	176	44	1	44	9	1.44
1226874--1226899	13	2.0	13	100	0	52	38	15	15	30	1.88
1235250--1235297	23	2.1	23	96	0	87	41	6	8	43	1.60
1237421--1237462	5	8.4	5	100	0	84	61	38	0	0	0.96
1245246--1245409	79	2.0	81	89	4	253	51	10	21	15	1.73
1246431--1246470	7	5.4	7	85	8	53	80	0	0	20	0.72
1246431--1246470	15	2.7	14	84	7	53	80	0	0	20	0.72
1248207--1248621	145	2.9	142	79	9	412	32	12	9	45	1.75
1253598--1253707	42	2.6	41	79	11	114	44	0	39	16	1.48
1260869--1260922	20	2.7	20	85	0	63	42	14	11	31	1.81
1260961--1260986	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261767--1261866	42	2.4	39	80	15	112	43	11	28	18	1.83
1262081--1262788	55	12.4	55	84	7	850	26	20	26	27	1.99
1261963--1262788	116	7.2	111	82	8	887	26	20	26	26	1.99
1261963--1262788	171	4.8	170	86	6	1035	26	20	26	26	1.99
1263748--1263812	16	4.3	15	82	11	80	0	1	10	87	0.61
1263755--1263818	29	2.3	29	91	5	105	0	0	14	85	0.59
1263755--1263824	6	12.5	6	82	13	71	1	0	12	85	0.66
1263748--1263824	22	3.4	22	87	12	104	1	1	11	85	0.72
1263758--1263825	28	2.4	28	87	4	102	1	0	13	85	0.67
1263748--1263812	1	65.0	1	75	0	58	0	1	10	87	0.61
1276277--1276553	79	3.5	78	78	7	274	31	14	25	28	1.95
1276439--1276752	107	2.9	105	84	3	324	34	15	22	27	1.95
1279094--1279152	20	2.9	21	87	7	86	40	11	16	30	1.85
1279133--1279163	13	2.4	13	94	0	53	38	12	16	32	1.86
1279114--1279180	33	2.0	33	88	5	100	41	13	16	28	1.86
1279219--1279244	13	2.0	13	100	0	52	38	15	15	30	1.88
1279296--1279345	19	2.6	19	100	0	100	36	20	12	32	1.89
1281170--1281208	2	19.5	2	100	0	78	48	0	0	51	1.00
1281208--1281234	2	13.5	2	100	0	54	0	0	48	51	1.00
1283073--1283132	2	30.0	2	93	0	102	46	0	0	53	1.00
1285007--1285077	27	2.6	26	78	12	81	50	1	1	46	1.18
1287647--1287675	2	14.5	2	100	0	58	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289618--1289663	22	2.0	23	91	4	76	54	10	15	19	1.70
1297637--1297683	2	23.5	2	87	8	69	48	0	2	48	1.13
1298263--1298288	6	4.3	6	100	0	52	15	0	69	15	1.20
1299802--1299841	2	20.0	2	94	0	71	47	0	0	52	1.00
1302331--1302357	2	13.5	2	100	0	54	51	0	0	48	1.00
1304107--1304154	24	2.1	22	85	14	62	50	2	0	47	1.12
1304879--1304909	5	6.2	5	100	0	62	38	19	0	41	1.51
1305694--1305727	2	17.0	2	93	0	59	47	2	0	50	1.16
1307947--1307978	10	3.3	10	95	4	57	75	0	0	25	0.81
1307947--1307985	18	2.2	18	86	9	53	71	0	0	28	0.86
1308452--1308477	5	5.2	5	100	0	52	80	0	0	19	0.71
1312558--1312585	14	2.0	14	100	0	56	42	7	28	21	1.79
1312963--1312991	12	2.5	12	94	5	51	62	0	0	37	0.96
1313391--1313422	6	5.3	6	100	0	64	0	50	0	50	1.00
1318146--1318197	22	2.4	22	77	6	61	44	3	0	51	1.19
1318150--1318216	22	3.0	22	80	8	57	38	4	0	56	1.19
1318339--1318370	11	2.9	11	95	0	55	65	0	0	34	0.93
1319054--1319079	13	2.0	13	100	0	52	15	15	15	53	1.73
1320551--1320595	22	2.0	22	100	0	90	28	8	13	48	1.72
1320706--1320825	14	8.3	14	78	5	87	30	19	20	30	1.97
1323462--1323560	34	2.9	34	86	0	126	35	9	19	36	1.83
1325876--1325909	17	2.0	17	88	0	50	17	5	11	64	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326074--1326125	22	2.4	22	86	0	77	21	1	19	57	1.50
1326308--1326334	13	2.1	13	100	0	54	37	14	14	33	1.88
1328257--1328321	32	2.0	32	93	0	112	46	4	23	26	1.71
1328843--1328909	33	2.0	33	88	0	98	35	11	16	35	1.86
1329421--1329506	34	2.5	35	84	7	113	27	13	19	38	1.90
1337049--1337101	13	3.6	13	73	26	52	35	13	16	33	1.88
1337025--1337122	19	5.8	18	67	28	72	34	11	16	37	1.84
1337027--1337127	32	3.1	32	94	1	166	35	10	16	36	1.84
1337165--1337189	13	1.9	13	100	0	50	32	16	16	36	1.90
1337198--1337326	52	2.5	52	94	0	231	35	17	17	28	1.93
1340453--1340478	13	2.0	13	100	0	52	38	15	15	30	1.88
1342698--1342747	21	2.3	21	80	10	57	56	4	18	22	1.58
1344545--1344575	15	2.1	15	93	0	53	48	16	22	12	1.80
1346657--1346694	13	2.9	13	92	0	58	34	15	15	34	1.90
1348463--1348510	20	2.5	19	87	12	71	41	2	12	43	1.54
1348472--1348512	20	2.0	20	100	0	82	41	0	9	48	1.36
1349268--1349293	13	2.0	13	100	0	52	38	15	15	30	1.88
1353573--1353605	17	2.0	17	94	5	59	39	6	6	48	1.53
1361059--1361099	19	2.1	20	86	4	57	17	4	0	78	0.93
1361138--1361213	34	2.2	34	95	0	134	42	2	11	43	1.55
1361780--1362459	337	2.0	337	92	2	1125	34	14	14	36	1.86
1366802--1366923	7	17.6	7	73	8	52	13	0	45	39	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366811--1366854	21	2.2	20	87	4	61	15	0	38	45	1.47
1366857--1366916	28	2.1	28	87	6	86	11	0	48	40	1.40
1366967--1368266	7	189.6	7	89	4	1465	5	2	50	42	1.36
1367215--1374553	7	989.7	7	78	16	5767	4	12	42	40	1.64
1368196--1374510	29	216.7	27	71	21	622	4	14	40	39	1.67
1368221--1374503	15	410.8	16	74	19	2088	4	14	40	39	1.67
1371833--1374553	22	118.6	24	73	21	263	5	14	40	39	1.69

Tables:   1   2   3   4   5   6   7   8   9

The End!