genome.fa.s142.2.7.7.80.10.50.1000.8.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  8  of  8  ( 953 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)
1259796--1259820	13	1.9	13	100	0	50	56	0	0	44	0.99
1261285--1261329	23	2.0	23	82	8	56	55	2	2	40	1.24
1273536--1273913	198	1.9	195	92	2	641	40	13	13	32	1.84
1276041--1276097	12	4.8	12	84	0	51	57	0	0	42	0.98
1276070--1276098	2	14.5	2	100	0	58	48	0	0	51	1.00
1277086--1277126	13	3.2	13	80	16	50	31	0	0	68	0.90
1277085--1277125	20	2.0	20	90	0	64	29	0	0	70	0.87
1277161--1277249	24	3.6	25	78	13	80	50	2	3	43	1.31
1277165--1277212	22	2.2	23	81	7	55	50	0	2	47	1.12
1277191--1277259	28	2.5	26	83	6	84	55	2	5	36	1.39
1277442--1277483	23	2.0	21	86	13	59	50	2	0	47	1.14
1277867--1277923	22	2.7	22	78	10	57	47	1	1	49	1.22
1277887--1277942	27	2.0	28	82	3	69	46	0	0	53	1.00
1279499--1279574	17	4.4	17	71	15	57	43	1	0	55	1.08
1279501--1279592	45	2.0	45	81	8	107	42	2	0	55	1.12
1279546--1279588	17	2.6	17	85	3	61	37	0	0	62	0.95
1282409--1282744	166	2.0	168	94	1	595	38	14	18	27	1.90
1294869--1294929	2	30.5	2	100	0	122	50	0	49	0	1.00
1306481--1306536	27	2.0	29	83	13	73	51	1	3	42	1.29
1307874--1307969	26	3.7	26	83	2	122	47	7	4	40	1.50
1308041--1308086	17	2.6	18	75	25	53	56	2	0	41	1.11
1308961--1308993	14	2.4	14	95	5	59	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311878--1311910	2	17.0	2	93	6	59	51	0	0	48	1.00
1318304--1318411	35	3.2	35	65	27	88	31	9	24	35	1.87
1318653--1318681	7	4.3	7	95	4	51	41	0	0	58	0.98
1320484--1320542	28	2.2	27	82	14	77	59	0	0	40	0.97
1320508--1320555	16	2.9	18	79	17	59	58	0	0	41	0.98
1320486--1320593	46	2.4	46	79	11	111	58	1	0	39	1.09
1324468--1324517	19	2.7	19	78	3	57	42	0	2	56	1.11
1324649--1324686	13	2.8	13	92	4	58	57	0	0	42	0.98
1324648--1324691	13	3.3	12	84	12	52	52	2	0	45	1.13
1326452--1326509	11	5.0	12	77	8	50	60	1	0	37	1.07
1326430--1326504	31	2.4	31	84	8	89	61	1	0	37	1.05
1330099--1330145	21	2.2	22	88	3	69	42	0	4	53	1.20
1330097--1330156	18	3.2	18	79	11	57	46	0	3	50	1.18
1331030--1331120	34	2.7	34	76	6	80	53	0	3	42	1.17
1331020--1331090	27	2.7	24	77	14	70	52	0	1	46	1.09
1331055--1331107	15	3.3	15	80	19	63	54	0	0	45	0.99
1331888--1331925	19	2.0	19	100	0	76	36	10	10	42	1.74
1332831--1334129	72	18.0	72	92	0	2141	28	23	9	38	1.86
1339856--1339892	19	1.9	19	89	10	58	16	10	32	40	1.83
1339912--1339972	28	2.2	28	85	5	79	22	4	16	55	1.60
1339969--1340014	24	1.9	24	86	0	65	19	8	28	43	1.80
1343630--1343699	29	2.4	29	83	6	81	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343693--1343744	21	2.5	21	84	9	63	65	0	3	30	1.10
1343778--1343825	25	2.0	24	84	12	62	43	0	0	56	0.99
1343941--1343985	14	3.1	14	84	12	56	57	0	0	42	0.98
1343945--1343986	15	2.8	15	85	0	57	61	0	0	38	0.96
1345073--1345425	143	2.5	142	79	5	336	32	19	9	38	1.83
1345852--1345941	45	2.0	45	95	0	162	33	11	6	48	1.65
1345938--1346968	204	5.0	204	86	2	1325	32	18	11	36	1.87
1346770--1347157	144	2.7	143	76	7	374	30	18	14	35	1.91
1351646--1351983	72	4.7	72	77	4	270	32	23	11	33	1.90
1351674--1351992	144	2.2	144	78	3	329	33	22	10	32	1.89
1357192--1357231	2	20.0	2	89	0	62	55	0	0	45	0.99
1357990--1358062	34	2.1	34	87	0	101	39	32	2	24	1.70
1357998--1358065	34	2.0	34	91	0	109	38	33	2	25	1.71
1358023--1358087	22	3.0	21	80	6	60	41	29	1	27	1.65
1362534--1362569	18	2.0	18	100	0	72	44	22	0	33	1.53
1362548--1362636	34	2.6	34	85	1	117	41	19	1	38	1.59
1362594--1362629	12	2.9	12	87	4	54	41	13	0	44	1.44
1362594--1362643	25	2.0	25	84	0	64	46	12	0	42	1.41
1362631--1362655	12	2.1	12	100	0	50	64	0	0	36	0.94
1364573--1364641	21	3.4	21	69	23	58	43	1	8	46	1.43
1364573--1364649	40	1.9	40	84	12	104	45	1	9	44	1.43
1365972--1366013	2	21.0	2	95	0	75	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367289--1367340	27	1.9	27	96	0	95	25	26	28	19	1.98
1367426--1367450	12	2.1	12	100	0	50	92	0	0	8	0.40
1368435--1368461	3	9.0	3	100	0	54	33	33	0	33	1.58
1371719--1371777	31	1.9	31	89	6	93	32	23	16	27	1.96
1372617--1372645	15	2.0	15	93	6	51	55	0	0	44	0.99
1375754--1375804	19	2.8	18	82	8	59	54	3	5	35	1.43
1375978--1376032	27	2.0	27	82	0	65	63	0	0	36	0.95
1376563--1376626	33	1.9	34	87	3	94	53	0	1	45	1.10
1376564--1376626	16	3.8	16	80	17	67	52	0	1	46	1.10
1377503--1377548	24	1.9	25	91	8	78	45	21	8	23	1.80
1377534--1377601	27	2.5	27	87	0	100	45	20	10	23	1.81
1377589--1377646	26	2.3	25	91	5	91	25	15	25	32	1.95
1382099--1382144	24	1.9	25	91	8	78	45	21	8	23	1.80
1382130--1382197	27	2.5	27	87	0	100	45	20	10	23	1.81
1382185--1382242	26	2.3	25	91	5	91	25	15	25	32	1.95
1382270--1382306	2	18.5	2	94	0	65	48	2	0	48	1.15
1383268--1383358	45	2.1	43	83	8	112	64	2	3	29	1.21
1383878--1384007	13	10.1	13	68	12	54	49	0	2	48	1.14
1383935--1384008	27	2.8	26	78	12	87	55	0	0	44	0.99
1383937--1384022	17	4.9	18	73	18	67	53	0	0	46	1.00
1383955--1384035	33	2.5	33	77	4	83	55	0	2	41	1.13
1385720--1386229	72	7.1	72	90	0	750	27	22	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385720--1386304	216	2.7	214	83	4	789	27	21	11	39	1.87
1390907--1390938	14	2.2	15	94	5	57	65	0	0	34	0.93
1392113--1392155	19	2.2	20	88	8	63	72	2	0	25	0.97
1392348--1392407	14	4.1	14	79	10	57	60	0	1	38	1.07
1392971--1393030	24	2.3	26	86	13	81	60	1	0	38	1.07
1392980--1393064	27	3.2	27	77	9	79	56	2	0	41	1.12
1393020--1393064	18	2.4	18	81	3	54	55	4	0	40	1.20
1396535--1396755	34	6.5	33	81	9	257	40	26	7	25	1.82
1396537--1396755	68	3.2	67	85	3	287	40	26	7	25	1.82
1396535--1396755	102	2.2	101	90	1	361	40	26	7	25	1.82
1400821--1400883	19	3.3	19	90	0	90	34	19	17	28	1.94
1401187--1401405	34	6.5	33	81	9	253	40	26	7	25	1.82
1401189--1401405	68	3.2	67	84	3	283	40	26	7	25	1.82
1401187--1401405	102	2.2	101	89	1	357	40	26	7	25	1.82
1402360--1402434	27	2.9	26	88	5	116	28	4	16	52	1.61
1405410--1405502	27	3.6	26	76	4	82	25	8	17	48	1.75
1405420--1405480	26	2.3	27	82	2	70	31	8	13	47	1.71
1405713--1405750	20	2.0	20	84	5	51	13	0	5	81	0.85
1406161--1406185	12	2.1	12	100	0	50	40	0	0	60	0.97
1408567--1408722	72	2.2	71	85	5	215	30	24	12	33	1.92
1416404--1416480	16	4.6	17	81	12	97	61	0	0	38	0.96
1416396--1416491	21	4.7	21	67	20	60	60	1	0	38	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416613--1416639	2	13.5	2	100	0	54	48	0	0	51	1.00
1420671--1420719	15	3.2	16	82	8	66	63	0	2	34	1.06
1420682--1420719	16	2.5	15	87	8	58	63	0	0	36	0.95

Tables:   1   2   3   4   5   6   7   8

The End!