genome.fa.s344.2.7.7.80.10.50.1000.8.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: Scaffold344
Parameters: 2 7 7 80 10 50 1000
Length:  1758742

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1257 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)
1255253--1255278	13	2.0	13	100	0	52	53	15	0	30	1.42
1255470--1255519	19	2.8	18	79	8	57	46	20	4	30	1.69
1255566--1255600	12	2.9	12	91	0	52	31	28	8	31	1.87
1256803--1256827	13	1.9	13	100	0	50	36	16	16	32	1.90
1260319--1260358	3	13.3	3	89	0	62	30	30	0	40	1.57
1261877--1261994	20	5.8	20	67	13	69	34	16	11	36	1.86
1262054--1262103	19	2.5	20	90	3	75	40	16	14	30	1.87
1262032--1262103	20	3.7	20	79	7	85	38	15	13	31	1.87
1269234--1269263	14	2.1	14	93	6	51	40	0	3	56	1.16
1270453--1270499	13	3.4	13	78	21	51	59	2	0	38	1.09
1270443--1270510	29	2.3	30	80	7	86	48	1	0	50	1.10
1270696--1270740	18	2.5	18	89	7	65	60	0	0	40	0.97
1270696--1270768	19	3.5	21	77	14	62	56	2	1	39	1.22
1270923--1270985	31	2.0	32	85	11	87	39	4	11	44	1.61
1271501--1271547	13	3.4	13	83	16	67	38	0	0	61	0.96
1271495--1271556	29	2.1	30	90	3	99	45	0	1	53	1.10
1272686--1272716	2	15.5	2	100	0	62	48	0	0	51	1.00
1274256--1274291	18	1.9	19	88	5	56	47	0	0	52	1.00
1277405--1277487	12	7.1	12	73	8	64	3	20	33	42	1.70
1277460--1277508	24	2.0	24	84	0	62	4	14	26	55	1.57
1277556--1277609	28	2.0	27	85	3	72	3	9	16	70	1.28
1277793--1277845	25	2.1	26	85	3	72	11	24	13	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277859--1278001	61	2.3	61	83	3	189	22	16	16	44	1.86
1278158--1278192	12	2.9	12	91	0	52	45	14	20	20	1.85
1278280--1278362	43	2.0	41	83	9	105	32	20	22	24	1.98
1278391--1278428	16	2.3	17	86	13	53	26	0	0	73	0.83
1278390--1278467	38	2.1	38	81	11	92	26	1	2	69	1.09
1279119--1279281	83	2.0	84	87	1	238	42	18	20	17	1.89
1279048--1279439	125	3.1	125	81	3	421	41	17	23	17	1.90
1279119--1279439	83	3.8	83	81	1	230	40	18	24	16	1.90
1279048--1279439	42	9.4	42	79	2	342	41	17	23	17	1.90
1279476--1279612	43	3.2	42	83	3	157	42	17	25	14	1.87
1279863--1280070	44	4.8	42	77	9	154	40	14	23	21	1.90
1279902--1280095	44	4.4	44	73	12	164	42	14	21	22	1.88
1281553--1281582	13	2.4	13	94	5	53	10	0	6	83	0.81
1282949--1282978	15	1.9	16	93	6	53	20	23	23	33	1.97
1294787--1294855	27	2.8	25	82	10	88	4	17	13	65	1.42
1295558--1295654	16	5.6	16	71	22	63	24	1	2	72	1.02
1299777--1299820	2	22.5	2	93	4	72	45	0	2	52	1.13
1299986--1300062	20	3.8	20	70	21	54	51	0	1	46	1.09
1300292--1300332	2	20.5	2	100	0	82	51	0	48	0	1.00
1305184--1305326	50	2.8	51	83	1	180	27	15	9	46	1.77
1307476--1307703	121	1.9	121	88	3	352	26	23	14	35	1.94
1308805--1308987	28	6.6	28	76	9	162	24	16	26	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308803--1308987	56	3.3	56	79	6	189	24	16	26	32	1.96
1309067--1309197	28	4.7	28	76	3	86	19	20	28	31	1.97
1309051--1309215	84	2.0	84	81	4	199	21	20	26	32	1.97
1309109--1309266	28	5.6	28	78	3	129	22	20	23	33	1.97
1309094--1309253	84	1.9	84	80	0	185	23	18	23	34	1.96
1309123--1309379	82	3.1	82	71	6	205	23	19	24	32	1.98
1309288--1309392	54	1.9	55	86	3	149	22	19	27	30	1.98
1309123--1309431	82	3.7	82	71	7	198	23	19	24	32	1.97
1309303--1309483	28	6.5	28	71	9	86	24	17	24	33	1.96
1310748--1310785	15	2.5	15	100	0	76	39	36	10	13	1.79
1324099--1324134	14	2.4	15	90	9	56	77	8	0	13	0.98
1326063--1326287	80	2.8	80	81	4	231	27	25	18	29	1.98
1326870--1326898	15	1.9	15	100	0	58	44	0	34	20	1.52
1326988--1327039	20	2.5	21	78	3	61	40	13	15	30	1.86
1327099--1327156	20	2.8	20	84	5	62	36	18	13	31	1.90
1331778--1331838	19	3.2	19	95	0	113	32	3	4	59	1.35
1333673--1333698	13	2.0	13	100	0	52	30	15	15	38	1.88
1333653--1333716	32	2.0	33	87	3	94	29	14	14	42	1.84
1334443--1334468	12	2.2	12	100	0	52	42	23	0	34	1.54
1336274--1336298	13	1.9	13	100	0	50	32	16	16	36	1.90
1342477--1342502	13	2.0	13	100	0	52	30	15	15	38	1.88
1342457--1342520	32	2.0	33	90	3	103	28	14	15	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344370--1344421	21	2.4	21	83	3	59	61	9	1	26	1.38
1351800--1351835	18	2.0	18	88	0	54	63	2	2	30	1.22
1352807--1352844	14	2.8	14	92	4	60	39	0	0	60	0.97
1354047--1354097	26	1.9	26	84	4	66	58	9	11	19	1.60
1368339--1368391	20	2.7	20	91	2	81	30	13	15	41	1.85
1369711--1369945	97	2.4	97	90	3	375	30	14	28	26	1.95
1372093--1372268	51	3.7	48	73	18	154	40	10	18	31	1.84
1372141--1372217	20	3.8	20	79	6	93	40	10	15	33	1.81
1372161--1372295	71	1.9	71	83	6	175	36	11	19	32	1.88
1372093--1372288	91	2.2	91	92	0	329	39	11	17	31	1.85
1372232--1372288	20	2.8	20	86	5	71	36	14	15	33	1.88
1373214--1373824	28	21.5	28	88	2	819	22	18	31	28	1.97
1373182--1373824	57	11.2	57	87	3	798	22	18	31	28	1.97
1373214--1373824	85	7.2	86	89	2	876	22	18	31	28	1.97
1375041--1375118	8	9.8	8	77	10	79	1	3	11	83	0.84
1375041--1375118	17	4.9	16	75	9	79	1	3	11	83	0.84
1375060--1375122	9	7.1	9	83	8	67	0	3	14	82	0.79
1375061--1375115	25	2.2	26	96	3	103	0	3	12	83	0.77
1379244--1379581	165	2.0	165	94	0	595	30	20	17	31	1.96
1386576--1386819	97	2.5	97	89	0	362	33	13	26	26	1.94
1388961--1389105	20	6.7	20	75	16	101	41	13	15	30	1.85
1404871--1404908	20	1.9	20	94	0	67	34	18	7	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408156--1408262	53	2.0	53	100	0	214	35	13	20	30	1.91
1408530--1408574	23	2.0	23	86	0	63	40	0	0	60	0.97
1408874--1408950	30	2.6	29	85	4	91	50	1	2	45	1.23
1408899--1408950	14	3.6	14	78	12	52	53	0	1	44	1.11
1409362--1409435	31	2.2	34	79	9	82	56	1	0	41	1.07
1409431--1409481	24	2.1	24	85	7	68	60	0	1	37	1.08
1409401--1409481	24	3.4	24	75	13	60	58	0	1	40	1.06
1409473--1409505	17	2.0	17	88	5	50	57	6	0	36	1.23
1410248--1410286	13	3.0	13	92	0	60	38	17	12	30	1.88
1410336--1410399	32	2.0	33	87	3	94	40	17	12	29	1.86
1412075--1412130	20	2.8	20	100	0	112	33	14	19	32	1.92
1412175--1412204	13	2.3	13	94	0	51	36	16	13	33	1.88
1420760--1420813	19	2.8	19	85	2	72	29	12	18	38	1.88
1421929--1421995	33	2.0	33	100	0	134	43	14	23	17	1.87
1422873--1422938	33	2.0	33	90	0	105	40	15	18	25	1.89
1423094--1423133	20	2.0	21	85	5	55	52	22	2	22	1.59
1424653--1424729	28	2.8	28	86	4	93	24	18	32	24	1.97
1424712--1424841	52	2.5	49	79	15	145	32	10	26	30	1.90
1424714--1424879	52	3.2	52	77	11	144	31	10	25	31	1.90
1424681--1425022	185	1.9	184	87	5	503	31	11	26	29	1.92
1427362--1427424	33	1.9	33	86	0	90	44	17	12	25	1.84
1427444--1427510	19	3.8	19	75	22	83	37	13	11	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427447--1427507	32	1.9	32	96	0	113	36	13	13	37	1.83
1427567--1427623	21	2.7	21	97	0	105	36	19	10	33	1.86
1430256--1430293	3	12.7	3	88	0	58	28	31	0	39	1.57
1432029--1432067	20	2.0	20	94	0	69	20	15	23	41	1.90
1433747--1433793	21	2.3	21	82	10	62	44	4	19	31	1.70
1433914--1433952	13	3.0	13	96	0	69	35	15	17	30	1.91
1437860--1437911	21	2.5	20	78	9	59	23	9	3	63	1.41
1440141--1440166	13	2.0	13	100	0	52	30	15	15	38	1.88
1440148--1440184	19	2.1	18	90	10	58	35	16	16	32	1.91
1441715--1441764	24	2.1	23	85	14	66	54	14	8	24	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11