genome.fa.s133.2.7.7.80.10.50.1000.11.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: Scaffold133
Parameters: 2 7 7 80 10 50 1000
Length:  2564099

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  11  of  17  ( 1989 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)
1385287--1385311	13	1.9	13	100	0	50	36	16	16	32	1.90
1389378--1389408	15	2.1	15	93	0	53	48	16	22	12	1.80
1391483--1391521	13	3.0	13	96	0	69	30	17	15	35	1.91
1391644--1391686	20	2.2	19	84	16	52	30	20	4	44	1.72
1394050--1394074	13	1.9	13	100	0	50	36	16	16	32	1.90
1398272--1398314	22	2.0	22	81	4	52	37	6	13	41	1.72
1398542--1398592	20	2.5	20	87	0	66	37	13	13	35	1.85
1400012--1400052	18	2.2	19	86	8	57	4	0	12	82	0.81
1400024--1400076	13	4.2	13	79	16	58	1	1	16	79	0.92
1400014--1400073	17	3.8	16	72	27	56	3	1	15	80	0.93
1400013--1400065	24	2.2	24	86	10	72	3	1	13	81	0.92
1400724--1400754	12	2.6	12	94	0	53	29	29	0	41	1.56
1402959--1402988	12	2.5	12	88	0	51	46	6	3	43	1.46
1403000--1403473	90	5.3	90	84	5	546	41	15	14	27	1.87
1403000--1403473	181	2.6	179	82	5	564	41	15	14	27	1.87
1403411--1403536	63	2.0	63	93	0	216	44	19	9	26	1.81
1403323--1403623	154	2.0	147	82	5	361	41	15	12	29	1.85
1403482--1403767	87	3.2	88	82	3	297	40	14	16	28	1.88
1403241--1403694	241	1.9	241	88	1	696	41	15	14	28	1.86
1403145--1403767	329	1.9	331	84	4	837	41	15	14	28	1.86
1408274--1408304	15	2.1	15	93	0	53	58	0	16	25	1.38
1411912--1412312	154	2.6	155	82	4	481	23	16	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411866--1412381	154	3.3	153	77	10	460	24	15	21	38	1.92
1416029--1416110	23	3.6	22	77	12	69	78	3	12	6	1.07
1416044--1416110	24	2.8	23	81	4	80	77	2	11	7	1.08
1416030--1416110	14	5.4	14	69	23	51	77	3	12	6	1.08
1418359--1418460	53	1.9	54	82	9	129	34	12	17	35	1.88
1419322--1419367	24	2.0	23	82	4	56	23	8	13	54	1.66
1421407--1421443	19	1.9	19	89	10	58	48	18	0	32	1.49
1421402--1421445	19	2.2	20	80	15	56	43	18	0	38	1.50
1424037--1424067	2	15.5	2	100	0	62	48	0	0	51	1.00
1424406--1424484	20	3.8	20	74	12	61	37	16	8	36	1.80
1433782--1433822	19	2.2	19	90	0	64	80	2	7	9	0.99
1435058--1435154	31	3.2	30	86	2	124	21	30	13	34	1.92
1435209--1435309	32	3.1	32	91	1	148	20	27	11	39	1.88
1435183--1435310	32	3.9	33	83	5	145	21	26	13	38	1.90
1435219--1435328	33	3.3	32	84	7	87	25	29	11	33	1.91
1435311--1435407	33	3.0	33	80	7	126	31	31	14	21	1.93
1435461--1436144	52	12.9	53	72	10	434	24	23	14	37	1.92
1435466--1435990	113	4.9	112	75	11	382	24	23	14	36	1.93
1435428--1435964	217	2.5	212	83	3	650	25	24	13	37	1.92
1435828--1435943	61	1.9	62	83	1	153	23	21	15	39	1.91
1435898--1436121	53	4.3	52	82	6	263	21	23	16	38	1.93
1435894--1436186	53	5.6	51	77	6	187	22	22	16	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435963--1436186	103	2.2	105	85	1	290	21	22	16	39	1.92
1440277--1440506	94	2.4	96	81	6	236	31	22	11	35	1.89
1443419--1443463	23	1.9	24	81	4	56	53	8	2	35	1.45
1444338--1444365	14	2.0	14	100	0	56	35	0	0	64	0.94
1446651--1446703	26	2.0	26	96	0	97	11	11	16	60	1.59
1449648--1449716	35	2.0	35	88	0	102	30	13	15	40	1.86
1462151--1462179	10	2.7	11	94	5	51	17	0	0	82	0.66
1466280--1466342	33	1.9	33	84	12	85	49	15	1	33	1.55
1467320--1467393	36	2.0	37	89	2	114	32	6	4	56	1.44
1471227--1471350	63	2.0	63	96	0	230	42	9	16	31	1.80
1480796--1480830	18	1.9	18	88	0	52	40	0	0	60	0.97
1481679--1481717	20	1.9	21	89	5	62	74	7	0	17	1.05
1481948--1481980	16	1.9	18	88	11	52	75	9	3	12	1.14
1483544--1483668	61	2.0	61	95	0	223	24	14	8	52	1.68
1484278--1484328	21	2.5	21	87	3	68	41	15	13	29	1.86
1487536--1487664	52	2.5	52	94	0	222	30	17	17	34	1.93
1487536--1487684	52	2.9	51	88	4	219	31	16	18	33	1.93
1487673--1487697	13	1.9	13	100	0	50	36	16	16	32	1.90
1487741--1487804	33	1.9	33	87	0	92	40	15	14	29	1.86
1493797--1494178	155	2.5	155	80	4	378	40	17	15	25	1.90
1494554--1494598	16	2.9	16	93	3	74	24	4	0	71	1.05
1494567--1494603	9	4.3	9	80	13	51	27	2	0	70	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496149--1496530	164	2.3	164	81	4	423	50	7	8	32	1.62
1496442--1496482	17	2.3	19	79	12	50	60	0	9	29	1.28
1496444--1496482	18	2.2	18	86	4	53	61	0	7	30	1.24
1505094--1505259	63	2.6	63	82	0	188	35	14	16	33	1.89
1506690--1506735	3	15.3	3	100	0	92	34	0	0	65	0.93
1508362--1508386	2	12.5	2	100	0	50	52	0	0	48	1.00
1508620--1508663	20	2.2	19	84	15	54	63	0	2	34	1.07
1508990--1509028	21	2.0	20	90	10	62	38	0	5	56	1.22
1510006--1510081	34	2.4	30	79	18	82	46	0	5	48	1.24
1510020--1510084	33	1.9	34	84	9	89	44	0	6	49	1.27
1514518--1514709	46	4.0	46	76	11	181	38	4	3	54	1.36
1514509--1514677	52	3.4	50	84	9	202	38	4	1	55	1.29
1514509--1514714	98	2.1	98	81	4	238	39	3	3	53	1.36
1514769--1514802	16	2.2	16	94	5	61	44	0	0	55	0.99
1517079--1517170	45	2.0	45	93	0	157	29	13	20	36	1.90
1519099--1519184	34	2.5	34	86	0	109	24	4	33	37	1.76
1519123--1519190	34	2.0	34	97	0	127	23	4	35	36	1.75
1523873--1524183	46	6.9	45	82	6	380	39	7	4	48	1.50
1523864--1524187	134	2.4	134	85	5	438	38	8	4	49	1.52
1524256--1524286	15	2.1	15	93	0	53	48	0	3	48	1.17
1524689--1524719	16	1.9	16	93	0	53	29	0	3	67	1.06
1526565--1526637	37	1.9	38	86	2	103	49	1	5	43	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527160--1527204	22	2.0	24	83	16	60	62	0	11	26	1.29
1527396--1527428	17	2.0	17	88	5	50	39	0	0	60	0.97
1527420--1527475	8	6.8	8	75	22	53	48	0	0	51	1.00
1527453--1527491	21	1.9	19	85	10	51	51	0	0	48	1.00
1536555--1536643	44	2.0	43	93	2	151	32	23	3	40	1.71
1538709--1538764	11	5.1	11	80	8	69	28	0	3	67	1.07
1538749--1538823	34	2.2	33	81	11	89	41	1	0	57	1.07
1538752--1538821	35	2.0	34	83	8	88	38	1	0	60	1.06
1540075--1540126	18	2.8	17	83	13	59	40	0	0	59	0.97
1541005--1541062	22	2.7	21	76	7	62	44	1	0	53	1.10
1541401--1541453	19	2.8	18	77	8	61	58	0	0	41	0.98
1541407--1541461	28	1.9	29	85	10	78	54	0	0	45	0.99
1542290--1542341	18	2.8	19	71	8	54	69	1	11	17	1.27
1542273--1542330	19	3.1	17	76	11	53	67	1	10	20	1.29
1547623--1547668	18	2.5	19	80	16	53	45	0	2	52	1.13
1547678--1547727	16	3.2	16	78	18	61	34	0	0	66	0.92
1547667--1547720	21	2.4	23	74	17	60	38	0	0	61	0.96
1547871--1547927	24	2.4	24	77	8	64	75	7	7	10	1.19
1548037--1548102	31	2.1	32	83	13	84	42	0	0	57	0.98
1552676--1552709	2	17.0	2	100	0	68	50	0	0	50	1.00
1557500--1557547	16	3.0	16	77	19	55	47	0	0	52	1.00
1557507--1557574	36	1.9	35	84	3	91	39	0	1	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557761--1557826	24	2.8	23	73	10	62	75	7	4	12	1.16
1557925--1557990	33	2.0	34	83	13	86	45	1	0	53	1.09
1565213--1565276	19	3.7	18	76	23	75	32	12	17	37	1.87
1565233--1565257	13	1.9	13	100	0	50	36	16	16	32	1.90
1565214--1565281	32	2.1	32	97	0	127	33	11	17	36	1.86
1569951--1569975	13	1.9	13	100	0	50	32	16	16	36	1.90
1570024--1570079	19	2.9	19	86	2	76	42	12	12	32	1.80
1570086--1570150	32	2.0	32	87	0	94	35	10	18	35	1.86
1570866--1570898	10	3.4	10	83	8	50	24	0	12	63	1.28
1571312--1571371	24	2.3	26	77	11	70	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17