genome.fa.s19.2.7.7.80.10.50.1000.10.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

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

This is table  10  of  15  ( 1733 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)
1330680--1330790	57	1.9	59	90	7	183	41	9	1	47	1.45
1331008--1331100	14	6.5	15	75	17	74	41	0	0	58	0.98
1331521--1331585	32	1.9	35	87	9	100	40	7	0	52	1.30
1331668--1331772	52	2.0	52	88	0	156	39	10	24	25	1.87
1335289--1335386	32	3.2	30	80	15	110	30	11	14	43	1.80
1336697--1336750	26	2.1	26	82	6	65	59	0	0	40	0.98
1336692--1336762	27	2.4	30	75	20	78	57	0	0	42	0.98
1336707--1336783	34	2.2	36	83	6	95	57	0	0	42	0.99
1336831--1336924	37	2.5	38	76	10	97	54	2	2	41	1.24
1336866--1336919	19	2.8	19	75	13	65	61	0	1	37	1.07
1336853--1336912	19	3.1	20	72	20	56	56	1	3	38	1.26
1338057--1338082	2	13.0	2	100	0	52	0	0	50	50	1.00
1342495--1342531	16	2.3	16	95	0	65	21	18	21	37	1.94
1347307--1347361	20	2.8	20	83	5	67	40	12	14	32	1.84
1347410--1347436	13	2.1	13	100	0	54	29	14	14	40	1.86
1348292--1348335	20	2.2	20	87	0	61	72	2	15	9	1.19
1348354--1348384	15	2.1	15	93	0	53	0	16	0	83	0.64
1356303--1356349	24	2.0	24	87	8	69	14	0	8	76	1.01
1364281--1364791	166	3.1	165	81	4	543	29	10	7	51	1.64
1364294--1364782	164	3.0	162	81	6	538	29	10	8	52	1.64
1364981--1365025	14	3.2	14	84	6	56	24	0	0	75	0.80
1365227--1365896	52	12.8	52	78	6	550	24	24	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365227--1365834	158	3.9	155	81	5	573	24	24	15	34	1.95
1366690--1366744	19	2.8	19	80	5	56	41	9	14	34	1.77
1366767--1366843	20	3.8	21	73	19	58	37	12	6	42	1.69
1370174--1370218	10	4.0	12	78	21	53	68	0	22	8	1.16
1370176--1370216	22	2.0	21	90	9	66	70	0	21	7	1.11
1372007--1372390	79	4.9	78	81	3	414	33	13	23	28	1.93
1372319--1372441	50	2.5	50	86	4	160	32	8	27	30	1.87
1372161--1372599	207	2.1	206	84	3	580	32	12	25	29	1.92
1372250--1372521	129	2.1	127	84	2	339	30	13	26	29	1.94
1372395--1372688	78	3.8	78	91	4	443	33	10	25	29	1.90
1375078--1375129	25	2.1	25	100	0	104	46	19	15	19	1.85
1375086--1375145	25	2.7	23	87	12	81	45	16	15	23	1.85
1375537--1375568	3	10.7	3	100	0	64	31	0	0	68	0.90
1375776--1375856	43	2.0	40	85	7	108	46	12	22	18	1.82
1375785--1375873	42	2.1	43	85	10	121	46	11	23	19	1.82
1375821--1375909	40	2.2	41	82	8	101	40	13	24	21	1.89
1375897--1376262	61	6.0	61	81	5	393	29	18	25	26	1.98
1375897--1376259	183	2.0	183	84	3	471	29	18	25	26	1.98
1377237--1377318	7	10.5	8	79	13	50	2	8	6	82	0.90
1377280--1377319	11	3.7	11	83	6	55	0	0	15	85	0.61
1377283--1377319	18	2.0	18	89	5	56	0	0	16	83	0.64
1377232--1377285	7	7.6	7	85	2	72	3	14	0	81	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388302--1388441	62	2.3	62	91	2	219	28	20	25	25	1.99
1389812--1390333	79	6.6	79	78	11	426	33	12	22	31	1.91
1389771--1390333	238	2.4	238	82	5	622	33	12	23	30	1.92
1389866--1390333	79	5.9	79	81	8	504	33	13	23	30	1.92
1389772--1390333	159	3.5	156	81	8	541	33	12	23	30	1.92
1389866--1390333	239	2.0	238	84	4	613	33	13	23	30	1.92
1392792--1393088	162	1.8	163	91	2	490	34	11	12	41	1.79
1398074--1398106	17	1.9	17	93	0	57	39	9	9	42	1.68
1400450--1400515	21	3.3	20	71	10	55	51	3	0	45	1.16
1400720--1400759	20	2.0	20	85	9	55	20	12	10	57	1.63
1405494--1405552	30	2.0	30	86	0	82	27	10	3	59	1.46
1406782--1406851	22	3.0	22	76	14	70	48	0	4	47	1.21
1406800--1406851	22	2.3	23	87	6	72	42	0	3	53	1.19
1406835--1406866	16	2.0	16	93	0	55	46	0	0	53	1.00
1407038--1407111	24	3.1	24	64	21	64	40	14	1	43	1.54
1407408--1407434	2	13.5	2	100	0	54	48	0	0	51	1.00
1409910--1410006	51	1.9	51	85	4	133	25	11	21	41	1.87
1410582--1410684	52	2.0	52	90	0	161	33	14	19	33	1.92
1413797--1413956	78	2.0	79	97	1	304	28	11	12	46	1.77
1416524--1416567	3	14.7	3	100	0	88	68	0	0	31	0.90
1416961--1417304	154	2.2	151	78	5	350	38	18	17	26	1.92
1419131--1419164	13	2.6	13	80	0	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422108--1422176	32	2.2	32	84	5	86	30	4	7	57	1.45
1427258--1427310	27	2.0	27	82	14	65	58	0	0	41	0.98
1427848--1427882	18	1.9	18	88	0	52	37	0	5	57	1.23
1428507--1428554	15	3.2	15	82	8	53	35	0	12	52	1.40
1428506--1428557	16	3.4	16	78	10	54	36	0	11	51	1.38
1429753--1429813	29	2.0	31	84	12	83	60	0	0	39	0.97
1432119--1432148	2	15.0	2	100	0	60	50	0	0	50	1.00
1433494--1433555	23	2.7	22	76	11	63	59	1	0	38	1.07
1433498--1433560	25	2.8	21	71	19	54	60	1	0	38	1.07
1433613--1433670	21	2.8	21	81	5	64	60	1	1	36	1.17
1433389--1433791	118	3.4	117	84	9	459	52	1	1	43	1.23
1433389--1433791	117	3.4	117	84	9	425	52	1	1	43	1.23
1433742--1433817	23	3.2	22	76	10	62	61	2	3	31	1.28
1433600--1433817	121	1.8	118	82	6	278	52	1	2	42	1.26
1433763--1433824	23	2.7	22	78	9	61	59	3	3	33	1.29
1434238--1434282	17	2.4	20	72	27	53	40	4	0	55	1.20
1434132--1434472	125	2.7	124	84	9	460	41	2	1	54	1.23
1435028--1435715	179	3.8	178	84	3	876	40	7	16	35	1.78
1435000--1435704	271	2.6	268	85	4	956	39	7	16	35	1.78
1435000--1435717	92	7.9	92	81	6	817	40	7	16	34	1.78
1435557--1435865	161	1.9	162	85	3	426	41	8	16	33	1.79
1435461--1435924	253	1.8	253	79	6	528	41	8	17	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439279--1439342	33	1.9	33	84	6	85	42	14	14	29	1.84
1440198--1440702	52	10.6	50	72	14	336	31	19	25	23	1.98
1440198--1440838	87	6.9	100	84	7	529	30	19	25	24	1.98
1440497--1440733	39	5.6	39	70	17	161	26	20	27	25	1.99
1440534--1441149	48	13.9	47	71	19	418	28	18	26	27	1.98
1440443--1441044	87	7.0	87	89	3	788	27	19	26	26	1.99
1440759--1441045	39	6.9	38	69	21	121	27	18	25	27	1.98
1440970--1441151	51	3.8	49	78	13	177	30	16	25	27	1.97
1441148--1441869	34	22.8	33	72	15	397	34	12	31	20	1.91
1441254--1441622	27	12.0	27	67	21	110	33	12	31	21	1.91
1441220--1441655	60	7.0	62	73	15	246	34	12	31	22	1.90
1441280--1441622	126	2.7	124	79	7	356	34	12	31	21	1.91
1441280--1441531	129	2.0	127	85	3	339	34	11	31	21	1.90
1441404--1441720	94	3.4	93	81	4	336	36	12	29	21	1.90
1441686--1442086	31	12.8	31	82	8	260	33	14	30	21	1.93
1441417--1441776	187	1.9	186	79	7	399	34	12	31	21	1.91
1441691--1442086	62	6.3	63	83	5	430	33	14	30	21	1.93
1441180--1441866	316	2.2	312	84	6	913	34	12	31	20	1.90
1441752--1442095	92	3.7	93	83	3	426	33	14	30	21	1.93
1443096--1443130	17	1.9	19	88	11	56	5	14	0	80	0.89
1451011--1451880	39	18.8	49	72	14	489	28	18	27	25	1.98
1451011--1451880	87	9.4	100	83	7	558	28	18	27	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451347--1451878	48	11.9	46	73	17	412	27	18	27	27	1.98
1451256--1451872	87	7.0	87	86	5	735	27	18	27	26	1.98
1451696--1451880	51	3.9	49	81	12	201	28	17	27	27	1.98
1451990--1452128	27	4.6	27	71	24	109	32	12	33	22	1.91
1452003--1452669	34	20.8	33	75	13	409	34	13	31	20	1.91
1451908--1452576	95	7.0	95	77	9	530	34	12	32	20	1.90
1452161--1452384	60	3.6	58	76	14	189	36	13	29	20	1.91
1452104--1452444	126	2.7	125	81	5	407	35	12	31	20	1.90
1452233--1452419	93	2.0	94	85	3	252	34	13	32	20	1.91
1452003--1452792	129	6.2	128	76	11	409	34	13	31	20	1.92

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