genome.fa.s228.2.7.7.80.10.50.1000.9.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  9  of  27  ( 3133 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)
1230630--1230675	3	15.3	3	100	0	92	67	0	0	32	0.91
1240581--1240639	21	2.8	21	78	2	64	66	0	3	30	1.08
1241152--1241184	5	6.4	5	93	6	57	18	0	0	81	0.68
1243414--1243480	27	2.6	26	84	11	84	53	0	0	46	1.00
1243428--1243478	22	2.4	21	81	15	61	52	0	0	47	1.00
1243490--1243527	17	2.2	18	85	4	51	39	0	2	57	1.12
1244633--1244687	8	6.8	8	75	19	51	38	1	0	60	1.08
1244633--1244712	29	2.8	30	78	14	82	38	2	0	58	1.11
1244626--1244713	27	3.2	29	74	16	82	39	2	0	57	1.11
1245117--1245170	3	17.3	3	88	7	81	62	1	1	33	1.16
1250202--1250287	22	3.8	22	74	17	77	33	1	3	61	1.20
1250269--1250340	32	2.2	33	85	9	94	47	1	0	51	1.09
1250304--1250557	132	1.9	132	87	3	377	40	2	1	55	1.24
1250470--1250533	21	3.0	21	78	13	67	40	1	1	56	1.18
1250470--1250618	54	3.1	44	68	21	118	41	2	0	55	1.19
1250582--1250629	25	1.9	25	83	8	62	47	2	0	50	1.12
1250805--1250838	3	11.3	3	93	0	59	70	0	0	29	0.87
1255886--1255934	24	2.1	23	81	11	55	57	8	8	26	1.56
1256208--1256249	15	2.6	17	75	17	54	64	4	0	30	1.14
1257034--1257076	2	21.5	2	100	0	86	51	0	0	48	1.00
1257100--1257134	17	2.1	17	100	0	70	31	17	17	34	1.93
1257144--1257172	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257770--1257818	2	24.5	2	87	0	71	48	2	0	48	1.12
1259336--1259420	34	2.5	33	83	7	118	41	29	5	23	1.78
1263830--1263912	34	2.5	33	82	7	114	40	30	6	22	1.78
1265389--1265443	27	2.0	27	82	6	67	40	9	14	36	1.78
1265444--1265529	21	4.2	20	74	15	77	40	1	3	54	1.25
1265461--1265529	17	3.6	17	72	23	66	43	0	2	53	1.15
1265439--1265534	41	2.3	41	87	7	149	38	2	4	55	1.31
1266081--1266121	2	21.0	2	85	5	57	43	0	2	53	1.13
1266699--1266762	28	2.3	28	91	5	103	53	20	7	18	1.69
1266709--1266763	28	2.0	28	100	0	110	49	21	10	18	1.78
1271236--1271281	24	1.9	24	86	0	65	41	28	6	23	1.79
1271276--1271338	28	2.2	28	91	5	101	53	20	4	20	1.63
1278587--1278637	21	2.5	21	83	3	59	56	0	7	35	1.28
1278602--1278647	21	2.2	21	88	3	67	43	0	8	47	1.34
1280794--1281093	164	1.8	163	83	8	403	39	9	10	41	1.71
1282182--1282232	11	4.5	11	81	11	50	3	13	0	82	0.81
1283158--1283190	17	1.9	17	88	11	50	60	6	9	24	1.49
1283829--1283961	32	4.1	32	97	0	239	34	11	18	35	1.87
1283827--1283956	19	7.8	18	69	29	101	33	11	18	36	1.87
1283881--1283937	13	3.9	13	76	24	60	35	14	17	33	1.90
1283999--1284023	13	1.9	13	100	0	50	32	16	16	36	1.90
1284032--1284160	52	2.5	52	92	0	213	37	17	16	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288669--1288737	30	2.3	30	94	0	120	52	21	0	26	1.47
1288691--1288737	15	3.1	15	70	11	51	48	23	0	27	1.51
1290732--1290824	20	4.6	20	77	10	91	38	15	16	30	1.89
1290770--1290845	21	3.7	21	82	3	109	40	11	18	28	1.86
1290752--1290845	41	2.3	41	98	0	179	39	12	18	29	1.88
1290752--1290825	20	3.7	20	80	3	94	36	13	18	31	1.90
1290884--1290909	13	2.0	13	100	0	52	38	15	15	30	1.88
1290866--1290929	32	2.0	33	87	3	94	42	14	15	28	1.86
1293123--1293167	21	2.1	21	84	8	56	53	4	20	22	1.63
1297006--1297085	20	3.8	20	75	15	79	26	15	15	43	1.85
1297071--1297135	13	5.0	13	94	0	112	30	18	15	35	1.92
1297072--1297135	26	2.5	26	100	0	128	31	18	15	34	1.93
1299567--1299659	20	4.6	20	77	10	91	38	15	16	30	1.89
1299605--1299680	21	3.7	21	82	3	109	40	11	18	28	1.86
1299587--1299680	41	2.3	41	98	0	179	39	12	18	29	1.88
1299587--1299660	20	3.7	20	80	3	94	36	13	18	31	1.90
1299719--1299744	13	2.0	13	100	0	52	38	15	15	30	1.88
1302246--1302314	25	2.9	23	77	14	70	40	0	2	56	1.14
1304607--1304649	18	2.3	19	80	4	61	55	0	0	44	0.99
1310986--1311032	5	9.0	5	81	9	58	25	2	0	72	0.96
1312909--1312934	13	2.0	13	100	0	52	30	15	15	38	1.88
1312889--1312955	33	2.1	32	91	8	109	35	16	14	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312920--1313018	20	4.8	20	68	19	69	33	18	14	34	1.90
1317870--1317922	20	2.7	20	100	0	106	33	15	15	35	1.88
1319579--1319952	185	2.0	185	100	0	748	23	9	16	50	1.74
1320717--1320780	19	3.7	19	76	23	86	37	15	15	31	1.89
1320736--1320793	13	4.0	13	76	23	62	34	15	15	34	1.89
1320716--1320815	32	3.1	32	95	4	175	36	16	16	32	1.90
1321847--1321894	25	2.0	24	84	11	64	52	0	6	41	1.27
1321939--1321989	26	1.9	27	84	11	70	58	1	1	37	1.20
1321946--1322006	14	3.8	16	76	19	56	63	0	1	34	1.04
1323221--1323446	87	2.6	88	80	8	266	36	7	23	32	1.84
1324695--1324770	9	8.6	9	69	13	50	52	0	1	46	1.08
1324665--1324767	25	4.1	24	75	15	77	52	0	0	46	1.07
1324695--1324770	33	2.5	31	76	20	79	52	0	1	46	1.08
1324755--1324806	26	1.9	27	84	7	70	59	3	1	34	1.27
1324830--1324862	16	2.1	16	94	5	59	21	0	0	78	0.75
1328901--1329014	49	2.3	51	90	3	187	43	13	14	28	1.83
1332710--1332892	52	3.5	51	79	5	188	34	10	24	31	1.89
1332715--1332883	51	3.3	50	81	7	187	33	11	24	30	1.90
1333213--1333607	52	7.6	51	71	12	257	32	11	25	29	1.91
1332393--1333396	503	2.0	503	99	0	1972	34	12	25	27	1.92
1333214--1333433	51	4.3	51	82	2	244	33	11	25	30	1.91
1333214--1333433	103	2.1	103	86	1	298	33	11	25	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333416--1333487	28	2.6	28	84	4	83	22	16	36	25	1.94
1333105--1333597	262	1.9	262	94	0	880	31	12	26	28	1.93
1335949--1335974	13	2.0	13	100	0	52	38	15	15	30	1.88
1335961--1336002	21	2.0	21	95	0	75	28	21	9	40	1.84
1336027--1336080	21	2.7	20	77	8	65	38	14	12	33	1.85
1339385--1339567	82	2.2	81	95	0	269	32	9	14	43	1.79
1339417--1339552	42	3.3	42	68	19	122	32	11	15	41	1.82
1339385--1339510	40	3.1	39	67	23	107	31	10	13	44	1.77
1342563--1342621	22	2.6	24	81	7	70	71	3	6	18	1.23
1348900--1348925	13	2.0	13	100	0	52	30	15	15	38	1.88
1349770--1350320	49	11.9	48	73	13	300	30	17	25	26	1.97
1349715--1349953	98	2.4	98	83	6	284	32	15	26	25	1.96
1349870--1350313	87	5.0	87	76	11	369	29	17	26	26	1.97
1350006--1350084	39	2.0	39	90	0	122	26	18	24	30	1.98
1349970--1350316	186	1.9	185	82	7	443	30	17	25	25	1.98
1350093--1350316	43	4.7	51	71	21	148	29	17	26	25	1.98
1350139--1350327	43	4.3	43	78	12	202	31	17	25	25	1.97
1350046--1350320	48	5.9	47	77	12	255	30	17	26	25	1.98
1350318--1351295	33	31.1	34	73	14	581	35	13	31	19	1.90
1350621--1351290	27	22.0	27	73	18	343	33	13	32	20	1.91
1350311--1351726	60	22.6	60	75	13	686	34	13	31	20	1.91
1350417--1351749	33	43.0	28	74	15	361	34	13	31	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351258--1351323	34	1.9	35	81	9	82	36	12	30	21	1.90
1351292--1351945	30	21.2	30	76	12	440	33	14	29	22	1.93
1351292--1351948	93	7.1	90	75	12	421	33	14	29	22	1.93
1351172--1351934	62	12.3	63	74	10	355	33	14	30	22	1.94
1353237--1353283	24	1.9	25	86	4	69	2	4	8	85	0.81
1360419--1360444	13	2.0	13	100	0	52	38	15	15	30	1.88
1364458--1364510	17	2.9	17	91	8	79	39	11	16	32	1.85
1364893--1364921	11	2.6	11	100	0	58	0	0	6	93	0.36
1365395--1365437	16	2.9	16	86	10	56	60	0	0	39	0.97
1367068--1367113	2	22.5	2	95	4	83	47	0	2	50	1.13

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27