genome.fa.s53.2.7.7.80.10.50.1000.8.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   28   

This is table  8  of  28  ( 3325 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)
1247550--1247623	35	2.2	35	82	4	98	22	29	9	37	1.86
1247619--1247802	33	5.6	33	88	1	264	27	29	19	23	1.98
1247619--1247802	65	2.8	66	88	2	282	27	29	19	23	1.98
1247628--1247811	98	1.9	95	89	3	287	27	30	19	22	1.98
1247804--1248371	49	12.1	49	77	12	582	25	25	17	31	1.97
1247804--1248362	93	6.0	92	90	1	839	25	25	17	31	1.97
1247811--1248362	185	3.0	184	91	2	863	25	25	17	31	1.97
1249142--1249166	13	1.9	13	100	0	50	36	16	16	32	1.90
1249122--1249188	33	2.0	33	88	0	98	32	11	14	40	1.83
1249242--1249390	52	2.9	50	86	6	199	33	17	17	31	1.93
1254260--1254364	8	12.5	8	77	16	97	14	2	8	74	1.17
1254254--1254365	17	6.6	16	80	10	100	15	2	8	74	1.17
1254287--1254364	26	3.1	26	75	14	56	14	3	10	71	1.26
1254303--1254365	26	2.5	25	85	12	92	14	4	9	71	1.28
1254364--1254404	3	14.3	3	80	10	50	26	0	0	73	0.84
1254351--1254402	9	5.6	9	84	15	70	23	0	1	75	0.91
1259116--1259141	13	2.0	13	100	0	52	30	15	15	38	1.88
1259095--1259159	32	2.0	34	87	6	98	29	13	16	40	1.88
1260820--1260857	13	2.9	13	92	0	58	34	15	15	34	1.90
1262911--1262941	15	2.1	15	93	0	53	12	22	16	48	1.80
1264743--1264787	21	2.1	21	84	8	56	22	20	4	53	1.63
1267006--1267031	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266985--1267049	32	2.0	33	93	6	114	27	12	15	44	1.82
1266985--1267049	19	3.6	19	73	26	70	27	12	15	44	1.82
1273514--1273545	2	16.0	2	100	0	64	50	0	0	50	1.00
1273603--1273648	2	24.0	2	78	8	51	45	4	0	50	1.21
1274359--1274423	34	1.9	34	87	0	94	27	30	29	12	1.93
1278335--1278634	58	5.1	59	75	7	186	17	17	31	33	1.93
1278377--1278634	58	4.4	58	77	3	234	17	17	31	33	1.94
1278382--1278634	116	2.2	117	82	3	305	17	17	30	33	1.94
1284895--1284961	34	2.0	34	87	0	98	25	29	32	11	1.92
1285906--1286176	138	1.9	137	81	11	325	33	7	3	55	1.44
1287169--1287225	20	2.8	20	89	2	78	35	10	12	42	1.77
1287785--1287906	61	2.0	61	88	0	181	23	20	12	43	1.86
1291505--1291530	13	2.0	13	100	0	52	38	15	15	30	1.88
1291487--1291550	32	2.0	33	90	3	103	42	15	14	28	1.86
1292129--1292201	20	3.6	20	81	3	101	35	13	19	31	1.91
1292147--1292222	21	3.7	21	80	3	100	42	11	17	28	1.84
1292129--1292222	41	2.3	41	98	0	179	39	12	18	29	1.88
1292261--1292286	13	2.0	13	100	0	52	38	15	15	30	1.88
1296341--1296371	15	2.1	15	93	0	53	48	16	22	12	1.80
1298387--1298465	20	3.7	21	75	15	72	26	13	15	44	1.84
1298452--1298490	13	3.0	13	96	0	69	30	17	15	35	1.91
1300929--1301001	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300947--1301022	21	3.7	21	80	3	100	42	11	17	28	1.84
1300929--1301022	41	2.3	41	98	0	179	39	12	18	29	1.88
1301061--1301086	13	2.0	13	100	0	52	38	15	15	30	1.88
1307029--1307066	13	2.9	13	96	0	67	34	18	15	31	1.92
1308922--1309017	47	2.0	47	97	0	183	37	9	19	33	1.84
1309670--1309695	13	2.0	13	100	0	52	38	15	15	30	1.88
1309652--1309715	32	2.0	33	90	3	103	42	15	14	28	1.86
1310570--1310598	13	2.2	13	100	0	58	41	17	13	27	1.87
1312821--1312885	33	2.0	33	88	11	98	29	18	15	36	1.91
1312841--1312865	13	1.9	13	100	0	50	32	16	20	32	1.94
1313546--1313584	19	2.1	19	90	4	62	12	30	0	56	1.37
1314534--1314613	27	3.1	25	76	18	74	41	0	0	58	0.98
1314554--1314622	17	4.1	17	77	5	68	37	0	0	62	0.96
1314545--1314657	25	4.1	29	71	24	93	38	0	0	61	0.96
1314549--1314622	33	2.2	33	82	0	94	37	0	0	62	0.96
1314579--1314662	28	3.0	29	77	11	102	35	0	0	64	0.94
1314812--1314866	15	3.3	17	73	19	53	52	0	1	45	1.11
1314950--1314976	14	1.9	14	100	0	54	44	0	0	55	0.99
1315149--1315205	27	2.2	26	83	3	69	47	0	0	52	1.00
1318332--1318362	13	2.4	13	94	0	53	35	12	16	35	1.87
1318312--1318378	33	2.0	33	88	5	100	31	19	14	34	1.92
1318407--1318479	20	3.7	19	87	3	83	35	17	19	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319519--1319586	19	3.9	19	78	21	85	33	11	16	38	1.85
1319521--1319583	32	2.0	32	96	0	117	33	12	17	36	1.88
1319540--1319564	13	1.9	13	100	0	50	36	16	16	32	1.90
1322015--1322402	52	7.4	52	70	12	204	30	25	11	32	1.91
1322121--1322195	27	2.7	27	87	6	98	24	32	20	24	1.98
1322226--1322402	52	3.4	52	80	4	212	32	26	10	30	1.90
1322034--1322512	265	1.8	263	89	1	753	29	26	12	31	1.93
1322415--1322596	79	2.3	79	81	1	204	23	30	16	29	1.96
1325216--1325244	13	2.2	13	100	0	58	41	17	13	27	1.87
1327486--1327510	13	1.9	13	100	0	50	32	16	20	32	1.94
1327561--1327617	19	2.9	19	86	5	69	35	17	14	33	1.90
1327583--1327647	32	2.0	33	87	3	96	40	16	15	27	1.89
1328204--1328242	19	2.1	19	90	4	62	12	30	0	56	1.37
1330082--1330110	13	2.2	13	100	0	58	41	17	13	27	1.87
1333972--1334011	21	1.9	21	89	0	62	25	12	5	57	1.55
1335579--1335660	28	2.9	28	82	7	96	28	17	30	24	1.97
1335643--1335813	51	3.3	50	75	7	171	33	11	25	29	1.91
1335796--1335871	27	2.8	28	88	6	102	21	21	34	23	1.97
1338340--1338365	13	2.0	13	100	0	52	38	15	15	30	1.88
1338319--1338385	33	2.0	33	88	0	98	43	16	14	25	1.86
1338427--1338452	13	2.0	13	100	0	52	30	15	15	38	1.88
1338517--1338573	21	2.7	21	97	0	105	36	19	10	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1338578--1338647	1	70.0	1	89	0	95	2	1	2	92	0.48
1340449--1340501	19	2.7	20	85	2	72	39	15	18	26	1.90
1344260--1344310	19	2.6	19	90	3	75	39	9	19	31	1.84
1344807--1344869	32	2.0	32	87	6	92	31	15	11	41	1.83
1349453--1349529	1	77.0	1	73	0	64	0	6	6	87	0.69
1349438--1349521	24	3.3	26	78	11	93	1	4	9	84	0.81
1349466--1349530	9	7.0	9	89	8	87	0	4	9	86	0.71
1349438--1349530	28	3.4	27	78	7	91	1	5	9	83	0.84
1363472--1363497	13	2.0	13	100	0	52	38	15	15	30	1.88
1365499--1365598	42	2.4	42	86	0	146	27	15	16	42	1.87
1365585--1365657	20	3.7	19	83	3	83	38	13	17	30	1.89
1365585--1365638	19	2.8	20	85	2	83	37	12	18	31	1.89
1368669--1368721	20	2.6	21	87	3	72	32	7	7	52	1.58
1368694--1368824	51	2.6	51	86	0	181	29	16	11	42	1.83
1369659--1369772	51	2.2	51	92	3	194	27	16	12	43	1.83
1369730--1369798	31	2.3	31	94	2	122	23	17	17	42	1.89
1371008--1371054	13	3.6	13	100	0	94	0	17	29	53	1.44
1374275--1374509	117	2.0	117	94	0	407	28	14	15	41	1.86
1374811--1375050	130	1.8	130	79	7	281	26	23	11	38	1.89
1381076--1381133	20	3.0	20	84	2	73	46	12	10	31	1.74
1381366--1381512	34	4.5	34	75	13	157	34	13	34	17	1.89
1381369--1381496	61	2.1	61	89	0	193	33	12	34	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381464--1381635	55	3.0	60	86	10	204	30	14	34	19	1.92
1381366--1381585	89	2.4	92	91	4	347	33	13	35	18	1.89
1381519--1381836	34	10.0	32	75	14	225	30	15	32	22	1.94
1381519--1381643	29	4.2	29	83	9	146	31	12	35	20	1.91
1381586--1381838	64	3.9	64	83	10	309	29	15	31	22	1.95
1381586--1381838	33	7.9	33	77	11	179	29	15	31	22	1.95
1381663--1381842	31	5.6	31	74	12	141	29	16	30	23	1.96
1383118--1383145	11	2.5	11	100	0	56	0	0	7	92	0.37
1388828--1388884	20	2.8	20	82	15	73	28	8	21	42	1.82
1388951--1388980	13	2.3	13	94	0	51	36	10	16	36	1.82

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   28