genome.fa.s552.2.7.7.80.10.50.1000.4.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: scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1707176

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 568 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)
1145262--1145311	20	2.5	20	83	0	64	40	18	26	16	1.90
1164667--1164776	55	2.0	55	100	0	220	36	5	20	38	1.75
1166813--1166998	50	3.7	50	80	6	200	23	26	22	26	2.00
1176797--1176953	43	3.7	43	77	7	133	24	19	26	29	1.98
1176794--1176953	85	1.9	86	84	8	220	23	19	26	30	1.98
1182055--1182079	13	1.9	13	100	0	50	8	20	0	72	1.10
1185097--1185150	26	2.1	26	96	0	99	12	11	24	51	1.72
1186038--1186080	23	1.9	22	90	4	68	37	2	2	58	1.24
1187278--1187346	16	4.3	16	96	0	102	31	0	36	31	1.58
1187326--1187420	44	2.1	45	86	1	129	33	6	27	32	1.82
1189407--1189433	11	2.5	11	100	0	54	51	18	7	22	1.70
1192837--1192874	18	2.1	18	95	5	67	0	57	0	42	0.98
1192843--1192874	6	5.3	6	92	0	55	0	59	0	40	0.97
1196102--1196149	18	2.8	17	84	12	62	39	6	0	54	1.26
1196313--1196365	21	2.5	21	90	0	79	32	37	9	20	1.85
1199010--1199177	84	2.0	84	97	0	318	31	16	18	33	1.93
1201494--1201530	17	2.3	17	86	9	51	51	13	2	32	1.55
1202023--1202056	18	1.9	18	94	5	61	29	0	0	70	0.87
1202023--1202096	10	7.6	10	76	19	59	36	4	0	59	1.16
1202030--1202117	18	4.7	18	71	25	58	37	3	0	59	1.15
1202145--1202322	89	2.0	89	98	0	347	32	11	7	48	1.66
1204948--1204983	16	2.2	16	100	0	72	25	0	36	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204964--1205054	45	2.0	45	85	2	121	27	6	28	37	1.82
1208625--1208659	9	4.0	9	92	7	63	65	0	0	34	0.93
1208625--1208659	17	2.0	17	94	5	61	65	0	0	34	0.93
1214715--1214809	25	3.8	25	86	4	129	32	16	10	40	1.83
1216977--1217104	43	3.0	43	87	3	168	48	3	23	25	1.65
1226612--1226661	20	2.5	21	78	18	61	30	10	0	60	1.30
1230319--1230363	21	2.1	21	84	8	56	26	4	22	46	1.70
1238587--1238626	21	1.9	21	90	10	64	27	5	20	47	1.70
1240481--1240687	48	4.3	49	85	3	233	22	28	21	27	1.99
1240493--1240668	96	1.8	96	87	0	262	20	29	22	27	1.99
1253128--1253213	30	2.8	30	77	8	93	38	6	17	37	1.77
1253586--1253640	22	2.5	21	82	8	65	45	1	3	49	1.30
1253592--1253639	23	2.1	22	88	3	69	45	0	4	50	1.21
1253658--1253682	11	2.3	11	100	0	50	48	8	16	28	1.74
1253892--1253984	44	2.1	45	86	9	129	35	27	4	32	1.77
1253966--1254003	16	2.4	16	90	0	58	26	31	2	39	1.70
1259874--1259902	12	2.3	13	94	5	51	20	6	6	65	1.40
1272459--1272487	15	1.9	15	100	0	58	27	27	13	31	1.94
1273581--1273620	14	2.9	14	85	3	55	40	5	2	52	1.37
1286803--1287416	306	2.0	306	96	0	1129	22	31	18	27	1.97
1287594--1287657	26	2.5	26	73	14	60	23	6	4	65	1.35
1297652--1297877	24	9.6	23	74	6	166	40	17	15	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297619--1297830	70	3.0	71	89	3	313	40	18	12	28	1.87
1297749--1297887	47	2.9	47	86	6	174	38	17	16	27	1.91
1299884--1299945	31	2.0	31	84	12	83	38	6	0	54	1.26
1305369--1305519	71	2.1	70	81	6	171	41	17	11	29	1.84
1305424--1305483	23	2.6	23	91	0	93	41	16	16	25	1.89
1305424--1305519	23	4.1	23	77	7	88	42	16	13	27	1.86
1306110--1306331	37	6.0	37	76	6	173	37	17	16	28	1.91
1306109--1306328	75	3.0	74	81	4	223	37	17	16	28	1.91
1306132--1306391	112	2.3	112	83	1	315	37	17	16	28	1.92
1309034--1309074	18	2.3	18	88	12	59	43	19	0	36	1.51
1315966--1316018	23	2.3	23	84	12	81	32	26	20	20	1.98
1323693--1323735	3	14.3	3	100	0	86	67	0	0	32	0.91
1324457--1324506	10	5.2	10	78	9	59	62	0	0	38	0.96
1324461--1324497	18	2.1	18	100	0	74	64	0	0	35	0.94
1325620--1325668	9	5.4	9	92	0	80	44	22	8	24	1.79
1338184--1338277	37	2.5	38	79	5	111	38	19	14	27	1.91
1342715--1342997	48	5.9	48	96	0	521	27	19	24	28	1.98
1345780--1345812	17	1.9	18	88	11	52	45	0	12	42	1.41
1350062--1350115	25	2.3	23	81	12	56	66	20	7	5	1.37
1351151--1351180	3	10.0	3	100	0	60	33	0	0	66	0.92
1351260--1351312	11	4.6	11	76	15	54	28	5	5	60	1.42
1355947--1355981	15	2.3	15	100	0	70	82	5	0	11	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358307--1358691	44	8.3	44	66	19	158	32	19	21	25	1.97
1358311--1358739	142	3.0	142	95	0	777	32	19	20	26	1.97
1358834--1359026	50	3.9	50	73	0	170	35	26	15	22	1.94
1358817--1359026	100	2.1	100	84	0	267	35	26	15	22	1.94
1360747--1360799	11	4.6	11	76	15	54	28	5	5	60	1.42
1365256--1365288	14	2.4	14	94	0	57	21	18	27	33	1.96
1379538--1379570	14	2.4	14	94	0	57	21	18	27	33	1.96
1381245--1381275	14	2.2	14	94	0	53	38	0	41	19	1.51
1382028--1382098	31	2.2	32	85	7	92	26	26	29	16	1.97
1382158--1382260	27	3.8	28	80	5	122	32	18	25	24	1.97
1382158--1382277	27	4.4	27	76	8	93	32	17	25	25	1.97
1385645--1385691	21	2.2	21	80	0	58	17	29	21	31	1.96
1398927--1398959	14	2.2	16	89	10	52	57	0	42	0	0.98
1400565--1400591	12	2.2	12	100	0	54	7	74	18	0	1.05
1401050--1401076	13	2.1	13	100	0	54	62	7	0	29	1.22
1404513--1404743	44	5.3	44	71	11	154	30	22	16	29	1.96
1404455--1404753	132	2.3	132	94	1	510	31	23	16	28	1.96
1404862--1405203	133	2.6	133	89	3	494	29	24	19	26	1.98
1406509--1406575	1	67.0	1	78	0	71	0	0	10	89	0.48
1406512--1406573	7	8.9	7	89	7	83	0	0	11	88	0.51
1406511--1406572	8	7.9	8	87	12	85	0	0	11	88	0.51
1406509--1406575	21	3.1	22	83	14	95	0	0	10	89	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429426--1429458	16	2.1	16	94	0	57	51	0	12	36	1.39
1429578--1429610	14	2.2	16	89	10	52	57	0	42	0	0.98
1431705--1431741	15	2.5	15	100	0	74	27	45	5	21	1.73
1445488--1445518	9	3.4	9	90	0	53	25	12	22	38	1.90
1451768--1451822	26	2.1	27	86	3	76	23	3	10	61	1.44
1453290--1453395	28	3.7	27	71	15	95	21	20	10	47	1.80
1453268--1453428	60	2.7	60	97	0	297	21	20	12	45	1.84
1453415--1453441	13	2.1	13	100	0	54	22	25	14	37	1.93
1453420--1453505	28	2.9	29	77	6	93	25	17	13	43	1.86
1453648--1453781	31	4.4	31	69	12	98	42	12	18	26	1.86
1454025--1454076	26	2.0	26	85	7	70	51	5	3	38	1.44
1471250--1471294	23	2.0	23	82	8	56	33	4	11	51	1.58
1471868--1471967	42	2.4	42	93	0	164	33	20	19	28	1.96
1484630--1484662	17	1.9	17	93	0	57	45	0	12	42	1.41
1486507--1486855	126	2.8	124	89	2	529	30	16	22	31	1.95
1486525--1486855	124	2.6	126	89	3	517	30	16	22	31	1.95
1490184--1490336	29	5.7	27	82	11	144	29	1	22	45	1.63
1490169--1490375	23	8.3	23	77	18	161	28	1	22	47	1.60
1490312--1490357	22	2.2	20	88	11	67	26	0	28	45	1.54
1490600--1490644	21	2.1	21	84	8	56	4	22	33	40	1.74
1491555--1491580	7	3.7	7	100	0	52	57	15	0	26	1.38
1491749--1491786	20	1.9	20	84	10	51	55	7	2	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492478--1492533	22	2.5	22	97	2	103	39	0	32	28	1.57
1492494--1492550	10	5.2	11	74	21	57	43	0	35	21	1.52
1500935--1500982	21	2.3	20	79	10	53	47	12	4	35	1.60
1506999--1508306	132	9.9	132	99	0	2598	29	19	25	24	1.99
1508404--1508566	44	3.7	44	77	12	156	30	20	22	26	1.99
1508406--1508525	45	2.7	43	80	13	127	29	20	24	26	1.99
1508493--1508604	44	2.5	44	82	5	129	30	19	20	29	1.97
1508890--1508943	19	2.8	19	94	0	90	37	11	16	35	1.84
1508903--1508966	19	3.0	22	86	8	80	37	6	17	39	1.75
1521566--1521606	19	2.2	19	95	0	73	19	17	29	34	1.94

Tables:   1   2   3   4   5