genome.fa.s196.2.7.7.80.10.50.1000.10.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  10  of  47  ( 5587 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)
1308139--1308213	20	3.8	20	78	0	87	34	13	12	40	1.81
1308139--1308216	40	2.0	39	87	2	111	34	12	12	39	1.82
1309124--1309179	22	2.5	23	94	5	105	17	10	8	62	1.52
1309132--1309186	22	2.6	21	88	5	58	20	9	9	61	1.52
1313347--1313610	132	2.0	133	93	3	460	40	11	19	28	1.87
1317548--1317615	10	7.1	9	73	17	57	42	1	0	55	1.08
1318508--1318586	32	2.4	33	85	6	97	46	0	0	53	1.00
1319814--1319905	28	3.4	27	81	8	100	25	7	21	45	1.78
1324389--1324459	27	2.6	27	88	6	99	22	7	23	46	1.76
1324793--1324827	2	17.5	2	100	0	70	48	0	0	51	1.00
1325316--1325454	70	2.0	70	88	0	206	31	31	15	20	1.94
1325796--1325872	20	3.9	19	76	6	73	33	12	12	40	1.82
1325796--1325873	40	2.0	39	84	2	102	33	12	14	39	1.84
1326767--1326822	22	2.5	23	94	5	105	17	10	8	62	1.52
1326775--1326829	22	2.6	21	88	5	58	20	9	9	61	1.52
1334676--1334701	13	2.0	13	100	0	52	30	15	15	38	1.88
1334740--1334815	21	3.7	21	80	3	100	28	17	11	42	1.84
1334761--1334833	20	3.6	20	81	3	101	31	19	13	35	1.91
1334740--1334833	41	2.3	41	98	0	179	29	18	12	39	1.88
1337257--1337295	13	3.0	13	96	0	69	35	15	17	30	1.91
1337281--1337359	20	3.7	20	75	18	70	45	15	13	25	1.83
1339374--1339404	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343467--1343492	13	2.0	13	100	0	52	30	15	15	38	1.88
1343553--1343625	20	3.6	20	81	3	101	31	19	13	35	1.91
1343531--1343625	41	2.3	42	96	1	174	29	17	12	40	1.87
1349858--1349928	1	71.0	1	77	0	70	88	9	1	0	0.57
1349860--1349927	10	6.9	10	85	8	86	88	10	1	0	0.59
1349858--1349928	24	3.0	23	88	10	99	88	9	1	0	0.57
1349861--1349925	19	3.4	19	85	10	89	87	10	1	0	0.61
1349861--1349927	29	2.3	29	89	5	100	88	10	1	0	0.59
1351144--1352144	28	34.9	29	89	2	1403	28	32	17	21	1.96
1351143--1352156	114	8.8	114	89	3	1459	28	32	17	21	1.96
1352633--1352709	20	3.9	19	76	6	73	33	12	12	40	1.82
1352633--1352710	40	2.0	39	84	2	102	33	12	14	39	1.84
1353619--1353676	23	2.5	24	94	5	109	17	10	8	63	1.49
1353628--1353683	23	2.6	21	86	8	51	19	8	8	62	1.51
1356410--1356442	3	11.0	3	93	0	57	66	3	0	30	1.06
1356472--1356530	24	2.5	24	79	15	68	50	8	0	40	1.33
1356486--1356547	25	2.4	26	79	15	67	50	4	0	45	1.23
1357325--1357352	2	14.0	2	100	0	56	50	0	0	50	1.00
1362629--1362659	2	16.0	2	93	6	55	48	0	0	51	1.00
1364574--1364621	7	6.6	7	86	9	60	35	2	6	56	1.36
1366043--1366465	166	2.6	161	81	8	482	32	9	8	48	1.67
1367674--1367713	20	2.0	20	85	9	55	17	2	22	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368531--1369067	148	3.6	145	74	5	443	25	18	17	38	1.92
1373096--1373138	19	2.1	21	87	8	63	18	2	18	60	1.47
1374613--1375044	147	2.9	143	81	9	419	25	16	18	40	1.91
1374702--1375044	148	2.3	147	82	8	387	23	16	19	40	1.90
1377145--1377211	33	2.0	33	85	5	91	28	16	29	25	1.97
1378690--1378729	13	3.1	13	85	0	62	37	12	15	35	1.85
1384294--1384318	13	1.9	13	100	0	50	32	8	16	44	1.76
1384348--1384394	20	2.4	20	85	3	60	31	17	14	36	1.90
1385747--1385773	13	2.1	13	100	0	54	29	14	14	40	1.86
1385759--1385814	19	2.8	20	81	8	69	33	12	17	35	1.88
1392386--1392959	286	2.0	286	99	0	1130	28	12	29	29	1.93
1393156--1393284	52	2.5	52	93	0	222	27	17	18	35	1.94
1393156--1393304	52	2.9	51	87	4	210	29	17	18	34	1.94
1393293--1393317	13	1.9	13	100	0	50	36	16	16	32	1.90
1393339--1393403	19	3.7	19	75	23	79	38	16	12	32	1.86
1393358--1393382	13	1.9	13	100	0	50	32	16	16	36	1.90
1393337--1393401	32	2.0	32	96	0	121	36	16	12	33	1.87
1397820--1397857	19	2.0	19	94	0	67	42	5	28	23	1.76
1397823--1397882	19	3.1	19	81	11	61	40	5	31	23	1.76
1398438--1398464	13	2.1	13	100	0	54	29	14	14	40	1.86
1398450--1398505	19	2.8	21	81	8	71	35	14	16	33	1.88
1398550--1398580	13	2.4	13	94	0	53	35	16	12	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398534--1398600	33	2.0	32	88	11	100	35	13	17	32	1.89
1400312--1400346	12	2.9	12	95	0	61	42	17	8	31	1.79
1402892--1402988	51	1.9	51	80	4	115	38	7	22	31	1.82
1402957--1403114	79	2.0	79	89	0	244	29	15	29	26	1.96
1403069--1403168	28	3.6	28	71	2	103	26	21	32	21	1.98
1402991--1403253	134	2.0	135	81	2	314	29	17	29	24	1.97
1403147--1403296	76	1.9	77	89	4	230	33	15	25	26	1.95
1403231--1403451	51	4.4	51	79	1	259	31	14	27	26	1.94
1403255--1403450	102	1.9	102	92	0	329	32	13	26	27	1.93
1403231--1403460	102	2.3	100	84	4	327	33	13	27	26	1.94
1405741--1405814	20	3.7	20	85	7	105	41	13	14	29	1.85
1409538--1409596	20	3.0	20	97	0	109	45	8	13	32	1.74
1409534--1409600	20	3.3	20	93	0	107	47	7	11	32	1.68
1409542--1409608	20	3.3	20	93	0	107	47	7	11	32	1.68
1412009--1412046	20	1.9	20	89	10	60	55	5	26	13	1.59
1413469--1413509	20	2.0	21	85	4	57	43	0	2	53	1.13
1414840--1414871	3	10.7	3	93	0	55	31	0	3	65	1.08
1416069--1416156	20	4.3	20	72	16	58	71	7	1	19	1.17
1417346--1417396	9	5.8	9	76	4	50	72	0	25	1	0.95
1417362--1417403	17	2.4	19	88	11	63	73	0	26	0	0.83
1417928--1417967	19	2.0	22	85	14	59	25	15	12	47	1.80
1418409--1418740	153	2.2	153	84	2	418	33	7	9	49	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420311--1420370	19	3.1	19	81	9	77	33	11	18	36	1.87
1426552--1426633	20	3.8	20	76	20	92	42	13	15	28	1.85
1426548--1426658	47	2.4	47	95	1	197	42	16	16	25	1.88
1426572--1426658	20	3.6	25	76	19	94	42	16	16	25	1.87
1426666--1426692	13	2.1	13	100	0	54	29	14	14	40	1.86
1426820--1426858	21	1.9	21	89	5	62	33	23	0	43	1.54
1430128--1430264	51	2.7	51	90	3	204	43	10	17	27	1.82
1430228--1430301	20	3.7	20	83	7	96	43	13	13	29	1.82
1431093--1431731	28	22.3	29	82	6	530	25	16	31	27	1.96
1431531--1431846	27	11.4	27	80	5	294	31	14	30	23	1.94
1431531--1431860	54	6.0	54	81	3	329	30	14	30	24	1.94
1431386--1431861	137	3.4	137	82	3	432	28	15	30	25	1.95
1431230--1431861	28	22.4	28	81	5	391	26	15	30	27	1.96
1431503--1431874	82	4.5	79	80	8	300	30	14	31	24	1.94
1433220--1433286	33	2.0	33	85	0	89	34	10	13	41	1.79
1433240--1433264	13	1.9	13	100	0	50	36	16	16	32	1.90
1433327--1433351	13	1.9	13	100	0	50	32	16	16	36	1.90
1433340--1433475	52	2.6	51	83	6	166	33	18	16	32	1.93
1433360--1433484	52	2.4	52	90	2	189	35	18	16	29	1.93
1437103--1437156	28	1.9	28	96	0	99	38	7	31	22	1.82
1439434--1439505	35	2.1	35	97	0	135	37	16	20	25	1.93
1446265--1446291	13	2.1	13	100	0	54	29	14	14	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446246--1446310	32	2.0	32	84	3	85	32	13	13	40	1.85
1446276--1446332	19	2.9	19	85	10	80	36	15	14	33	1.88
1446359--1446412	20	2.7	20	85	5	74	31	11	18	38	1.86
1447961--1448302	157	2.2	156	81	5	413	26	14	20	38	1.91
1448583--1448624	21	2.0	21	85	0	57	40	2	4	52	1.35
1449895--1449952	22	2.7	22	94	5	102	41	18	10	29	1.84
1450433--1450470	19	2.0	19	100	0	76	36	10	15	36	1.82
1452193--1452240	21	2.3	20	80	13	53	47	0	18	33	1.49
1452200--1452241	21	2.0	22	85	4	59	52	0	19	28	1.46
1459012--1459054	7	6.0	7	82	15	52	86	4	0	9	0.71

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47