genome.fa.s28.2.7.7.80.10.50.1000.9.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  9  of  16  ( 1890 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)
1435678--1436261	61	9.1	61	80	11	375	20	34	12	32	1.90
1435877--1436191	34	10.2	28	75	17	197	20	34	13	31	1.91
1436058--1436294	70	3.5	68	86	5	327	19	34	11	34	1.88
1436303--1436400	33	3.0	33	85	10	121	30	32	17	19	1.95
1436400--1436676	49	5.7	49	88	6	388	24	26	18	29	1.98
1436495--1436685	91	2.0	92	89	5	285	24	26	17	31	1.97
1436495--1436632	43	3.1	43	92	5	213	25	26	18	29	1.98
1436586--1436739	52	2.9	53	79	4	184	24	24	15	35	1.94
1436689--1436815	67	1.9	68	86	1	184	23	25	12	38	1.90
1441597--1441737	27	5.1	27	62	16	74	24	26	22	26	2.00
1441357--1442239	55	15.4	54	81	11	912	27	26	20	25	1.99
1443037--1443133	19	5.8	18	70	27	88	32	11	16	39	1.84
1443039--1443141	32	3.2	32	97	0	188	33	11	17	37	1.86
1443058--1443112	13	3.8	13	75	25	56	34	12	16	36	1.87
1446369--1446410	14	3.1	13	86	3	57	40	9	26	23	1.85
1446423--1446453	10	3.1	10	90	0	53	41	6	29	22	1.78
1446477--1446613	53	2.6	53	92	1	229	27	18	17	36	1.93
1446601--1446654	20	2.7	20	80	8	65	29	14	16	38	1.89
1446693--1446733	21	2.0	21	85	9	57	39	9	12	39	1.76
1450785--1450931	79	1.9	79	86	2	215	28	13	29	27	1.94
1450868--1450982	51	2.3	50	84	6	142	33	13	24	29	1.93
1453546--1453618	20	3.7	20	78	14	87	41	13	15	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453643--1453699	20	2.8	20	94	0	105	43	15	15	24	1.86
1453632--1453661	13	2.3	13	100	0	60	40	13	16	30	1.87
1453546--1453699	40	3.8	40	71	16	129	40	14	16	27	1.89
1455987--1456541	79	7.1	79	79	4	498	26	23	12	37	1.91
1456045--1456532	157	3.1	155	82	5	561	26	24	13	35	1.92
1456869--1456899	13	2.4	13	94	0	53	29	16	12	41	1.85
1456849--1456951	33	3.1	33	83	8	129	30	16	11	41	1.84
1456831--1456887	20	2.8	20	91	0	96	26	14	12	47	1.79
1456882--1456971	20	4.8	20	68	25	54	31	16	12	40	1.85
1463426--1465073	55	28.3	59	87	5	1902	25	28	20	25	1.99
1463426--1465073	239	7.1	237	86	7	2020	25	28	20	25	1.99
1465826--1465926	19	6.0	18	69	26	78	36	10	14	37	1.82
1465829--1465923	32	3.0	32	92	0	154	35	11	15	36	1.84
1465848--1465904	13	3.9	13	74	24	51	35	12	15	36	1.85
1465912--1465992	34	2.4	34	100	0	162	34	17	19	28	1.95
1466000--1466025	13	2.0	13	100	0	52	30	15	15	38	1.88
1465980--1466046	34	2.0	33	91	2	107	25	16	13	44	1.84
1468364--1468494	51	2.5	53	84	8	178	31	25	9	32	1.89
1468548--1468734	53	3.6	52	78	14	197	29	25	11	34	1.90
1468509--1468733	53	4.3	52	81	7	179	29	25	11	33	1.91
1468749--1468947	78	2.5	79	79	4	206	25	29	15	29	1.96
1477836--1477885	10	5.1	10	81	11	50	88	8	4	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477836--1477880	12	3.7	12	85	5	63	88	8	2	0	0.58
1477836--1477877	16	2.7	15	85	7	57	88	9	2	0	0.61
1478805--1479310	61	8.3	60	80	5	475	25	27	18	28	1.98
1478804--1479310	122	4.2	121	81	7	553	25	27	18	28	1.98
1478804--1479316	242	2.1	242	84	7	671	26	27	18	27	1.98
1479332--1479570	42	5.7	43	84	6	226	21	22	12	43	1.86
1479324--1479570	85	2.9	85	80	8	254	21	22	11	44	1.85
1479504--1479680	75	2.4	74	84	7	232	20	21	17	40	1.92
1482698--1482986	79	3.7	77	80	9	286	26	24	14	34	1.93
1487465--1487604	71	2.0	71	84	2	183	30	28	14	27	1.95
1487535--1487806	79	3.4	77	83	4	328	27	25	14	31	1.95
1493788--1494089	155	1.9	155	80	5	351	39	20	17	22	1.92
1494373--1494401	12	2.3	13	94	5	51	17	0	0	82	0.66
1495257--1495289	13	2.3	15	90	10	52	3	15	0	81	0.80
1497817--1497935	52	2.3	51	82	4	157	42	15	14	28	1.86
1498877--1498967	19	4.7	20	86	5	132	43	15	13	27	1.83
1498877--1498967	39	2.3	39	100	0	182	43	15	13	27	1.83
1503013--1503043	15	2.1	15	93	0	53	48	16	22	12	1.80
1505124--1505161	13	2.9	13	96	0	67	34	18	15	31	1.92
1505273--1505318	21	2.2	20	81	11	58	30	19	4	45	1.70
1507698--1507749	19	2.7	20	87	6	79	42	15	13	28	1.85
1509898--1509964	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509918--1509942	13	1.9	13	100	0	50	36	16	16	32	1.90
1510008--1510032	13	1.9	13	100	0	50	32	16	16	36	1.90
1510041--1510161	52	2.3	52	97	0	224	34	18	18	28	1.94
1514855--1514977	52	2.4	50	84	2	156	43	16	14	25	1.85
1515619--1515938	52	6.1	52	74	6	243	37	15	22	25	1.93
1515586--1515922	105	3.2	103	74	4	309	37	15	22	24	1.93
1515900--1516105	113	1.8	113	83	4	272	33	15	26	25	1.95
1516230--1516316	32	2.7	32	80	3	95	17	18	31	33	1.94
1516302--1516419	33	3.6	32	75	4	94	29	14	25	30	1.95
1516262--1516451	65	2.9	64	78	2	155	27	16	24	31	1.96
1516616--1516790	91	1.9	90	82	6	219	32	10	28	28	1.91
1516756--1516889	29	4.6	30	76	9	89	36	13	24	25	1.92
1516615--1517407	30	26.8	29	74	11	418	34	12	26	26	1.92
1516831--1517220	59	6.7	59	78	8	260	34	12	26	26	1.92
1518762--1518814	21	2.7	21	88	8	76	0	7	16	75	1.02
1518762--1518828	21	3.3	20	84	12	75	2	8	13	74	1.17
1525088--1525216	52	2.5	52	97	0	240	29	17	16	37	1.91
1525088--1525236	52	2.9	52	91	2	201	30	16	16	35	1.92
1525225--1525249	13	1.9	13	100	0	50	36	16	16	32	1.90
1525292--1525344	20	2.7	20	85	2	72	41	9	9	39	1.70
1525381--1525421	21	2.0	21	90	0	64	36	14	14	34	1.87
1526273--1526747	92	5.0	93	85	8	616	32	18	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526215--1526742	49	10.8	49	81	7	551	32	17	24	25	1.97
1526735--1527075	33	10.5	32	89	4	465	20	17	33	28	1.95
1526742--1527075	66	5.1	65	90	4	521	20	17	33	27	1.96
1527057--1527205	68	2.1	71	84	6	189	32	12	32	22	1.91
1527057--1527205	35	4.3	35	80	9	162	32	12	32	22	1.91
1527176--1527261	29	3.0	29	82	3	93	29	17	30	23	1.97
1528699--1528763	1	65.0	1	81	0	76	0	1	7	90	0.50
1528699--1528762	22	2.9	22	90	2	101	0	1	7	90	0.51
1542678--1542702	13	1.9	13	100	0	50	36	16	16	32	1.90
1542745--1542797	20	2.7	20	82	2	72	37	9	13	39	1.77
1545649--1545687	21	1.9	21	94	5	71	43	12	23	20	1.86
1547980--1548004	13	1.9	13	100	0	50	32	20	16	32	1.94
1547999--1548070	24	3.0	24	85	0	81	44	9	20	25	1.82
1548151--1548175	13	1.9	13	100	0	50	36	16	16	32	1.90
1548132--1548196	33	2.0	33	88	8	98	40	15	15	29	1.88
1548662--1548832	74	2.3	74	82	0	189	22	25	12	39	1.89
1551278--1551348	37	1.9	37	94	0	124	19	15	25	39	1.91
1552021--1552140	61	2.0	60	90	1	186	35	5	8	50	1.56
1560418--1560442	13	1.9	13	100	0	50	24	4	8	64	1.38
1560341--1561032	167	4.2	167	83	5	798	30	9	8	51	1.65
1560341--1561032	329	2.1	331	84	4	903	30	9	8	51	1.65
1560333--1561032	166	4.2	163	81	7	741	30	9	8	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563596--1563662	33	2.0	33	88	0	98	34	11	13	40	1.81
1563616--1563640	13	1.9	13	100	0	50	36	16	16	32	1.90
1563703--1563727	13	1.9	13	100	0	50	32	16	16	36	1.90
1563736--1563916	52	3.5	52	97	0	335	34	19	18	28	1.95
1567021--1567711	152	4.5	153	84	4	840	25	20	18	35	1.96
1571132--1571271	45	3.1	44	82	10	176	35	5	1	57	1.32
1571135--1571269	46	3.0	43	86	7	171	37	5	1	55	1.33
1571357--1571399	18	2.4	18	84	7	52	46	0	2	51	1.13
1571361--1571398	20	1.9	21	89	10	62	47	0	2	50	1.15
1572140--1572186	2	23.5	2	100	0	94	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16