genome.fa.s24.2.7.7.80.10.50.1000.8.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  8  of  19  ( 2215 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)
1449720--1449775	14	4.3	14	75	18	50	60	0	0	39	0.97
1449725--1449777	24	2.4	22	78	9	54	64	0	0	35	0.94
1449905--1449931	2	13.5	2	100	0	54	51	0	0	48	1.00
1451367--1451407	6	6.8	6	97	0	64	51	9	0	39	1.35
1451793--1451823	7	4.4	7	100	0	62	32	0	0	67	0.91
1453281--1453820	90	6.0	90	95	0	927	16	22	25	36	1.94
1453205--1453820	180	3.5	180	92	2	944	16	22	24	36	1.94
1453205--1453820	270	2.3	268	90	3	940	16	22	24	36	1.94
1453731--1453938	105	2.0	104	81	6	242	17	27	23	31	1.97
1454843--1454878	2	18.0	2	100	0	72	50	0	0	50	1.00
1456041--1456260	116	1.9	116	98	0	422	24	11	16	48	1.79
1461914--1461940	11	2.5	11	100	0	54	7	7	0	85	0.75
1461915--1461984	28	2.5	29	79	4	90	17	5	0	77	0.96
1468246--1468304	29	2.0	29	87	6	84	66	1	0	32	1.02
1469363--1469389	14	1.9	14	100	0	54	44	22	14	18	1.86
1473357--1473389	2	16.5	2	100	0	66	51	0	0	48	1.00
1474044--1474098	21	2.5	22	82	8	60	49	0	0	50	1.00
1474054--1474094	21	2.0	21	90	9	66	41	0	0	58	0.98
1474089--1474134	19	2.5	18	78	3	56	56	0	0	43	0.99
1474049--1474149	50	2.1	48	83	8	127	52	0	0	47	1.00
1474090--1474157	22	3.0	22	70	19	57	57	0	0	42	0.98
1474271--1474357	43	2.2	37	74	18	84	35	1	2	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1474305--1474371	27	2.5	26	80	17	75	40	1	0	58	1.07
1477634--1477685	20	2.4	24	73	26	62	42	0	0	57	0.98
1478580--1478651	18	4.1	18	77	10	69	43	1	2	52	1.24
1478874--1478937	11	6.0	11	75	12	62	65	1	1	31	1.11
1478893--1478932	19	2.0	20	90	4	64	72	0	0	27	0.85
1479018--1479057	19	2.2	18	86	4	53	67	7	0	25	1.16
1480284--1480308	4	6.2	4	100	0	50	48	0	0	52	1.00
1480776--1480851	39	1.9	39	82	10	93	48	1	0	50	1.09
1480817--1480858	21	2.0	22	85	4	59	47	2	0	50	1.14
1481538--1481575	18	2.1	19	95	5	69	50	0	0	50	1.00
1481542--1481584	19	2.5	17	82	14	52	53	0	0	46	1.00
1482316--1482358	23	1.9	22	85	4	59	46	6	2	44	1.43
1482548--1482595	25	2.0	22	88	11	69	56	0	0	43	0.99
1483986--1484062	2	38.5	2	79	5	84	46	5	3	44	1.44
1484616--1484656	9	4.7	9	82	14	50	36	0	2	60	1.10
1484606--1484656	26	2.0	26	84	7	68	39	0	1	58	1.09
1486597--1486662	18	4.1	17	72	21	61	56	0	3	40	1.15
1486598--1486660	16	4.0	16	74	16	51	55	0	3	41	1.16
1486746--1486812	14	4.9	14	77	15	68	47	1	1	49	1.19
1486740--1486796	28	2.0	28	87	12	82	42	0	1	56	1.10
1486855--1486901	20	2.2	21	78	17	53	55	4	2	38	1.31
1486883--1486928	14	3.1	16	74	25	55	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486883--1486934	14	3.3	17	70	25	51	65	0	0	34	0.93
1486874--1486939	29	2.2	30	86	10	100	62	0	0	37	0.96
1486999--1487030	15	2.1	16	94	5	57	56	3	0	40	1.15
1488007--1488040	2	17.0	2	100	0	68	50	0	0	50	1.00
1488996--1489059	28	2.3	27	77	17	67	39	1	0	59	1.07
1489009--1489062	16	3.5	16	72	27	53	42	0	0	57	0.98
1490011--1490072	16	3.7	16	75	12	61	38	0	1	59	1.07
1490777--1490847	33	2.5	27	71	26	65	52	0	0	47	1.00
1490802--1490876	21	3.7	20	66	15	55	50	1	0	48	1.09
1490783--1490849	32	2.1	30	86	8	89	50	0	0	49	1.00
1492597--1492660	15	4.3	15	70	23	55	32	3	0	64	1.10
1494448--1494482	17	2.1	17	88	0	52	71	0	2	25	1.00
1496996--1497023	2	14.0	2	100	0	56	50	0	0	50	1.00
1498638--1498674	20	1.9	20	88	5	58	40	0	0	59	0.97
1499032--1499087	26	2.1	27	87	9	80	50	1	0	48	1.11
1499032--1499107	26	3.0	25	81	11	66	47	1	1	50	1.18
1499325--1499372	23	2.1	23	84	7	62	68	0	0	31	0.90
1502669--1502725	25	2.3	25	87	6	80	33	1	1	63	1.15
1502894--1502943	24	2.1	24	92	0	82	28	32	16	24	1.96
1503914--1503970	27	2.0	28	80	12	64	49	8	5	36	1.57
1504163--1504235	15	4.5	17	70	21	50	38	0	1	60	1.06
1504201--1504317	29	4.0	27	71	13	81	41	1	0	56	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504256--1504323	17	3.9	17	71	19	50	38	1	0	60	1.06
1504365--1504402	17	2.2	18	90	4	60	28	0	0	71	0.87
1505100--1505233	68	2.0	68	95	0	241	22	11	23	41	1.87
1509096--1509145	23	2.2	23	82	7	57	36	0	4	60	1.16
1511285--1511330	22	2.1	22	84	8	58	45	0	0	54	0.99
1512678--1512772	20	5.1	18	67	20	52	53	1	0	45	1.07
1512684--1512767	38	2.2	38	77	8	91	53	1	0	45	1.08
1512740--1512828	37	2.3	40	77	14	98	55	2	1	41	1.20
1514130--1514259	68	1.9	68	88	0	197	38	11	3	46	1.59
1515594--1515622	6	4.8	6	100	0	58	0	48	0	51	1.00
1517225--1517256	2	16.0	2	93	0	55	50	3	0	46	1.17
1517389--1517463	30	2.6	29	77	8	80	29	0	5	65	1.15
1517477--1517521	8	5.2	8	82	15	54	33	0	4	62	1.15
1517477--1517521	17	2.6	17	83	13	56	33	0	4	62	1.15
1517514--1517556	22	2.0	21	86	4	59	41	2	4	51	1.35
1518013--1518068	29	1.9	29	85	7	78	35	3	1	58	1.26
1520423--1520457	2	17.5	2	100	0	70	0	48	0	51	1.00
1526924--1526980	29	2.0	28	93	3	96	47	10	14	28	1.76
1527986--1528013	2	14.0	2	100	0	56	50	0	0	50	1.00
1528298--1528370	22	3.3	23	74	9	71	46	0	1	52	1.09
1529850--1529884	17	2.1	17	94	5	63	28	2	0	68	1.04
1530571--1530629	18	3.0	20	80	12	68	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530572--1530623	20	2.6	20	85	11	63	67	0	0	32	0.91
1531997--1532043	17	2.9	16	73	17	51	55	0	0	44	0.99
1532381--1532429	23	2.0	25	85	14	68	69	0	0	30	0.89
1532930--1532984	25	2.3	25	81	9	71	43	0	1	54	1.10
1533465--1533503	18	2.1	18	85	4	51	46	0	2	51	1.14
1534331--1534428	22	4.5	22	67	5	63	38	0	0	61	0.96
1534331--1534415	28	2.9	29	83	13	104	42	0	0	57	0.98
1534339--1534415	27	2.8	28	84	11	97	42	0	0	57	0.99
1534339--1534440	28	3.6	28	79	11	102	38	0	0	60	1.03
1534805--1534838	2	17.0	2	93	0	59	50	2	0	47	1.16
1535941--1536041	18	5.5	18	75	14	64	58	1	0	39	1.09
1535933--1536041	19	5.9	18	74	14	89	59	1	0	38	1.08
1535965--1536022	20	2.9	20	85	10	66	53	0	0	46	1.00
1535963--1536060	28	3.6	25	78	20	90	55	0	1	43	1.06
1535904--1536052	11	14.5	11	67	26	53	61	1	0	36	1.10
1535963--1536062	27	3.6	26	77	17	87	55	0	1	44	1.06
1537094--1537136	22	2.0	20	86	8	59	55	2	0	41	1.12
1539600--1539663	29	2.2	29	78	15	69	37	0	3	59	1.13
1542973--1543017	2	22.5	2	100	0	90	48	0	0	51	1.00
1545030--1545069	21	1.9	21	89	0	62	52	0	0	47	1.00
1546643--1546706	28	2.2	28	81	10	67	54	0	10	34	1.35
1548121--1548163	18	2.4	18	80	7	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550155--1550200	16	2.9	16	84	9	67	52	0	0	47	1.00
1550696--1551162	157	3.0	152	80	9	453	38	12	11	37	1.79
1551909--1551965	29	1.9	30	82	10	73	42	8	3	45	1.52
1552484--1552521	19	2.0	19	89	0	58	31	2	2	63	1.22
1552595--1552634	9	4.1	10	90	9	57	32	0	0	67	0.91
1552542--1552634	20	4.7	21	64	22	58	35	2	1	61	1.15
1552495--1552644	19	7.3	20	68	20	62	36	1	2	60	1.17
1552494--1552652	11	15.0	11	68	21	67	37	1	1	59	1.16
1553048--1553082	7	5.0	7	100	0	70	28	0	0	71	0.86
1553901--1553949	15	3.1	15	79	5	53	69	2	0	28	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19