genome.fa.s223.2.7.7.80.10.50.1000.7.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  7  of  26  ( 3021 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)
1227405--1227484	5	15.8	5	70	17	58	58	0	1	40	1.06
1227449--1227549	40	2.5	42	79	10	113	54	0	3	41	1.19
1227887--1227932	18	2.6	18	89	3	67	67	2	0	30	1.03
1227903--1227965	5	13.8	5	74	15	57	58	0	0	41	0.98
1227903--1227964	27	2.3	28	75	8	65	59	0	0	40	0.97
1227924--1227991	23	3.0	22	78	18	77	47	0	1	51	1.09
1227930--1228028	9	10.8	9	69	22	55	42	0	1	56	1.06
1227960--1228028	19	3.6	19	75	15	61	39	0	1	59	1.06
1228219--1228277	14	4.2	14	78	6	66	35	1	0	62	1.05
1228211--1228302	28	3.4	27	78	11	82	39	1	0	59	1.04
1228224--1228311	22	4.1	22	70	14	58	42	0	0	57	0.98
1228260--1228314	27	2.0	28	82	10	69	49	0	0	50	1.00
1228383--1228427	24	1.9	23	86	4	63	57	6	0	35	1.25
1231914--1231992	39	2.0	39	80	9	90	55	1	0	43	1.07
1236217--1236246	15	2.0	15	100	0	60	60	0	0	40	0.97
1237917--1237993	11	6.8	11	77	8	66	62	0	0	37	0.96
1237908--1238024	45	2.6	45	82	9	130	58	0	0	39	1.10
1237972--1238052	33	2.5	33	82	9	105	53	1	0	45	1.08
1237946--1238058	25	4.4	25	71	14	63	54	0	0	44	1.06
1237981--1238049	16	3.9	18	74	18	65	53	1	0	44	1.09
1238024--1238067	18	2.5	18	85	3	54	47	0	0	52	1.00
1237968--1238100	19	7.5	17	66	20	51	52	3	0	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239117--1239179	25	2.5	25	75	7	65	47	0	0	52	1.00
1239119--1239163	22	2.1	22	84	12	58	44	0	0	55	0.99
1239995--1240056	14	4.5	14	73	16	58	58	0	0	41	0.98
1239995--1240044	5	10.4	5	75	16	52	60	0	0	40	0.97
1240091--1240167	23	3.4	22	77	18	70	51	0	1	46	1.09
1240182--1240242	18	3.6	17	72	20	56	42	1	1	54	1.20
1240732--1240777	23	2.0	23	86	0	65	50	0	0	50	1.00
1241615--1241643	3	9.7	3	100	0	58	31	0	0	68	0.89
1242098--1242156	21	2.7	22	75	15	59	61	3	3	32	1.29
1242637--1242710	36	2.1	36	94	0	130	18	33	13	33	1.90
1242823--1242853	2	15.5	2	100	0	62	48	0	0	51	1.00
1242981--1243025	19	2.4	19	80	0	54	60	0	0	40	0.97
1243313--1243340	2	14.0	2	100	0	56	50	0	0	50	1.00
1245558--1245615	20	2.9	20	78	0	62	46	0	0	53	1.00
1250850--1250899	21	2.4	21	80	16	59	50	0	0	50	1.00
1250860--1250893	10	3.3	10	95	4	59	44	0	0	55	0.99
1251583--1251634	11	4.9	11	74	9	54	61	0	3	34	1.14
1251583--1251662	19	4.1	19	73	16	58	60	0	2	37	1.11
1251602--1251651	9	5.4	9	79	15	50	62	0	2	36	1.07
1251689--1251736	24	2.0	23	84	11	62	31	2	0	66	1.03
1252607--1252631	2	12.5	2	100	0	50	48	0	0	52	1.00
1256954--1257014	16	3.9	16	76	2	61	57	0	3	39	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257062--1257096	11	3.3	11	84	8	54	65	0	5	28	1.15
1257126--1257205	40	2.0	40	82	0	97	56	0	1	42	1.07
1262625--1262686	23	2.6	23	79	7	70	37	0	0	62	0.95
1262642--1262678	18	2.1	18	89	0	56	37	0	0	62	0.96
1262667--1262700	16	2.1	17	88	5	52	26	0	0	73	0.83
1262728--1262838	58	1.9	58	82	10	138	49	0	2	46	1.22
1263404--1263472	35	1.9	36	82	8	88	47	1	1	49	1.19
1263425--1263488	17	3.6	17	76	23	62	51	1	0	46	1.10
1263491--1263552	26	2.6	23	74	20	65	50	1	0	48	1.10
1270613--1270665	20	2.6	21	76	11	56	54	1	0	43	1.11
1270685--1270714	2	15.5	2	93	6	53	46	0	0	53	1.00
1271343--1271381	20	2.1	18	85	9	51	41	2	0	56	1.13
1271939--1271996	29	2.0	29	86	6	82	39	1	0	58	1.08
1271962--1272026	20	3.3	19	80	14	78	35	1	0	63	1.04
1271951--1272020	10	6.7	11	75	15	53	37	1	0	61	1.05
1273140--1273196	17	3.1	18	77	10	62	47	0	0	52	1.00
1273183--1273239	14	4.2	13	72	16	53	52	0	0	47	1.00
1273233--1273260	10	2.8	10	100	0	56	50	7	0	42	1.30
1273564--1273601	17	2.2	17	90	4	58	39	0	0	60	0.97
1273725--1273766	19	2.4	17	84	8	57	61	0	2	35	1.09
1274458--1274507	21	2.5	20	73	20	50	38	0	0	62	0.96
1274520--1274557	6	6.3	6	82	11	51	31	0	2	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274788--1274857	20	3.5	20	74	16	72	60	4	0	35	1.17
1275325--1275366	21	2.0	21	86	9	59	33	4	0	61	1.17
1275563--1275601	17	2.4	15	84	16	51	43	0	0	56	0.99
1276186--1276212	2	13.5	2	100	0	54	51	0	48	0	1.00
1284028--1284070	19	2.5	16	82	14	50	39	0	0	60	0.97
1284028--1284076	20	2.4	20	83	10	64	38	0	0	61	0.96
1284684--1284722	2	19.5	2	100	0	78	51	0	0	48	1.00
1288494--1288556	5	11.4	5	83	12	63	28	1	0	69	0.97
1288495--1288558	16	4.1	16	75	18	64	29	1	0	68	0.99
1289728--1289769	17	2.4	18	80	15	52	57	0	2	40	1.12
1289779--1289824	8	5.8	8	78	19	51	63	0	0	36	0.95
1289726--1289796	27	2.6	29	78	22	82	56	0	1	42	1.08
1289779--1289825	19	2.2	21	85	14	62	61	0	0	38	0.96
1289765--1289825	21	2.9	20	77	17	61	60	0	0	39	0.97
1300940--1300976	3	12.3	3	100	0	74	67	0	0	32	0.91
1307274--1307342	22	3.2	22	67	27	58	46	4	4	44	1.43
1307978--1308002	2	12.5	2	100	0	50	48	0	0	52	1.00
1312579--1312609	3	10.3	3	100	0	62	35	0	0	64	0.94
1313852--1313886	13	2.8	13	87	12	56	34	0	0	65	0.93
1313852--1313898	22	2.0	23	88	8	69	36	0	0	63	0.94
1313850--1313959	21	5.0	22	75	11	77	45	0	0	54	0.99
1313955--1314015	21	3.0	22	86	9	76	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313964--1314015	26	2.0	26	88	7	79	30	0	0	69	0.89
1313850--1314015	10	15.5	11	67	23	56	40	0	0	59	0.97
1315457--1315481	2	12.5	2	100	0	50	48	0	0	52	1.00
1315982--1316023	17	2.3	19	88	8	61	33	0	0	66	0.92
1315987--1316046	27	2.3	24	81	13	66	38	0	0	61	0.96
1317202--1317235	16	2.1	17	88	5	52	52	0	0	47	1.00
1317563--1317609	19	2.4	21	82	13	64	48	0	4	46	1.21
1317563--1317615	19	2.8	19	82	5	63	49	0	3	47	1.19
1317690--1317737	20	2.4	20	80	13	55	47	0	0	52	1.00
1318835--1318868	12	2.8	12	86	4	50	41	0	2	55	1.15
1318680--1318958	152	1.8	153	84	0	380	45	7	8	37	1.64
1320524--1320556	2	16.5	2	93	0	57	54	45	0	0	0.99
1322958--1322987	13	2.4	13	94	5	53	46	0	0	53	1.00
1324943--1325001	24	2.4	24	77	8	66	37	0	3	59	1.14
1325502--1325529	14	2.0	14	100	0	56	64	7	0	28	1.20
1329111--1329137	2	13.5	2	100	0	54	0	0	48	51	1.00
1330009--1330038	13	2.3	13	94	0	51	30	0	10	60	1.30
1349398--1349482	42	2.0	42	100	0	170	31	14	16	37	1.88
1349705--1349890	34	5.5	34	88	0	266	25	8	26	39	1.83
1349705--1349890	102	1.8	101	92	1	318	25	8	26	39	1.83
1350195--1350257	19	3.3	19	90	0	90	28	17	19	34	1.94
1354323--1354411	34	2.7	33	87	6	135	28	6	23	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356935--1356996	19	3.1	20	72	9	72	51	0	0	48	1.00
1359739--1359774	2	18.0	2	100	0	72	50	0	50	0	1.00
1361665--1361714	24	2.1	24	88	0	73	10	42	20	28	1.84
1361683--1361728	24	1.9	24	81	0	56	10	41	17	30	1.84
1373967--1374075	40	2.7	42	75	19	115	53	0	1	44	1.11
1381924--1381972	20	2.3	22	82	6	66	38	0	0	61	0.96
1381930--1381995	19	3.4	19	74	12	62	45	0	0	54	0.99
1381936--1381989	27	2.1	25	83	10	65	40	0	0	59	0.98
1382169--1382676	259	2.0	260	97	0	964	36	10	16	37	1.83
1382855--1382889	13	2.6	14	86	13	56	57	0	0	42	0.99

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