genome.fa.s140.2.7.7.80.10.50.1000.8.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  8  of  20  ( 2326 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)
1219516--1219549	9	3.8	9	88	0	50	29	0	0	70	0.87
1219541--1219594	14	4.1	14	74	9	51	44	0	0	55	0.99
1220369--1220432	25	2.6	25	82	5	67	40	1	0	57	1.08
1220777--1220993	34	6.4	34	84	2	249	25	8	26	40	1.84
1220777--1220993	102	2.1	101	87	1	308	25	8	26	40	1.84
1225403--1225622	34	6.5	34	83	3	255	25	8	25	40	1.83
1225403--1225622	103	2.2	101	87	2	314	25	8	25	40	1.83
1226862--1226893	16	2.0	16	93	0	55	46	0	0	53	1.00
1227414--1227454	21	2.0	21	90	9	66	53	0	0	46	1.00
1227595--1227668	35	2.2	35	78	9	82	50	0	0	50	1.00
1227599--1227649	24	2.0	25	85	7	68	47	0	0	52	1.00
1228046--1228075	15	2.0	15	93	0	51	90	0	10	0	0.47
1228395--1228432	10	3.4	11	86	13	51	52	0	0	47	1.00
1228428--1228502	33	2.3	32	86	6	105	53	0	0	46	1.00
1228431--1228493	33	1.9	33	93	0	108	50	0	0	49	1.00
1228887--1228913	14	1.9	14	100	0	54	55	7	0	37	1.28
1231230--1231315	24	3.5	22	73	17	64	41	1	1	55	1.14
1231262--1231306	22	2.0	21	83	8	54	40	0	2	57	1.11
1231263--1231312	12	4.2	12	78	14	50	40	0	2	58	1.10
1231320--1231346	13	2.1	13	100	0	54	62	0	0	37	0.95
1249918--1249955	20	1.9	19	89	5	58	63	0	0	36	0.95
1250389--1250484	6	14.2	6	70	23	50	41	1	0	57	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250384--1250489	14	7.6	14	72	18	78	40	0	0	58	1.04
1250377--1250516	27	5.0	27	72	17	92	42	0	0	56	1.04
1250398--1250480	36	2.4	34	82	9	89	43	1	0	55	1.07
1250566--1250627	26	2.4	27	74	15	67	46	0	0	53	1.00
1250934--1250969	3	11.7	3	88	5	54	72	0	0	27	0.85
1259260--1259313	24	2.2	24	83	6	65	50	0	0	50	1.00
1259287--1259364	15	4.7	17	71	21	51	48	1	0	50	1.09
1259340--1259400	15	4.2	15	72	16	56	49	1	0	49	1.10
1259402--1259441	19	2.1	19	90	0	62	45	0	0	55	0.99
1259445--1259495	16	3.4	16	73	15	54	43	0	0	56	0.99
1259469--1259493	13	1.9	13	100	0	50	60	0	0	40	0.97
1265865--1265899	4	8.8	4	87	0	52	25	0	2	71	1.00
1267888--1267924	3	12.3	3	100	0	74	32	0	0	67	0.91
1268140--1268164	3	8.3	3	100	0	50	64	0	0	36	0.94
1268992--1269044	20	2.7	20	82	5	63	77	0	20	1	0.87
1269316--1269371	29	2.0	29	83	13	73	33	1	0	64	1.04
1270674--1270723	24	2.1	24	81	7	57	56	0	0	44	0.99
1270684--1270743	18	3.6	17	74	19	63	55	0	0	45	0.99
1270686--1270732	17	2.9	17	75	18	55	55	0	0	44	0.99
1270683--1270745	14	3.6	18	74	26	64	55	0	0	44	0.99
1270967--1271016	19	2.6	20	78	18	61	60	0	0	40	0.97
1271031--1271106	32	2.4	32	76	6	84	39	1	0	59	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1272663--1272702	20	2.0	20	85	4	55	25	0	2	72	0.97
1272681--1272721	13	3.2	13	86	10	50	34	0	2	63	1.08
1273761--1273817	25	2.3	25	84	0	69	43	8	1	45	1.45
1278820--1278876	22	2.6	21	75	22	55	57	1	0	40	1.09
1278815--1278855	12	3.3	12	86	3	55	63	0	0	36	0.95
1278910--1278973	16	4.3	15	74	20	62	48	0	0	51	1.00
1279119--1279145	3	9.0	3	100	0	54	33	0	0	66	0.92
1282242--1282274	17	1.9	18	88	11	52	39	6	6	48	1.53
1287425--1287449	2	12.5	2	100	0	50	52	0	0	48	1.00
1288085--1288114	2	15.0	2	100	0	60	0	50	0	50	1.00
1288391--1288447	25	2.3	25	78	6	62	49	1	7	42	1.40
1289652--1289691	19	2.0	20	85	4	55	65	0	2	32	1.06
1289613--1289731	58	2.0	59	81	10	138	54	0	1	43	1.10
1290353--1290418	18	3.5	18	72	10	60	36	0	4	59	1.18
1290360--1290430	35	1.9	35	88	8	106	39	0	2	57	1.13
1290370--1290420	25	2.0	26	84	3	68	39	0	1	58	1.09
1290370--1290443	26	3.0	25	79	14	66	39	0	1	59	1.06
1290366--1290442	35	2.4	30	78	21	86	37	0	1	61	1.05
1290473--1290520	15	3.4	14	81	16	55	54	0	0	45	0.99
1290473--1290531	15	4.1	15	77	18	54	57	0	0	42	0.98
1290477--1290546	23	3.0	23	77	8	61	62	0	0	37	0.95
1290470--1290543	27	2.7	27	76	14	71	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291654--1291694	2	20.5	2	100	0	82	48	0	0	51	1.00
1293206--1293390	9	19.0	10	67	24	53	45	0	0	54	1.04
1293200--1293303	26	3.8	27	75	18	90	44	0	0	54	1.06
1293233--1293300	31	2.2	31	86	5	93	44	0	1	54	1.09
1293280--1293373	41	2.2	43	81	14	106	41	0	0	58	0.98
1293228--1293359	17	7.7	17	64	16	51	41	0	0	57	1.04
1293287--1293363	11	7.5	11	72	17	67	40	0	0	59	0.97
1293297--1293384	29	3.0	28	74	12	79	44	0	0	55	0.99
1293393--1293441	21	2.3	22	83	16	68	55	0	0	44	0.99
1293400--1293447	7	6.4	7	80	20	53	56	0	0	43	0.99
1293410--1293446	15	2.4	16	78	13	51	51	0	0	48	1.00
1297435--1297493	26	2.2	27	82	8	68	61	1	0	37	1.07
1299179--1299212	13	2.8	12	82	8	50	50	2	0	47	1.16
1299249--1299279	15	2.0	16	93	6	55	54	0	0	45	0.99
1299492--1299539	23	2.0	24	88	4	71	58	12	0	29	1.35
1299751--1299788	18	2.0	20	90	10	62	50	0	2	47	1.15
1299796--1299884	23	3.9	23	82	1	99	50	20	0	29	1.48
1299883--1299923	21	2.0	21	90	9	66	68	0	0	31	0.90
1299895--1299934	15	2.6	16	84	8	55	72	0	0	27	0.85
1307384--1307424	20	2.0	22	85	9	59	26	0	2	70	0.99
1307388--1307427	17	2.4	18	88	12	59	25	0	2	72	0.97
1309563--1309600	17	2.3	16	86	13	51	50	5	5	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316954--1316987	15	2.4	14	90	5	50	64	0	0	35	0.94
1317016--1317057	17	2.4	18	80	15	52	71	0	2	26	0.98
1317034--1317112	11	6.9	12	73	20	62	64	0	1	34	1.02
1317016--1317115	13	8.2	13	67	26	51	65	0	2	33	1.04
1317069--1317134	32	2.0	32	85	8	89	57	1	0	40	1.08
1322289--1322325	2	18.5	2	100	0	74	48	0	0	51	1.00
1326352--1326442	41	2.2	40	79	14	107	35	0	1	63	1.02
1326355--1326452	35	2.7	35	77	20	94	34	0	1	64	1.01
1331371--1331432	25	2.6	25	85	7	85	53	0	0	46	1.00
1331374--1331473	32	3.4	30	77	9	98	52	1	0	47	1.07
1331376--1331442	16	4.2	16	76	16	59	49	0	0	50	1.00
1331425--1331500	20	3.7	19	76	13	62	57	1	0	40	1.07
1331468--1331498	10	3.0	10	90	9	53	70	0	0	29	0.87
1332406--1332449	23	1.9	23	86	9	63	54	0	0	45	0.99
1333135--1333179	19	2.4	19	85	7	56	40	0	0	60	0.97
1333932--1334196	137	1.9	137	89	0	404	43	16	5	35	1.70
1339557--1339591	4	9.0	4	87	6	54	28	0	0	71	0.86
1339595--1339634	20	2.0	20	85	0	53	52	2	0	45	1.14
1342238--1342281	2	22.0	2	90	0	70	45	0	4	50	1.22
1347233--1347263	6	5.2	6	96	0	53	12	0	54	32	1.38
1347653--1347718	30	2.2	29	87	12	91	36	0	1	62	1.05
1347695--1347729	16	2.2	16	89	0	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347723--1347828	47	2.3	46	81	12	119	48	0	4	46	1.29
1351614--1351649	17	2.1	17	94	0	63	19	19	13	47	1.83
1352729--1352754	1	26.0	1	100	0	52	0	0	100	0	0.00
1353251--1353283	16	2.1	16	88	5	50	45	0	0	54	0.99
1353257--1353307	24	2.1	25	81	3	59	41	0	1	56	1.10
1353278--1353341	34	1.9	33	84	9	85	48	0	1	50	1.10
1353415--1353450	14	2.6	14	90	0	54	55	11	0	33	1.35
1355012--1355076	30	2.3	27	82	12	76	46	4	0	49	1.22
1355912--1355958	23	2.0	23	83	4	58	61	0	0	38	0.96
1356901--1356947	23	2.0	24	83	4	60	55	4	2	38	1.31

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20