genome.fa.s172.2.7.7.80.10.50.1000.8.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: Scaffold172
Parameters: 2 7 7 80 10 50 1000
Length:  1975206

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1205 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)
1057159--1057385	107	2.1	106	82	4	260	26	24	14	33	1.95
1060191--1060246	24	2.3	24	90	0	85	50	12	3	33	1.58
1067698--1067747	14	3.7	13	78	7	55	4	10	6	80	1.02
1067698--1067766	14	4.8	14	69	11	50	4	10	4	81	0.97
1072481--1072584	29	3.7	28	81	10	115	18	12	10	58	1.62
1073616--1074293	159	4.3	158	75	5	451	36	12	19	32	1.89
1077887--1078005	42	2.8	42	89	0	175	42	1	45	10	1.47
1077938--1077972	12	2.9	12	84	16	54	40	0	48	11	1.39
1077896--1077981	24	3.8	24	70	17	76	41	1	44	12	1.50
1077941--1077986	12	3.9	12	81	13	51	43	0	43	13	1.43
1082380--1082414	12	2.9	12	84	16	54	11	48	0	40	1.39
1082346--1082465	42	2.8	42	85	1	150	10	43	1	45	1.47
1087010--1087036	11	2.5	11	100	0	54	37	22	18	22	1.95
1089860--1089952	44	2.1	44	93	0	159	34	23	10	31	1.89
1092411--1092449	15	2.6	14	80	11	51	82	2	12	2	0.89
1093196--1093271	12	6.9	11	75	15	52	39	2	48	9	1.49
1093186--1093304	42	2.8	42	93	0	202	42	1	46	9	1.46
1093261--1093310	18	2.8	18	81	6	57	44	2	46	8	1.44
1100611--1100644	12	2.9	12	91	4	52	2	47	0	50	1.16
1101887--1101940	23	2.3	23	90	0	81	3	16	5	74	1.16
1103219--1103268	20	2.5	20	86	0	64	34	12	16	38	1.85
1103305--1103354	20	2.5	20	90	0	73	32	12	16	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103189--1103424	86	2.7	86	91	1	366	31	13	13	41	1.83
1105507--1105575	20	3.5	19	86	7	77	28	14	17	39	1.89
1105608--1105661	20	2.7	20	85	5	74	35	14	14	35	1.88
1114290--1114358	33	2.1	32	86	10	95	31	14	17	36	1.90
1114307--1114358	13	4.5	13	71	26	53	34	13	15	36	1.87
1121110--1121154	15	3.0	15	76	0	54	42	42	0	15	1.47
1128339--1128426	14	6.6	14	70	7	58	35	10	21	32	1.87
1128439--1128772	57	5.8	58	79	5	214	29	31	16	22	1.96
1128472--1129056	86	6.8	87	75	7	428	29	30	16	23	1.96
1128472--1128802	143	2.3	142	86	2	448	29	31	16	22	1.96
1128554--1129036	57	8.4	57	86	3	526	28	29	16	24	1.97
1128473--1129056	28	20.4	28	72	6	391	29	30	16	23	1.96
1129011--1129186	31	5.7	31	73	14	123	29	33	16	20	1.95
1129040--1129260	31	7.0	32	77	5	184	28	32	17	21	1.96
1129040--1129257	62	3.4	63	80	3	215	28	32	16	22	1.96
1130458--1130534	20	3.8	20	76	6	84	29	12	12	44	1.81
1135944--1136062	42	2.8	42	90	0	184	9	45	2	42	1.49
1135959--1136029	18	3.6	18	69	20	52	9	43	2	43	1.52
1140685--1141253	157	3.6	156	75	10	399	35	13	17	33	1.88
1141783--1142267	243	2.0	244	86	4	681	36	15	17	30	1.91
1142416--1143474	159	6.7	159	73	9	593	37	12	18	31	1.88
1142416--1143112	319	2.2	316	79	5	715	37	13	17	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143075--1143577	157	3.2	156	78	5	372	37	10	18	33	1.86
1142992--1143577	315	1.9	316	80	7	688	37	12	17	32	1.87
1144275--1144563	157	1.8	161	83	4	390	37	13	15	34	1.86
1150571--1150646	12	6.9	11	77	15	61	39	1	48	10	1.46
1150570--1150655	24	3.8	24	73	17	85	41	1	45	11	1.48
1150591--1150651	9	7.1	9	72	10	56	42	1	44	11	1.50
1150561--1150679	42	2.8	42	90	0	184	42	1	46	9	1.46
1150615--1150660	12	3.9	12	81	13	51	43	0	43	13	1.43
1156383--1156451	35	2.0	35	94	0	120	31	18	18	30	1.96
1157684--1157748	12	4.9	12	70	26	51	44	1	43	10	1.48
1157675--1157733	30	2.0	30	86	6	84	49	1	38	10	1.47
1157687--1157785	42	2.3	42	82	1	117	42	2	44	11	1.51
1157693--1157753	9	7.1	9	70	10	56	45	1	40	11	1.50
1506047--1506316	51	5.3	50	84	5	283	30	25	10	33	1.90
1506043--1506316	103	2.7	101	80	6	291	30	25	10	33	1.90
1506299--1506375	28	2.8	28	87	0	100	23	33	19	23	1.97
1506253--1506454	107	1.9	108	82	3	255	26	28	14	30	1.95
1506409--1506463	28	1.9	29	88	3	85	20	25	18	36	1.94
1508590--1508614	4	6.2	4	100	0	50	24	0	0	76	0.80
1512769--1512809	21	2.0	21	90	0	64	39	14	19	26	1.90
1513664--1513787	52	2.4	51	94	1	212	28	17	18	35	1.94
1513664--1513807	52	2.8	51	88	5	202	29	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513796--1513820	13	1.9	13	100	0	50	36	16	16	32	1.90
1513883--1513907	13	1.9	13	100	0	50	32	16	16	36	1.90
1513861--1513927	33	2.0	33	85	0	89	41	13	10	34	1.79
1514790--1514969	91	1.9	93	90	5	285	31	16	24	27	1.96
1514877--1515021	49	3.0	49	85	4	195	31	16	25	26	1.96
1514790--1515018	48	4.8	46	80	10	232	31	17	24	26	1.97
1515062--1515166	30	3.6	30	92	2	169	20	18	29	32	1.96
1515237--1515298	27	2.2	28	85	2	90	17	14	35	32	1.90
1516728--1516827	1	100.0	1	74	0	83	1	2	10	87	0.69
1516729--1516827	11	8.7	11	80	13	112	1	2	10	86	0.69
1516732--1516829	37	2.7	35	83	10	119	1	2	11	85	0.73
1526448--1526475	11	2.5	11	100	0	56	82	17	0	0	0.68
1529724--1529764	21	2.0	21	90	0	64	39	14	19	26	1.90
1530620--1530743	52	2.4	51	94	1	212	28	17	18	35	1.94
1530620--1530763	52	2.8	51	88	5	202	29	17	18	34	1.94
1530752--1530776	13	1.9	13	100	0	50	36	16	16	32	1.90
1530817--1530883	33	2.0	33	88	0	98	40	13	11	34	1.81
1530839--1530863	13	1.9	13	100	0	50	32	16	16	36	1.90
1539330--1539382	18	3.1	17	84	10	63	86	9	3	0	0.68
1539330--1539382	13	3.9	13	82	9	54	86	9	3	0	0.68
1540369--1541734	59	23.3	59	90	5	1961	25	27	20	26	1.99
1540369--1541730	467	2.9	465	94	2	2341	25	27	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542551--1542604	19	2.8	19	100	0	108	37	11	14	37	1.82
1545027--1545150	51	2.4	52	84	10	155	30	25	12	32	1.92
1545164--1545385	52	4.3	51	83	2	255	29	24	12	33	1.91
1545368--1545442	28	2.6	30	87	8	104	24	32	18	25	1.97
1551613--1551666	20	2.7	20	88	2	72	38	12	16	31	1.87
1554167--1554219	27	2.1	26	82	10	65	26	28	13	32	1.93
1555048--1555169	59	2.1	59	100	0	244	19	16	24	39	1.92
1556495--1556649	80	1.9	81	81	1	186	23	20	14	41	1.89
1557260--1557685	88	4.8	89	83	3	457	28	27	15	28	1.96
1557262--1557596	177	1.9	177	85	3	469	28	27	15	28	1.96
1558016--1558247	41	5.7	41	79	2	229	17	26	15	40	1.89
1558016--1558244	81	2.8	81	82	3	273	17	27	15	39	1.90
1558015--1558270	40	6.3	40	78	7	216	18	25	15	41	1.89
1558260--1558313	28	1.9	28	92	0	90	22	27	5	44	1.75
1558385--1558534	46	3.3	46	86	0	201	23	24	9	43	1.83
1558628--1558954	85	3.8	85	80	8	326	17	23	14	44	1.85
1558637--1558954	170	1.9	171	82	5	410	17	22	13	45	1.84
1558851--1558954	42	2.4	43	81	7	124	18	23	10	48	1.79
1570695--1570741	20	2.3	20	88	0	67	31	14	14	38	1.87
1584113--1584156	22	2.0	22	86	0	61	31	18	13	36	1.90
1590005--1590050	24	1.9	24	100	0	92	26	13	15	45	1.82
1592961--1593302	158	2.2	159	79	5	372	31	17	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593001--1593366	158	2.3	158	80	7	359	31	17	13	37	1.89
1599230--1599302	28	2.6	28	86	4	94	24	17	31	26	1.97
1599286--1599455	52	3.3	52	78	9	177	32	12	24	29	1.93
1599438--1599513	27	2.8	28	86	6	102	25	21	30	23	1.99
1599172--1599525	107	3.3	104	70	15	276	31	14	26	27	1.95
1599493--1599628	51	2.6	51	79	10	148	31	10	26	31	1.90
1599286--1599620	52	6.3	53	69	15	176	32	12	25	30	1.92
1601982--1602007	13	2.0	13	100	0	52	38	15	15	30	1.88
1601961--1602027	33	2.0	33	88	0	98	43	16	14	25	1.86
1602047--1602114	19	3.9	18	76	23	83	38	14	11	35	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11