genome.fa.s1544.2.7.7.80.10.50.1000.4.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: scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  1412700

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 506 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)
1060913--1061268	54	6.6	55	75	9	245	37	19	19	22	1.94
1061248--1061301	26	2.1	26	82	6	65	24	14	24	37	1.93
1061298--1061347	24	2.1	24	92	0	82	20	8	22	50	1.74
1061493--1061641	32	4.7	32	78	4	151	24	22	16	36	1.94
1061493--1061617	64	2.0	64	85	0	169	24	23	16	36	1.94
1074556--1074607	23	2.2	23	86	3	68	17	17	19	46	1.85
1077023--1077089	26	2.6	26	82	0	89	41	13	14	29	1.85
1088339--1088543	111	1.9	110	96	1	383	47	13	10	28	1.76
1101159--1102002	422	2.0	422	99	0	1679	33	14	23	28	1.94
1103576--1103720	49	2.9	50	81	2	166	26	21	29	22	1.99
1111594--1111623	7	4.3	7	91	0	51	50	13	36	0	1.42
1119217--1119261	10	4.3	10	86	10	63	28	0	15	55	1.41
1121061--1121109	20	2.5	20	81	15	66	57	6	24	12	1.58
1123799--1124142	27	12.6	27	78	11	247	30	9	18	40	1.83
1123799--1124150	55	6.4	55	77	11	294	30	10	18	40	1.84
1123815--1124088	82	3.3	82	84	6	324	31	9	19	40	1.83
1124135--1124171	18	2.0	19	89	5	58	37	13	13	35	1.84
1124080--1124226	73	2.0	73	85	2	197	30	10	18	40	1.84
1124053--1124250	100	2.0	100	82	5	240	30	10	18	40	1.83
1124153--1124256	27	3.8	27	77	6	102	28	9	21	40	1.84
1128236--1128274	17	2.5	16	84	16	55	15	46	0	38	1.46
1128239--1128280	19	2.2	19	86	0	57	14	47	0	38	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151504--1151576	30	2.4	30	83	2	83	24	17	6	50	1.70
1153262--1153441	50	3.5	50	80	10	202	25	29	19	25	1.98
1156799--1156833	16	2.1	17	89	5	54	11	48	0	40	1.39
1159375--1159685	56	5.7	56	92	2	472	25	18	28	27	1.98
1159604--1159789	50	3.8	49	76	7	160	29	21	25	23	1.99
1159436--1159789	56	6.7	50	86	4	201	27	19	26	26	1.99
1160001--1160034	14	2.7	12	90	9	50	61	0	14	23	1.33
1166443--1166689	50	4.8	50	79	5	210	29	20	26	23	1.99
1180889--1180919	15	2.1	15	100	0	62	35	0	12	51	1.40
1183712--1183927	103	2.1	103	98	0	414	38	8	9	43	1.67
1184932--1184964	14	2.4	14	90	10	50	45	48	0	6	1.27
1187237--1187278	5	8.2	5	89	5	66	61	2	0	35	1.09
1187342--1188027	342	2.0	344	99	0	1358	40	9	17	32	1.82
1188787--1188840	26	2.1	26	100	0	108	33	7	0	59	1.25
1191160--1191208	19	2.7	17	84	9	62	24	46	20	8	1.77
1191763--1191796	15	2.3	15	94	0	59	61	8	11	17	1.54
1192165--1192211	21	2.3	20	89	7	69	68	8	0	23	1.17
1198416--1198453	20	1.9	20	89	10	60	60	5	0	34	1.19
1205132--1205169	17	2.2	17	90	9	60	36	0	47	15	1.46
1205135--1205176	15	2.7	15	83	16	59	35	0	50	14	1.43
1242853--1242903	26	2.0	26	84	0	66	19	27	31	21	1.97
1242877--1243284	85	4.8	85	89	2	597	23	16	26	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242880--1243282	43	9.5	41	70	16	247	23	16	26	33	1.95
1250493--1250525	12	2.8	12	86	4	50	81	0	15	3	0.80
1253126--1253186	29	2.1	29	90	0	95	18	31	29	21	1.96
1259067--1259110	22	2.0	21	83	12	54	59	0	2	38	1.10
1265181--1265208	14	2.0	14	100	0	56	57	7	14	21	1.61
1265791--1265817	9	3.0	9	100	0	54	44	22	11	22	1.84
1268441--1268489	21	2.3	21	75	6	55	26	40	22	10	1.86
1275520--1275561	15	2.8	15	92	0	66	54	2	2	40	1.26
1279570--1279598	3	9.7	3	100	0	58	0	34	0	65	0.93
1281121--1282483	681	2.0	681	100	0	2726	41	13	9	35	1.76
1291836--1291975	53	2.6	53	88	2	199	43	20	17	19	1.88
1291836--1291975	27	5.2	27	87	1	192	43	20	17	19	1.88
1291836--1292003	53	3.1	53	80	6	171	42	19	17	20	1.89
1292135--1292214	26	3.1	26	89	3	135	20	21	22	36	1.95
1292325--1292387	28	2.3	27	86	5	90	20	23	25	30	1.99
1292406--1292441	14	2.6	14	100	0	72	16	16	22	44	1.86
1304302--1304352	23	2.3	23	86	3	68	33	7	21	37	1.82
1311196--1311235	21	1.9	21	85	10	55	37	2	5	55	1.35
1315326--1315364	20	2.0	19	85	14	53	46	10	12	30	1.75
1326687--1326729	10	4.3	10	81	0	59	53	39	4	2	1.34
1333872--1333953	30	2.7	30	85	7	112	32	19	6	41	1.76
1334546--1334601	13	4.5	13	78	14	55	75	0	25	0	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334530--1334601	24	2.7	27	74	22	64	70	0	29	0	0.87
1334696--1334757	7	8.3	7	78	18	63	82	0	14	3	0.80
1334690--1334757	22	3.0	21	78	19	75	80	0	16	2	0.82
1334703--1334757	15	3.7	14	88	11	83	83	0	12	3	0.77
1334697--1334758	31	2.0	31	90	6	99	80	0	14	4	0.87
1335120--1335158	15	2.5	15	79	4	51	74	0	25	0	0.82
1335103--1335167	16	4.2	16	71	7	55	78	1	20	0	0.83
1335579--1335789	19	11.2	19	72	18	106	32	10	10	45	1.73
1335655--1335744	43	2.1	44	85	6	121	23	10	13	53	1.69
1335619--1335783	79	2.1	81	83	4	219	27	11	11	49	1.74
1335579--1335805	18	13.2	18	76	17	182	33	10	10	45	1.73
1336252--1336277	9	2.9	9	100	0	52	46	19	0	34	1.50
1344086--1344778	75	9.2	75	87	3	865	28	17	19	34	1.95
1344086--1344779	152	4.6	151	86	2	869	28	17	19	34	1.95
1345095--1345194	30	3.3	30	78	9	89	33	18	4	45	1.68
1345125--1345193	31	2.3	29	82	7	84	31	18	4	44	1.69
1345789--1345843	27	1.9	29	89	10	87	74	0	25	0	0.82
1345794--1345874	35	2.3	34	85	10	101	70	0	29	0	0.88
1346322--1346376	15	3.8	14	80	19	60	80	0	20	0	0.72
1346322--1346376	7	7.6	7	78	13	58	80	0	20	0	0.72
1346324--1346384	22	2.5	24	76	10	63	80	1	18	0	0.80
1346324--1346386	16	4.0	16	75	4	65	79	1	19	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346528--1346593	29	2.3	29	76	7	73	25	18	12	43	1.84
1346788--1347165	126	3.0	124	88	1	576	28	15	23	32	1.95
1347920--1348008	24	3.5	24	72	18	74	26	0	25	47	1.53
1347882--1348229	86	4.0	87	92	4	560	27	0	25	46	1.56
1348022--1348093	24	3.0	23	80	13	83	27	0	27	44	1.55
1348128--1348211	33	2.6	33	86	1	107	32	1	19	47	1.57
1348210--1348412	13	14.8	13	64	22	69	21	0	31	46	1.56
1348223--1348460	44	5.7	43	81	9	244	22	0	31	46	1.55
1348210--1348339	57	2.3	58	81	6	158	22	0	31	46	1.52
1348223--1348466	42	5.8	42	80	9	241	22	0	31	45	1.56
1348324--1348391	31	2.3	30	85	10	86	22	1	30	45	1.61
1348280--1348454	79	2.3	75	84	9	246	21	0	31	46	1.55
1348353--1348412	12	4.8	12	70	13	50	20	0	31	48	1.50
1348303--1348451	79	1.9	79	92	0	253	20	0	32	46	1.56
1348470--1348582	25	4.7	25	68	18	96	42	13	0	43	1.49
1349670--1349701	7	4.6	7	100	0	64	59	12	0	28	1.34
1350882--1350986	11	9.1	11	69	23	65	44	0	30	24	1.54
1350921--1350976	22	2.5	22	88	2	85	42	0	30	26	1.56
1350937--1350986	10	4.6	11	77	22	61	46	0	34	20	1.51
1350837--1350954	51	2.3	51	85	7	159	46	0	22	30	1.52
1351595--1351642	24	2.0	25	87	4	71	37	8	6	47	1.59
1351633--1351699	19	3.6	19	72	11	59	44	7	10	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351641--1351718	17	4.4	17	73	15	68	43	10	10	35	1.73
1351622--1351769	36	4.1	35	74	8	145	37	10	10	41	1.74
1355046--1355088	21	2.0	21	81	4	50	9	20	25	44	1.81
1355176--1355461	43	6.7	43	86	4	375	25	30	19	24	1.98
1355176--1355461	128	2.2	129	88	3	409	25	30	19	24	1.98
1360142--1360178	7	5.3	7	86	0	56	27	54	0	18	1.44
1360142--1360182	14	2.9	14	88	0	64	29	48	0	21	1.50
1360145--1360206	21	2.9	22	85	4	74	35	41	0	22	1.54
1361270--1361518	41	6.0	41	85	2	284	28	30	20	20	1.97
1361570--1361661	40	2.3	40	79	3	107	25	23	20	30	1.99

Tables:   1   2   3   4   5