genome.fa.s60.2.7.7.80.10.50.1000.8.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  8  of  21  ( 2419 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)
1065920--1065960	16	2.6	16	88	0	55	36	12	12	39	1.80
1066413--1066444	14	2.1	16	88	11	50	28	0	0	71	0.86
1069401--1069453	21	2.3	24	79	17	60	33	0	0	66	0.92
1069887--1070514	317	2.0	313	88	2	945	51	13	8	26	1.69
1071137--1071176	6	6.7	6	83	11	55	2	15	0	82	0.77
1071123--1071176	13	4.2	12	79	13	54	3	12	0	83	0.78
1071117--1071176	11	5.3	11	75	20	52	3	16	0	80	0.85
1071122--1071176	25	2.2	26	78	15	62	3	14	0	81	0.82
1072041--1072080	21	1.9	21	94	0	71	57	17	7	17	1.62
1074930--1074973	21	2.0	23	86	8	65	40	0	0	59	0.98
1074932--1074988	13	4.1	13	82	13	69	38	0	0	61	0.96
1074930--1074983	6	9.2	6	84	13	60	40	0	0	59	0.98
1074946--1074993	19	2.6	18	76	23	55	37	0	0	62	0.95
1075224--1075306	22	3.9	22	67	19	59	46	0	0	53	1.00
1075528--1075560	11	2.7	13	81	18	52	36	0	0	63	0.95
1075683--1075762	20	3.9	19	80	9	79	52	0	2	45	1.14
1075683--1075759	39	2.0	40	82	7	95	51	0	2	45	1.14
1078243--1078281	19	2.0	19	90	5	60	43	0	0	56	0.99
1079370--1079397	13	2.2	13	100	0	56	42	0	0	57	0.99
1080720--1081001	139	2.0	139	96	0	519	40	13	19	26	1.89
1083064--1083111	21	2.3	21	88	0	69	37	4	25	33	1.75
1083081--1083124	21	2.1	21	82	0	52	38	6	18	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083592--1083667	22	3.4	22	67	16	66	50	7	6	35	1.58
1083580--1083701	45	2.7	45	97	1	228	46	8	9	36	1.65
1083701--1083828	2	64.0	2	100	0	256	50	0	50	0	1.00
1085362--1085421	23	2.6	22	84	7	75	51	0	1	46	1.10
1085364--1085418	12	4.7	12	73	10	51	50	0	1	47	1.11
1089826--1089863	2	19.0	2	100	0	76	50	0	0	50	1.00
1094412--1094451	2	20.0	2	100	0	80	50	0	0	50	1.00
1097199--1097237	20	2.0	19	85	5	51	38	0	2	58	1.12
1098630--1098666	2	18.5	2	100	0	74	51	0	48	0	1.00
1100639--1100673	15	2.4	14	86	13	52	22	0	2	74	0.95
1100761--1100790	14	2.1	14	93	0	51	53	0	0	46	1.00
1100759--1100839	30	2.7	32	76	14	82	44	0	0	55	0.99
1100781--1100844	30	2.1	30	85	8	85	39	0	1	59	1.07
1101273--1101307	2	17.5	2	100	0	70	51	0	0	48	1.00
1102117--1102147	14	2.1	15	94	5	55	0	9	0	90	0.46
1102302--1102352	14	3.7	14	72	15	52	39	0	3	56	1.18
1102452--1102476	13	1.9	13	100	0	50	0	8	0	92	0.40
1102636--1102733	11	8.7	11	70	11	56	61	0	0	38	0.96
1102666--1102733	6	11.7	6	72	9	52	63	0	0	36	0.95
1102641--1102733	28	3.2	30	78	14	81	61	0	0	38	0.96
1110513--1110571	29	2.0	29	100	0	118	13	16	22	47	1.82
1115572--1115617	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118157--1118266	19	5.7	18	72	21	73	40	1	0	57	1.16
1118160--1118284	18	6.2	18	68	21	70	38	1	0	59	1.13
1118243--1118283	10	3.8	11	84	15	59	34	0	0	65	0.93
1118538--1118575	18	2.1	18	85	9	51	71	2	26	0	1.00
1120989--1121017	9	3.0	10	90	10	51	0	0	20	79	0.74
1120989--1121017	5	6.0	5	92	8	51	0	0	20	79	0.74
1125219--1125246	14	2.0	14	100	0	56	7	14	0	78	0.95
1130659--1130691	9	3.7	9	88	11	50	12	18	0	69	1.18
1134772--1134805	2	17.0	2	100	0	68	50	0	0	50	1.00
1135066--1135148	42	2.0	43	83	7	107	44	6	13	36	1.68
1135290--1135335	24	2.0	24	91	4	76	52	0	0	47	1.00
1140857--1140956	48	2.1	47	83	5	121	24	9	42	25	1.83
1142894--1142948	23	2.3	24	78	12	60	49	0	3	47	1.19
1144743--1144772	2	15.5	2	93	6	53	50	0	0	50	1.00
1152766--1152790	2	12.5	2	100	0	50	52	0	0	48	1.00
1152930--1152963	2	17.0	2	100	0	68	50	0	0	50	1.00
1153478--1153513	18	2.0	18	88	0	54	44	0	0	55	0.99
1153540--1153578	20	1.9	21	89	5	62	56	0	2	41	1.13
1154067--1154100	17	2.0	17	88	0	50	47	0	0	52	1.00
1154095--1154136	18	2.3	18	91	0	66	42	0	2	54	1.13
1154809--1154842	17	1.9	18	88	5	52	47	2	2	47	1.32
1155365--1155450	16	5.4	16	81	10	97	58	4	0	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156598--1156648	5	10.0	5	78	19	52	35	0	1	62	1.06
1156604--1156647	6	7.3	6	80	19	56	34	0	0	65	0.93
1156603--1156648	11	4.5	11	84	15	71	36	0	0	63	0.95
1156610--1156646	19	1.9	19	100	0	74	35	0	0	64	0.94
1157039--1157098	20	3.0	20	79	11	63	55	1	0	43	1.10
1157039--1157090	20	2.6	19	85	8	68	55	0	0	44	0.99
1157043--1157097	18	2.9	19	82	12	60	54	1	0	43	1.10
1157566--1157590	2	12.5	2	100	0	50	0	52	0	48	1.00
1157664--1157732	16	4.5	17	75	15	62	46	0	0	53	1.00
1158702--1158761	29	2.1	29	87	3	86	43	1	1	53	1.20
1158788--1158833	23	2.0	23	83	8	58	54	0	2	43	1.12
1158899--1158953	13	3.9	14	75	20	60	56	0	1	41	1.10
1159485--1159526	21	2.0	21	95	0	75	40	0	0	59	0.97
1159571--1159663	37	2.5	38	80	1	107	49	5	6	38	1.51
1161096--1161122	2	13.5	2	100	0	54	48	0	0	51	1.00
1162844--1162910	17	3.8	17	74	18	57	56	0	0	43	0.99
1163498--1163538	12	3.4	13	80	16	52	58	0	0	41	0.98
1165887--1165921	16	2.2	16	100	0	70	11	20	5	62	1.48
1165954--1165992	18	2.1	19	95	4	71	33	0	5	61	1.18
1167027--1167059	2	16.5	2	100	0	66	51	0	0	48	1.00
1168959--1168996	20	1.9	20	89	10	60	36	0	0	63	0.95
1168964--1169028	29	2.4	26	78	16	69	30	3	4	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168975--1169048	29	2.5	30	86	6	98	33	4	6	55	1.45
1169059--1169113	28	2.0	27	85	3	74	45	1	3	49	1.30
1169098--1169160	30	2.1	30	85	5	83	57	3	4	34	1.36
1169111--1169168	30	1.9	30	82	6	73	56	5	5	32	1.43
1169878--1169922	21	2.1	22	87	4	65	42	0	0	57	0.98
1169898--1169939	14	3.1	14	79	3	50	40	0	0	59	0.97
1169934--1169996	16	3.9	16	76	17	58	58	0	0	41	0.98
1170231--1170271	10	4.0	11	81	12	52	29	0	0	70	0.87
1170311--1170439	9	15.5	8	67	21	52	35	0	0	62	1.06
1170324--1170391	35	1.9	35	85	11	95	32	1	1	64	1.11
1170329--1170415	13	7.1	12	73	10	52	34	1	1	63	1.10
1170321--1170454	41	3.4	40	74	18	104	35	0	0	62	1.06
1170346--1170466	62	2.0	60	82	6	145	37	1	0	60	1.13
1170709--1170755	22	2.2	22	84	3	60	65	12	10	10	1.46
1171016--1171062	24	2.0	24	91	8	78	74	0	0	25	0.82
1171026--1171095	19	3.7	19	82	14	83	68	0	0	31	0.90
1171023--1171070	13	3.9	12	77	22	55	72	0	0	27	0.84
1171025--1171096	24	3.2	24	78	13	80	68	0	0	31	0.90
1171531--1171689	75	2.1	75	82	4	187	28	13	27	30	1.94
1172459--1172527	11	6.1	11	73	18	61	65	0	0	34	0.93
1172459--1172533	21	3.4	21	72	21	64	65	0	0	34	0.93
1172485--1172546	21	3.0	21	77	15	67	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173125--1173195	20	3.5	20	77	9	72	46	0	1	52	1.09
1173152--1173208	30	1.9	29	82	10	71	45	0	1	52	1.11
1173216--1173254	18	2.2	18	90	0	60	25	0	0	74	0.82
1173212--1173259	25	2.0	24	91	4	78	29	0	0	70	0.87
1173382--1173426	22	2.1	22	87	4	65	71	0	0	28	0.87
1174021--1174084	34	1.9	32	90	6	101	59	9	4	26	1.48
1175813--1175845	2	16.5	2	100	0	66	51	0	48	0	1.00
1176584--1176634	27	2.0	25	85	14	68	49	1	1	47	1.24
1179350--1179415	8	8.6	8	68	15	50	59	0	0	40	0.98
1179374--1179415	15	2.7	16	85	7	59	59	0	0	40	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21