genome.fa.s321.2.7.7.80.10.50.1000.1.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: Scaffold321
Parameters: 2 7 7 80 10 50 1000
Length:  1060354

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 625 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)
162--210	22	2.3	21	82	3	53	51	2	2	44	1.24
665--707	17	2.5	17	78	14	52	58	0	2	39	1.11
1892--1968	32	2.4	32	79	10	79	48	22	10	19	1.79
6452--6499	15	3.1	15	73	8	51	52	6	18	22	1.68
7736--7832	1	97.0	1	100	0	194	0	100	0	0	0.00
8526--8573	24	2.0	23	92	4	78	45	12	4	37	1.61
9747--9780	17	1.9	18	88	5	52	23	14	29	32	1.94
21818--21852	2	17.5	2	100	0	70	51	0	0	48	1.00
23394--23426	15	2.2	15	94	0	57	51	0	3	45	1.16
23401--23500	51	1.9	53	82	11	127	52	0	2	46	1.12
26524--26605	28	2.9	28	85	7	105	25	15	32	25	1.96
26585--26757	52	3.4	51	79	5	195	31	12	25	30	1.92
26743--26814	27	2.6	27	86	2	90	20	20	34	23	1.96
26799--26929	51	2.5	51	80	9	147	32	9	25	32	1.89
26532--26921	211	1.8	211	87	2	577	30	12	26	30	1.93
29353--29452	19	5.9	18	73	26	103	38	15	12	35	1.84
29375--29431	13	3.9	13	76	24	60	35	15	14	35	1.88
29356--29450	32	3.0	32	98	0	181	36	15	12	34	1.86
29508--29564	21	2.7	21	91	5	89	36	19	10	33	1.86
29576--29607	13	2.5	13	100	0	64	18	0	0	81	0.70
29572--29610	16	2.5	15	84	8	60	15	0	0	84	0.62
29886--29933	20	2.4	20	75	6	53	45	12	14	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30995--31533	280	1.9	280	95	0	979	35	11	16	36	1.85
33432--33483	22	2.4	22	100	0	104	55	3	9	30	1.50
34721--34753	15	2.3	15	89	5	50	12	3	6	78	1.04
35045--35149	28	3.8	28	79	0	102	23	18	26	31	1.97
35076--35302	126	1.8	125	79	5	269	26	19	23	30	1.98
35231--35464	28	8.4	28	74	6	163	26	17	21	34	1.95
37189--37239	8	6.2	8	78	13	59	13	3	0	82	0.81
37185--37234	10	5.1	10	78	9	50	14	4	0	82	0.82
37797--38038	36	6.8	34	82	13	226	0	49	1	47	1.17
37826--38038	2	111.0	2	89	8	336	0	49	0	48	1.11
38259--38285	13	2.1	13	100	0	54	44	22	0	33	1.53
40859--40890	2	16.0	2	100	0	64	0	50	0	50	1.00
43756--43825	31	2.2	33	80	14	85	45	1	2	50	1.25
43794--43850	28	2.1	28	86	3	80	45	0	3	50	1.18
44586--44640	17	3.3	17	80	19	71	65	1	0	32	1.03
44586--44640	6	9.8	6	83	13	73	65	1	0	32	1.03
44586--44638	23	2.4	22	84	6	72	66	1	0	32	1.03
44586--44640	11	4.9	12	86	8	73	65	1	0	32	1.03
46536--46680	7	20.7	7	70	8	89	45	2	6	45	1.43
46536--46680	14	10.4	14	72	10	100	45	2	6	45	1.43
52575--52611	17	2.2	17	90	9	58	35	0	0	64	0.94
57771--57805	2	17.5	2	100	0	70	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59067--59110	19	2.2	20	84	11	56	34	9	0	56	1.31
60472--60565	22	4.8	20	71	19	65	57	0	1	41	1.06
60420--60588	62	2.8	60	77	17	174	55	0	1	43	1.07
60585--60621	12	2.7	14	80	20	51	32	0	0	67	0.91
60901--60952	16	3.1	16	82	17	61	67	0	0	32	0.91
60902--60957	18	3.2	18	82	12	71	64	0	0	35	0.94
60887--60946	24	2.4	24	88	5	84	68	0	0	31	0.90
62126--62168	13	3.4	13	80	6	52	37	0	2	60	1.10
63879--63982	35	3.2	34	71	20	89	35	5	0	58	1.22
63929--63986	23	2.6	23	81	13	68	32	1	0	65	1.03
64246--64277	3	10.7	3	100	0	64	34	0	0	65	0.93
68443--68483	21	2.0	21	95	0	73	53	2	2	41	1.27
68455--68513	30	2.0	31	90	6	95	54	3	1	40	1.27
68532--68603	33	2.2	33	85	9	94	51	4	1	43	1.29
68532--68603	32	2.2	34	85	9	96	51	4	1	43	1.29
68813--68840	2	14.0	2	100	0	56	50	0	0	50	1.00
69718--69763	16	2.9	16	80	6	58	76	0	21	2	0.90
69832--69878	12	4.0	12	80	2	51	25	2	2	70	1.10
69845--69899	18	2.9	18	75	17	58	29	3	3	63	1.28
69845--69902	22	2.9	21	82	10	59	29	3	3	63	1.27
69979--70028	23	2.1	24	85	3	66	28	2	8	62	1.35
70367--70427	10	6.6	9	76	14	54	75	1	21	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70377--70427	19	2.6	19	93	6	84	76	1	19	1	0.98
70692--70736	23	2.0	21	87	8	63	15	4	11	68	1.34
71580--71640	31	2.0	31	90	0	95	45	1	11	40	1.50
72262--72287	13	2.0	13	100	0	52	15	38	15	30	1.88
74877--74928	23	2.2	23	86	10	70	48	0	0	51	1.00
75908--75952	3	15.0	3	100	0	90	66	0	0	33	0.92
78123--78192	33	2.1	33	97	0	131	38	15	11	34	1.84
81232--81282	23	2.2	23	92	0	84	47	0	33	19	1.50
89911--89945	2	17.5	2	93	0	61	48	0	2	48	1.16
95306--95334	4	7.2	4	100	0	58	51	0	24	24	1.48
95332--95372	2	20.5	2	89	0	64	51	2	46	0	1.14
97834--97874	19	2.0	19	86	13	55	48	0	2	48	1.14
103426--103497	24	3.0	24	68	13	58	51	1	0	47	1.09
103952--103987	16	2.3	16	90	4	56	27	0	0	72	0.85
103976--104046	22	3.7	20	76	16	69	40	0	0	59	0.98
103981--104032	12	4.3	12	76	13	54	40	0	0	59	0.97
104323--104354	15	2.0	17	88	11	50	62	0	0	37	0.95
104307--104361	17	3.1	18	80	17	53	56	0	0	43	0.99
105485--105513	2	14.5	2	100	0	58	48	0	0	51	1.00
108815--108841	7	3.9	7	100	0	54	44	0	40	14	1.46
110092--110138	25	1.9	24	82	4	58	42	6	4	46	1.48
110107--110162	21	2.6	23	78	16	66	48	3	0	48	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110157--110244	15	5.9	15	64	23	51	59	0	0	40	0.98
113155--113200	21	2.1	22	84	4	58	19	30	19	30	1.97
116451--116487	19	1.9	19	94	0	65	48	0	0	51	1.00
116486--116537	26	2.0	26	88	0	77	40	0	0	59	0.97
116514--116577	31	2.1	30	85	8	85	45	0	1	53	1.10
116461--116558	17	6.3	15	67	22	51	42	0	0	57	0.99
119018--119065	22	2.1	23	88	3	71	70	2	0	27	0.98
119009--119065	12	4.8	12	75	12	55	70	1	0	28	0.98
119078--119115	16	2.2	19	86	13	55	42	0	0	57	0.98
119299--119323	2	12.5	2	100	0	50	48	0	0	52	1.00
124356--124435	34	2.4	34	89	0	124	27	8	16	47	1.76
126381--126425	23	2.0	23	86	4	65	66	0	0	33	0.92
137356--137396	18	2.3	18	86	0	55	26	0	7	65	1.18
140337--140386	2	25.0	2	95	0	91	0	48	2	50	1.12
147393--147432	2	20.0	2	100	0	80	50	0	0	50	1.00
151652--151683	14	2.2	15	94	5	57	43	0	0	56	0.99
153463--153560	44	2.3	43	80	8	110	48	0	1	50	1.07
154368--154493	64	2.0	63	81	9	148	46	0	0	52	1.06
154482--154512	2	15.5	2	93	0	53	54	0	0	45	0.99
157373--157423	24	2.0	25	85	11	68	66	1	0	31	1.03
157451--157486	17	2.0	19	89	10	58	52	2	0	44	1.15
161812--161850	7	5.4	7	90	3	60	12	5	0	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165651--165677	2	13.5	2	100	0	54	48	0	0	51	1.00
168371--168420	15	3.3	16	83	10	61	74	0	26	0	0.83
168394--168420	5	5.4	5	100	0	54	81	0	18	0	0.69
168382--168427	15	3.1	15	84	12	67	78	0	21	0	0.76
172666--172692	2	13.5	2	100	0	54	51	0	48	0	1.00
175502--175536	18	1.9	18	88	0	52	60	0	0	40	0.97
178035--178201	82	2.0	82	97	0	316	28	20	8	41	1.82
179597--179635	13	3.0	13	81	11	53	30	0	0	69	0.89
179591--179632	13	3.2	13	80	13	50	33	0	2	64	1.07
179675--179714	21	2.0	21	85	5	55	25	0	2	72	0.97

Tables:   1   2   3   4   5   6