genome.fa.s41.2.7.7.80.10.50.1000.2.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

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  2  of  21  ( 2447 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)
86684--86723	20	2.0	20	100	0	80	25	15	40	20	1.90
86803--86837	2	17.5	2	87	0	52	48	0	2	48	1.16
88699--88794	17	6.1	17	69	21	57	35	2	1	61	1.15
88750--88782	16	2.0	17	94	5	59	30	0	0	69	0.88
89726--89763	14	2.6	15	83	4	51	52	2	2	42	1.29
91156--91188	17	1.9	17	88	11	50	36	0	18	45	1.49
91222--91256	18	2.0	17	88	5	52	48	0	0	51	1.00
91278--91303	13	2.0	13	100	0	52	46	0	0	53	1.00
92003--92046	21	2.1	21	91	8	72	59	0	0	40	0.98
92392--92424	14	2.3	14	94	5	57	54	0	0	45	0.99
93798--93870	24	3.1	23	80	7	76	58	2	0	38	1.12
99784--99821	12	3.2	12	92	0	58	50	13	0	36	1.42
102796--102838	19	2.3	18	80	11	52	58	0	2	39	1.11
104482--104523	13	3.2	13	86	6	50	54	2	0	42	1.13
104752--104868	31	3.8	32	73	16	104	43	0	0	56	0.99
104782--104854	24	3.1	24	75	16	80	43	0	0	56	0.99
104819--104861	19	2.3	19	88	4	61	37	0	0	62	0.95
104752--104855	17	6.5	17	67	19	80	44	0	0	55	0.99
105087--105116	13	2.2	14	94	5	53	56	3	0	40	1.16
106386--106428	18	2.3	18	88	4	59	51	2	6	39	1.42
109648--109741	39	2.4	38	80	10	109	43	0	2	54	1.12
110750--110833	43	2.0	43	81	9	100	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
113349--113417	16	4.2	17	74	20	58	40	0	2	56	1.14
113742--113801	22	2.7	23	78	16	74	53	0	0	46	1.00
113744--113809	23	2.9	22	77	20	64	51	0	0	48	1.00
118842--118889	16	3.1	15	73	8	51	47	0	2	50	1.12
119419--119446	3	9.3	3	100	0	56	64	0	0	35	0.94
122575--122600	2	13.0	2	100	0	52	50	0	0	50	1.00
126610--126663	12	4.3	12	74	6	54	42	0	0	57	0.98
126963--127005	3	14.3	3	100	0	86	65	0	0	34	0.93
127083--127107	2	12.5	2	100	0	50	52	0	0	48	1.00
129427--129467	2	20.5	2	84	0	55	46	0	0	53	1.00
130542--130576	15	2.4	15	90	4	54	60	0	2	37	1.12
130554--130610	24	2.4	22	78	16	60	61	0	1	36	1.07
130597--130706	18	5.8	18	68	26	50	58	0	0	41	0.98
130570--130669	33	3.0	33	81	8	114	57	0	1	42	1.05
130600--130667	17	3.9	19	71	26	62	54	0	0	45	0.99
130657--130710	20	2.9	17	77	17	54	64	0	0	35	0.94
131235--131259	2	12.5	2	100	0	50	52	0	0	48	1.00
133590--133616	2	13.5	2	100	0	54	48	0	0	51	1.00
134066--134101	2	18.0	2	100	0	72	50	0	0	50	1.00
134613--134670	29	2.0	29	89	0	89	53	1	5	39	1.33
134877--134909	2	16.5	2	100	0	66	51	0	0	48	1.00
141687--141720	3	11.3	3	100	0	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
142072--142122	22	2.3	22	90	10	77	66	0	0	33	0.92
142071--142124	12	4.7	12	71	17	51	66	0	0	33	0.92
142143--142206	18	3.5	18	76	18	60	53	0	0	46	1.00
143338--143375	19	2.1	19	90	5	60	13	10	21	55	1.67
144007--144040	17	2.0	17	94	0	59	11	26	5	55	1.58
145657--145756	36	2.9	35	84	11	107	50	0	0	50	1.00
145676--145756	36	2.2	36	89	4	119	50	0	0	49	1.00
145706--145757	17	2.9	17	76	17	61	51	0	0	48	1.00
146682--146709	3	9.3	3	100	0	56	0	35	32	32	1.58
146953--147010	21	2.7	23	69	23	61	39	0	0	60	0.97
146969--147011	20	2.2	20	91	4	70	39	0	0	60	0.97
148213--148274	32	1.9	32	83	6	81	53	0	0	46	1.00
148396--148433	18	2.1	18	90	0	58	60	0	2	36	1.11
148665--148728	27	2.4	26	84	10	76	48	3	1	46	1.27
151576--151624	18	2.5	19	80	12	55	48	2	0	48	1.12
152117--152157	18	2.4	17	87	4	55	63	0	0	36	0.95
152116--152256	13	11.4	13	67	19	52	60	0	0	39	1.02
152191--152235	11	4.4	11	75	13	51	62	0	0	37	0.96
152214--152264	13	3.8	13	78	17	59	66	0	0	33	0.92
152615--152646	2	16.0	2	100	0	64	50	0	0	50	1.00
158530--158575	25	1.9	23	86	8	65	52	0	0	47	1.00
159258--159289	14	2.1	16	88	11	50	53	3	6	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
159847--159901	19	3.0	18	75	15	51	56	0	0	43	0.99
159908--159969	25	2.5	24	80	12	63	38	0	3	58	1.15
159917--159969	24	2.1	25	86	6	72	41	0	1	56	1.10
159916--159970	25	2.1	27	80	12	71	40	0	1	58	1.09
159951--160000	12	4.2	12	73	19	50	34	0	2	64	1.05
164239--164273	18	1.9	18	88	0	52	71	0	0	28	0.86
164275--164348	30	2.5	29	80	12	80	50	0	1	48	1.09
164465--164499	2	17.5	2	93	0	61	48	2	0	48	1.16
164538--164572	14	2.4	15	90	4	54	48	2	0	48	1.16
166120--166160	2	21.0	2	95	5	75	48	0	0	51	1.00
166362--166429	11	6.4	11	75	13	52	69	0	2	27	1.03
166383--166421	20	2.0	20	89	0	60	69	0	5	25	1.09
166377--166429	20	2.5	20	74	17	54	67	0	3	28	1.07
168382--168423	20	2.0	22	86	9	61	54	0	0	45	0.99
168858--168897	18	2.2	19	86	4	55	55	2	0	42	1.13
168858--168905	17	2.7	18	81	9	55	56	2	0	41	1.11
168905--168943	20	2.1	19	90	9	62	61	0	7	30	1.24
169924--169985	29	2.0	32	82	14	78	51	6	4	37	1.49
169992--170016	13	1.9	13	100	0	50	56	16	0	28	1.41
170007--170124	16	7.2	16	79	8	114	59	2	0	38	1.11
170014--170110	17	5.9	17	80	8	67	60	2	0	37	1.08
170079--170133	10	6.2	10	69	26	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170012--170148	15	8.9	15	70	22	83	57	2	0	40	1.11
170483--170509	5	5.4	5	100	0	54	59	0	0	40	0.98
172559--172622	30	2.2	29	85	2	83	48	1	3	46	1.27
173654--173682	2	14.5	2	100	0	58	51	0	0	48	1.00
177757--177804	13	3.7	13	79	20	55	70	0	0	29	0.87
179812--179846	15	2.2	17	90	10	56	45	0	0	54	0.99
179858--179892	17	2.0	18	88	5	54	65	0	0	34	0.93
179822--179886	23	3.0	22	80	15	64	60	0	0	40	0.97
179845--179886	21	2.0	21	86	13	59	66	0	0	33	0.92
180285--180318	15	2.3	15	95	5	61	52	0	0	47	1.00
180455--180546	16	5.7	17	69	19	54	40	0	1	58	1.05
180486--180597	16	6.8	17	69	22	55	40	0	0	58	1.04
180471--180599	28	4.7	27	68	26	69	40	0	0	58	1.03
180505--180574	11	6.5	11	71	19	51	44	0	0	55	0.99
180520--180586	18	3.9	18	77	14	79	43	0	0	56	0.99
180958--181001	22	2.0	21	91	4	70	29	0	0	70	0.88
181172--181225	26	2.1	26	82	6	65	40	0	0	59	0.98
181350--181382	6	5.5	6	100	0	66	66	15	18	0	1.25
182229--182274	18	2.6	18	82	0	56	50	0	2	47	1.13
183652--183693	21	1.9	23	85	9	61	40	0	7	52	1.29
184697--184836	18	7.7	18	65	24	55	56	0	0	43	0.99
184726--184786	30	2.0	30	87	12	90	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184743--184786	14	3.1	13	77	22	52	47	0	0	52	1.00
184715--184777	16	3.5	17	75	25	58	47	0	0	52	1.00
184706--184777	9	7.8	9	74	21	60	48	0	0	51	1.00
184884--184942	29	2.0	30	87	9	86	45	0	0	54	0.99
185833--185859	2	13.5	2	100	0	54	51	48	0	0	1.00
189142--189210	33	2.1	32	89	2	102	44	7	2	44	1.46
189221--189254	13	2.7	12	86	13	50	55	0	0	44	0.99
189791--189900	32	3.4	32	74	12	109	40	0	0	59	0.98
189781--189900	63	2.0	64	85	9	171	41	0	0	58	0.98
189849--189912	20	2.9	22	81	13	78	37	0	0	62	0.95

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