genome.fa.s194.2.7.7.80.10.50.1000.21.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: Scaffold194
Parameters: 2 7 7 80 10 50 1000
Length:  3945165

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  21  of  24  ( 2800 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)
3452101--3452254	58	2.7	58	73	7	143	46	17	12	24	1.82
3453244--3453297	20	2.7	20	100	0	108	37	20	11	31	1.88
3454573--3454695	61	2.0	61	100	0	246	34	19	27	17	1.95
3455021--3455045	13	1.9	13	100	0	50	36	16	16	32	1.90
3455001--3455067	33	2.0	33	88	0	98	31	11	16	40	1.85
3455108--3455132	13	1.9	13	100	0	50	32	16	16	36	1.90
3455141--3455321	52	3.5	52	96	0	326	34	18	18	28	1.95
3459447--3459473	10	2.7	10	100	0	54	0	0	22	77	0.76
3469162--3469278	1	117.0	1	75	0	90	86	8	2	2	0.76
3469162--3469278	17	6.8	16	79	16	128	86	8	2	2	0.76
3469165--3469275	43	2.6	43	85	7	136	85	9	2	2	0.79
3470720--3471031	30	10.3	29	75	9	182	27	29	16	27	1.97
3470779--3470831	27	2.0	27	92	0	88	33	33	16	15	1.90
3470746--3470856	57	1.9	57	85	3	152	27	30	20	20	1.98
3470998--3471122	32	4.0	30	78	10	126	29	35	17	17	1.93
3471018--3471111	32	3.0	32	90	3	154	29	38	18	13	1.89
3471115--3472317	49	24.7	49	84	5	1543	25	26	17	30	1.97
3471115--3472317	290	4.1	291	89	5	1754	25	26	17	30	1.97
3471110--3472317	388	3.1	388	94	3	2024	25	26	17	30	1.97
3471931--3472365	49	8.6	53	81	6	349	25	25	16	32	1.96
3473163--3473229	33	2.0	33	88	0	98	34	11	13	40	1.81
3473183--3473207	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473270--3473294	13	1.9	13	100	0	50	32	16	16	36	1.90
3473303--3473426	52	2.4	52	94	1	214	35	18	17	28	1.94
3481475--3481531	30	1.9	30	92	0	96	87	8	1	1	0.68
3481475--3481520	1	46.0	1	82	0	56	91	8	0	0	0.43
3481474--3481531	10	5.8	10	86	8	82	86	10	1	1	0.73
3482747--3484610	28	64.6	28	87	5	2468	28	33	18	20	1.96
3482748--3484610	173	10.8	168	87	5	2436	28	33	18	20	1.96
3483251--3483323	36	2.0	36	91	0	119	30	35	16	17	1.92
3483287--3484610	85	15.4	84	88	4	1874	28	33	18	20	1.96
3485220--3485291	20	3.6	20	78	0	81	36	12	12	38	1.81
3488205--3488256	17	2.9	17	74	17	52	40	0	1	57	1.10
3488182--3488264	36	2.3	37	81	10	100	39	0	1	59	1.05
3488674--3488740	14	4.6	14	78	9	71	52	0	1	46	1.09
3488681--3488742	30	2.0	31	93	3	108	48	0	1	50	1.10
3488747--3488792	20	2.3	21	74	11	51	58	0	2	39	1.10
3491742--3491829	37	2.4	36	88	7	124	37	29	12	20	1.89
3495778--3495804	7	3.9	7	100	0	54	70	0	14	14	1.17
3495855--3495879	6	4.2	6	100	0	50	16	0	0	84	0.63
3495895--3496041	48	3.1	48	86	3	181	15	21	7	55	1.64
3495923--3496007	27	3.4	27	70	26	78	12	21	7	58	1.58
3495936--3495980	21	2.1	22	88	8	67	11	20	8	60	1.57
3501884--3501918	17	2.1	17	89	10	54	5	11	0	82	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3502063--3502094	16	2.0	16	93	0	55	50	9	0	40	1.35
3503238--3503268	16	1.9	16	93	0	53	35	0	0	64	0.94
3503726--3503801	10	8.1	10	71	20	58	39	2	0	57	1.12
3503724--3503809	21	4.0	21	74	15	77	37	3	1	58	1.23
3503733--3503784	25	2.0	26	81	3	61	40	3	0	55	1.18
3506513--3506543	11	2.9	11	95	4	55	0	6	0	93	0.35
3508102--3508166	34	1.9	34	93	0	112	44	4	6	44	1.49
3509827--3509863	14	2.6	14	91	0	56	64	0	0	35	0.94
3510413--3510478	34	1.9	34	93	0	114	45	1	15	37	1.55
3511005--3511051	19	2.4	18	78	21	51	53	0	0	46	1.00
3511426--3511460	18	1.9	18	88	11	54	62	2	0	34	1.10
3511572--3511606	16	2.1	17	89	5	54	57	2	0	40	1.14
3512060--3512109	24	2.0	26	84	7	68	50	6	2	42	1.38
3512800--3512872	31	2.3	30	81	11	83	49	2	4	43	1.36
3512816--3512878	29	2.1	31	94	5	112	44	0	4	50	1.23
3514809--3514837	2	14.5	2	100	0	58	0	48	0	51	1.00
3523496--3523536	15	2.6	16	85	11	50	51	2	0	46	1.14
3523676--3523734	17	3.4	18	71	19	54	45	0	0	54	0.99
3523771--3523830	17	3.5	17	77	6	68	53	0	0	46	1.00
3523879--3523927	18	2.7	19	81	12	59	34	2	0	63	1.06
3523879--3523924	17	2.6	17	83	12	58	32	2	0	65	1.05
3523903--3523950	15	2.9	18	74	22	52	29	2	0	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3523939--3523986	18	2.7	18	81	9	53	50	0	2	47	1.12
3532170--3532205	2	18.0	2	88	11	56	50	2	0	47	1.15
3532170--3532214	21	2.1	21	87	0	63	46	4	2	46	1.35
3534495--3534539	18	2.5	18	82	10	56	60	2	0	37	1.09
3536937--3536984	24	2.0	24	100	0	96	33	12	20	33	1.90
3536944--3536995	24	2.2	24	89	0	77	42	9	17	30	1.81
3538086--3538146	30	2.0	31	83	3	79	52	3	1	42	1.27
3539196--3539226	16	1.9	16	93	0	53	58	0	0	41	0.98
3539440--3539481	16	2.6	17	82	17	54	16	0	4	78	0.91
3540280--3540340	31	1.9	32	83	3	79	44	0	3	52	1.17
3541611--3541653	2	21.5	2	100	0	86	0	48	0	51	1.00
3543196--3543266	19	3.7	19	73	16	65	42	0	4	53	1.20
3543263--3543302	21	1.9	21	90	10	64	60	0	0	40	0.97
3543259--3543311	22	2.5	22	81	9	65	54	0	0	45	0.99
3543283--3543331	16	3.1	16	75	16	57	63	0	0	36	0.95
3543782--3543820	18	2.1	19	90	4	62	33	0	0	66	0.92
3544175--3544235	18	3.0	22	70	20	60	29	1	1	67	1.10
3544190--3544237	12	4.1	12	81	5	62	29	2	2	66	1.14
3544470--3544495	13	2.0	13	100	0	52	30	0	0	69	0.89
3544840--3544892	22	2.4	21	81	9	61	30	0	5	64	1.17
3544998--3545041	13	3.4	12	81	12	52	40	0	2	56	1.11
3545054--3545094	19	2.3	18	76	15	50	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545185--3545252	26	2.6	27	90	2	102	32	2	17	47	1.63
3545346--3545379	13	2.6	13	80	0	50	11	35	5	47	1.65
3549668--3549722	26	2.2	26	87	6	78	32	25	12	29	1.93
3549715--3549775	27	2.4	25	86	8	79	27	8	19	44	1.79
3551054--3551092	15	2.6	14	88	11	60	69	0	0	30	0.89
3551116--3551152	19	1.9	19	88	0	56	56	0	0	43	0.99
3551117--3551221	14	7.7	13	71	15	52	44	0	0	55	0.99
3551123--3551230	21	5.1	22	68	17	59	42	0	0	57	0.98
3551143--3551212	16	4.7	16	74	13	60	37	0	0	62	0.95
3551176--3551238	23	2.8	21	74	23	56	41	0	0	58	0.98
3551527--3551560	17	2.1	16	88	5	50	44	0	0	55	0.99
3551738--3551797	22	2.8	21	85	10	68	41	0	1	56	1.09
3552307--3552380	22	3.3	23	72	16	57	35	2	1	60	1.19
3552671--3552714	18	2.4	18	82	17	63	29	0	2	68	1.02
3554108--3554171	24	2.5	26	82	12	80	37	1	1	59	1.16
3555553--3555647	36	2.6	37	70	26	92	49	0	0	50	1.00
3555577--3555644	18	3.9	18	66	13	52	48	0	0	51	1.00
3556164--3556207	21	2.1	21	86	0	61	38	9	2	50	1.47
3557839--3557880	22	1.9	22	85	9	59	59	0	0	40	0.97
3557900--3557962	26	2.4	26	81	2	81	60	0	0	39	0.97
3557907--3557973	26	2.6	26	83	6	75	58	1	0	40	1.07
3558103--3558187	27	3.0	28	80	11	86	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558626--3558666	11	3.4	12	81	18	50	43	0	0	56	0.99
3559009--3559053	19	2.4	19	81	7	56	71	6	2	20	1.20
3560319--3560390	32	2.4	31	86	11	96	47	5	0	47	1.25
3562436--3562489	20	2.5	22	82	11	60	48	0	3	48	1.19
3562632--3562664	17	1.9	17	93	0	57	51	3	0	45	1.16
3562603--3562659	26	2.1	27	84	9	73	56	5	0	38	1.22
3562800--3562839	21	2.0	20	90	5	62	37	5	0	57	1.21
3562794--3562871	24	3.0	26	80	14	74	39	3	0	56	1.18
3562820--3562856	15	2.4	16	86	13	51	40	0	0	59	0.97
3565309--3565360	21	2.3	23	75	21	56	57	1	0	40	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24