genome.fa.s54.2.7.7.80.10.50.1000.18.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: Scaffold54
Parameters: 2 7 7 80 10 50 1000
Length:  3629595

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

This is table  18  of  20  ( 2342 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)
3101591--3101615	2	12.5	2	100	0	50	48	0	52	0	1.00
3102351--3102385	18	1.9	18	88	0	52	48	0	0	51	1.00
3106700--3106730	11	2.8	11	95	0	53	12	9	32	45	1.75
3111861--3111909	19	2.7	17	81	9	53	44	0	0	55	0.99
3111997--3112026	6	4.8	6	92	8	51	50	0	0	50	1.00
3111997--3112026	13	2.4	12	94	5	51	50	0	0	50	1.00
3112791--3112835	24	2.0	24	83	16	60	57	0	2	40	1.11
3116549--3116574	2	13.0	2	100	0	52	0	50	0	50	1.00
3118687--3118771	33	2.5	34	92	3	136	43	8	14	34	1.75
3127393--3127431	2	19.5	2	100	0	78	48	0	0	51	1.00
3133732--3133772	19	2.2	19	95	0	73	46	17	14	21	1.84
3135708--3135748	2	20.5	2	89	0	64	51	0	2	46	1.14
3139739--3139779	2	20.5	2	100	0	82	51	0	0	48	1.00
3142061--3142108	21	2.3	21	85	0	60	64	0	4	31	1.12
3142213--3142266	15	3.5	16	76	14	60	50	0	0	50	1.00
3143159--3143207	23	2.2	22	85	3	62	71	6	2	20	1.18
3144116--3144151	16	2.1	18	90	10	58	61	5	0	33	1.19
3144249--3144305	22	2.6	21	86	5	69	64	0	19	15	1.28
3144883--3144932	23	2.1	24	85	3	66	58	0	0	42	0.98
3146592--3146621	2	15.0	2	92	0	51	46	0	3	50	1.18
3148460--3148547	32	2.6	33	81	17	92	40	2	1	55	1.20
3148449--3148580	26	5.0	26	72	18	80	42	1	0	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148492--3148600	19	5.9	19	72	20	72	41	0	0	57	1.05
3148493--3148600	5	22.8	5	67	20	63	40	0	0	58	1.04
3150757--3150783	2	13.5	2	100	0	54	0	48	0	51	1.00
3150817--3150846	2	15.0	2	100	0	60	50	0	0	50	1.00
3158728--3158779	26	2.0	26	84	0	68	38	0	0	61	0.96
3167146--3167227	36	2.2	37	80	10	96	54	0	1	43	1.07
3168238--3168296	30	2.0	30	82	0	73	55	1	3	38	1.26
3168452--3168505	2	27.0	2	92	0	90	50	3	0	46	1.19
3169316--3169379	28	2.3	28	84	10	87	54	0	1	43	1.09
3169317--3169361	12	3.6	12	81	18	56	60	0	2	37	1.09
3169316--3169380	14	4.6	15	72	16	59	55	0	1	43	1.09
3169389--3169423	18	2.0	18	88	5	54	48	0	2	48	1.16
3169371--3169424	11	5.4	10	77	16	51	50	0	1	48	1.11
3169722--3169802	25	3.4	23	74	17	76	45	0	1	53	1.08
3169700--3169819	17	7.3	16	70	22	72	45	0	3	50	1.24
3172939--3173006	33	2.1	33	91	0	109	27	25	8	38	1.85
3175811--3175840	2	15.0	2	92	0	51	0	46	0	53	1.00
3178548--3178577	5	6.2	5	92	7	53	60	0	0	40	0.97
3183536--3183562	5	5.4	5	100	0	54	59	0	0	40	0.98
3183753--3183783	2	15.5	2	100	0	62	51	0	0	48	1.00
3183913--3183942	1	30.0	1	93	0	51	0	3	0	96	0.21
3184733--3184777	15	3.2	15	81	12	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3184730--3184777	14	3.3	15	80	8	55	47	0	0	52	1.00
3187386--3187472	44	2.0	44	93	0	147	47	14	9	28	1.75
3192197--3192230	15	2.3	15	100	0	68	20	26	14	38	1.91
3198567--3198615	15	2.7	19	73	26	61	48	0	0	51	1.00
3198592--3198710	29	4.2	29	63	19	72	40	0	4	54	1.25
3198652--3198704	15	3.6	15	80	14	58	45	0	1	52	1.11
3198663--3198737	29	2.5	31	81	12	79	44	0	0	56	0.99
3198689--3198754	20	3.3	19	81	14	80	43	0	0	56	0.99
3199384--3199418	2	17.5	2	87	0	52	51	0	5	42	1.25
3202861--3202917	7	7.4	8	74	18	50	56	1	0	42	1.10
3202861--3202893	16	2.2	16	89	10	52	57	3	0	39	1.14
3209030--3209058	14	2.0	15	93	6	51	48	0	0	51	1.00
3209191--3209262	8	9.0	8	71	14	51	55	0	0	44	0.99
3209186--3209264	26	3.2	24	77	15	90	56	0	0	43	0.99
3209750--3209778	14	2.0	15	93	6	51	48	0	0	51	1.00
3209888--3209941	22	2.4	22	80	17	58	61	0	5	33	1.19
3209910--3210002	30	3.2	30	80	10	104	58	1	5	35	1.28
3210117--3210149	13	2.4	14	90	5	50	3	15	0	81	0.80
3210149--3210184	2	18.5	2	94	5	65	47	0	0	52	1.00
3210761--3210791	2	15.5	2	100	0	62	48	0	0	51	1.00
3210906--3210949	3	14.7	3	100	0	88	65	0	0	34	0.93
3211800--3211824	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212679--3212704	2	13.0	2	100	0	52	50	0	0	50	1.00
3213667--3213695	2	14.5	2	100	0	58	48	0	0	51	1.00
3214278--3214325	17	2.8	17	84	12	55	39	0	0	60	0.97
3218493--3218524	2	16.0	2	100	0	64	50	0	0	50	1.00
3219415--3219461	21	2.2	21	85	7	60	70	2	4	23	1.16
3219498--3219553	18	3.3	18	65	27	50	50	0	1	48	1.11
3219498--3219551	16	3.4	16	72	10	56	50	0	1	48	1.11
3222056--3222127	30	2.6	26	77	14	81	34	0	0	65	0.93
3222041--3222149	47	2.4	46	79	13	134	36	0	0	63	0.95
3222052--3222096	23	1.9	24	86	4	65	31	0	0	68	0.89
3222062--3222153	47	1.9	50	87	10	140	38	0	0	61	0.96
3222057--3222188	31	4.4	30	68	23	91	37	0	0	62	0.96
3222052--3222192	15	9.5	15	66	25	61	36	0	0	63	0.95
3222450--3222486	18	2.1	18	90	5	58	62	0	0	37	0.96
3223004--3223038	2	17.5	2	100	0	70	48	0	51	0	1.00
3224842--3224874	2	16.5	2	100	0	66	48	0	51	0	1.00
3225938--3225987	25	2.0	24	85	11	66	62	0	0	38	0.96
3235733--3235764	16	2.0	16	93	0	55	71	12	15	0	1.14
3237905--3237935	8	3.9	8	91	0	53	70	3	25	0	1.02
3237905--3237936	16	2.0	16	100	0	64	68	6	25	0	1.12
3238616--3238683	33	2.1	33	100	0	136	41	22	5	30	1.77
3239775--3239832	21	2.7	22	76	10	59	39	0	3	56	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239931--3239965	16	2.2	16	90	10	54	42	0	5	51	1.25
3240405--3240440	2	18.0	2	100	0	72	50	0	0	50	1.00
3251529--3251579	21	2.4	21	96	0	93	39	23	21	15	1.92
3255606--3255644	18	2.2	19	86	13	57	58	2	0	38	1.12
3261453--3261526	28	2.7	28	78	14	82	44	2	0	52	1.15
3263245--3263279	17	2.1	17	100	0	70	37	5	22	34	1.78
3264661--3264691	4	7.5	4	92	7	53	29	0	22	48	1.51
3266034--3266066	16	2.1	16	88	11	50	45	0	3	51	1.16
3268615--3268663	18	2.6	19	73	23	50	32	0	0	67	0.91
3268646--3268731	11	7.5	11	67	17	50	34	2	3	59	1.27
3270184--3270248	27	2.3	29	82	15	84	30	3	1	64	1.18
3270331--3270371	16	2.6	16	84	7	57	41	0	0	58	0.98
3270507--3270574	18	4.2	16	72	20	52	70	1	27	0	0.96
3270507--3270574	17	4.2	15	72	17	55	70	1	27	0	0.96
3270506--3270543	20	1.9	20	88	0	58	71	0	28	0	0.87
3270726--3270863	75	1.9	74	81	7	172	36	5	5	52	1.47
3271367--3271392	13	2.0	13	100	0	52	53	0	0	46	1.00
3272440--3272467	2	14.0	2	100	0	56	50	0	0	50	1.00
3277718--3277742	2	12.5	2	100	0	50	0	48	0	52	1.00
3278863--3278918	28	2.0	28	86	6	78	51	1	0	46	1.11
3279034--3279097	10	5.7	11	75	20	53	42	1	0	56	1.09
3283339--3283372	18	1.9	18	88	5	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3283444--3283482	18	2.1	19	86	13	55	61	0	0	38	0.96
3291166--3291194	3	9.7	3	100	0	58	68	0	0	31	0.89
3295129--3295170	2	21.0	2	100	0	84	50	0	0	50	1.00
3302025--3302050	6	4.3	6	100	0	52	30	53	0	15	1.42
3303962--3303991	13	2.2	14	94	5	53	90	0	10	0	0.47
3303963--3303987	12	2.1	12	100	0	50	92	0	8	0	0.40
3303962--3303991	14	2.1	14	93	0	51	90	0	10	0	0.47
3306042--3306072	2	15.5	2	100	0	62	48	0	0	51	1.00
3311527--3311551	12	2.1	12	100	0	50	48	0	0	52	1.00
3311508--3311561	14	3.9	14	76	16	58	42	0	0	57	0.98

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