genome.fa.s79.2.7.7.80.10.50.1000.23.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   25   26   

This is table  23  of  26  ( 3105 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)
3269957--3269987	2	15.5	2	100	0	62	48	0	0	51	1.00
3270362--3270390	2	14.5	2	100	0	58	48	0	51	0	1.00
3270918--3270990	24	3.0	24	74	9	67	52	0	4	43	1.20
3271157--3271198	2	21.0	2	100	0	84	50	0	0	50	1.00
3271198--3271232	2	17.5	2	100	0	70	0	0	48	51	1.00
3271601--3271664	33	1.9	33	100	0	128	40	15	15	28	1.88
3271756--3271797	2	21.0	2	100	0	84	50	0	0	50	1.00
3274954--3274983	14	2.1	14	100	0	60	6	40	13	40	1.71
3275727--3275768	22	2.0	22	85	4	59	35	0	2	61	1.09
3275868--3275916	23	2.1	23	81	7	55	59	2	0	38	1.09
3278760--3278789	15	1.9	16	93	6	53	33	6	0	60	1.23
3285029--3285325	82	3.6	82	81	3	326	36	3	7	53	1.45
3287937--3288001	12	5.5	11	71	21	51	40	0	0	60	0.97
3287942--3287997	23	2.5	22	80	13	60	37	0	0	62	0.95
3288127--3288154	2	14.0	2	100	0	56	50	50	0	0	1.00
3288158--3288189	2	16.0	2	100	0	64	50	0	0	50	1.00
3290321--3290611	143	2.0	143	99	0	573	36	12	21	29	1.90
3290512--3290628	60	2.0	60	93	3	200	34	11	22	31	1.90
3294409--3294451	2	22.0	2	95	4	79	51	0	0	48	1.00
3298645--3298682	17	2.2	18	95	4	69	55	13	0	31	1.38
3299299--3299337	20	2.0	20	84	0	51	43	2	0	53	1.14
3306598--3306631	2	17.0	2	100	0	68	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)
3310629--3310670	16	2.5	17	73	7	50	52	2	0	45	1.13
3310625--3310701	33	2.3	33	82	8	95	51	1	0	46	1.09
3312580--3312616	12	3.3	12	78	21	53	43	0	27	29	1.55
3314633--3314699	32	2.1	33	94	2	118	40	0	0	59	0.97
3314642--3314696	16	3.4	16	73	12	58	41	0	0	58	0.98
3315281--3315320	16	2.5	15	88	4	53	47	5	0	47	1.24
3315317--3315377	21	3.1	21	65	23	51	52	0	3	44	1.17
3318440--3318466	2	13.5	2	100	0	54	51	0	0	48	1.00
3319061--3319091	2	15.5	2	93	0	53	48	0	3	48	1.17
3319151--3319264	44	2.6	44	93	4	187	35	17	10	35	1.84
3323171--3323197	2	13.5	2	100	0	54	48	0	51	0	1.00
3323491--3323554	27	2.4	26	80	10	76	64	0	0	35	0.94
3323947--3323995	17	3.0	17	71	28	52	24	0	0	75	0.80
3323947--3323982	14	2.6	15	83	16	51	25	0	0	75	0.81
3323947--3323996	11	4.4	12	73	21	54	26	0	0	74	0.83
3323950--3323991	21	2.0	22	86	13	61	28	0	0	71	0.86
3323947--3324001	27	2.0	27	82	10	67	30	0	0	69	0.89
3324522--3324558	11	3.5	11	78	14	51	70	0	0	29	0.88
3324521--3324583	20	3.2	20	78	12	78	63	0	0	36	0.95
3324516--3324593	24	3.4	23	78	16	74	58	0	0	41	0.98
3325508--3325538	2	15.5	2	100	0	62	48	0	0	51	1.00
3331359--3331417	23	2.6	23	83	2	66	42	5	0	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3341484--3341522	13	3.2	13	89	7	55	53	0	2	43	1.14
3341815--3341916	34	3.0	34	77	8	84	59	0	1	37	1.15
3341841--3341930	32	3.0	28	69	21	67	55	1	1	42	1.14
3342431--3342531	34	3.0	33	75	11	98	50	0	0	49	1.00
3343010--3343051	22	2.0	22	90	9	70	28	2	0	69	1.01
3343053--3343082	2	15.0	2	92	0	51	46	0	3	50	1.18
3343110--3343165	19	2.9	19	81	7	51	51	0	1	46	1.11
3343124--3343174	17	2.6	21	82	14	65	52	0	0	47	1.00
3344110--3344194	22	4.1	21	69	18	63	58	0	1	40	1.05
3344152--3344251	28	3.5	28	67	27	68	57	1	0	42	1.05
3344084--3344187	15	7.1	16	67	26	61	59	0	0	39	1.04
3344113--3344269	46	3.6	44	73	18	107	56	1	0	41	1.12
3344183--3344254	20	3.5	20	75	17	60	54	1	0	44	1.08
3344185--3344230	20	2.4	19	89	7	67	52	2	0	45	1.13
3344152--3344264	11	10.5	11	68	25	64	56	0	0	42	1.05
3345494--3345523	13	2.4	12	94	5	51	10	0	0	90	0.47
3346174--3346220	25	1.9	24	83	12	60	38	2	4	55	1.31
3349484--3349519	13	2.6	14	91	8	56	58	2	2	36	1.27
3349963--3350005	2	21.5	2	90	0	68	46	0	4	48	1.22
3353226--3353284	2	29.5	2	100	0	118	50	0	0	49	1.00
3355851--3355894	13	3.6	12	79	14	54	59	0	0	40	0.98
3355873--3355919	20	2.3	21	78	10	53	70	2	0	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3366046--3366091	20	2.4	18	85	7	56	54	0	2	43	1.12
3366325--3366368	20	2.2	20	80	12	54	54	0	0	45	0.99
3366331--3366376	20	2.4	19	85	3	65	50	2	0	47	1.13
3366894--3366931	20	1.9	20	100	0	76	15	18	21	44	1.86
3367539--3367572	4	8.2	4	90	3	50	70	0	23	5	1.09
3369464--3369492	3	9.7	3	100	0	58	31	0	0	68	0.89
3382862--3382930	33	2.0	35	88	8	106	42	0	2	55	1.15
3383559--3383670	15	6.9	18	67	23	70	41	0	0	58	0.98
3383554--3383653	31	3.2	32	78	12	109	40	0	0	60	0.97
3383632--3383673	11	3.7	11	87	3	57	38	0	0	61	0.96
3383570--3383671	17	6.4	17	65	22	53	42	0	0	57	0.98
3384466--3384510	18	2.6	17	83	13	56	42	0	0	57	0.98
3384436--3384514	29	2.8	27	83	11	79	44	0	1	54	1.08
3396304--3396350	22	2.1	22	84	11	60	57	0	0	42	0.98
3396331--3396377	15	3.0	16	75	12	53	48	2	0	48	1.13
3397693--3397743	16	3.2	15	86	10	66	43	0	0	56	0.99
3399643--3399676	13	2.5	14	85	9	52	64	0	0	35	0.94
3400790--3400820	14	2.2	14	94	0	53	32	0	0	67	0.91
3400797--3400836	20	2.0	20	85	0	53	30	2	2	65	1.19
3402558--3402610	21	2.6	20	77	11	54	41	0	1	56	1.10
3402673--3402714	2	21.0	2	95	0	75	50	2	0	47	1.14
3403234--3403282	14	3.8	13	75	25	50	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3403235--3403276	11	3.5	12	79	20	52	38	0	0	61	0.96
3403219--3403284	23	2.8	25	80	10	70	43	0	0	56	0.99
3403780--3403896	34	3.5	34	66	20	86	44	0	0	55	0.99
3404158--3404199	18	2.3	19	88	12	61	38	2	0	59	1.10
3405319--3405347	2	14.5	2	100	0	58	48	0	0	51	1.00
3406273--3406306	2	17.0	2	93	0	59	52	0	0	47	1.00
3407489--3407515	2	13.5	2	100	0	54	48	0	0	51	1.00
3415399--3415449	20	2.5	20	84	12	68	60	0	0	39	0.97
3415490--3415530	17	2.3	18	87	8	66	53	0	0	46	1.00
3423236--3423269	2	17.0	2	100	0	68	50	0	0	50	1.00
3428806--3428855	2	25.0	2	95	0	91	0	48	2	50	1.12
3429235--3429322	8	9.8	9	72	15	58	57	1	0	40	1.06
3429226--3429345	56	2.1	56	98	0	231	55	2	0	42	1.13
3429565--3429593	2	14.5	2	100	0	58	0	48	0	51	1.00
3430387--3430423	2	19.0	2	88	5	58	48	2	0	48	1.15
3434826--3434888	19	3.4	19	73	20	62	55	0	0	44	0.99
3434826--3434926	5	21.2	5	67	17	63	58	0	0	41	0.98
3434881--3434926	23	2.0	24	91	4	76	63	0	0	36	0.95
3435492--3435533	22	1.9	22	90	9	68	64	0	0	35	0.94
3435789--3435829	20	2.1	19	90	4	64	68	0	0	31	0.90
3435794--3435832	4	9.8	4	82	0	51	74	0	0	25	0.82
3435816--3435889	29	2.5	29	85	14	91	60	1	2	35	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3442761--3442792	2	15.5	2	93	6	55	0	3	46	50	1.17
3442774--3442962	94	2.0	94	100	0	378	26	19	27	26	1.99
3443972--3444007	9	3.9	10	86	13	51	0	13	0	86	0.58
3443972--3444007	5	7.8	5	90	9	51	0	13	0	86	0.58
3447352--3447402	20	2.7	20	81	6	61	56	1	0	41	1.10
3447399--3447445	18	2.6	18	89	3	67	70	0	0	29	0.88
3447393--3447450	24	2.4	23	86	11	73	68	0	1	29	0.99
3447486--3447536	16	2.8	18	77	20	52	50	1	0	47	1.12
3449286--3449334	25	2.0	25	84	8	64	59	0	0	40	0.98
3450794--3450841	24	1.9	25	83	8	62	43	0	2	54	1.12

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   25   26