genome.fa.s167.2.7.7.80.10.50.1000.20.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: Scaffold167
Parameters: 2 7 7 80 10 50 1000
Length:  4199719

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

This is table  20  of  22  ( 2633 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)
3372731--3372816	33	2.6	32	80	12	86	38	3	0	58	1.15
3372787--3372853	12	5.6	12	79	11	75	35	1	0	62	1.04
3373685--3373720	2	18.0	2	100	0	72	50	0	50	0	1.00
3374824--3374871	19	2.5	19	80	9	53	54	0	8	37	1.31
3375343--3375378	2	18.0	2	100	0	72	50	0	0	50	1.00
3376489--3376538	25	2.0	25	96	0	91	52	6	0	42	1.26
3376914--3376948	15	2.2	16	90	5	54	17	0	2	80	0.84
3377661--3377695	7	5.0	7	89	0	52	45	0	2	51	1.16
3380211--3380249	2	19.5	2	83	0	51	46	0	0	53	1.00
3380517--3380554	8	4.6	8	93	6	67	10	26	39	23	1.87
3380570--3380604	18	1.9	18	94	0	61	31	0	0	68	0.90
3380573--3380619	21	2.4	21	80	19	57	31	0	0	68	0.90
3382614--3382663	2	25.0	2	92	8	84	50	2	0	48	1.12
3384300--3384394	29	3.7	25	73	13	77	56	0	0	43	0.99
3384324--3384391	13	5.1	13	76	16	59	55	0	0	44	0.99
3384327--3384382	16	3.7	16	75	22	57	57	0	0	42	0.99
3384324--3384382	29	2.0	29	87	6	84	55	0	0	44	0.99
3384579--3384612	2	17.0	2	100	0	68	50	0	0	50	1.00
3387876--3387916	3	13.7	3	94	0	73	31	31	0	36	1.58
3389706--3389734	2	14.5	2	100	0	58	48	0	0	51	1.00
3389721--3389806	43	2.0	44	95	2	156	30	13	6	48	1.69
3390334--3390368	2	18.0	2	94	5	63	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3393143--3393169	14	1.9	14	100	0	54	0	7	0	92	0.38
3393405--3393448	22	2.0	23	90	4	72	43	4	2	50	1.35
3402382--3402412	2	15.5	2	100	0	62	51	0	48	0	1.00
3402924--3402956	2	16.5	2	93	0	57	45	0	3	51	1.16
3403572--3403606	12	2.9	12	86	0	52	11	31	34	22	1.90
3404993--3405111	10	11.7	10	69	20	54	46	2	0	51	1.14
3404993--3405111	21	5.8	20	70	20	59	46	2	0	51	1.14
3405035--3405125	30	2.8	31	73	20	89	49	3	0	47	1.18
3405893--3405969	40	1.9	40	84	12	104	51	0	0	48	1.00
3406429--3406478	15	3.4	15	75	13	50	38	0	0	62	0.96
3407178--3407215	17	2.2	18	85	4	51	39	0	0	60	0.97
3407458--3407510	20	2.8	19	74	8	54	49	0	0	50	1.00
3407461--3407543	33	2.6	34	83	14	113	45	0	0	54	0.99
3407450--3407510	18	3.4	17	75	20	54	47	0	0	52	1.00
3407425--3407543	33	3.5	33	80	15	109	45	0	0	54	0.99
3407427--3407517	16	5.2	16	71	27	62	47	0	0	52	1.00
3407673--3407715	15	2.7	15	82	7	50	30	4	0	65	1.13
3408398--3408436	20	1.9	21	89	5	62	64	0	2	33	1.08
3408739--3408773	18	1.9	18	88	0	52	57	0	0	42	0.99
3409638--3409673	19	1.9	18	88	5	54	61	0	2	36	1.11
3410950--3411020	12	5.7	12	83	9	97	28	0	33	38	1.57
3410928--3411019	12	7.4	14	79	13	64	29	1	31	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3415556--3415596	2	20.5	2	100	0	82	48	0	0	51	1.00
3428499--3428620	61	2.0	61	95	0	217	42	13	12	31	1.81
3429675--3429914	117	2.0	118	93	0	410	20	12	18	48	1.79
3436016--3436076	2	31.0	2	78	3	61	42	4	3	49	1.40
3441643--3441682	17	2.4	17	100	0	80	25	22	22	30	1.99
3447259--3447326	35	1.9	35	82	11	86	45	0	0	54	0.99
3447301--3447337	13	3.2	12	85	14	51	43	0	0	56	0.99
3448074--3448099	7	3.7	7	100	0	52	46	0	0	53	1.00
3453029--3453062	2	17.0	2	93	0	59	47	0	50	2	1.16
3461259--3461297	6	6.7	6	85	5	53	51	0	0	48	1.00
3461243--3461297	18	3.3	17	80	14	62	54	0	0	45	0.99
3461653--3461689	4	9.0	4	88	5	56	24	0	2	72	0.97
3471616--3471659	22	2.0	22	86	8	63	40	0	4	54	1.21
3472214--3472275	27	2.2	28	82	5	81	48	1	6	43	1.38
3473491--3473556	27	2.4	27	80	9	73	56	1	0	42	1.08
3477452--3477476	10	2.5	10	100	0	50	32	0	12	56	1.36
3482565--3482607	2	21.5	2	95	0	77	48	2	0	48	1.14
3482756--3482795	19	2.0	21	85	9	57	45	0	0	55	0.99
3484379--3484406	8	3.5	8	100	0	56	25	25	10	39	1.87
3489903--3489959	8	6.5	8	78	13	51	29	1	0	68	1.00
3489890--3489959	6	12.0	6	70	22	51	32	1	0	65	1.01
3489886--3489959	36	2.1	36	85	10	98	32	1	0	66	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3489901--3489976	22	3.4	22	77	12	75	28	1	0	69	0.96
3489905--3489976	11	6.4	11	77	13	67	29	1	0	69	0.97
3491190--3491219	15	2.0	15	100	0	60	20	33	6	40	1.78
3495883--3495991	52	2.1	52	94	0	191	36	13	15	33	1.87
3496816--3496844	14	2.0	15	93	6	51	41	0	0	58	0.98
3496809--3496847	19	2.1	19	85	9	53	41	0	0	58	0.98
3496863--3496894	10	3.1	10	91	8	55	21	0	0	78	0.76
3498180--3498212	2	16.5	2	100	0	66	51	0	48	0	1.00
3513452--3513480	3	10.0	3	92	7	51	68	0	0	31	0.89
3515656--3515711	14	3.7	15	72	23	55	42	0	3	53	1.18
3515663--3515724	31	2.0	31	93	0	106	40	0	3	56	1.15
3515815--3515862	20	2.5	18	83	10	60	37	0	0	62	0.95
3515815--3515865	18	2.7	17	82	17	57	39	0	0	60	0.97
3517614--3517658	12	3.6	12	82	11	63	6	6	17	68	1.33
3517844--3517889	12	3.6	12	78	16	56	6	6	19	67	1.36
3517551--3518011	231	2.0	229	99	0	904	18	13	18	49	1.80
3518370--3518402	3	11.0	3	93	0	57	0	30	0	69	0.88
3522180--3522204	13	1.9	13	100	0	50	8	0	12	80	0.92
3531682--3531706	6	4.2	6	100	0	50	36	32	16	16	1.90
3536258--3536317	15	3.8	15	76	24	61	30	0	1	68	0.99
3537774--3537826	2	26.5	2	100	0	106	50	0	0	49	1.00
3537970--3537997	2	14.0	2	100	0	56	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)
3539032--3539078	24	2.0	24	86	0	67	42	8	10	38	1.70
3544712--3544748	17	2.2	16	90	4	56	62	0	0	37	0.96
3544708--3544762	28	1.9	29	85	3	76	61	1	3	32	1.24
3544707--3544769	28	2.3	26	76	15	63	63	1	3	31	1.19
3546414--3546445	6	5.7	6	96	3	50	0	9	0	90	0.45
3546406--3546445	21	1.9	21	89	0	62	2	7	0	90	0.55
3549430--3549486	4	14.2	4	92	0	78	28	0	21	50	1.48
3551194--3551226	16	1.9	18	88	11	52	51	0	3	45	1.16
3552623--3552668	2	23.0	2	100	0	92	50	0	0	50	1.00
3570741--3570776	2	18.5	2	94	5	65	50	0	0	50	1.00
3573057--3573094	2	19.0	2	100	0	76	50	0	0	50	1.00
3573404--3573446	14	2.9	15	86	10	61	41	2	2	53	1.26
3574395--3574431	2	18.5	2	88	0	56	51	5	0	43	1.24
3574395--3574433	10	3.9	10	93	0	69	51	7	0	41	1.31
3575367--3575392	13	2.0	13	100	0	52	30	0	0	69	0.89
3575436--3575475	20	2.0	20	95	0	71	42	0	0	57	0.98
3576869--3576938	31	2.1	35	84	10	94	34	5	2	57	1.37
3576960--3577004	23	2.1	21	84	15	58	51	2	4	42	1.34
3576970--3577040	29	2.4	30	88	6	101	56	2	1	39	1.23
3585186--3585219	2	17.0	2	100	0	68	0	50	0	50	1.00
3592568--3592597	3	10.0	3	100	0	60	66	0	0	33	0.92
3593338--3593370	14	2.4	14	90	5	50	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3615022--3615070	19	2.7	19	75	6	57	44	0	0	55	0.99
3615492--3615523	3	10.7	3	100	0	64	68	0	0	31	0.90
3615616--3615670	16	3.6	16	78	4	51	56	1	7	34	1.38
3616806--3616856	20	2.8	19	80	11	54	49	1	0	49	1.12
3616828--3616878	16	3.1	16	86	13	61	52	1	0	45	1.12
3616998--3617034	16	2.3	16	90	9	58	67	21	0	10	1.21
3618402--3618431	1	30.0	1	100	0	60	0	0	0	100	0.00
3620059--3620084	2	13.0	2	100	0	52	50	0	0	50	1.00
3622110--3622143	4	8.2	4	87	6	50	20	0	2	76	0.92
3629889--3629938	22	2.2	22	89	10	75	52	0	2	46	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