genome.fa.s36.2.7.7.80.10.50.1000.22.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   27   28   

This is table  22  of  28  ( 3342 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)
3298014--3298090	31	2.5	29	78	17	75	57	1	0	41	1.07
3300146--3300173	14	2.0	14	100	0	56	57	0	0	42	0.99
3305416--3305450	16	2.1	17	89	10	54	28	0	0	71	0.86
3305924--3305952	2	15.0	2	92	7	51	48	0	0	51	1.00
3306176--3306200	2	12.5	2	100	0	50	52	0	0	48	1.00
3308240--3308269	2	15.0	2	92	0	51	0	46	0	53	1.00
3308314--3308372	18	3.0	21	76	19	63	52	6	1	38	1.38
3309428--3309460	2	16.5	2	100	0	66	48	0	0	51	1.00
3309748--3309822	31	2.4	31	82	8	82	57	0	2	40	1.13
3310284--3310324	19	2.2	19	90	0	64	56	0	0	43	0.99
3316033--3316058	1	26.0	1	100	0	52	0	0	100	0	0.00
3322233--3322321	31	2.7	33	77	15	94	57	1	0	41	1.06
3325136--3325191	27	2.1	27	84	12	73	32	0	8	58	1.29
3325231--3325281	22	2.3	22	90	6	77	33	0	0	66	0.92
3325231--3325281	11	4.6	12	76	18	65	33	0	0	66	0.92
3331896--3331948	24	2.2	26	80	13	67	49	1	3	45	1.31
3331898--3331950	25	2.2	23	86	6	70	50	1	3	43	1.30
3342249--3342286	19	2.0	20	90	10	62	34	10	15	39	1.82
3344165--3344230	31	2.1	31	100	0	132	12	12	24	51	1.73
3348508--3348538	2	15.5	2	100	0	62	51	48	0	0	1.00
3349317--3349588	91	3.0	91	100	0	544	25	18	13	42	1.87
3350160--3350295	68	2.0	68	94	0	236	31	22	13	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3351172--3351251	38	2.1	38	90	0	124	32	17	13	36	1.89
3355924--3355961	14	2.7	14	84	8	51	34	2	0	63	1.09
3355954--3356004	17	2.7	19	73	11	52	47	0	0	52	1.00
3361803--3361853	27	1.9	26	84	4	66	45	0	0	54	0.99
3361837--3361881	17	2.6	16	82	10	54	57	0	0	42	0.98
3361857--3361920	28	2.2	28	75	8	67	54	1	1	42	1.19
3361959--3362016	26	2.3	26	77	16	68	51	0	1	46	1.11
3361968--3362021	23	2.3	23	81	9	65	57	0	0	42	0.98
3361985--3362021	11	3.3	11	88	7	56	54	0	0	45	1.00
3366145--3366188	23	1.9	23	85	0	61	72	9	9	9	1.28
3368676--3368711	11	3.2	11	88	4	54	88	0	11	0	0.50
3368678--3368710	13	2.5	13	100	0	66	93	0	6	0	0.33
3376460--3376484	10	2.5	10	100	0	50	28	0	12	60	1.32
3381747--3381786	21	1.9	21	90	10	64	27	7	5	60	1.45
3384457--3384497	20	2.1	19	90	4	64	46	4	0	48	1.23
3385329--3385374	25	1.9	25	82	8	60	54	0	6	39	1.26
3385364--3385399	16	2.2	17	90	5	56	58	0	0	41	0.98
3386604--3386668	20	3.3	21	81	14	68	47	0	0	52	1.00
3386589--3386672	32	2.6	32	77	9	82	52	0	0	47	1.00
3389464--3389500	2	18.5	2	91	0	56	51	0	2	45	1.15
3390911--3390935	12	2.1	12	100	0	50	68	0	0	32	0.90
3391535--3391565	3	10.3	3	100	0	62	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3392408--3392445	2	19.0	2	100	0	76	0	50	0	50	1.00
3398678--3398764	23	3.7	22	75	15	68	45	1	0	52	1.08
3399332--3399395	33	1.9	33	96	0	119	32	3	3	60	1.28
3399338--3399398	12	5.5	11	74	16	54	34	1	3	60	1.23
3403691--3403724	3	11.3	3	100	0	68	67	0	0	32	0.91
3404224--3404253	2	15.0	2	100	0	60	50	0	0	50	1.00
3406944--3406982	6	6.5	6	96	0	60	15	46	15	23	1.83
3408213--3408349	68	2.0	68	98	0	265	32	16	15	35	1.90
3409076--3409113	2	19.0	2	94	0	67	47	0	0	52	1.00
3409909--3409950	22	2.0	21	86	13	59	64	0	0	35	0.94
3413151--3413179	2	14.5	2	100	0	58	51	0	0	48	1.00
3413511--3413536	2	13.0	2	100	0	52	50	0	0	50	1.00
3415389--3415428	16	2.6	16	92	4	64	47	2	0	50	1.14
3415579--3415628	19	2.5	19	75	18	57	42	0	6	52	1.26
3416326--3416392	23	2.8	23	70	20	57	44	1	0	53	1.09
3416985--3417036	21	2.5	21	78	12	61	50	0	0	50	1.00
3417008--3417075	31	2.2	32	81	7	77	51	0	0	48	1.00
3418949--3418982	17	2.0	17	88	11	52	58	0	0	41	0.98
3418939--3418988	20	2.4	22	83	6	68	58	0	0	42	0.98
3421572--3421637	26	2.4	29	85	9	86	50	1	0	48	1.10
3424078--3424111	2	18.0	2	88	11	54	50	0	0	50	1.00
3430319--3430391	5	15.2	5	77	16	66	36	1	0	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3430315--3430344	15	2.0	15	100	0	60	46	0	0	53	1.00
3430317--3430394	18	4.1	19	79	9	79	39	1	0	58	1.06
3431663--3431699	2	20.0	2	84	15	53	48	0	0	51	1.00
3432619--3432652	12	3.1	11	91	8	52	35	0	0	64	0.94
3434113--3434147	2	17.5	2	87	0	52	51	5	0	42	1.25
3435103--3435143	14	2.8	16	75	21	52	39	2	0	58	1.11
3437133--3437183	9	5.4	9	80	13	50	64	0	0	35	0.94
3437129--3437183	19	2.9	17	81	13	56	63	0	0	36	0.95
3437113--3437194	38	2.2	37	83	12	98	62	0	1	36	1.03
3437142--3437220	30	2.6	31	80	11	83	59	0	0	40	0.97
3437113--3437192	8	8.7	9	74	17	67	62	0	1	36	1.03
3437132--3437191	18	3.2	18	78	15	68	66	0	0	33	0.92
3437186--3437232	24	2.0	24	86	0	67	53	0	2	44	1.12
3440909--3440947	19	2.1	18	90	4	60	33	0	0	66	0.92
3442972--3443067	29	3.2	30	75	16	92	53	1	0	45	1.07
3449205--3449233	2	14.5	2	100	0	58	51	0	0	48	1.00
3449821--3449856	3	12.0	3	93	0	63	63	0	33	2	1.08
3450636--3450663	3	9.3	3	100	0	56	0	32	0	67	0.91
3451081--3451214	12	11.3	12	65	22	52	60	0	0	38	1.02
3451095--3451180	31	3.0	27	72	18	77	59	0	0	40	0.97
3451089--3451215	57	2.2	56	76	16	129	60	0	0	39	0.97
3451954--3451990	2	20.0	2	84	15	53	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)
3451953--3451990	10	3.5	11	89	10	60	52	0	0	47	1.00
3452640--3452694	10	5.6	10	79	14	53	36	0	0	63	0.95
3452654--3452700	18	2.8	17	75	24	55	36	0	0	63	0.94
3453300--3453380	21	3.9	21	76	9	76	46	1	4	46	1.32
3453319--3453387	21	3.3	21	75	0	66	52	1	5	40	1.34
3453414--3453472	21	2.8	21	68	0	55	49	8	5	37	1.55
3453943--3453969	2	13.5	2	100	0	54	51	0	0	48	1.00
3455522--3455583	24	2.7	23	73	9	63	61	0	0	38	0.96
3455517--3455564	18	2.6	18	77	12	53	54	0	0	45	0.99
3456085--3456163	27	3.0	26	78	14	72	37	0	1	60	1.05
3456121--3456178	8	6.2	9	75	20	57	32	0	3	63	1.11
3462962--3463003	21	2.0	21	100	0	84	23	14	42	19	1.87
3466723--3466759	2	18.5	2	100	0	74	51	0	48	0	1.00
3468978--3469010	17	1.9	17	93	0	57	36	12	9	42	1.74
3469081--3469123	17	2.5	18	85	11	63	39	0	0	60	0.97
3469097--3469182	43	2.0	42	82	6	102	46	0	1	52	1.08
3469448--3469474	2	13.5	2	100	0	54	51	0	48	0	1.00
3471021--3471052	8	3.9	8	95	4	55	12	0	0	87	0.54
3474881--3474905	2	12.5	2	100	0	50	0	48	0	52	1.00
3476687--3476732	20	2.2	20	88	11	65	47	0	0	52	1.00
3479407--3479494	36	2.5	35	77	14	90	51	0	0	48	1.00
3479422--3479482	31	2.0	30	84	9	79	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3480605--3480701	6	16.2	6	72	19	60	35	0	0	64	0.93
3480615--3480702	7	13.3	7	72	11	62	34	0	0	65	0.93
3480605--3480703	13	7.8	12	69	19	58	34	0	0	65	0.93
3480605--3480703	26	3.8	25	69	19	69	34	0	0	65	0.93
3482444--3482482	2	19.5	2	100	0	78	48	0	0	51	1.00
3483220--3483260	17	2.4	16	84	11	55	41	0	0	58	0.98
3483224--3483283	17	3.2	18	71	15	50	45	0	0	55	0.99
3483234--3483296	19	3.4	19	71	18	60	41	0	0	58	0.98
3484634--3484673	21	2.0	20	85	14	55	37	0	0	62	0.95
3484973--3485005	4	8.0	4	96	3	57	72	3	0	24	0.98

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   27   28