genome.fa.s64.2.7.7.80.10.50.1000.18.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  18  of  45  ( 5312 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)
3323025--3323062	2	19.0	2	100	0	76	50	0	0	50	1.00
3323941--3323968	2	14.0	2	100	0	56	50	0	0	50	1.00
3324697--3324749	27	1.9	28	85	11	74	47	7	5	39	1.56
3324953--3325012	14	4.1	14	72	19	50	66	0	0	33	0.92
3325777--3325872	48	2.0	48	84	8	124	55	8	16	19	1.67
3330953--3331028	11	6.7	11	73	11	64	60	0	0	39	0.97
3330955--3331028	18	3.8	19	76	16	73	60	0	0	39	0.97
3330952--3331045	11	10.1	9	71	23	63	58	0	0	41	0.98
3330955--3331031	13	5.5	14	69	15	52	61	0	0	38	0.96
3331301--3331346	23	2.0	24	83	12	60	45	2	0	52	1.13
3331393--3331434	17	2.5	17	80	7	50	42	0	2	54	1.13
3339187--3339253	34	2.0	34	96	0	125	55	7	19	17	1.66
3345208--3345287	15	5.7	13	73	14	61	57	2	5	35	1.34
3345218--3345287	28	2.5	28	92	0	113	57	2	5	34	1.37
3345218--3345280	15	4.5	15	78	11	71	57	3	6	33	1.40
3347212--3347237	2	13.0	2	100	0	52	50	0	0	50	1.00
3349471--3349499	2	14.5	2	100	0	58	51	0	0	48	1.00
3352209--3352246	19	2.0	20	89	5	60	44	0	0	55	0.99
3354921--3354981	25	2.3	28	86	10	85	50	0	1	47	1.10
3355102--3355167	27	2.3	29	80	17	77	50	3	1	45	1.26
3355103--3355195	27	3.5	26	76	13	75	50	2	2	45	1.25
3358810--3358848	19	2.0	20	90	9	64	25	2	0	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3359405--3359450	25	1.9	23	86	8	65	63	4	10	21	1.44
3359993--3360076	43	1.9	44	81	11	102	32	8	3	55	1.47
3360068--3360113	23	2.0	23	86	0	65	50	4	0	45	1.21
3360289--3360341	21	2.5	21	78	6	63	39	24	1	33	1.66
3363856--3363921	27	2.4	27	87	2	96	48	10	6	34	1.62
3364732--3364783	6	8.5	6	77	12	52	75	3	0	21	0.97
3364731--3364780	25	2.0	25	88	11	75	74	4	0	22	0.99
3366586--3366638	12	4.6	12	76	6	56	54	0	0	45	0.99
3366586--3366639	23	2.4	22	81	9	63	53	0	0	46	1.00
3374172--3374272	50	2.0	50	90	3	159	48	8	4	37	1.56
3374406--3374444	15	2.6	15	84	11	53	35	2	2	58	1.25
3374773--3374811	18	2.2	18	85	0	51	61	5	0	33	1.18
3377195--3377245	15	3.4	14	75	19	50	43	0	0	56	0.99
3377216--3377280	17	4.0	17	74	20	59	43	0	0	56	0.99
3377216--3377260	16	2.8	16	83	9	56	44	0	0	55	0.99
3377216--3377280	18	4.0	16	77	14	53	43	0	0	56	0.99
3377798--3377868	30	2.4	29	84	9	90	47	0	1	50	1.09
3380391--3380428	19	2.2	19	86	13	55	60	0	0	39	0.97
3380346--3380427	27	3.2	26	74	14	82	56	0	0	43	0.99
3381368--3381425	17	3.1	17	81	16	62	60	0	0	39	0.97
3382590--3382632	14	3.2	13	83	9	50	51	0	2	46	1.13
3382664--3382712	19	2.7	17	76	14	53	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410161--3410258	51	1.9	51	89	6	155	47	11	5	35	1.61
3410396--3410434	15	2.6	15	84	11	53	35	2	2	58	1.25
3412277--3412302	2	13.0	2	100	0	52	50	0	0	50	1.00
3417134--3417172	20	1.9	21	89	5	62	33	2	0	64	1.08
3417661--3417690	2	15.5	2	93	6	53	50	0	0	50	1.00
3418465--3418517	23	2.3	22	81	15	63	54	0	1	43	1.11
3420272--3420314	22	2.0	21	86	4	59	65	0	0	34	0.93
3420492--3420546	19	3.0	19	79	10	53	54	0	0	45	0.99
3423641--3423739	48	2.0	49	88	1	146	35	5	11	48	1.61
3426239--3426335	50	1.9	50	87	4	142	47	11	5	36	1.62
3426471--3426509	15	2.6	15	84	11	53	35	2	2	58	1.25
3428352--3428377	2	13.0	2	100	0	52	50	0	0	50	1.00
3432440--3432475	2	18.5	2	94	5	65	50	0	0	50	1.00
3432970--3433050	11	7.3	11	74	12	67	60	0	1	38	1.05
3432987--3433058	22	3.1	24	80	13	80	61	0	0	38	0.96
3432970--3433049	33	2.4	32	84	10	99	60	0	1	38	1.05
3433039--3433118	33	2.4	33	87	6	108	57	0	0	42	0.98
3433483--3433552	15	4.5	15	76	5	68	60	4	0	35	1.17
3436743--3436773	1	31.0	1	93	0	53	0	0	96	3	0.21
3440888--3440945	17	3.1	17	81	16	62	60	0	0	39	0.97
3442113--3442155	14	3.2	13	83	9	50	51	0	2	46	1.13
3443860--3443928	19	3.5	18	78	18	66	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3443866--3443923	19	2.8	22	84	10	68	44	0	0	55	0.99
3443872--3443938	19	3.4	19	75	15	55	44	0	0	55	0.99
3445606--3445645	19	2.1	19	85	4	53	47	0	2	50	1.14
3446393--3446438	2	23.0	2	100	0	92	0	50	0	50	1.00
3460616--3460953	168	2.0	168	93	0	577	36	18	12	32	1.88
3462342--3462419	5	15.2	5	72	19	63	62	0	0	37	0.95
3462350--3462419	11	6.5	11	78	18	69	64	0	0	35	0.94
3462352--3462414	23	2.9	21	84	11	74	65	0	0	34	0.93
3462389--3462470	25	3.3	25	74	16	73	52	2	0	45	1.14
3462389--3462457	24	2.9	23	79	10	68	52	2	0	44	1.16
3464279--3464334	17	3.0	19	75	21	64	60	0	0	39	0.97
3465470--3465507	20	1.9	19	85	15	51	31	0	10	57	1.32
3468901--3468937	2	19.0	2	88	5	58	45	0	2	51	1.15
3469858--3469891	2	17.0	2	100	0	68	50	0	0	50	1.00
3474372--3474398	3	9.0	3	100	0	54	33	0	0	66	0.92
3475321--3475394	27	2.7	28	75	6	71	50	0	1	48	1.09
3477109--3477188	35	2.2	38	84	10	105	52	1	1	45	1.16
3479394--3479426	2	16.5	2	100	0	66	51	0	0	48	1.00
3480606--3480639	7	4.9	7	86	13	52	41	0	0	58	0.98
3480574--3480639	23	3.0	22	80	12	64	43	1	1	53	1.19
3480662--3480702	2	20.5	2	100	0	82	51	0	0	48	1.00
3481192--3481235	23	2.0	21	83	16	54	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481836--3481869	16	2.1	16	100	0	68	32	17	11	38	1.86
3486307--3486418	50	2.2	51	82	4	138	48	8	2	40	1.49
3486564--3486824	129	2.0	129	97	0	495	38	18	20	22	1.94
3489429--3489455	6	4.5	6	100	0	54	14	14	51	18	1.76
3491789--3491814	13	2.0	13	100	0	52	15	23	15	46	1.83
3491867--3491929	33	1.9	32	90	9	101	49	0	0	50	1.00
3491859--3491924	17	3.7	19	72	27	72	51	0	0	48	1.00
3500229--3500270	21	2.0	21	86	9	59	38	0	2	59	1.10
3501839--3501881	13	3.3	13	86	0	59	46	2	0	51	1.13
3502492--3502666	71	2.4	72	80	4	181	40	6	2	50	1.42
3503506--3503556	2	25.5	2	95	0	93	49	0	50	0	1.00
3508073--3508102	2	15.0	2	100	0	60	50	0	0	50	1.00
3509875--3509913	6	6.8	6	82	11	55	15	2	0	82	0.79
3516166--3516209	23	1.9	22	82	17	54	65	4	2	27	1.23
3518487--3518522	2	18.0	2	100	0	72	50	0	0	50	1.00
3518705--3518750	22	2.1	22	84	8	58	71	0	23	4	1.03
3518792--3518870	32	2.4	33	82	6	97	41	1	1	55	1.16
3518855--3518904	14	3.3	15	83	11	57	32	2	2	64	1.16
3519039--3519072	12	2.7	13	86	4	52	44	0	0	55	0.99
3526287--3526466	59	3.1	59	86	3	238	31	32	18	17	1.94
3530843--3530884	21	2.0	22	85	4	59	57	2	2	38	1.25
3531555--3531622	32	2.3	28	81	18	84	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531653--3531698	20	2.3	20	85	10	67	30	0	0	69	0.89
3542963--3543006	17	2.7	16	89	3	61	72	0	13	13	1.12
3543464--3543543	26	2.8	29	75	21	89	50	1	2	46	1.23
3543478--3543557	26	3.0	26	75	20	76	47	0	3	48	1.19
3543840--3543887	19	2.5	20	83	10	64	47	0	0	52	1.00
3544012--3544057	2	23.0	2	100	0	92	50	0	0	50	1.00
3544314--3544365	23	2.3	23	83	6	61	69	0	1	28	0.99
3544350--3544420	16	4.7	14	75	20	63	57	0	0	42	0.98
3544350--3544418	32	2.3	29	87	9	102	57	0	0	42	0.98
3544360--3544413	18	3.3	17	75	17	60	59	0	0	40	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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45