genome.fa.s55.2.7.7.80.10.50.1000.15.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

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

This is table  15  of  21  ( 2443 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)
3226362--3226429	36	1.9	36	82	8	86	16	26	14	42	1.86
3226769--3226841	37	2.0	37	88	0	110	31	28	24	15	1.95
3226974--3227019	21	2.2	20	85	14	58	82	13	2	2	0.85
3227397--3227450	20	2.6	21	82	2	65	42	12	14	29	1.83
3227490--3227530	20	2.0	20	90	0	64	43	7	17	31	1.76
3228102--3228143	22	1.9	22	85	9	59	30	38	0	30	1.58
3236164--3236193	13	2.4	12	94	5	51	53	30	6	10	1.60
3236251--3236307	22	2.6	22	82	0	69	45	10	31	12	1.76
3236264--3236408	60	2.4	60	82	0	182	47	15	27	9	1.76
3238046--3238662	157	4.0	156	83	5	696	23	16	20	38	1.92
3240555--3240656	16	6.4	16	78	3	89	43	33	12	10	1.78
3240912--3240960	22	2.2	22	85	0	62	36	6	10	46	1.63
3241453--3241550	36	2.9	34	78	16	107	30	25	11	32	1.91
3241515--3241956	220	2.0	220	95	0	803	42	16	13	27	1.85
3242269--3242324	20	2.8	20	91	2	85	37	21	8	32	1.84
3242372--3242421	19	2.5	20	90	3	75	40	10	14	36	1.79
3244024--3244066	22	1.9	22	85	4	59	41	6	9	41	1.64
3244174--3244250	22	3.5	22	78	3	75	40	5	6	48	1.51
3244395--3244586	104	1.8	105	84	5	264	39	2	5	53	1.37
3244373--3244611	51	4.6	52	79	10	238	40	2	6	50	1.41
3244798--3245109	49	6.4	49	76	14	299	39	0	2	57	1.18
3244729--3245111	97	4.0	96	79	12	348	39	1	2	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3244798--3245091	141	2.1	140	78	10	300	39	1	2	57	1.18
3245051--3245084	8	4.4	8	85	7	52	26	0	0	73	0.83
3245051--3245084	15	2.2	16	89	5	52	26	0	0	73	0.83
3247436--3247489	26	2.1	26	96	0	99	48	9	16	25	1.76
3247767--3247794	2	14.0	2	100	0	56	0	50	0	50	1.00
3250765--3250802	15	2.4	16	91	4	60	39	0	2	57	1.12
3250796--3250840	22	2.0	22	83	8	56	66	2	0	31	1.04
3252734--3252759	13	2.0	13	100	0	52	30	15	15	38	1.88
3252743--3252799	19	2.9	19	86	2	78	31	14	17	36	1.89
3258943--3258984	13	3.2	13	89	0	66	26	11	19	42	1.85
3260688--3260735	22	2.2	22	84	0	60	39	2	25	33	1.67
3261276--3261348	20	3.7	19	90	3	101	27	15	19	38	1.91
3261377--3261443	33	2.0	32	86	11	91	37	13	17	31	1.89
3262363--3262392	15	2.0	15	93	0	51	70	0	3	26	1.03
3265136--3265186	20	2.6	20	84	3	68	35	13	17	33	1.89
3267246--3267308	28	2.2	29	83	10	78	47	1	7	42	1.42
3269148--3269178	15	2.1	15	93	0	53	45	0	25	29	1.54
3272286--3272316	16	1.9	16	93	0	53	54	0	9	35	1.33
3275933--3275986	20	2.6	21	76	5	56	29	12	16	40	1.86
3275974--3275998	13	1.9	13	100	0	50	36	16	16	32	1.90
3278418--3278544	47	2.7	47	92	2	184	30	14	18	37	1.90
3278438--3278524	27	3.5	27	73	20	107	28	13	17	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278464--3278545	20	3.8	20	73	20	74	31	13	15	39	1.87
3284620--3284645	13	2.0	13	100	0	52	30	15	15	38	1.88
3284707--3284760	20	2.6	21	82	8	65	31	14	14	38	1.87
3284746--3284770	13	1.9	13	100	0	50	36	16	16	32	1.90
3285608--3285652	19	2.3	19	84	3	54	31	15	13	40	1.86
3288452--3289475	476	2.2	476	85	2	1364	34	12	20	31	1.91
3290859--3290914	22	2.5	22	88	0	85	23	35	5	35	1.78
3298802--3298855	20	2.7	21	80	8	67	35	16	12	35	1.87
3298884--3298939	19	2.9	19	86	2	67	37	19	12	30	1.89
3300884--3304224	473	7.0	474	83	4	4033	36	13	19	31	1.90
3305149--3305212	33	1.9	33	96	0	119	35	12	17	34	1.87
3308553--3308689	51	2.7	51	95	0	238	42	8	21	28	1.81
3308655--3308760	20	5.2	19	75	13	86	37	13	19	29	1.90
3308671--3308765	20	4.6	21	76	10	97	35	14	18	30	1.91
3308647--3308771	41	3.0	41	85	2	162	38	12	20	29	1.88
3309286--3312164	475	6.0	476	84	3	3435	35	13	19	31	1.90
3312193--3316027	470	8.1	473	83	4	4290	35	13	18	31	1.90
3315931--3316117	97	1.9	97	83	4	243	28	11	22	37	1.89
3316911--3316963	13	4.5	13	69	26	55	35	16	13	33	1.88
3316914--3316976	33	1.9	33	90	6	101	33	17	14	34	1.90
3317008--3317080	20	3.7	19	83	7	76	39	17	13	28	1.88
3319634--3319674	20	2.0	20	90	0	64	39	12	17	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3324135--3324168	9	3.8	9	88	11	52	29	26	0	44	1.55
3325800--3325855	19	2.9	19	91	2	85	35	17	16	30	1.92
3325840--3325866	13	2.1	13	100	0	54	40	14	14	29	1.86
3327574--3327905	177	1.9	175	88	2	504	38	14	16	30	1.89
3327192--3328380	652	1.8	653	83	1	1596	36	14	18	30	1.90
3327756--3329333	476	3.3	475	84	1	1960	36	13	18	31	1.90
3329198--3329473	140	2.0	140	84	0	363	36	15	16	31	1.90
3329338--3332092	477	5.8	476	84	2	3417	35	13	18	31	1.90
3329922--3332088	159	13.7	158	66	11	659	35	13	18	31	1.90
3332853--3332877	13	1.9	13	100	0	50	32	16	16	36	1.90
3332833--3332897	33	2.0	33	84	0	85	33	18	10	36	1.86
3333623--3333674	21	2.4	21	87	3	68	36	23	1	38	1.66
3335546--3335654	55	2.0	55	100	0	218	38	12	28	20	1.89
3338470--3338587	41	2.8	42	90	1	184	43	2	45	8	1.48
3338479--3338587	42	2.6	41	92	1	182	41	2	46	9	1.50
3347336--3347454	42	2.8	42	92	0	193	8	46	2	42	1.47
3347369--3347444	12	6.9	11	75	15	52	9	48	2	39	1.49
3347360--3347445	24	3.8	24	72	17	85	10	45	2	41	1.51
3347351--3347421	18	3.6	18	69	20	52	9	43	2	43	1.52
3353177--3353228	19	2.7	20	84	6	70	26	13	15	44	1.84
3353296--3353320	13	1.9	13	100	0	50	36	16	16	32	1.90
3354956--3354990	15	2.3	15	90	0	52	40	0	31	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358906--3358933	13	2.2	13	100	0	56	39	17	14	28	1.89
3363236--3363288	19	2.7	20	94	2	90	30	15	16	37	1.90
3366698--3367957	472	2.6	474	85	3	1636	36	13	17	31	1.89
3371177--3371253	20	3.8	20	80	0	91	42	12	11	32	1.80
3373010--3378184	475	11.0	478	80	7	5208	35	13	18	32	1.90
3373063--3378178	951	5.4	945	82	6	4833	35	13	18	31	1.90
3379939--3379991	17	3.1	17	80	2	61	35	16	3	43	1.67
3381460--3381485	11	2.4	11	100	0	52	92	0	7	0	0.39
3383348--3383423	8	8.6	8	75	16	53	82	0	9	7	0.83
3383354--3383423	10	6.5	10	75	12	59	82	0	8	8	0.83
3383348--3383423	18	4.2	18	75	8	73	82	0	9	7	0.83
3383348--3383423	9	8.4	9	80	9	57	82	0	9	7	0.83
3383348--3383413	17	3.7	17	80	8	69	81	0	9	9	0.87
3384005--3384225	88	2.5	88	83	4	284	19	24	16	39	1.91
3384005--3384227	44	5.1	44	70	11	170	20	24	16	39	1.92
3384306--3385464	43	26.9	43	81	2	1007	17	26	18	37	1.93
3384319--3385435	473	2.4	475	84	3	1399	17	27	18	36	1.93
3384304--3385464	259	4.5	258	81	4	1054	17	26	18	37	1.93
3385457--3385757	42	7.2	42	78	5	225	17	30	18	32	1.95
3385457--3385715	84	3.1	84	75	8	249	18	30	18	32	1.95
3385612--3385818	41	5.0	42	74	4	141	16	31	19	32	1.94
3385832--3385927	45	2.1	45	84	0	120	20	25	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386058--3386146	45	2.0	45	84	4	117	16	30	15	37	1.91
3386099--3386310	84	2.5	84	83	6	277	18	27	16	36	1.93
3386049--3386522	42	11.2	42	70	9	205	20	28	16	34	1.94
3386099--3386483	209	1.8	210	79	3	445	20	28	15	34	1.94
3386166--3386458	125	2.3	126	79	5	324	21	28	16	34	1.94
3387261--3387307	9	5.2	9	82	7	60	74	10	4	10	1.20
3387270--3387450	17	11.8	16	70	18	100	71	8	2	17	1.21
3387270--3387450	7	24.7	7	69	19	63	71	8	2	17	1.21
3387296--3387450	23	6.9	21	69	20	75	72	8	1	18	1.17
3387316--3387387	36	1.9	36	83	13	92	72	8	1	18	1.17

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