genome.fa.s223.2.7.7.80.10.50.1000.21.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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  21  of  26  ( 3021 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)
3363976--3364284	152	2.0	147	93	6	438	46	5	13	34	1.66
3364650--3364703	24	2.2	25	83	9	67	44	7	7	40	1.60
3364467--3364925	230	2.0	232	92	0	760	50	6	8	35	1.57
3364878--3364926	24	2.0	24	88	8	71	46	6	4	42	1.47
3365185--3365234	18	2.8	18	73	11	50	46	2	2	50	1.24
3365619--3365649	15	2.0	15	93	6	53	38	0	9	51	1.35
3366601--3366644	20	2.2	20	84	8	54	50	0	6	43	1.29
3367369--3367430	25	2.4	25	78	8	70	56	0	0	43	0.99
3368870--3368899	8	3.6	8	95	4	51	26	0	0	73	0.84
3371909--3371946	11	3.4	11	80	20	51	52	10	7	28	1.64
3372934--3372998	22	3.1	22	66	20	57	40	12	16	30	1.86
3376982--3377022	17	2.4	18	80	12	50	73	4	0	21	1.02
3376995--3377043	16	2.9	16	81	9	53	69	2	0	28	1.00
3377031--3377080	24	2.1	24	96	0	91	48	12	8	32	1.69
3377126--3377173	2	24.5	2	95	4	89	47	0	0	52	1.00
3378317--3378350	17	2.0	17	100	0	68	35	5	29	29	1.81
3380335--3380400	22	3.0	21	78	12	62	27	0	3	69	1.03
3380348--3380396	15	3.1	15	82	5	53	26	0	2	71	0.97
3380354--3380400	8	6.0	8	80	14	53	29	0	0	70	0.88
3383066--3383092	4	6.8	4	100	0	54	25	22	0	51	1.48
3383090--3383120	2	15.5	2	93	0	53	45	0	3	51	1.17
3385110--3385160	25	2.0	26	84	3	68	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385113--3385193	28	2.9	28	73	17	69	51	0	3	44	1.19
3385135--3385171	19	1.9	19	89	10	58	54	0	0	45	1.00
3385657--3385684	2	14.0	2	100	0	56	0	0	50	50	1.00
3390376--3390620	100	2.5	101	80	8	286	60	8	9	21	1.55
3391372--3391432	23	2.6	24	75	19	65	40	1	0	57	1.08
3392148--3392190	19	2.2	20	80	12	54	41	0	0	58	0.98
3392405--3392458	25	2.2	25	96	0	99	42	3	11	42	1.58
3394040--3394085	24	2.0	24	86	4	67	28	17	4	50	1.65
3394672--3394733	25	2.5	25	79	7	72	30	3	3	62	1.26
3395925--3395962	2	19.5	2	94	5	69	0	50	0	50	1.00
3398422--3398518	44	2.2	44	92	1	167	20	23	13	42	1.88
3414753--3414779	4	6.8	4	100	0	54	22	0	0	77	0.76
3415124--3415163	19	2.1	19	85	4	53	60	5	0	35	1.19
3415372--3415410	18	2.2	18	90	0	60	46	7	0	46	1.31
3416694--3416742	2	24.5	2	100	0	98	48	0	0	51	1.00
3420061--3420096	18	2.1	18	89	5	56	44	0	0	55	0.99
3420280--3420323	3	14.7	3	100	0	88	31	0	0	68	0.90
3420961--3421002	20	2.1	20	86	0	57	40	0	0	59	0.97
3421032--3421072	21	2.0	21	90	0	64	31	4	0	63	1.15
3426842--3426897	29	2.0	29	85	3	78	44	5	3	46	1.43
3428309--3428354	16	3.0	16	81	9	60	39	2	0	58	1.10
3428618--3428788	85	2.0	84	88	3	254	28	9	21	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428899--3428933	18	1.9	18	88	0	52	57	0	2	40	1.14
3429893--3429945	13	3.8	13	76	13	52	47	1	0	50	1.12
3429931--3429977	24	1.9	25	86	4	69	53	6	0	40	1.27
3431312--3431364	27	2.1	25	83	13	65	47	0	5	47	1.26
3432113--3432172	21	2.8	21	87	2	84	53	0	3	43	1.17
3432676--3432713	19	2.0	20	89	5	60	47	0	0	52	1.00
3434603--3434648	18	2.4	20	89	7	69	65	2	2	30	1.16
3434627--3434653	14	1.9	14	100	0	54	66	3	0	29	1.09
3438670--3438713	17	2.7	16	80	16	54	50	0	2	47	1.13
3440558--3440589	2	16.0	2	100	0	64	50	0	0	50	1.00
3447970--3448032	30	2.1	29	82	14	74	58	4	1	34	1.29
3448182--3448240	22	2.7	21	77	12	66	55	0	0	44	0.99
3448397--3448457	24	2.5	24	84	10	70	36	3	0	60	1.13
3448426--3448472	17	2.8	17	80	3	51	46	0	0	53	1.00
3448760--3448872	60	1.9	59	92	0	163	31	16	15	36	1.90
3449887--3450073	66	2.8	67	91	1	313	30	27	11	31	1.91
3456287--3456352	18	3.8	18	71	19	50	54	0	0	45	0.99
3456286--3456348	32	1.9	33	87	3	92	53	0	0	46	1.00
3456365--3456414	18	2.8	17	85	8	57	50	4	6	40	1.46
3457269--3457298	2	15.0	2	100	0	60	50	0	0	50	1.00
3461697--3461725	14	2.1	14	100	0	58	6	51	0	41	1.28
3463048--3463094	20	2.5	19	82	6	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3463387--3463420	11	3.4	10	88	11	52	38	2	0	58	1.13
3466082--3466227	71	2.1	71	98	0	283	39	2	4	54	1.31
3466194--3466248	27	2.0	28	82	3	67	54	1	1	41	1.21
3466208--3466263	26	2.1	27	80	9	62	57	3	1	37	1.27
3467049--3467078	15	2.0	15	100	0	60	66	0	0	33	0.92
3467538--3467576	18	2.2	18	100	0	78	53	0	0	46	1.00
3468078--3468109	2	16.0	2	93	0	55	46	0	3	50	1.17
3468928--3468971	3	14.7	3	100	0	88	68	0	0	31	0.90
3469507--3469581	25	2.9	26	74	16	66	38	1	0	60	1.06
3469512--3469556	17	2.8	16	87	12	58	33	2	0	64	1.06
3469546--3469586	19	2.1	20	86	13	59	51	0	0	48	1.00
3469513--3469613	27	3.8	26	74	14	75	44	0	0	54	1.06
3469543--3469638	27	3.1	30	74	21	83	47	0	0	52	1.00
3469551--3469612	16	3.9	16	69	22	51	53	0	0	46	1.00
3469602--3469667	16	4.2	16	78	16	50	36	1	0	62	1.05
3469643--3469667	13	1.9	13	100	0	50	28	0	0	72	0.86
3475339--3476006	79	8.3	78	77	8	538	34	12	24	28	1.92
3475443--3475779	87	4.0	86	80	8	393	36	12	22	27	1.91
3475365--3476006	166	3.9	166	79	7	602	35	12	23	28	1.92
3475373--3476006	245	2.6	244	79	9	611	34	12	24	28	1.92
3478279--3478413	50	2.7	50	86	2	164	42	14	15	27	1.85
3480449--3480475	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3483564--3483606	20	2.2	20	87	8	61	44	0	0	55	0.99
3483594--3483636	15	3.0	14	83	13	52	41	0	0	58	0.98
3484705--3484757	17	3.3	17	80	17	60	66	0	0	33	0.92
3485775--3485824	13	3.8	13	87	7	75	42	0	2	56	1.11
3485775--3485851	27	2.8	28	86	7	104	38	2	5	53	1.37
3485775--3485837	13	4.7	13	78	21	60	39	0	4	55	1.21
3485841--3485904	28	2.3	28	84	10	78	45	10	1	42	1.49
3485862--3485932	27	2.6	27	88	4	97	43	14	1	40	1.53
3485918--3486001	27	3.1	26	73	11	71	33	9	5	51	1.59
3485918--3486041	55	2.3	53	81	13	137	37	8	5	49	1.56
3485947--3486050	27	3.8	26	72	18	70	39	5	3	50	1.44
3485989--3486054	31	2.2	29	92	7	107	43	3	4	48	1.38
3488044--3488083	15	2.6	15	88	4	53	55	12	0	32	1.38
3488434--3488493	28	2.2	26	77	11	66	23	30	1	45	1.63
3489987--3490021	17	2.1	17	88	0	52	34	0	0	65	0.93
3490126--3490187	30	2.1	30	87	6	90	27	0	0	72	0.85
3490137--3490190	25	2.1	26	82	6	65	27	0	0	72	0.85
3490126--3490207	39	2.1	38	84	6	103	28	0	0	71	0.86
3490998--3491031	14	2.5	13	95	4	59	73	2	0	23	0.97
3491140--3491192	23	2.2	24	83	9	65	62	0	0	37	0.96
3491149--3491192	24	1.9	22	86	9	61	65	0	0	34	0.93
3491590--3491668	38	2.0	37	85	11	104	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3491606--3491718	31	3.7	30	70	16	88	47	0	1	50	1.11
3491684--3491733	26	1.9	26	84	8	66	50	0	4	46	1.20
3491791--3491866	16	4.8	16	70	12	59	36	0	0	63	0.95
3491900--3491959	6	9.5	6	72	16	50	31	1	0	66	1.01
3491898--3491959	21	2.7	23	78	12	74	32	1	0	66	1.02
3492112--3492148	15	2.3	17	86	9	51	59	2	0	37	1.12
3496157--3496215	6	9.8	6	86	0	82	52	15	0	32	1.43
3500628--3500666	18	2.2	18	90	4	62	43	0	0	56	0.99
3502633--3502673	21	2.0	20	85	4	55	48	0	2	48	1.14
3502971--3503028	21	2.8	21	72	10	57	39	0	1	58	1.08

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