genome.fa.s20.2.7.7.80.10.50.1000.24.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

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   

This is table  24  of  25  ( 2919 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)
3433526--3433564	20	2.0	20	100	0	78	41	0	2	56	1.13
3434863--3434910	24	2.0	24	84	8	62	35	2	2	60	1.20
3435157--3435193	6	6.5	6	84	12	51	35	0	0	64	0.94
3435157--3435209	20	2.5	20	87	6	70	41	0	0	58	0.98
3436065--3436099	17	2.1	17	89	10	54	62	0	0	37	0.95
3437731--3437781	23	2.3	23	79	3	59	39	1	1	56	1.22
3438802--3438866	33	2.0	33	93	0	112	32	18	18	30	1.95
3439561--3439587	2	13.5	2	100	0	54	51	0	0	48	1.00
3440472--3440516	19	2.2	22	88	11	69	37	0	2	60	1.09
3440800--3440846	19	2.5	19	85	0	67	27	6	8	57	1.53
3441180--3441254	20	3.8	20	78	0	87	34	13	12	40	1.81
3441180--3441257	40	2.0	39	87	2	111	34	12	12	39	1.82
3442137--3442192	22	2.5	23	94	5	105	17	10	8	62	1.52
3442145--3442199	22	2.6	21	88	5	58	20	9	9	61	1.52
3455231--3455295	24	2.7	23	90	6	103	89	9	1	0	0.56
3455231--3455308	24	3.4	22	86	8	86	87	8	2	1	0.70
3455230--3455295	1	66.0	1	78	0	69	89	9	1	0	0.55
3455229--3455288	13	4.9	12	88	11	95	88	11	0	0	0.52
3456529--3457505	29	33.9	29	90	3	1462	28	32	17	22	1.96
3457993--3458067	20	3.8	20	78	0	87	34	13	12	40	1.81
3457993--3458070	40	2.0	39	87	2	111	34	12	12	39	1.82
3458978--3459033	22	2.5	23	94	5	105	17	10	8	62	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3458986--3459040	22	2.6	21	88	5	58	20	9	9	61	1.52
3462182--3462239	29	2.0	29	86	3	80	31	8	10	50	1.67
3463603--3463632	14	2.1	14	100	0	60	46	26	0	26	1.53
3469581--3469619	21	1.9	19	85	10	51	56	0	0	43	0.99
3470210--3470309	30	3.2	32	82	10	111	44	1	4	51	1.27
3470265--3470329	30	2.1	30	83	8	78	43	3	3	50	1.33
3470664--3470690	3	9.0	3	100	0	54	33	0	0	66	0.92
3475744--3475778	3	11.7	3	100	0	70	0	34	34	31	1.58
3476987--3477022	3	12.0	3	100	0	72	33	0	0	66	0.92
3477744--3477810	32	2.1	33	85	2	91	59	1	0	38	1.06
3477734--3477814	33	2.5	34	80	8	96	58	1	0	40	1.06
3478569--3478597	8	3.8	8	95	4	51	68	31	0	0	0.89
3488400--3488430	2	15.5	2	100	0	62	51	0	0	48	1.00
3497473--3497548	31	2.5	31	82	16	88	57	0	1	40	1.07
3497495--3497551	21	2.7	21	70	22	55	57	0	1	40	1.09
3500567--3500604	16	2.3	17	86	4	51	76	0	5	18	0.97
3500793--3500946	14	10.1	14	68	26	59	36	1	0	61	1.07
3500834--3500875	12	3.5	12	78	12	50	35	7	0	57	1.26
3500884--3500946	4	16.5	4	75	18	55	31	0	0	68	0.90
3500832--3500894	24	2.6	23	75	12	63	38	4	0	57	1.20
3500884--3500946	27	2.4	27	82	15	78	31	0	0	68	0.90
3500901--3500938	7	5.6	7	82	17	53	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500898--3500939	11	3.9	11	84	15	61	28	0	0	71	0.86
3501215--3501282	29	2.4	30	83	14	74	50	0	1	48	1.10
3501258--3501299	15	2.7	15	78	14	50	47	0	0	52	1.00
3501288--3501441	79	1.9	80	84	6	206	44	6	11	38	1.66
3502631--3502688	29	2.0	29	83	6	73	63	1	1	32	1.14
3506458--3506520	29	2.3	27	86	8	90	61	1	0	36	1.05
3506463--3506532	29	2.4	29	83	4	88	58	2	0	38	1.13
3507019--3507059	22	2.0	20	90	9	64	48	0	2	48	1.14
3507360--3507384	5	5.0	5	100	0	50	80	0	0	20	0.72
3512892--3512924	2	16.5	2	100	0	66	51	0	0	48	1.00
3513340--3513380	21	2.0	21	85	0	55	56	2	0	41	1.13
3513352--3513390	19	2.0	19	85	5	51	48	0	0	51	1.00
3513563--3513604	15	2.8	16	82	10	52	50	0	0	50	1.00
3513566--3513659	40	2.3	40	75	20	97	48	0	0	51	1.00
3513619--3513668	15	3.6	14	79	12	50	46	0	0	54	1.00
3513652--3513717	32	2.1	32	83	5	82	31	4	1	62	1.25
3514398--3514475	9	8.2	9	72	17	52	32	0	1	66	1.00
3514398--3514475	18	4.1	18	75	23	63	32	0	1	66	1.00
3514429--3514494	30	2.2	31	84	10	84	33	0	4	62	1.16
3514876--3514907	2	16.0	2	93	0	55	46	0	0	53	1.00
3514953--3514987	16	2.2	16	90	10	54	42	0	0	57	0.99
3515312--3515396	47	2.0	41	84	13	100	48	1	0	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3515843--3515873	16	1.9	16	93	0	53	48	3	0	48	1.17
3516093--3516134	16	2.6	16	75	17	50	16	7	0	76	1.00
3516243--3516283	5	8.4	5	79	15	50	63	0	0	36	0.95
3516241--3516289	18	2.5	20	77	19	57	65	0	0	34	0.93
3516244--3516319	26	3.0	25	75	9	66	59	1	0	39	1.06
3516559--3516604	23	1.9	24	86	8	67	36	2	4	56	1.31
3517028--3517068	14	3.1	14	83	10	52	58	0	0	41	0.98
3517892--3517970	6	13.5	6	75	17	69	58	0	1	40	1.06
3517892--3517970	19	4.2	20	78	12	78	58	0	1	40	1.06
3518174--3518297	11	10.8	12	69	18	68	58	1	0	39	1.14
3518392--3518427	18	2.0	18	94	0	63	36	50	8	5	1.56
3518560--3518594	4	8.8	4	100	0	70	77	0	0	22	0.78
3518836--3518960	32	3.6	33	81	12	112	40	1	0	58	1.08
3518836--3518925	16	5.4	17	71	21	66	43	1	0	55	1.07
3518932--3518960	15	2.0	15	93	6	51	31	0	0	68	0.89
3518898--3518953	22	2.6	21	83	10	69	37	1	0	60	1.07
3521724--3521788	32	2.0	34	88	11	100	49	1	3	46	1.27
3521729--3521781	17	3.2	17	71	23	51	52	1	1	43	1.23
3523529--3523568	19	2.1	19	85	0	53	22	5	0	72	1.04
3524046--3524105	19	3.0	19	81	15	68	40	0	3	56	1.16
3524096--3524162	34	1.9	34	81	3	80	46	0	0	53	1.00
3524369--3524445	2	38.5	2	86	0	109	45	2	3	48	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3524369--3524441	26	2.8	26	95	0	128	45	2	4	47	1.36
3524369--3524455	26	3.5	25	83	9	106	43	4	5	45	1.48
3524575--3524613	4	9.8	4	94	0	69	71	0	2	25	0.98
3524923--3524968	17	2.6	17	82	3	56	60	0	0	39	0.97
3524912--3524958	20	2.2	22	82	17	64	51	0	0	48	1.00
3524949--3524993	22	2.0	23	86	4	65	55	0	0	44	0.99
3526183--3526207	13	1.9	13	100	0	50	40	0	0	60	0.97
3526455--3526520	23	2.9	22	80	6	69	42	0	0	57	0.98
3527776--3527934	87	1.8	87	90	2	257	35	11	23	28	1.90
3527941--3528139	87	2.3	87	84	0	263	40	13	21	24	1.89
3527785--3528344	201	2.8	201	86	3	702	38	13	22	25	1.91
3528153--3528363	87	2.4	87	81	4	266	37	18	21	22	1.94
3528603--3528647	20	2.3	20	88	3	65	31	15	4	48	1.65
3528613--3528650	20	1.9	20	100	0	76	31	10	2	55	1.48
3539097--3539172	26	2.9	26	86	7	100	26	3	17	52	1.61
3539944--3539977	15	2.1	17	89	10	54	50	0	0	50	1.00
3540423--3540464	21	2.0	22	85	4	59	54	0	0	45	0.99
3541110--3541203	24	3.9	22	70	24	66	48	1	0	50	1.07
3541110--3541163	23	2.4	23	80	17	60	48	1	0	50	1.11
3541925--3541997	7	10.1	7	75	11	58	75	0	1	23	0.88
3542760--3542816	30	1.9	30	92	0	96	52	1	0	45	1.11
3543170--3543225	16	3.4	18	81	16	68	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543170--3543259	45	1.9	48	84	13	125	58	1	0	40	1.05
3543398--3543433	5	7.8	5	96	3	51	0	11	0	88	0.50
3543947--3543980	2	17.0	2	93	0	59	47	0	2	50	1.16
3544382--3544411	15	2.0	15	93	0	51	63	0	0	36	0.95
3544611--3544636	2	13.0	2	100	0	52	50	0	0	50	1.00
3545147--3545186	21	1.9	21	89	0	62	47	0	2	50	1.14
3546025--3546060	2	18.0	2	100	0	72	50	0	0	50	1.00
3546218--3546275	28	2.0	29	83	6	73	50	0	1	48	1.11
3546653--3546850	87	2.3	87	85	0	261	43	13	20	22	1.86
3548591--3548649	10	5.8	10	82	4	73	71	3	0	25	1.02

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