genome.fa.s53.2.7.7.80.10.50.1000.24.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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  24  of  28  ( 3325 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)
3706331--3706362	15	2.1	15	94	0	55	62	21	6	9	1.47
3706652--3707238	88	6.7	89	85	3	713	36	14	17	31	1.90
3708011--3708035	13	1.9	13	100	0	50	36	16	16	32	1.90
3707991--3708057	33	2.0	33	88	0	98	34	11	13	40	1.81
3708101--3708125	13	1.9	13	100	0	50	32	16	16	36	1.90
3708134--3708254	52	2.3	52	97	0	224	34	18	18	28	1.94
3714853--3714920	25	2.8	24	84	2	82	11	4	7	76	1.13
3714834--3714906	33	2.1	34	78	16	80	12	4	6	76	1.12
3714834--3714920	8	10.5	8	73	19	54	12	3	8	75	1.14
3715642--3715715	32	2.3	31	81	4	76	24	21	24	29	1.99
3715657--3715727	32	2.2	32	85	7	99	21	16	29	32	1.95
3715708--3716614	62	14.8	62	84	3	1092	30	17	25	26	1.97
3720522--3720646	52	2.4	52	97	0	232	28	18	18	35	1.94
3720522--3720666	52	2.8	51	90	4	220	29	17	18	33	1.95
3720741--3720765	13	1.9	13	100	0	50	32	16	16	36	1.90
3720720--3720785	32	2.0	33	94	2	116	36	16	12	34	1.86
3721378--3721412	10	3.3	10	92	8	52	0	8	5	85	0.73
3728225--3728275	23	2.2	23	89	0	75	5	21	17	54	1.63
3728627--3728938	98	3.2	98	93	0	518	11	28	18	41	1.85
3729147--3729233	24	3.6	23	75	18	79	14	1	8	75	1.08
3729166--3729208	9	4.6	9	80	8	50	13	0	4	81	0.84
3729147--3729231	8	10.5	8	76	20	56	14	1	8	76	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3732174--3732205	5	6.4	5	96	0	55	81	3	0	15	0.82
3732404--3732463	22	2.8	21	85	10	68	73	3	3	20	1.12
3732404--3732451	20	2.3	20	86	13	62	75	4	2	18	1.07
3732900--3732929	2	15.0	2	100	0	60	50	0	0	50	1.00
3733241--3733282	16	2.6	16	84	0	57	35	35	14	14	1.86
3733244--3733344	32	3.2	32	74	13	100	37	29	17	14	1.90
3734382--3734498	16	7.3	16	70	11	69	37	27	18	16	1.92
3734416--3734497	32	2.6	32	78	7	87	39	29	18	13	1.89
3735004--3735069	22	3.0	23	80	12	59	42	1	0	56	1.08
3735019--3735069	21	2.5	19	82	17	59	45	0	0	54	0.99
3737844--3737884	14	3.1	14	89	6	59	43	0	4	51	1.23
3737851--3737888	2	20.0	2	84	10	53	47	0	2	50	1.15
3739506--3739548	22	2.0	23	90	9	72	69	2	0	27	1.00
3739517--3739561	22	2.0	22	82	4	54	73	0	0	26	0.84
3739520--3739588	14	4.7	14	77	13	59	68	0	0	31	0.90
3745769--3745808	20	2.0	20	90	0	62	57	17	0	25	1.40
3753471--3753713	97	2.5	96	84	1	335	31	13	25	28	1.94
3754947--3754973	13	2.1	13	100	0	54	29	14	14	40	1.86
3754928--3754992	32	2.0	32	90	3	103	26	16	16	40	1.90
3754958--3755014	19	2.9	19	89	5	78	29	17	17	35	1.93
3755058--3755088	13	2.4	13	94	0	53	35	16	12	35	1.87
3755043--3755108	33	2.0	31	86	13	89	34	13	18	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3761164--3761236	20	3.6	20	81	3	101	35	13	19	31	1.91
3761182--3761257	21	3.7	21	78	3	91	40	11	17	30	1.85
3761164--3761257	41	2.3	41	96	0	170	38	12	18	30	1.88
3765384--3765422	15	2.6	15	91	0	60	51	15	20	12	1.76
3767421--3767499	20	3.7	21	75	15	72	26	13	15	44	1.84
3767486--3767524	13	3.0	13	96	0	69	30	17	15	35	1.91
3769309--3769355	23	2.0	23	100	0	94	31	4	12	51	1.59
3769992--3770064	20	3.6	20	81	3	101	35	13	19	31	1.91
3770010--3770085	21	3.7	21	78	3	91	40	11	17	30	1.85
3769992--3770085	41	2.3	41	96	0	170	38	12	18	30	1.88
3770124--3770149	13	2.0	13	100	0	52	38	15	15	30	1.88
3771278--3771305	13	2.2	13	100	0	56	28	14	14	42	1.84
3773165--3773204	18	2.2	19	86	4	55	52	0	32	15	1.43
3773781--3773807	13	2.1	13	100	0	54	29	14	14	40	1.86
3773762--3773826	32	2.0	32	90	3	103	27	16	15	40	1.89
3773893--3773923	13	2.4	13	94	0	53	35	16	12	35	1.87
3775793--3775860	23	3.1	23	83	6	79	41	8	17	32	1.80
3775971--3776007	17	2.2	17	100	0	74	24	40	8	27	1.83
3780187--3780213	13	2.1	13	100	0	54	40	14	14	29	1.86
3780894--3781848	193	5.0	184	88	3	1226	33	17	24	24	1.97
3780997--3781848	92	9.0	92	86	5	1173	32	17	24	24	1.97
3780902--3781848	285	3.3	285	90	3	1399	33	17	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3781709--3781776	21	3.2	20	70	25	59	32	14	25	27	1.95
3781927--3782104	34	5.2	33	84	8	162	36	11	32	19	1.88
3781949--3782115	37	4.8	37	86	5	167	37	11	31	19	1.88
3782002--3782197	61	2.9	68	82	8	192	32	13	32	21	1.92
3782097--3782237	61	2.3	61	90	6	225	28	15	31	24	1.95
3781976--3782237	30	8.2	31	79	15	191	32	14	32	21	1.93
3783449--3783489	15	2.8	14	88	7	55	2	0	17	80	0.82
3797865--3797894	15	2.0	15	100	0	60	33	26	13	26	1.93
3800105--3800154	21	2.3	21	80	10	57	56	4	18	22	1.58
3801944--3801974	15	2.1	15	93	0	53	48	16	22	12	1.80
3806502--3806557	20	2.8	19	89	5	76	39	14	16	30	1.88
3806616--3806641	13	2.0	13	100	0	52	38	15	15	30	1.88
3806598--3806661	32	2.0	33	90	3	103	39	18	14	28	1.90
3808064--3808117	28	1.9	28	92	0	90	57	11	0	31	1.34
3808424--3808775	151	2.3	153	80	8	364	49	8	9	32	1.65
3813327--3813355	2	14.5	2	100	0	58	48	0	0	51	1.00
3813545--3813577	3	11.3	3	93	6	59	69	0	0	30	0.88
3819516--3819566	20	2.6	20	90	3	77	39	17	13	29	1.88
3825062--3825093	12	2.7	12	90	0	55	28	18	6	46	1.73
3825670--3825722	17	3.2	17	75	5	63	24	1	11	62	1.39
3825675--3825724	16	3.1	17	80	8	59	30	2	10	58	1.42
3836694--3836739	16	2.9	16	86	0	56	19	4	23	52	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3836663--3836746	16	5.2	16	72	5	53	21	8	21	48	1.76
3839073--3839098	13	2.0	13	100	0	52	38	15	15	30	1.88
3839055--3839119	32	2.0	32	87	6	94	40	18	13	27	1.89
3845088--3845121	13	2.6	13	95	0	59	35	0	17	47	1.48
3845246--3845284	13	3.0	13	96	0	69	30	17	15	35	1.91
3847841--3847866	13	2.0	13	100	0	52	38	15	15	30	1.88
3847823--3847887	32	2.0	32	87	6	94	40	18	13	27	1.89
3850207--3850239	3	11.0	3	100	0	66	66	0	0	33	0.92
3851226--3851264	20	1.9	21	89	5	62	15	15	0	69	1.20
3851225--3851264	21	1.9	21	90	10	64	15	15	0	70	1.18
3852456--3852485	2	15.0	2	100	0	60	0	50	0	50	1.00
3855415--3855519	53	2.0	53	94	0	183	42	9	22	24	1.83
3856761--3856808	21	2.3	20	82	3	60	52	0	0	47	1.00
3856803--3856833	9	3.3	9	91	8	53	45	0	0	54	0.99
3856801--3856830	10	3.1	10	90	9	53	43	0	0	56	0.99
3859935--3859960	2	13.0	2	100	0	52	50	0	0	50	1.00
3861308--3861381	20	3.7	20	92	3	114	35	14	12	37	1.84
3861956--3861993	2	19.0	2	100	0	76	50	0	0	50	1.00
3863637--3863694	14	4.1	14	80	4	62	24	8	25	41	1.83
3863650--3863688	15	2.7	15	88	4	53	23	7	23	46	1.78
3863682--3863763	30	2.8	28	74	7	74	32	17	13	36	1.88
3863667--3863745	15	5.3	15	81	3	79	30	16	16	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3877666--3877715	18	2.7	18	82	14	66	20	18	12	50	1.78
3877972--3878008	16	2.3	16	95	0	65	35	21	29	13	1.92
3878335--3878609	30	9.5	29	82	8	194	42	31	18	6	1.77
3878329--3878591	60	4.5	60	78	11	219	42	31	17	7	1.78
3878374--3878414	21	2.0	21	90	0	64	43	34	14	7	1.73
3878347--3878444	51	1.9	51	89	0	151	44	33	14	7	1.72
3878352--3878458	51	2.1	51	83	0	133	47	33	13	5	1.66
3878395--3878609	60	3.6	62	85	7	252	41	31	20	6	1.78
3878395--3878609	90	2.4	91	80	13	250	41	31	20	6	1.78
3883887--3884681	28	27.9	28	83	4	837	29	30	16	23	1.96

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