genome.fa.s66.2.7.7.80.10.50.1000.20.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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  20  of  26  ( 3105 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)
3389483--3389658	79	2.2	79	83	6	212	33	13	25	27	1.93
3389620--3389689	28	2.5	28	88	0	104	28	21	27	22	1.99
3389643--3390086	79	5.6	79	90	0	692	31	15	26	26	1.96
3390038--3390110	27	2.6	28	83	14	98	21	20	32	24	1.97
3390093--3390331	51	4.6	51	80	4	266	31	11	25	30	1.92
3390093--3390331	102	2.3	103	86	2	320	31	11	25	30	1.92
3392636--3392660	13	1.9	13	100	0	50	40	20	16	24	1.91
3392644--3392750	20	5.8	20	74	20	72	42	14	14	28	1.86
3392697--3392752	20	2.8	20	100	0	112	39	10	14	35	1.81
3393484--3393575	40	2.3	40	100	0	184	44	11	23	19	1.84
3393739--3393821	26	3.0	29	67	16	84	20	20	30	28	1.98
3393716--3394202	55	8.4	58	83	10	511	26	19	26	26	1.99
3394055--3394142	26	3.3	26	65	14	70	23	20	29	26	1.99
3393716--3394202	116	4.2	112	80	11	511	26	19	26	26	1.99
3395172--3395234	1	63.0	1	77	0	63	3	1	6	88	0.66
3395172--3395235	27	2.4	26	82	10	85	3	1	7	87	0.71
3395172--3395232	9	6.7	9	86	3	77	3	1	6	88	0.67
3395172--3395233	10	5.9	10	82	16	72	3	1	6	88	0.66
3402848--3403101	52	5.0	52	78	7	234	33	16	25	24	1.96
3402848--3403091	103	2.4	101	78	9	244	32	17	24	25	1.97
3403211--3403348	60	2.3	62	82	6	174	40	10	25	23	1.86
3403304--3403425	52	2.3	52	87	2	174	31	14	27	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3403462--3403575	32	3.6	33	81	7	103	21	17	30	29	1.96
3403746--3403819	28	2.7	29	81	14	93	29	17	27	25	1.97
3403746--3403829	28	3.0	28	76	10	84	29	16	27	26	1.97
3412427--3412466	17	2.4	17	86	0	62	47	0	12	40	1.41
3413717--3413744	14	2.0	14	100	0	56	64	0	0	35	0.94
3414617--3414643	2	13.5	2	100	0	54	51	0	0	48	1.00
3414842--3414869	2	14.0	2	100	0	56	50	0	0	50	1.00
3417610--3417669	3	20.0	3	96	0	111	33	1	0	65	1.03
3422664--3422712	25	1.9	26	83	4	64	34	4	0	61	1.15
3423743--3423888	79	1.8	79	86	2	213	31	13	26	29	1.93
3423738--3423913	79	2.2	79	83	6	212	33	13	25	27	1.93
3423875--3423944	28	2.5	28	88	0	104	28	21	27	22	1.99
3423898--3424341	79	5.6	79	90	0	692	31	15	26	26	1.96
3424293--3424365	27	2.6	28	83	14	98	21	20	32	24	1.97
3424348--3424586	51	4.6	51	80	4	266	31	11	25	30	1.92
3424348--3424586	102	2.3	103	86	2	320	31	11	25	30	1.92
3426893--3426917	13	1.9	13	100	0	50	40	20	16	24	1.91
3426901--3427007	20	5.8	20	74	20	72	42	14	14	28	1.86
3426954--3427009	20	2.8	20	100	0	112	39	10	14	35	1.81
3427741--3427832	40	2.3	40	100	0	184	44	11	23	19	1.84
3427996--3428078	26	3.0	29	67	16	84	20	20	30	28	1.98
3427973--3428459	55	8.4	58	83	10	511	26	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428312--3428399	26	3.3	26	65	14	70	23	20	29	26	1.99
3427973--3428459	116	4.2	112	80	11	511	26	19	26	26	1.99
3429429--3429492	1	64.0	1	77	0	65	3	1	6	89	0.65
3429429--3429490	28	2.2	28	91	0	97	3	1	6	88	0.66
3429440--3429491	10	5.4	10	90	4	72	3	0	5	90	0.55
3437203--3437258	20	2.8	20	91	0	85	39	12	16	32	1.85
3437365--3437403	21	1.9	20	89	5	60	35	10	15	38	1.81
3438153--3438223	25	2.8	26	82	4	99	59	7	0	33	1.25
3439893--3440001	42	2.6	42	88	0	155	44	0	42	11	1.47
3450822--3450914	46	2.0	46	97	0	177	48	20	10	20	1.79
3451447--3451659	114	1.9	114	90	3	340	45	0	5	48	1.28
3451447--3451659	113	2.0	104	81	14	245	45	0	5	48	1.28
3456271--3456314	21	2.1	21	86	0	61	38	4	25	31	1.76
3456280--3456323	21	2.1	21	82	0	52	40	6	18	34	1.77
3459607--3459667	21	2.9	22	76	9	65	32	3	26	37	1.73
3468307--3468345	20	2.0	20	94	0	69	30	17	12	38	1.88
3485297--3485360	28	2.2	28	81	8	67	56	9	1	32	1.41
3493585--3493612	2	14.0	2	100	0	56	50	0	0	50	1.00
3494823--3494852	13	2.2	14	94	5	53	66	0	3	30	1.07
3500542--3500800	50	5.2	50	94	1	439	29	21	20	28	1.98
3501221--3501253	8	4.1	8	100	0	66	87	0	0	12	0.53
3505613--3505652	20	1.9	22	90	10	66	37	20	5	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505903--3505954	21	2.4	22	75	12	54	15	11	7	65	1.46
3511756--3511782	3	9.0	3	100	0	54	33	0	33	33	1.58
3515950--3516063	38	2.9	39	81	2	140	26	4	14	54	1.59
3516193--3516302	58	1.9	58	84	3	150	39	11	8	40	1.72
3517061--3517354	148	2.0	146	88	2	437	38	9	7	44	1.66
3517513--3517561	20	2.4	21	93	6	84	36	14	12	36	1.83
3518117--3518153	18	2.1	18	100	0	74	27	16	21	35	1.94
3520508--3520561	20	2.7	20	91	0	81	35	16	14	33	1.90
3520590--3520644	19	2.8	20	80	5	67	38	14	14	32	1.87
3523122--3523148	13	2.1	13	100	0	54	40	14	14	29	1.86
3529511--3529575	33	2.0	33	87	0	94	32	15	15	36	1.89
3529531--3529555	13	1.9	13	100	0	50	32	16	16	36	1.90
3529604--3529658	20	2.8	20	94	0	101	32	14	18	34	1.91
3532372--3532448	30	2.5	31	85	2	111	31	11	3	53	1.55
3537619--3537661	2	21.5	2	100	0	86	51	0	0	48	1.00
3537661--3537710	2	25.0	2	100	0	100	50	0	50	0	1.00
3537842--3537875	2	17.5	2	93	6	61	52	0	0	47	1.00
3538777--3538821	22	2.0	24	87	12	69	48	0	0	51	1.00
3538811--3538857	20	2.3	22	78	14	55	48	4	0	46	1.21
3538873--3538913	21	2.0	20	85	4	55	60	0	0	39	0.96
3538872--3538922	20	2.7	19	77	17	61	58	0	0	41	0.98
3544480--3544523	21	2.1	21	95	0	79	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545714--3545745	16	2.0	16	93	0	55	43	3	0	53	1.16
3546780--3546837	27	2.2	26	84	9	73	44	1	1	51	1.21
3547784--3547830	20	2.3	20	82	7	60	44	4	0	51	1.21
3547959--3548002	21	2.0	21	83	12	54	18	6	2	72	1.17
3548694--3548781	30	2.9	29	81	10	88	53	1	0	45	1.07
3555057--3555099	7	5.7	7	84	10	50	39	0	0	60	0.97
3555051--3555099	24	2.1	24	85	11	66	38	0	0	61	0.96
3555624--3555658	3	11.7	3	100	0	70	34	0	0	65	0.93
3556769--3556804	2	18.0	2	100	0	72	50	0	0	50	1.00
3559280--3559318	20	2.0	20	84	0	51	61	2	2	33	1.23
3560515--3560544	16	1.9	15	93	6	51	56	0	0	43	0.99
3560519--3560552	16	2.1	16	88	0	50	55	0	2	41	1.15
3560499--3560596	39	2.5	39	73	23	98	51	0	1	47	1.07
3562852--3562894	22	2.0	22	86	9	61	72	2	0	25	0.97
3562869--3562900	14	2.3	14	94	0	55	68	0	0	31	0.90
3562933--3562976	22	2.0	22	82	8	54	40	4	2	52	1.34
3566554--3566591	18	2.1	18	85	9	51	31	5	2	60	1.33
3566693--3566746	24	2.2	24	83	9	74	29	0	5	64	1.16
3572766--3572799	16	2.1	16	100	0	68	38	0	26	35	1.57
3574497--3574528	15	2.1	15	100	0	64	18	18	6	56	1.62
3574578--3574655	5	15.6	5	84	0	102	21	19	5	53	1.64
3574697--3575050	116	3.1	116	95	1	604	55	13	20	10	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574740--3575031	57	5.1	57	63	17	154	53	14	21	10	1.71
3575998--3576038	16	2.5	15	85	14	55	78	2	0	19	0.87
3580293--3580341	19	2.4	19	80	13	53	30	20	4	44	1.70
3588563--3589217	42	15.6	41	76	8	504	13	30	19	36	1.90
3590598--3590638	16	2.5	15	85	14	55	78	2	0	19	0.87
3598443--3598472	11	2.7	11	94	0	51	76	0	0	23	0.78
3598692--3598726	17	2.1	17	88	0	52	57	2	0	40	1.14
3599270--3599303	18	1.9	18	94	5	61	44	0	2	52	1.16
3600173--3600220	22	2.2	21	78	10	51	66	0	0	33	0.92
3602688--3602743	21	2.6	22	75	8	62	50	0	0	50	1.00

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