genome.fa.s127.2.7.7.80.10.50.1000.22.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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  22  of  26  ( 3103 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)
3526773--3526827	15	3.6	15	77	2	56	45	0	5	49	1.25
3526857--3526914	29	2.0	29	96	0	107	46	20	3	29	1.67
3529316--3529388	37	2.0	37	97	0	137	35	10	10	42	1.75
3533817--3533846	2	15.0	2	92	0	51	53	0	46	0	1.00
3534261--3534311	26	1.9	26	84	11	68	49	15	13	21	1.79
3536293--3536366	30	2.5	30	84	4	96	44	4	10	40	1.58
3537624--3537675	2	27.0	2	77	14	56	50	3	0	46	1.20
3537624--3537675	7	6.8	8	78	14	56	50	3	0	46	1.20
3538972--3539021	22	2.3	21	80	10	55	44	2	2	52	1.24
3539360--3539386	2	13.5	2	100	0	54	51	0	0	48	1.00
3539931--3539964	17	2.0	17	94	0	59	29	20	14	35	1.93
3540146--3540176	3	10.3	3	100	0	62	64	0	0	35	0.94
3540383--3540410	2	14.0	2	100	0	56	50	0	0	50	1.00
3542360--3542385	6	4.3	6	100	0	52	65	0	0	34	0.93
3542419--3542522	53	1.9	54	86	5	149	54	12	0	31	1.44
3542899--3542943	22	2.0	22	95	0	81	55	6	13	24	1.62
3548056--3548097	16	2.6	16	84	0	57	40	11	14	33	1.82
3548107--3548145	16	2.4	16	78	0	51	46	23	15	15	1.83
3550572--3550752	99	1.8	100	86	3	267	35	3	7	53	1.47
3551215--3551267	16	3.3	16	83	0	70	45	18	9	26	1.80
3552765--3552819	20	2.6	22	75	13	62	34	3	0	61	1.13
3553225--3553279	26	2.1	27	83	10	69	52	3	10	32	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553508--3553559	18	3.1	17	83	5	52	34	0	1	63	1.06
3554858--3554921	31	2.1	31	82	5	76	54	0	0	45	0.99
3555798--3555830	14	2.3	15	89	5	50	48	0	0	51	1.00
3555798--3555835	15	2.6	15	87	4	51	47	0	0	52	1.00
3556463--3556499	19	1.9	19	88	0	56	37	2	0	59	1.12
3557674--3558842	348	3.3	348	95	2	2024	21	21	19	38	1.94
3563670--3563751	27	3.2	25	73	14	76	36	9	1	52	1.42
3563669--3563751	26	3.2	26	75	16	89	36	9	1	53	1.42
3564021--3564077	9	6.1	10	77	18	61	71	0	0	28	0.86
3564024--3564194	17	9.8	17	69	18	77	66	1	0	32	1.02
3564123--3564187	21	3.0	21	82	6	60	67	1	0	30	1.00
3564142--3564193	13	4.2	13	78	4	54	75	1	0	23	0.91
3564535--3564564	11	2.7	11	94	0	51	16	43	16	23	1.87
3564862--3564895	3	11.3	3	100	0	68	32	0	0	67	0.91
3565668--3565693	13	2.0	13	100	0	52	30	15	15	38	1.88
3566401--3566444	21	2.1	21	83	8	54	25	31	4	38	1.76
3568227--3568252	13	2.0	13	100	0	52	38	15	15	30	1.88
3570322--3570352	15	2.1	15	93	0	53	12	22	16	48	1.80
3572156--3572200	21	2.1	21	84	8	56	22	20	4	53	1.63
3574416--3574441	13	2.0	13	100	0	52	30	15	15	38	1.88
3575084--3575126	16	2.8	14	80	19	50	32	0	0	67	0.91
3578341--3578385	22	2.2	20	84	8	54	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3578338--3578384	7	6.6	7	79	13	51	61	0	0	38	0.96
3578641--3578683	13	3.5	13	81	12	54	39	0	0	60	0.97
3578645--3578670	11	2.4	11	100	0	52	46	0	0	53	1.00
3579134--3579209	15	4.7	15	75	15	55	43	1	0	55	1.08
3580027--3580061	6	5.8	6	90	10	54	45	0	0	54	0.99
3580145--3580191	21	2.2	21	81	7	60	46	4	6	42	1.48
3580600--3580667	5	12.6	5	78	9	55	38	5	0	55	1.24
3581137--3581210	30	2.5	30	86	6	98	56	0	0	43	0.99
3581160--3581256	30	3.3	29	80	8	97	54	0	4	41	1.19
3581296--3581324	3	9.7	3	100	0	58	31	0	0	68	0.89
3581700--3581737	15	2.5	15	82	0	58	31	0	0	68	0.90
3586624--3586654	16	1.9	16	93	0	53	61	0	3	35	1.12
3586738--3586785	21	2.4	21	75	6	55	62	4	2	31	1.26
3587058--3587100	16	2.8	16	85	3	52	51	0	13	34	1.42
3587244--3587287	22	2.0	23	86	4	63	45	9	0	45	1.35
3587992--3588030	19	2.1	19	90	9	62	30	0	0	69	0.89
3588791--3588831	2	20.5	2	100	0	82	51	0	0	48	1.00
3589391--3589439	18	2.6	19	78	15	57	57	0	0	42	0.99
3589414--3589480	31	2.3	29	85	12	86	52	1	0	46	1.09
3589561--3589614	22	2.5	22	81	6	65	62	1	0	35	1.06
3589448--3589724	109	2.5	111	83	7	346	53	2	1	42	1.23
3589693--3589752	22	2.6	24	78	7	70	63	6	1	28	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3589675--3589751	23	3.3	23	78	10	77	62	6	1	29	1.28
3589671--3589773	47	2.2	47	80	13	115	61	6	0	31	1.29
3590046--3590402	122	2.9	120	82	9	397	42	3	1	52	1.27
3590957--3591006	22	2.3	22	86	3	66	40	2	0	58	1.10
3594524--3594692	92	1.8	92	84	0	230	33	17	8	41	1.79
3594648--3594907	68	3.8	68	88	3	362	31	16	10	41	1.82
3594648--3594907	138	1.9	136	86	4	371	31	16	10	41	1.82
3594840--3595453	92	6.9	87	88	4	822	33	17	9	40	1.81
3594836--3595692	267	3.3	264	84	8	961	33	17	8	40	1.80
3595398--3595510	57	2.0	57	92	0	190	32	20	8	38	1.83
3595454--3595692	91	2.6	91	92	3	392	33	17	7	41	1.77
3595213--3595852	239	2.7	240	93	1	1077	33	17	7	41	1.78
3595637--3595749	57	2.0	57	91	0	181	33	20	7	38	1.82
3595546--3595841	149	2.0	148	88	2	443	34	17	7	40	1.77
3595059--3595885	331	2.5	331	75	13	922	34	17	7	40	1.79
3596437--3596779	123	2.8	122	84	10	428	53	2	2	41	1.29
3596750--3596783	15	2.2	15	89	5	50	58	0	0	41	0.98
3597084--3597161	23	3.3	23	75	13	70	32	1	2	64	1.15
3597109--3597151	22	2.0	21	86	8	61	34	0	4	60	1.17
3597061--3597161	48	2.1	48	85	8	136	32	0	3	62	1.20
3597111--3597388	110	2.5	116	81	13	330	43	1	2	52	1.23
3597219--3597276	20	2.8	20	78	17	57	34	0	3	62	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3597319--3597374	19	2.8	20	76	10	62	51	0	1	46	1.11
3597356--3597419	28	2.3	28	84	12	87	46	0	0	53	1.00
3600214--3600261	25	1.9	25	83	8	62	43	0	4	52	1.20
3600286--3600316	13	2.3	14	94	5	55	54	3	0	41	1.16
3600401--3600447	13	3.4	14	82	8	60	44	0	2	53	1.12
3600564--3600588	5	5.0	5	100	0	50	40	40	20	0	1.52
3601110--3601151	6	7.0	6	91	0	57	42	0	7	50	1.30
3601110--3601151	8	5.2	8	91	0	57	42	0	7	50	1.30
3601110--3601151	14	3.0	14	92	0	66	42	0	7	50	1.30
3601381--3601420	3	13.3	3	83	0	53	60	2	5	32	1.32
3601375--3601420	9	5.1	9	89	0	56	56	2	8	32	1.42
3602346--3602410	30	2.2	30	83	5	78	47	1	1	49	1.20
3604729--3604764	2	18.0	2	100	0	72	50	0	0	50	1.00
3610104--3610167	32	2.0	33	87	3	94	50	0	1	48	1.10
3610118--3610170	16	3.3	16	74	10	54	52	0	0	47	1.00
3610186--3610215	14	2.1	15	93	6	53	43	0	0	56	0.99
3612610--3612644	11	3.2	11	87	0	52	62	0	0	37	0.95
3613807--3614024	34	6.4	34	86	1	285	26	6	24	41	1.80
3613807--3614025	102	2.1	101	90	2	348	26	6	25	41	1.80
3614332--3614375	19	2.3	19	92	0	70	34	18	15	31	1.92
3618427--3618644	34	6.4	34	89	0	312	27	7	24	40	1.81
3618427--3618645	102	2.2	101	93	1	375	27	7	24	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3624733--3624757	13	1.9	13	100	0	50	32	0	0	68	0.90
3625190--3625241	16	3.2	16	79	12	61	40	0	0	59	0.97
3628042--3628067	2	13.0	2	100	0	52	0	0	50	50	1.00
3631958--3631991	16	2.1	16	88	0	50	44	26	8	20	1.81
3631981--3632042	32	1.9	32	83	0	79	50	12	8	29	1.69
3631982--3632053	16	4.4	16	75	1	63	50	13	9	26	1.73
3631993--3632059	32	2.1	32	85	2	89	46	13	11	28	1.79
3632245--3632290	22	2.1	21	88	4	65	60	0	0	39	0.97
3632676--3632719	18	2.4	18	82	10	54	40	0	2	56	1.11
3633208--3633288	31	2.6	31	84	3	110	37	14	28	19	1.92

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