genome.fa.s127.2.7.7.80.10.50.1000.24.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: 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  24  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)
3746912--3746938	3	9.0	3	100	0	54	33	33	0	33	1.58
3746921--3746983	34	1.9	32	84	9	83	38	20	6	34	1.78
3748898--3748946	23	2.1	22	78	10	53	36	6	2	55	1.37
3749008--3749058	17	3.1	17	81	13	61	50	0	0	49	1.00
3749516--3749591	36	2.1	35	80	7	82	43	2	1	52	1.23
3750267--3750300	16	2.0	16	88	11	50	20	0	5	73	1.04
3750532--3750581	25	2.0	26	88	4	75	26	2	4	68	1.18
3751532--3751568	20	1.9	20	88	5	58	56	2	0	40	1.13
3757359--3757398	2	20.0	2	100	0	80	50	0	0	50	1.00
3757662--3757693	9	3.8	9	84	16	50	34	0	0	65	0.93
3759272--3759315	22	2.0	22	87	12	65	36	0	0	63	0.95
3759272--3759315	21	2.0	21	87	12	63	36	0	0	63	0.95
3760671--3760709	17	2.2	17	86	4	51	30	2	2	64	1.21
3766438--3766476	20	2.0	20	90	10	62	35	2	0	61	1.10
3766513--3766578	28	2.5	25	83	13	80	40	0	0	59	0.98
3766563--3766616	23	2.3	24	83	3	65	29	1	3	64	1.21
3767252--3767316	30	2.2	31	79	15	77	55	0	0	44	0.99
3767604--3767656	17	3.1	17	77	15	56	56	0	0	43	0.99
3768008--3768107	20	4.8	20	68	18	60	42	0	1	57	1.05
3768028--3768081	25	2.2	25	84	12	69	50	0	0	50	1.00
3768681--3768714	14	2.2	16	90	10	54	44	0	0	55	0.99
3768668--3768720	15	3.8	14	80	11	56	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3770044--3770103	32	1.9	31	82	3	75	53	0	5	41	1.23
3770536--3770563	13	2.2	13	100	0	56	78	0	0	21	0.75
3770538--3770581	17	2.6	17	74	0	52	68	0	0	31	0.90
3770635--3770702	21	3.2	21	82	12	68	39	1	0	58	1.07
3770652--3770697	23	2.1	23	88	8	69	47	0	0	52	1.00
3770768--3770816	17	2.7	18	81	15	57	59	0	0	40	0.98
3770783--3770821	18	2.2	18	86	13	55	51	0	0	48	1.00
3771213--3771270	28	2.1	29	81	12	77	56	0	0	43	0.99
3771333--3771429	10	9.6	10	66	22	51	54	2	1	42	1.19
3773875--3773923	23	2.1	23	100	0	98	32	24	4	38	1.74
3774953--3774993	2	20.5	2	100	0	82	48	0	0	51	1.00
3776854--3776902	24	2.0	24	100	0	98	53	8	8	30	1.60
3777636--3777691	15	3.5	15	73	21	60	53	0	7	39	1.28
3778340--3778623	142	2.0	141	90	0	451	47	2	7	42	1.44
3780221--3780274	21	2.6	21	76	5	56	48	1	1	48	1.23
3781221--3781247	10	2.7	10	100	0	54	51	11	0	37	1.37
3784547--3784588	18	2.3	18	95	0	75	45	0	2	52	1.13
3787615--3787917	50	6.1	50	88	2	385	30	15	19	34	1.93
3791978--3792233	50	5.1	50	85	2	311	29	16	19	33	1.94
3793347--3793380	2	17.0	2	100	0	68	50	0	0	50	1.00
3794887--3794941	24	2.2	25	80	6	67	47	5	3	43	1.44
3796494--3796533	18	2.2	18	100	0	80	45	5	12	37	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797082--3797114	2	17.0	2	87	6	50	48	3	0	48	1.17
3797910--3797942	17	1.9	17	88	11	50	72	6	6	15	1.24
3800297--3800439	71	2.0	73	87	5	211	27	18	7	46	1.76
3803546--3803619	27	2.8	26	67	4	60	55	0	0	44	0.99
3806508--3806563	6	9.7	6	82	7	53	50	0	8	41	1.34
3806506--3806560	8	6.9	8	87	0	83	50	0	9	40	1.34
3806504--3806563	10	6.0	10	86	0	75	50	0	8	41	1.33
3806506--3806560	24	2.3	24	96	0	101	50	0	9	40	1.34
3806504--3806563	16	3.6	16	89	8	93	50	0	8	41	1.33
3812137--3812209	33	2.2	33	85	0	92	42	10	8	38	1.70
3813948--3813986	21	1.9	20	89	5	60	20	17	12	48	1.80
3819596--3819646	27	1.9	26	88	4	75	33	11	29	25	1.91
3822103--3822177	20	3.7	20	85	7	98	45	9	13	32	1.75
3828253--3828300	16	3.0	16	71	0	51	43	6	6	43	1.54
3830131--3830159	14	2.1	14	100	0	58	31	6	6	55	1.53
3831019--3831086	30	2.3	29	85	12	86	35	14	0	50	1.44
3831072--3831116	23	1.9	24	86	4	65	33	4	0	62	1.15
3840561--3840600	2	20.0	2	84	0	53	42	0	7	50	1.30
3845716--3845818	16	6.4	16	71	6	66	42	6	8	41	1.62
3845716--3845818	32	3.2	32	78	0	107	42	6	8	41	1.62
3845919--3845971	16	3.3	16	86	0	79	41	16	1	39	1.60
3846220--3846307	44	2.0	44	84	0	113	32	15	19	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3848255--3848305	23	2.2	23	89	0	75	41	9	17	31	1.82
3853748--3853826	38	2.1	38	100	0	158	55	5	13	25	1.59
3856600--3856641	22	1.9	22	90	0	66	23	2	35	38	1.68
3859237--3859295	15	3.8	16	80	13	70	62	0	0	37	0.95
3859228--3859298	11	5.7	13	73	21	55	61	0	0	38	0.96
3859233--3859295	30	2.1	30	88	5	92	63	0	0	36	0.95
3859228--3859301	38	2.0	36	87	10	105	62	0	0	37	0.96
3865354--3865395	22	1.9	22	90	9	68	64	0	0	35	0.94
3870190--3870221	2	16.0	2	100	0	64	50	0	0	50	1.00
3876257--3876312	29	1.9	29	92	0	94	35	25	7	32	1.83
3881797--3881875	36	2.2	36	97	2	149	37	6	15	40	1.72
3887596--3887723	47	2.8	46	83	3	150	34	21	24	20	1.97
3887879--3888021	28	5.0	28	80	10	155	23	16	28	30	1.96
3899083--3899541	229	2.0	228	88	3	683	31	19	13	35	1.91
3900474--3900530	14	4.0	14	72	4	51	75	1	17	5	1.07
3901688--3901749	32	1.9	33	86	3	90	43	1	3	51	1.27
3904854--3905123	129	2.0	136	88	8	405	41	3	0	54	1.22
3905026--3905079	22	2.3	23	78	12	58	40	1	0	57	1.09
3905362--3905412	24	2.2	22	86	13	68	62	0	1	35	1.06
3905362--3905412	23	2.2	23	89	6	77	62	0	1	35	1.06
3905593--3905634	21	1.9	23	90	9	70	54	4	4	35	1.42
3905593--3905640	21	2.3	22	86	13	66	56	4	4	35	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3905696--3905788	34	2.7	34	74	16	102	47	0	0	52	1.00
3906086--3906158	36	2.1	35	82	10	87	38	4	2	54	1.34
3906124--3906250	27	4.4	28	72	22	118	44	2	0	52	1.13
3906166--3906261	35	2.7	35	78	15	99	42	3	0	54	1.16
3906952--3906981	15	2.0	15	100	0	60	86	0	0	13	0.57
3907480--3907545	33	2.0	33	93	0	114	12	15	13	59	1.62
3909356--3909403	24	2.0	23	92	4	78	39	14	4	41	1.65
3909819--3909855	4	9.2	4	100	0	74	24	0	0	75	0.80
3911851--3911897	22	2.1	22	88	7	69	40	4	8	46	1.54
3912405--3912439	2	17.5	2	93	0	61	51	0	2	45	1.16
3913270--3913417	39	3.7	38	73	15	113	56	1	5	36	1.31
3913571--3913694	12	9.8	12	67	22	58	55	2	0	41	1.18
3915455--3915488	3	11.3	3	100	0	68	32	0	0	67	0.91
3915809--3916081	9	31.3	9	66	22	99	64	1	1	31	1.14
3915802--3915896	32	3.1	32	82	7	99	68	3	1	27	1.11
3915813--3915953	40	3.4	38	73	20	108	64	2	2	30	1.19
3915842--3915891	22	2.2	24	89	7	77	66	0	0	34	0.92
3915827--3915990	85	1.9	86	86	10	233	65	2	1	30	1.13
3915862--3915971	29	3.9	27	73	14	98	63	2	1	31	1.19
3915862--3916019	39	3.9	39	73	17	124	64	1	1	31	1.15
3915810--3916081	56	4.8	54	77	14	191	64	1	1	31	1.14
3915917--3916081	57	2.9	55	82	9	167	64	1	1	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3915917--3916035	47	2.4	49	79	13	118	67	0	0	31	1.03
3915862--3916026	17	9.4	17	70	19	97	64	1	1	31	1.14
3916094--3916133	17	2.4	17	87	8	55	25	2	2	70	1.13
3916168--3916230	27	2.4	27	91	2	101	28	3	3	65	1.24
3916908--3917048	45	3.1	44	73	14	119	51	1	2	43	1.25
3917010--3917072	32	2.0	31	81	3	72	55	0	0	44	0.99
3917351--3917387	11	3.4	11	84	0	56	37	0	0	62	0.96
3921218--3921394	92	1.9	92	84	6	234	34	15	7	42	1.74
3921411--3921944	88	5.9	89	82	5	558	34	15	8	41	1.78
3921411--3921944	271	2.0	267	83	5	682	34	15	8	41	1.78

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