genome.fa.s2294.2.7.7.80.10.50.1000.11.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  11  of  14  ( 1587 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)
3390635--3390711	27	2.9	27	94	0	127	31	22	33	12	1.92
3391546--3391577	16	2.0	16	93	0	55	6	6	21	65	1.38
3392310--3392343	17	1.9	17	88	5	50	32	14	8	44	1.76
3418393--3418461	22	3.1	22	89	0	111	42	17	23	17	1.89
3418455--3418492	19	2.0	19	89	0	58	31	15	31	21	1.94
3418397--3418579	25	7.8	24	77	16	163	37	19	25	18	1.94
3418397--3418626	50	4.7	50	80	17	211	37	19	24	18	1.94
3418397--3418626	25	9.4	25	75	16	146	37	19	24	18	1.94
3428339--3428402	20	3.2	20	78	10	67	37	0	3	59	1.13
3428346--3428402	5	11.6	5	75	17	57	40	0	1	57	1.09
3433282--3433367	24	3.5	25	77	6	88	38	19	25	16	1.92
3433897--3433942	21	2.2	21	84	0	56	43	15	2	39	1.59
3433906--3433947	21	2.0	21	85	0	57	40	21	0	38	1.53
3439100--3439135	18	2.0	18	88	0	54	16	5	55	22	1.62
3443544--3443875	3	110.7	3	99	0	655	67	0	0	32	0.91
3444498--3444535	19	2.0	19	85	10	51	76	2	2	18	1.02
3445458--3445549	44	2.1	44	83	2	112	28	26	14	31	1.94
3445551--3446228	132	5.2	131	92	1	1034	26	24	18	29	1.98
3445628--3446408	44	17.8	44	67	8	302	26	24	18	30	1.98
3445551--3446232	131	5.2	132	92	0	1046	26	24	18	29	1.98
3446048--3446408	176	2.1	176	97	1	688	27	23	18	29	1.98
3446166--3446514	132	2.6	131	86	0	464	27	23	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3445916--3446510	308	1.9	308	90	0	940	27	23	18	30	1.98
3446534--3446878	50	6.9	50	66	5	178	24	23	22	30	1.99
3446534--3446923	100	3.9	100	93	0	611	24	23	22	30	1.99
3447461--3447591	65	2.0	65	93	0	226	32	14	32	20	1.93
3448763--3448795	12	3.0	11	87	12	50	72	15	0	12	1.12
3448768--3448857	46	2.0	46	84	4	119	72	7	11	8	1.29
3448832--3448860	14	2.0	15	93	6	51	75	0	20	3	0.94
3448768--3448874	46	2.3	45	81	9	110	69	7	14	9	1.36
3449676--3449715	15	2.7	15	84	11	55	70	0	17	12	1.18
3450926--3451187	88	3.0	88	91	1	400	27	22	25	24	2.00
3451538--3451686	44	3.4	44	87	3	219	30	22	20	26	1.98
3451537--3451725	88	2.1	88	80	4	220	30	22	21	25	1.98
3451717--3452032	40	7.6	40	68	12	170	31	23	20	25	1.98
3451717--3452032	43	7.5	43	63	19	112	31	23	20	25	1.98
3451671--3452032	127	2.9	127	92	0	600	31	23	20	24	1.98
3451671--3452091	127	3.3	127	89	0	592	31	23	20	24	1.98
3452551--3452591	16	2.5	17	84	11	59	65	24	2	7	1.30
3452962--3452994	13	2.7	13	90	9	52	18	0	0	81	0.68
3452959--3452993	18	1.9	18	94	0	61	17	0	0	82	0.66
3471640--3471703	21	3.0	21	76	0	65	35	42	0	21	1.54
3471632--3471678	14	3.4	14	81	0	58	38	42	0	19	1.51
3472265--3472540	41	6.7	41	85	1	365	31	27	21	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3472577--3472665	40	2.2	40	82	5	101	19	22	20	38	1.94
3472747--3472775	2	14.5	2	100	0	58	48	0	0	51	1.00
3475206--3475230	11	2.3	11	100	0	50	0	16	0	84	0.63
3482161--3482334	90	1.9	90	92	0	294	24	4	13	56	1.56
3482188--3482427	90	2.7	88	78	7	207	24	4	13	57	1.56
3485135--3485198	5	12.4	5	73	18	51	26	18	0	54	1.44
3485182--3485226	23	2.0	23	83	12	58	20	8	0	71	1.12
3485444--3485477	14	2.4	14	90	0	50	2	2	14	79	0.97
3485648--3485687	21	1.9	21	94	0	71	22	12	5	60	1.52
3485714--3486047	21	14.4	21	67	21	116	26	12	0	60	1.37
3485703--3486057	48	7.5	48	83	6	422	26	12	0	60	1.36
3485716--3486057	189	1.8	186	89	1	540	26	12	0	59	1.37
3485734--3486095	27	14.9	25	67	22	141	25	13	0	60	1.37
3485713--3486106	74	5.5	74	72	16	271	26	12	0	60	1.36
3487144--3487206	32	2.0	32	100	0	126	53	17	9	19	1.70
3488989--3489080	34	2.7	33	83	11	114	39	1	18	41	1.58
3489156--3489674	125	4.1	126	86	3	708	36	16	17	29	1.92
3489156--3489674	251	2.1	251	88	2	776	36	16	17	29	1.92
3491740--3491855	21	5.5	21	74	0	106	18	18	18	44	1.87
3491722--3491933	42	5.1	42	76	6	162	20	21	16	42	1.89
3491808--3491882	21	3.6	21	70	0	69	20	20	17	42	1.89
3495598--3495645	24	2.0	25	87	4	71	60	2	0	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3495593--3495656	25	2.5	27	75	19	73	53	1	0	45	1.10
3497113--3497165	17	3.4	17	72	20	60	15	11	18	54	1.70
3497112--3497170	30	2.0	30	93	0	100	15	11	18	54	1.71
3498771--3498808	20	1.9	20	88	0	58	47	0	5	47	1.24
3498780--3498818	20	2.0	20	84	0	51	48	0	5	46	1.24
3498895--3498936	20	2.1	21	91	8	70	47	9	9	33	1.68
3498920--3498971	14	3.7	14	89	0	77	38	13	5	42	1.68
3499006--3499037	7	4.6	7	100	0	64	59	12	0	28	1.34
3500175--3500239	30	2.2	30	97	0	121	38	3	30	27	1.72
3519268--3519337	36	1.9	36	88	0	104	31	28	12	27	1.93
3521569--3521642	37	2.0	37	100	0	148	40	5	13	40	1.67
3522524--3522576	26	2.0	27	85	7	72	69	0	0	30	0.88
3522545--3522579	18	1.9	18	94	0	61	65	0	0	34	0.93
3532444--3532477	12	2.8	12	100	0	68	44	0	0	55	0.99
3533149--3533413	46	5.8	46	94	0	431	37	7	23	30	1.83
3546344--3546392	20	2.5	20	86	0	62	30	6	6	57	1.48
3547174--3547205	11	2.9	11	100	0	64	53	0	0	46	1.00
3547189--3547222	17	2.0	17	88	0	50	64	0	0	35	0.94
3547178--3547260	28	2.8	29	83	9	87	57	0	2	39	1.12
3547619--3547691	28	2.7	27	83	8	94	57	6	13	21	1.60
3550305--3550447	58	2.5	57	85	5	180	44	0	4	50	1.26
3550614--3550652	16	2.4	16	91	0	60	30	23	7	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574110--3574140	2	15.5	2	93	0	53	0	51	0	48	1.00
3577662--3577850	87	2.2	87	100	0	378	43	4	6	44	1.50
3601769--3602308	132	4.1	132	93	0	918	29	22	18	28	1.97
3601856--3602300	44	10.1	45	63	16	126	29	22	17	29	1.97
3611402--3611482	39	2.1	39	88	4	119	20	20	4	53	1.64
3611817--3611856	20	2.0	20	85	9	55	57	0	2	40	1.12
3619473--3619520	19	2.5	19	81	15	55	43	6	0	50	1.27
3630202--3630243	22	1.9	22	90	0	66	2	9	23	64	1.35
3641667--3641695	5	6.0	5	92	8	51	0	17	0	82	0.66
3658733--3658782	3	16.7	3	95	0	91	36	0	32	32	1.58
3666153--3666205	26	2.0	26	85	7	72	24	18	20	35	1.95
3670212--3670351	46	3.0	45	93	4	235	32	9	27	30	1.88
3673287--3673346	31	1.9	32	86	10	88	35	25	16	23	1.95
3673729--3673775	21	2.2	21	88	0	67	2	44	17	36	1.60
3681179--3681239	26	2.4	26	76	10	63	31	1	19	47	1.59
3682334--3682358	2	12.5	2	100	0	50	52	0	0	48	1.00
3682514--3682566	24	2.2	24	89	0	79	49	5	1	43	1.37
3684123--3684282	72	2.2	73	87	3	225	26	19	17	36	1.94
3684390--3684456	34	1.9	35	96	3	127	40	2	8	47	1.50
3684778--3684845	7	9.6	7	82	3	64	45	32	1	20	1.60
3684870--3685034	41	4.1	40	77	8	131	20	23	16	40	1.91
3684900--3685034	41	3.3	41	79	7	134	17	23	17	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3685598--3685640	22	2.0	22	81	9	52	55	9	13	20	1.66
3691287--3691321	18	1.9	18	88	0	52	54	2	2	40	1.30
3694688--3694715	6	4.7	6	100	0	56	17	67	0	14	1.22
3695721--3695767	7	6.9	7	76	13	53	23	0	4	72	1.02
3696218--3696273	27	2.1	27	83	6	71	66	1	0	32	1.03
3707168--3707208	17	2.3	18	83	4	57	39	21	0	39	1.54
3715622--3715674	21	2.5	21	87	0	79	30	35	9	24	1.87
3716896--3716945	21	2.4	21	89	0	82	28	8	34	30	1.86
3732572--3732624	27	2.0	27	82	10	65	56	0	9	33	1.32
3732701--3732734	14	2.4	14	90	0	50	35	2	2	58	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14