genome.fa.s129.2.7.7.80.10.50.1000.22.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: Scaffold129
Parameters: 2 7 7 80 10 50 1000
Length:  3652842

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  22  of  23  ( 2702 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)
3407031--3407056	13	2.0	13	100	0	52	30	15	15	38	1.88
3407764--3407807	21	2.1	21	83	8	54	25	31	4	38	1.76
3411704--3411734	15	2.1	15	93	0	53	12	22	16	48	1.80
3413538--3413582	21	2.1	21	84	8	56	22	20	4	53	1.63
3415798--3415823	13	2.0	13	100	0	52	30	15	15	38	1.88
3418255--3418319	32	2.0	33	84	3	87	40	12	16	30	1.86
3418274--3418300	13	2.1	13	100	0	54	40	14	14	29	1.86
3421915--3421952	19	2.0	19	85	10	51	39	5	10	44	1.61
3425843--3425909	31	2.2	30	78	2	71	17	29	26	25	1.98
3425946--3426173	42	5.7	41	63	18	102	42	10	24	23	1.85
3426026--3426182	83	1.9	84	85	4	219	45	8	24	20	1.79
3426167--3426237	34	2.0	36	83	5	92	36	11	26	25	1.90
3426172--3426247	34	2.2	36	80	4	84	35	11	28	23	1.90
3427360--3427395	14	2.5	14	90	4	54	5	0	11	83	0.80
3427360--3427412	15	3.4	16	82	12	51	11	0	7	81	0.88
3428115--3428163	26	2.0	24	84	8	62	30	14	24	30	1.94
3428729--3428790	32	1.9	33	96	3	117	33	9	19	37	1.84
3428728--3428843	19	6.7	19	76	22	121	33	10	18	37	1.84
3428728--3428843	51	2.2	52	93	1	198	33	10	18	37	1.84
3428781--3428848	32	2.1	32	94	0	118	33	10	17	38	1.84
3428800--3428824	13	1.9	13	100	0	50	36	16	16	32	1.90
3428884--3428910	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428919--3429049	52	2.5	52	89	0	208	35	17	16	30	1.92
3444158--3444240	28	2.9	28	75	12	71	30	32	15	21	1.95
3444216--3444381	34	4.8	33	78	9	154	20	29	12	37	1.89
3444243--3444406	34	5.1	32	75	13	149	20	30	12	35	1.90
3444249--3444376	68	1.9	69	88	3	197	21	31	12	35	1.90
3444349--3444406	27	2.1	27	87	0	80	24	29	15	31	1.95
3444382--3444457	31	2.6	29	78	17	79	35	27	17	19	1.94
3444464--3444750	49	5.9	49	79	9	248	25	27	18	29	1.98
3444557--3444745	98	1.9	100	87	6	278	23	27	19	29	1.98
3445640--3445696	13	3.9	13	76	24	60	35	14	17	33	1.90
3445620--3445720	32	3.1	32	97	1	184	34	11	17	35	1.87
3445618--3445715	19	5.8	18	71	28	90	33	12	17	36	1.87
3454030--3454110	32	2.5	32	95	0	144	33	13	18	34	1.90
3454040--3454102	19	3.7	18	74	24	64	31	12	19	36	1.89
3461057--3461094	11	3.5	11	82	7	51	78	21	0	0	0.74
3462380--3462721	31	10.6	31	81	9	176	22	30	14	33	1.93
3462375--3462785	34	12.6	32	78	10	295	22	30	12	34	1.92
3462410--3462792	166	2.3	164	81	8	428	22	30	13	33	1.92
3462892--3463654	49	15.9	48	76	12	669	24	25	18	31	1.97
3463028--3463453	43	9.1	43	77	13	321	25	25	17	31	1.97
3462892--3463654	95	8.0	94	82	10	765	24	25	18	31	1.97
3463261--3463703	101	4.4	101	87	2	590	24	25	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3462982--3463703	49	14.8	49	79	9	710	24	25	18	31	1.97
3464270--3464306	16	2.3	16	100	0	74	32	27	32	8	1.86
3464492--3464548	13	3.9	13	72	24	51	33	14	19	33	1.91
3464491--3464575	32	2.7	32	96	0	152	31	12	18	36	1.89
3464505--3464567	19	3.7	18	74	24	64	31	12	19	36	1.89
3474927--3475001	20	3.7	20	90	1	96	32	16	10	41	1.82
3475093--3475216	51	2.4	51	94	0	221	24	18	18	38	1.93
3475322--3475400	31	2.5	31	78	11	90	21	18	25	34	1.96
3475609--3475692	31	2.7	31	86	0	123	14	26	30	28	1.95
3475796--3475941	42	3.5	42	71	17	142	39	11	26	22	1.88
3475774--3475973	83	2.4	86	84	7	259	41	11	26	21	1.86
3485050--3485106	22	2.7	22	91	5	91	33	10	12	43	1.76
3496462--3496528	27	2.5	26	88	7	98	26	17	31	23	1.97
3498651--3498705	20	2.7	21	88	5	85	30	18	12	38	1.88
3500918--3500975	19	3.1	18	83	11	80	32	15	15	36	1.89
3500959--3500984	13	2.0	13	100	0	52	38	15	15	30	1.88
3502973--3503015	20	2.0	21	86	8	61	18	23	34	23	1.96
3503281--3503324	21	2.1	22	87	8	65	43	0	25	31	1.55
3508016--3508051	18	2.0	18	88	0	54	27	33	2	36	1.72
3509734--3509789	19	2.8	20	84	12	80	35	17	14	32	1.90
3509756--3509820	32	2.0	32	85	8	87	41	13	15	29	1.86
3511827--3511895	33	2.1	33	86	5	95	39	17	11	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3511924--3511996	20	3.7	19	81	3	65	41	16	12	30	1.85
3511944--3511996	19	2.7	19	85	2	70	41	15	15	28	1.87
3512568--3512609	22	1.9	22	90	0	66	23	35	4	35	1.76
3514499--3514525	13	2.1	13	100	0	54	40	14	14	29	1.86
3518597--3518623	13	2.1	13	100	0	54	29	14	14	40	1.86
3518578--3518639	33	1.9	32	90	3	97	27	16	16	40	1.89
3519121--3519177	13	3.9	13	76	24	60	35	14	17	33	1.90
3519101--3519198	32	3.0	32	96	1	178	34	12	17	35	1.87
3519099--3519196	19	5.8	18	71	28	90	33	12	17	36	1.87
3519101--3519229	65	2.0	65	81	6	154	37	13	15	33	1.86
3519238--3519387	52	2.9	50	88	5	210	34	18	16	30	1.93
3528123--3528425	30	9.7	30	77	12	166	23	31	14	30	1.94
3528123--3528418	61	4.7	62	76	12	200	23	31	13	30	1.94
3528269--3529041	34	23.5	32	75	11	473	20	34	12	32	1.90
3528182--3529012	67	12.8	66	76	12	602	20	33	13	32	1.91
3528213--3529041	158	5.1	167	85	6	792	20	34	12	32	1.91
3528471--3529041	99	5.7	98	80	9	265	20	34	12	32	1.90
3529029--3529160	33	4.0	33	92	1	221	28	34	17	19	1.95
3529209--3529859	43	14.1	43	79	12	647	25	25	18	30	1.98
3529160--3529898	49	15.6	49	80	12	843	25	25	17	30	1.97
3529155--3529902	92	8.0	92	91	4	1183	25	25	17	31	1.97
3529414--3529481	21	3.2	21	63	19	50	25	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529813--3529931	52	2.2	54	82	4	143	28	24	11	35	1.91
3529981--3530078	49	2.0	49	87	0	142	21	26	21	30	1.98
3530675--3530731	13	3.9	13	72	24	51	36	15	15	31	1.90
3530655--3530752	32	3.0	32	90	1	151	36	13	15	34	1.86
3530772--3530796	13	1.9	13	100	0	50	32	16	16	36	1.90
3530785--3530933	52	2.9	50	85	6	199	34	17	16	31	1.93
3535512--3535549	13	2.9	13	96	0	67	34	18	15	31	1.92
3537600--3537624	13	1.9	13	100	0	50	36	16	16	32	1.90
3537582--3537651	32	2.2	32	94	0	122	32	12	17	37	1.87
3537559--3537643	19	4.7	19	70	18	65	36	12	15	35	1.86
3537668--3537709	21	2.0	21	95	0	75	40	9	21	28	1.84
3537696--3537721	13	2.0	13	100	0	52	30	15	15	38	1.88
3540077--3540419	51	6.6	51	83	5	413	29	25	11	34	1.91
3540077--3540419	52	6.6	51	84	3	429	29	25	11	34	1.91
3540077--3540419	155	2.2	155	94	0	596	29	25	11	34	1.91
3540399--3540473	27	2.7	27	89	6	107	24	33	20	22	1.97
3540076--3540525	52	8.6	51	75	12	369	28	25	12	33	1.92
3540426--3540601	79	2.2	80	86	1	237	28	27	14	29	1.95
3540300--3540801	237	2.1	239	84	3	647	27	27	13	31	1.94
3540588--3540791	107	1.9	107	81	2	248	25	27	16	30	1.97
3540667--3540889	79	2.8	78	83	5	277	26	27	15	30	1.96
3542605--3542678	19	3.7	19	84	10	78	29	16	17	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3542708--3542760	20	2.7	20	82	11	65	37	15	16	30	1.90
3544484--3544867	155	2.5	155	79	3	407	27	15	16	39	1.90
3547838--3547953	52	2.3	51	84	3	162	30	15	8	45	1.76
3551233--3551441	58	3.6	58	75	11	189	34	16	23	25	1.95
3551417--3551855	104	4.2	104	84	0	529	35	16	23	25	1.95
3551417--3551877	156	3.0	155	83	4	577	35	16	23	25	1.94
3551417--3551855	52	8.4	52	82	2	479	35	16	23	25	1.95
3552392--3552469	13	5.9	14	71	8	56	43	17	3	34	1.68
3553731--3553787	9	6.8	9	86	11	77	10	0	8	80	0.90
3553732--3553790	17	3.6	16	82	13	84	11	0	8	79	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23