genome.fa.s105.2.7.7.80.10.50.1000.4.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1849 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)
503972--503996	2	12.5	2	100	0	50	52	0	0	48	1.00
505685--505723	16	2.4	16	78	0	51	56	0	0	43	0.99
507416--507451	18	2.0	19	89	10	58	0	13	0	86	0.58
510660--510771	56	2.0	56	100	0	224	33	17	19	28	1.95
512544--512599	26	2.0	26	86	13	76	51	0	5	42	1.24
512817--512854	19	2.0	19	100	0	76	31	0	0	68	0.90
513146--513194	24	2.0	24	84	7	64	65	0	0	34	0.93
513124--513197	13	5.7	13	70	15	55	62	0	1	36	1.04
514448--514504	26	2.2	26	84	6	71	36	0	0	63	0.95
514425--514501	8	9.4	8	70	14	50	35	0	1	63	1.03
514504--514561	28	2.1	28	83	6	73	55	1	0	43	1.10
515074--515113	2	20.0	2	100	0	80	50	0	50	0	1.00
515759--515797	2	20.0	2	94	5	71	48	0	0	51	1.00
519635--519707	32	2.4	31	80	15	80	39	5	4	50	1.44
521743--521779	3	12.3	3	94	0	65	35	0	0	64	0.94
522456--522515	20	3.0	20	73	9	59	45	1	0	53	1.10
522856--522955	10	10.2	10	66	18	50	35	2	3	60	1.24
522944--522988	15	3.1	15	80	6	56	55	0	0	44	0.99
526542--526578	18	2.1	18	89	0	56	51	0	0	48	1.00
526878--526905	12	2.3	12	100	0	56	78	0	21	0	0.75
530959--531176	108	2.0	108	96	0	400	30	13	22	33	1.93
534916--534940	5	5.0	5	100	0	50	80	0	20	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535865--535913	25	2.0	25	87	0	71	46	2	12	38	1.53
536803--536871	23	3.1	21	70	12	57	60	0	0	39	0.97
536873--536901	15	1.9	15	100	0	58	48	3	0	48	1.18
538458--538521	11	6.1	10	75	15	58	26	0	3	70	1.02
550662--550710	22	2.1	22	85	7	62	51	4	0	44	1.20
550735--550790	11	5.8	10	78	18	57	60	0	0	39	0.97
550945--550982	12	3.2	12	85	14	53	44	0	0	55	0.99
550948--550998	11	4.5	11	78	9	50	45	0	0	54	0.99
551016--551048	10	3.3	10	87	12	50	48	0	0	51	1.00
557042--557072	14	2.1	15	94	5	55	90	0	9	0	0.46
557838--558053	110	2.0	107	95	3	389	31	18	15	34	1.92
558163--558208	5	9.0	5	82	2	56	71	2	26	0	0.97
558744--558793	14	3.3	15	79	15	59	34	2	2	62	1.18
558807--558836	15	1.9	16	93	6	53	30	0	0	70	0.88
563145--563191	18	2.7	17	75	12	51	42	0	0	57	0.98
566003--566130	5	26.0	5	65	17	54	37	0	0	61	1.02
565997--566096	17	5.5	18	73	17	73	40	0	0	60	0.97
565997--566130	16	7.8	17	69	20	75	38	0	0	61	1.02
566048--566120	23	3.2	23	75	13	71	38	0	0	61	0.96
566910--566965	26	2.1	27	86	6	78	44	0	0	55	0.99
566910--566977	26	2.5	27	77	17	70	45	1	0	52	1.09
567124--567190	27	2.3	27	82	10	71	55	0	1	43	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567149--567197	20	2.4	20	80	10	55	59	0	2	38	1.09
576841--576902	17	3.2	18	80	15	54	53	0	0	46	1.00
576864--576914	17	3.0	17	81	13	52	47	0	1	50	1.12
577714--577747	3	11.3	3	100	0	68	67	0	0	32	0.91
577872--577905	2	17.0	2	100	0	68	50	0	0	50	1.00
582697--582726	15	1.9	16	93	6	53	60	3	0	36	1.14
582772--582819	23	2.2	22	85	14	64	52	0	2	45	1.12
584294--584333	20	2.1	19	85	4	53	57	0	0	42	0.98
584334--584368	16	2.2	15	90	10	52	25	0	0	74	0.82
585368--585446	31	2.6	30	86	9	99	56	0	0	43	0.99
585368--585458	31	2.9	30	76	20	89	54	0	1	43	1.07
585386--585446	31	1.9	32	93	3	106	57	0	0	42	0.98
586518--586543	2	13.0	2	100	0	52	50	0	0	50	1.00
587026--587069	17	2.8	16	76	10	54	59	0	0	40	0.98
587287--587323	19	1.9	19	88	0	56	64	2	0	32	1.07
587483--587538	16	3.3	18	72	22	59	42	0	0	57	0.99
588483--588537	28	2.0	27	85	3	74	61	7	5	25	1.44
589283--589339	14	4.0	14	78	14	55	43	1	0	54	1.10
589311--589361	10	5.2	10	78	4	59	45	1	0	52	1.12
589312--589361	20	2.6	19	93	3	82	44	2	0	54	1.11
589302--589347	15	3.1	14	84	9	56	43	2	0	54	1.12
589320--589367	24	2.0	24	83	0	60	47	2	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589655--589688	16	2.0	18	88	11	54	50	0	0	50	1.00
597319--597343	2	12.5	2	100	0	50	48	0	0	52	1.00
597865--597897	11	2.8	12	90	4	50	63	0	3	33	1.10
597984--598033	17	2.8	17	82	17	66	44	0	0	56	0.99
597981--598033	18	2.9	19	81	18	76	43	0	0	56	0.99
598697--598759	31	2.1	30	82	14	76	57	0	0	42	0.99
599423--599460	10	3.9	10	89	3	60	47	0	0	52	1.00
599415--599460	20	2.4	19	89	7	67	43	0	0	56	0.99
600722--600755	16	2.1	16	88	0	50	50	0	5	44	1.26
601188--601213	6	4.3	6	100	0	52	84	0	0	15	0.62
601942--601984	14	3.1	14	77	12	52	65	2	0	32	1.06
603449--603491	21	2.1	20	82	4	50	32	0	0	67	0.91
603901--603948	2	24.0	2	91	0	78	50	4	0	45	1.21
604175--604408	120	2.0	114	91	5	378	43	8	8	39	1.66
604600--604647	2	24.5	2	91	4	80	50	0	2	47	1.12
605945--605973	2	14.5	2	100	0	58	51	0	0	48	1.00
608040--608066	12	2.2	12	100	0	54	51	7	0	40	1.30
608858--608883	2	13.0	2	100	0	52	50	0	0	50	1.00
609049--609074	10	2.6	10	100	0	52	80	0	0	19	0.71
610386--610410	1	25.0	1	100	0	50	0	0	0	100	0.00
612014--612094	12	6.7	12	72	16	60	56	0	0	43	0.99
612958--613178	34	6.5	33	80	9	248	40	26	7	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612960--613178	68	3.2	67	83	3	278	40	26	7	26	1.81
612958--613179	102	2.2	101	89	1	354	40	26	7	26	1.81
617585--617803	34	6.5	33	80	9	244	40	26	7	25	1.81
617587--617803	68	3.2	67	83	3	274	40	26	7	25	1.82
617585--617803	102	2.2	101	89	1	348	40	26	7	25	1.81
618353--618400	18	2.6	19	80	6	55	50	0	2	47	1.12
623309--623371	24	2.7	23	71	14	58	60	3	1	34	1.22
633036--633107	30	2.4	30	79	11	76	34	1	5	58	1.30
633053--633142	16	5.7	16	74	13	62	32	2	8	56	1.42
633150--633222	37	2.0	37	81	5	85	34	5	12	47	1.64
635110--635135	6	4.3	6	100	0	52	30	34	0	34	1.58
635621--635693	38	1.9	38	86	10	105	50	0	1	47	1.09
635016--635849	411	2.0	414	82	6	1028	34	13	8	43	1.74
636370--636404	2	17.5	2	100	0	70	0	51	0	48	1.00
640140--640184	18	2.4	18	88	7	63	48	0	0	51	1.00
640992--641025	2	17.0	2	100	0	68	50	0	0	50	1.00
652772--652819	16	2.9	16	75	3	51	33	2	0	64	1.05
652848--652889	22	1.9	22	85	0	57	35	0	2	61	1.09
652862--652920	28	2.1	27	84	3	73	42	0	0	57	0.98
654572--654624	22	2.4	23	78	6	65	45	3	0	50	1.19
656828--656892	16	3.8	18	72	13	57	44	0	0	55	0.99
656839--656921	43	2.0	42	83	11	107	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657830--657863	2	17.0	2	93	0	59	47	0	52	0	1.00
658075--658129	24	2.4	23	85	8	85	54	0	0	45	0.99
659587--659615	2	14.5	2	100	0	58	51	0	48	0	1.00
671637--671684	21	2.2	22	85	3	62	45	0	2	52	1.12
675525--675702	70	2.6	68	83	6	209	41	0	0	57	1.07
685191--685373	76	2.4	77	89	0	287	31	11	10	46	1.73
685508--685546	18	2.1	18	85	4	51	33	0	2	64	1.08
685916--685952	3	12.3	3	100	0	74	67	0	0	32	0.91
690192--690247	28	2.0	29	86	10	80	39	0	1	58	1.08
690255--690306	18	2.9	18	83	13	63	59	0	0	40	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16