genome.fa.s329.2.7.7.80.10.50.1000.4.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: Scaffold329
Parameters: 2 7 7 80 10 50 1000
Length:  4121247

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   

This is table  4  of  25  ( 2930 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)
478762--479037	58	4.8	58	90	1	371	31	32	16	19	1.94
478765--479037	86	3.2	86	87	3	370	31	32	16	19	1.94
478819--479092	58	4.7	57	86	3	212	32	31	15	20	1.94
479155--479255	35	2.9	34	83	4	121	20	27	11	39	1.88
479315--479559	49	4.9	49	78	3	229	25	23	17	33	1.96
480320--480373	20	2.8	20	94	2	92	33	11	16	38	1.84
480459--480585	52	2.4	52	94	0	227	36	18	17	28	1.93
492411--492981	284	2.0	284	100	0	1142	31	20	21	25	1.98
504367--504643	79	3.5	79	81	1	331	32	15	25	26	1.95
507006--507139	49	2.7	50	88	3	200	41	15	16	26	1.88
507006--507139	50	2.7	49	90	1	205	41	15	16	26	1.88
508407--508436	11	2.7	11	100	0	60	80	20	0	0	0.72
508405--508462	25	2.3	24	80	8	62	81	13	1	3	0.91
508446--508473	11	2.5	11	100	0	56	78	14	7	0	0.95
508418--508473	25	2.2	24	78	9	58	80	12	3	3	0.97
509688--510317	28	21.5	28	84	7	659	29	30	17	21	1.96
509688--510317	57	10.7	57	86	5	710	29	30	17	21	1.96
509688--510317	85	7.2	85	85	7	726	29	30	17	21	1.96
511208--511332	20	5.7	20	74	18	115	30	16	12	41	1.84
511208--511285	40	2.0	39	94	2	138	32	14	14	39	1.85
516494--516523	15	2.0	15	93	0	51	30	0	3	66	1.07
516490--516527	19	2.0	19	89	0	58	31	0	2	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516796--516855	26	2.3	26	80	8	70	51	0	6	41	1.28
519532--519560	14	2.1	14	100	0	58	51	13	6	27	1.66
522323--522351	3	9.7	3	100	0	58	65	0	0	34	0.93
525097--525127	16	1.9	16	100	0	62	25	0	0	74	0.82
525259--525298	18	2.2	18	90	0	62	50	0	2	47	1.14
529957--529998	20	2.0	20	86	4	57	59	0	9	30	1.29
531384--531452	33	2.1	33	83	5	86	37	17	11	33	1.86
531482--531536	19	2.8	19	91	2	83	36	14	16	32	1.89
531521--531547	13	2.1	13	100	0	54	40	14	14	29	1.86
540247--540315	33	2.1	33	86	5	95	36	17	13	33	1.88
541433--541468	2	18.0	2	100	0	72	50	0	0	50	1.00
542975--543004	15	2.0	15	100	0	60	40	0	20	40	1.52
543950--543999	26	1.9	26	95	0	91	28	0	8	64	1.22
544582--544636	20	2.7	20	86	8	76	41	9	18	30	1.81
549554--549654	30	3.4	30	71	15	111	42	12	13	30	1.82
549534--549677	58	2.7	50	75	17	155	40	11	13	33	1.82
549541--549663	58	2.1	58	95	0	219	43	12	13	30	1.81
550404--550539	60	2.2	61	85	5	186	41	9	25	23	1.85
550486--550967	52	9.4	52	82	7	266	34	15	25	24	1.95
550480--551132	104	6.4	101	78	9	548	32	15	25	25	1.95
550421--551138	156	4.7	154	79	9	600	33	14	26	25	1.95
550636--551041	52	7.9	52	85	5	436	33	15	25	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550994--551167	43	3.9	42	72	16	125	29	16	25	28	1.97
550944--551175	94	2.5	94	85	2	304	28	16	26	28	1.97
551184--551254	32	2.3	30	82	4	88	18	21	33	26	1.96
551241--551300	27	2.2	27	87	0	93	33	16	30	20	1.94
552509--552583	20	3.8	20	76	0	69	33	13	13	40	1.83
552599--552650	20	2.6	20	93	0	86	38	9	17	34	1.82
556379--556424	12	3.7	12	78	21	58	21	15	34	28	1.94
556389--556429	12	3.0	15	73	26	54	21	14	29	34	1.93
556378--556429	26	2.0	26	100	0	104	23	15	30	30	1.95
563409--563478	20	3.5	19	75	7	68	40	14	12	32	1.84
563936--563990	27	2.0	27	89	0	83	12	29	21	36	1.91
571912--571967	20	2.8	20	88	0	85	41	14	10	33	1.80
572871--573359	28	17.1	28	83	5	507	23	16	30	29	1.96
574613--574703	1	91.0	1	77	0	74	2	1	9	86	0.70
574598--574703	24	4.7	21	77	12	104	1	1	11	84	0.77
574613--574704	9	9.8	9	80	13	98	2	1	10	85	0.73
574605--574703	11	8.8	11	80	18	107	2	1	11	85	0.72
582622--582855	79	2.9	79	79	8	251	32	13	26	27	1.94
582736--582935	107	1.9	108	82	3	260	30	15	27	27	1.96
582812--582886	28	2.7	28	85	0	87	22	18	34	24	1.96
582869--583263	51	7.6	52	70	10	277	32	10	27	29	1.90
582760--583252	262	1.9	261	95	0	887	31	11	27	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585634--585675	21	2.0	21	100	0	84	28	19	9	42	1.82
585692--585743	13	3.5	13	73	26	50	36	17	13	32	1.89
585700--585762	19	3.7	18	76	24	73	36	17	12	33	1.88
585692--585764	32	2.3	32	97	0	137	35	17	12	34	1.88
590364--590392	13	2.1	14	93	6	51	6	0	20	72	1.07
594175--594212	20	1.9	20	100	0	76	52	15	10	21	1.72
594269--594310	20	2.1	20	95	0	75	33	14	7	45	1.72
594948--595244	155	1.9	153	82	6	368	26	14	16	42	1.86
595531--595571	21	2.0	21	90	4	66	36	14	9	39	1.79
595608--595661	21	2.7	21	85	5	76	37	12	16	33	1.87
595712--595739	13	2.2	13	100	0	56	28	14	17	39	1.89
595692--595755	33	1.9	33	84	6	85	29	15	14	40	1.86
596729--596927	79	2.5	79	80	2	211	30	15	30	24	1.96
596907--596965	29	2.0	30	86	3	84	32	11	32	23	1.91
596947--597169	51	4.3	50	81	6	221	32	11	26	29	1.92
596981--597169	52	3.6	51	85	4	218	32	12	25	28	1.93
597101--597280	79	2.3	79	92	0	288	29	15	28	27	1.96
597233--597310	27	2.9	27	86	5	104	24	16	33	25	1.96
599803--599859	19	3.3	19	72	27	72	33	14	12	40	1.83
599825--599849	13	1.9	13	100	0	50	32	16	16	36	1.90
599806--599894	32	3.0	32	78	20	113	35	14	12	37	1.84
599923--599999	21	3.7	21	87	3	102	35	15	12	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600699--601609	55	15.9	54	83	9	758	25	21	27	25	1.99
600833--600926	47	2.0	47	93	4	163	18	21	28	31	1.96
600723--601609	157	5.2	160	83	9	639	25	21	27	25	1.99
600880--601623	59	12.7	59	88	3	962	26	21	27	24	1.99
600880--601623	300	2.5	297	86	6	986	26	21	27	24	1.99
600704--601623	359	2.7	347	84	8	1137	25	21	27	25	1.99
603259--603598	152	2.2	155	78	9	349	27	14	17	40	1.88
603809--603849	21	2.0	21	85	4	57	36	17	7	39	1.77
603886--603939	21	2.7	21	85	5	76	37	11	16	35	1.84
603992--604016	13	1.9	13	100	0	50	32	16	8	44	1.76
605167--605242	28	2.7	27	82	8	82	25	17	34	23	1.96
605008--605206	80	2.5	80	81	2	222	29	15	30	24	1.96
605227--605448	52	4.3	51	81	6	230	32	11	25	29	1.91
605512--605589	27	2.9	27	86	5	104	24	16	33	25	1.96
608082--608181	19	5.9	18	73	26	103	37	15	12	36	1.84
608104--608160	13	3.9	13	76	24	60	33	15	14	36	1.88
608085--608179	32	3.0	32	98	0	181	35	15	12	35	1.86
608217--608293	21	3.7	21	87	3	102	35	15	12	36	1.86
608995--609991	59	17.4	54	84	7	772	26	21	26	25	1.99
609129--609222	47	2.0	47	93	4	163	18	21	28	31	1.96
609019--609986	157	5.7	160	82	9	618	25	21	27	25	1.99
609176--609986	59	13.9	59	89	3	1053	26	21	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608999--609986	118	8.6	117	85	7	1094	26	21	27	25	1.99
609097--609991	356	2.6	351	86	6	1221	26	21	27	25	1.99
610969--611017	20	2.5	20	87	9	73	2	6	6	85	0.80
621439--621563	52	2.4	52	95	0	223	28	17	18	36	1.94
621439--621583	52	2.8	51	89	4	211	29	17	18	34	1.94
621572--621596	13	1.9	13	100	0	50	36	16	16	32	1.90
621638--621707	33	2.1	33	89	0	104	40	14	11	34	1.82
621663--621687	13	1.9	13	100	0	50	32	16	16	36	1.90
622406--622473	22	3.1	22	62	19	52	29	19	26	25	1.98
622384--623639	43	27.2	43	82	11	1342	31	18	24	25	1.98

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