genome.fa.s143.2.7.7.80.10.50.1000.4.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: Scaffold143
Parameters: 2 7 7 80 10 50 1000
Length:  1221646

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 905 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)
423641--424071	31	13.8	31	81	5	478	23	29	15	31	1.95
423864--424823	33	29.8	33	79	7	825	19	31	13	35	1.90
424082--424786	260	2.7	260	89	3	1045	19	31	12	35	1.89
424053--424792	193	3.8	189	83	5	799	19	31	12	36	1.89
424818--425286	49	9.9	48	78	9	338	25	25	17	31	1.97
424875--425043	84	2.0	84	88	2	250	27	26	18	27	1.98
424965--425286	49	6.6	49	84	1	414	25	24	17	32	1.97
424965--425379	98	4.2	98	88	1	530	24	25	17	32	1.97
426194--426221	13	2.2	13	100	0	56	28	14	17	39	1.89
429264--429653	49	7.9	49	79	9	382	25	25	17	32	1.97
429405--429650	52	4.8	52	79	5	257	24	26	16	32	1.96
429264--429595	100	3.4	99	84	7	437	24	25	18	31	1.97
429697--429867	53	3.2	53	78	6	177	23	25	17	32	1.97
430472--430539	32	2.1	32	94	0	118	35	11	16	36	1.85
430491--430515	13	1.9	13	100	0	50	36	16	16	32	1.90
430470--430534	19	3.7	19	73	23	70	33	12	15	38	1.85
430587--430611	13	1.9	13	100	0	50	32	16	16	36	1.90
430620--430749	52	2.5	52	91	1	215	35	16	18	30	1.93
433611--434041	222	1.9	222	96	0	799	25	27	20	26	1.99
437928--437979	11	4.7	11	87	0	77	84	15	0	0	0.62
439261--440086	33	25.9	31	82	9	557	21	30	14	34	1.93
439261--439721	62	7.4	62	82	5	502	23	29	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439261--440079	93	8.6	92	78	10	528	21	30	14	34	1.93
439358--440311	33	29.8	33	80	7	661	20	30	13	35	1.91
439731--440316	193	3.0	190	88	3	829	19	31	13	36	1.90
440090--440147	27	2.1	27	87	0	80	22	25	12	39	1.89
439702--440261	159	3.5	159	82	9	625	19	30	13	36	1.90
440327--440447	48	2.5	48	84	4	143	27	24	18	29	1.98
440465--440581	52	2.3	50	83	4	137	27	26	16	29	1.97
440564--440599	18	2.0	18	100	0	72	27	27	16	27	1.97
440511--440651	70	2.0	70	100	0	282	26	29	16	26	1.97
440581--440995	49	8.4	49	80	2	447	25	26	16	31	1.97
440581--440995	98	4.2	98	86	3	512	25	26	16	31	1.97
441781--441827	19	2.5	19	100	0	94	29	10	21	38	1.87
445037--445091	19	2.8	20	86	2	76	34	16	10	38	1.84
445122--445188	33	2.0	33	88	5	100	40	11	13	34	1.81
446729--446766	20	1.9	19	94	5	67	39	10	18	31	1.85
446827--446876	20	2.5	20	83	3	64	30	16	12	42	1.84
447757--447917	78	2.1	77	81	3	180	39	9	19	31	1.84
448073--448222	60	2.5	59	80	8	169	34	9	17	38	1.82
451674--451707	17	2.0	17	100	0	68	5	11	5	76	1.14
451677--451714	17	2.2	17	90	0	58	10	13	5	71	1.30
452096--452135	21	1.9	21	85	10	55	20	10	30	40	1.85
452163--452240	22	3.5	22	87	0	102	35	7	12	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
453257--453312	20	2.6	22	83	11	80	55	1	7	35	1.38
453744--453791	16	3.0	16	84	6	53	33	6	0	60	1.22
455316--455374	31	2.0	30	80	9	68	54	6	11	27	1.62
460092--460192	20	4.8	20	78	13	103	43	16	14	24	1.86
460063--460192	66	1.9	67	87	4	190	41	16	16	25	1.89
463905--463942	20	1.9	20	94	0	67	31	13	13	42	1.82
463962--464013	13	3.5	13	73	26	50	36	17	13	32	1.89
463970--464034	19	3.7	19	75	23	79	38	16	12	32	1.86
463962--464032	32	2.2	32	97	0	133	36	18	12	32	1.88
468846--469047	79	2.6	78	82	7	223	31	12	27	28	1.93
468999--469073	28	2.7	27	83	6	96	26	18	30	24	1.98
469059--469174	51	2.3	51	90	0	178	29	12	26	31	1.92
468921--469123	107	1.9	107	83	2	264	30	13	29	27	1.94
468952--469241	158	1.8	157	82	2	366	32	14	26	26	1.94
471651--471757	20	5.7	20	73	18	88	42	14	15	27	1.85
471773--471802	13	2.3	13	100	0	60	40	13	16	30	1.87
472529--472723	42	4.5	43	77	11	177	40	12	25	22	1.89
472702--473725	61	16.9	61	77	10	694	29	18	27	24	1.98
473060--473731	60	10.9	60	86	4	869	28	19	28	24	1.98
473060--473731	124	5.5	122	88	4	872	28	19	28	24	1.98
473060--473723	184	3.6	185	89	3	984	27	19	28	24	1.99
473782--474058	61	4.5	62	89	4	375	27	18	28	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480227--480411	78	2.4	78	81	6	214	32	12	26	28	1.93
480434--480505	28	2.6	28	88	4	101	26	19	30	23	1.98
480493--480607	51	2.3	51	89	0	167	32	12	23	32	1.91
480353--480556	107	1.9	107	84	2	275	31	15	26	26	1.96
480590--480663	28	2.6	28	85	4	96	25	21	31	21	1.98
480385--480716	158	2.1	160	84	3	420	32	14	25	27	1.95
483116--483146	13	2.4	13	94	0	53	41	16	12	29	1.85
483097--483168	33	2.2	33	90	5	110	43	12	16	27	1.84
483194--483218	13	1.9	13	100	0	50	32	16	16	36	1.90
486120--486194	20	3.8	20	85	0	105	42	12	12	33	1.79
487818--487870	19	2.7	20	85	8	72	39	18	13	28	1.88
494033--494071	13	3.0	13	84	0	51	33	15	12	38	1.85
494192--494237	21	2.2	20	81	11	58	32	19	4	43	1.71
496642--496666	12	2.1	12	100	0	50	36	16	16	32	1.90
496624--496688	31	2.0	31	85	5	85	38	16	13	30	1.88
499052--499097	20	2.2	21	96	3	85	50	0	10	39	1.38
501557--501614	20	2.7	22	81	5	66	39	13	15	31	1.86
507100--507342	67	3.6	67	83	2	267	45	14	22	17	1.84
507353--507832	161	3.0	163	80	8	496	40	15	25	19	1.90
507659--508323	162	4.1	161	79	6	571	39	15	26	18	1.90
507680--508134	203	2.2	202	80	6	517	40	16	26	17	1.90
508353--508634	123	2.3	122	79	4	264	42	12	25	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507353--508566	41	29.8	41	71	7	558	40	14	26	18	1.89
509755--509811	16	3.6	15	76	19	53	3	14	3	78	1.01
514816--514865	20	2.6	20	84	9	68	38	14	16	32	1.88
515809--515875	33	2.0	33	88	0	98	28	17	29	23	1.97
516778--516820	21	2.0	21	90	0	68	41	2	23	32	1.67
523447--523499	20	2.7	20	93	0	88	41	15	13	30	1.85
523777--523920	14	9.9	14	71	21	68	25	0	2	72	0.98
523784--523923	17	8.0	17	69	23	71	25	0	2	71	1.00
523780--523917	4	34.5	4	72	17	65	25	0	2	71	0.99
523781--523923	53	2.6	57	72	14	131	25	0	2	71	1.00
524446--524908	42	10.9	42	74	10	327	33	19	29	17	1.95
524448--524908	85	5.4	84	81	4	444	32	19	29	18	1.95
524448--525103	127	5.3	126	75	9	477	32	19	29	18	1.95
524910--525096	42	4.4	42	75	6	148	32	18	30	18	1.95
533213--533268	17	3.6	17	77	22	77	42	7	26	23	1.79
533222--533251	12	2.5	12	94	0	51	43	6	26	23	1.78
533208--533271	29	2.2	29	97	0	119	43	7	26	21	1.80
533459--533586	4	32.8	4	70	21	67	25	0	2	72	0.96
533464--533597	17	8.1	16	70	19	89	24	0	2	73	0.95
540125--540495	154	2.4	155	79	5	378	39	17	17	25	1.92
541377--541435	30	1.9	30	83	10	75	35	13	6	44	1.71
542247--542301	5	10.8	5	81	11	67	74	1	0	23	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542370--542411	16	2.7	15	79	13	50	50	2	11	35	1.52
547415--547448	15	2.3	15	100	0	68	32	0	14	52	1.42
552497--552522	12	2.2	12	100	0	52	15	7	61	15	1.55
552976--553001	12	2.2	12	100	0	52	65	0	0	34	0.93
555957--556310	127	2.8	126	80	9	418	55	2	2	39	1.26
557042--557330	89	3.2	87	82	5	310	42	8	15	33	1.77
557042--557330	88	3.2	87	81	5	328	42	8	15	33	1.77
559372--559435	19	3.7	19	76	23	86	32	12	18	35	1.89
559373--559443	32	2.2	32	100	0	142	32	12	19	35	1.90
559392--559416	13	1.9	13	100	0	50	36	16	16	32	1.90

Tables:   1   2   3   4   5   6   7   8