genome.fa.s29.2.7.7.80.10.50.1000.3.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: NW_018397282.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_25.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1368273

Tables:   1   2   3   4   

This is table  3  of  4  ( 427 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)
817011--817209	80	2.5	80	80	0	209	35	23	10	31	1.88
820882--820912	2	15.5	2	93	0	53	51	3	45	0	1.17
821444--821468	7	3.6	7	100	0	50	48	40	0	12	1.40
826744--826810	31	2.1	33	81	10	77	40	4	2	52	1.37
828360--828395	12	3.1	12	84	8	56	27	44	11	16	1.82
828357--828415	23	2.6	23	83	5	75	22	37	18	22	1.94
830164--830333	92	1.8	92	86	2	243	33	19	14	32	1.92
833203--833247	19	2.4	19	85	7	56	66	2	15	15	1.35
835414--835445	16	2.1	15	94	5	55	59	0	0	40	0.97
835427--835515	20	4.8	20	68	18	57	47	0	3	49	1.18
852426--852538	55	2.1	54	80	8	122	38	15	12	33	1.85
852690--852741	24	2.2	23	82	3	59	34	7	17	40	1.78
855705--855735	15	2.0	16	93	6	55	41	12	0	45	1.42
858261--858310	18	2.9	17	77	16	57	76	2	0	22	0.89
859080--859379	51	5.9	51	85	1	309	23	34	34	8	1.84
859586--859783	71	2.8	71	75	9	188	17	31	40	10	1.83
859979--860016	15	2.5	15	100	0	76	36	0	26	36	1.57
860738--860772	14	2.5	14	90	0	52	45	5	2	45	1.41
864816--864849	17	1.9	18	88	5	52	38	11	14	35	1.83
865258--865284	7	3.9	7	100	0	54	40	0	0	59	0.98
867867--867921	27	2.1	26	82	3	65	34	18	12	34	1.89
869876--870039	23	7.1	23	83	0	202	18	27	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
870077--870119	18	2.4	18	92	3	70	20	25	11	41	1.86
870352--870679	80	4.1	80	90	3	477	41	8	11	38	1.71
870352--870679	159	2.1	159	88	3	491	41	8	11	38	1.71
874063--874194	60	2.2	60	79	2	140	22	31	18	28	1.97
875015--875040	2	13.0	2	100	0	52	50	0	0	50	1.00
878079--878111	14	2.3	15	90	10	52	27	21	0	51	1.48
893404--893441	2	19.5	2	83	5	51	2	42	0	55	1.14
896977--897007	8	3.9	8	95	0	53	3	58	0	38	1.15
899311--899360	26	1.9	26	95	0	91	34	16	26	24	1.95
907934--907969	3	12.3	3	88	5	56	66	0	0	33	0.92
932554--932588	18	1.9	18	88	0	52	37	17	5	40	1.73
935966--936012	23	2.0	23	100	0	94	36	17	12	34	1.87
936785--936818	18	1.9	17	88	5	50	38	17	8	35	1.81
938524--938637	35	3.3	35	88	0	174	27	15	20	36	1.93
947751--947862	28	4.0	28	80	0	125	33	10	16	40	1.83
947741--947860	56	2.1	56	85	0	168	32	10	15	40	1.82
947756--947874	56	2.1	56	79	3	132	36	10	15	37	1.82
954423--954466	22	2.0	22	86	4	63	29	0	9	61	1.27
955117--955164	12	4.0	12	91	8	80	41	16	41	0	1.48
957533--957566	2	17.0	2	100	0	68	50	0	0	50	1.00
957965--958010	23	2.0	23	95	0	83	28	23	13	34	1.92
958583--958675	38	2.3	40	81	10	109	53	15	23	7	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959123--959162	21	1.9	21	90	10	64	30	0	2	67	1.04
959363--959396	15	2.3	15	94	0	59	41	35	0	23	1.55
959759--959922	77	2.1	77	86	4	224	40	12	7	40	1.70
963128--963172	21	2.2	20	84	4	54	60	2	4	33	1.29
966152--966313	22	7.4	22	78	0	135	25	10	20	43	1.83
966190--966330	44	3.2	44	81	2	158	29	12	16	42	1.84
966182--966312	66	2.0	66	86	0	181	27	11	17	43	1.83
966192--966330	66	2.1	66	83	2	172	29	12	15	42	1.84
966356--966397	16	2.6	16	100	0	84	19	19	30	30	1.96
966399--966474	22	3.5	22	87	7	102	42	18	11	27	1.85
966860--966915	28	2.0	29	83	16	73	39	0	16	44	1.47
967237--967294	15	3.9	15	84	2	73	31	31	5	32	1.80
967236--967300	15	4.3	15	80	5	60	29	32	4	33	1.78
967348--967400	27	2.0	27	100	0	106	13	22	37	26	1.91
967428--967456	14	2.1	14	100	0	58	13	27	34	24	1.93
970675--970977	80	3.9	77	81	10	275	41	7	11	39	1.68
970714--970977	80	3.4	78	85	10	355	40	7	11	39	1.70
971307--971354	16	3.0	16	70	11	53	45	4	14	35	1.64
971292--971354	32	1.9	33	93	3	110	46	4	12	36	1.63
972004--972029	2	13.0	2	100	0	52	50	0	0	50	1.00
972221--972515	36	7.9	35	70	18	177	24	18	20	37	1.94
972193--972516	76	4.3	76	84	3	384	24	18	20	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
972234--972516	151	1.9	153	84	3	392	24	18	19	37	1.93
983139--983211	23	3.1	24	86	5	105	16	30	17	35	1.92
983253--983295	18	2.4	18	88	3	61	20	25	11	41	1.86
986331--986355	2	12.5	2	100	0	50	48	0	0	52	1.00
989117--989158	21	2.0	21	90	4	68	61	7	0	30	1.22
1001464--1001572	53	2.1	53	96	0	200	48	9	22	20	1.77
1002729--1002813	43	2.0	43	88	0	125	50	12	12	23	1.75
1005676--1005853	25	7.1	25	79	1	151	43	23	8	24	1.81
1005820--1005874	25	2.2	25	83	6	67	40	16	10	32	1.83
1008904--1008936	16	2.0	17	94	5	59	36	6	0	57	1.23
1010625--1010669	15	2.8	16	83	16	58	51	4	0	44	1.21
1023472--1023505	6	5.7	6	96	0	59	44	35	20	0	1.52
1031330--1031752	217	1.9	217	89	0	648	33	22	13	30	1.93
1032505--1032541	19	2.0	19	94	5	67	37	21	5	35	1.77
1036796--1036885	34	2.6	35	78	5	94	35	21	11	32	1.88
1041140--1041174	13	2.8	12	83	8	52	45	17	5	31	1.71
1047332--1047377	22	2.1	22	91	0	74	50	21	10	17	1.77
1054291--1054364	35	2.1	35	82	7	89	22	2	16	58	1.51
1065616--1065728	58	1.9	58	91	3	183	17	10	20	51	1.75
1066602--1066643	20	2.2	20	95	4	77	52	21	9	16	1.72
1075248--1075283	16	2.3	15	90	9	63	27	25	19	27	1.99
1080453--1080520	30	2.2	31	82	12	79	63	1	5	29	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081384--1081505	60	2.0	60	90	0	190	30	18	15	36	1.92
1084825--1085007	61	3.0	61	86	4	255	27	20	31	20	1.97
1092375--1092427	21	2.5	21	84	0	70	43	16	11	28	1.83
1094950--1095009	25	2.4	25	88	0	84	26	28	15	30	1.96
1097112--1097166	25	2.2	25	93	0	92	30	16	10	41	1.83
1097139--1097240	48	2.1	47	92	1	168	23	18	17	40	1.91
1097195--1097338	76	1.9	77	85	4	202	26	20	15	38	1.92
1097058--1097344	124	2.2	126	85	9	366	26	18	15	40	1.90
1097338--1097491	25	5.8	25	77	11	128	26	18	12	42	1.86
1097360--1097439	31	2.8	31	83	10	100	27	15	12	45	1.82
1097335--1097492	81	1.9	83	85	3	221	26	17	13	42	1.86
1099363--1099456	29	3.2	29	73	0	89	47	5	26	20	1.71
1099699--1099813	35	3.3	35	81	7	135	23	17	15	43	1.87
1104300--1104330	6	5.2	6	96	0	53	0	19	0	80	0.71
1108087--1108170	39	2.2	39	97	2	161	41	10	11	35	1.77
1108143--1108280	29	4.8	28	78	7	141	39	9	12	38	1.75
1108143--1108305	59	2.8	58	84	4	195	40	8	11	39	1.71
1108853--1108880	13	2.2	13	100	0	56	21	14	17	46	1.84
1112073--1112166	29	3.2	29	75	0	89	47	7	25	19	1.75
1112334--1112377	18	2.4	18	80	0	52	34	9	18	38	1.82
1112374--1112446	35	2.1	35	84	0	92	28	12	12	46	1.78
1115565--1115594	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119445--1119575	52	2.5	52	81	4	149	32	19	19	28	1.97
1119478--1119523	21	2.2	21	88	0	65	30	17	19	32	1.95
1119702--1119746	21	2.1	21	87	0	63	28	17	22	31	1.97
1119721--1119807	31	2.8	31	80	1	104	32	17	19	31	1.95
1119659--1119776	52	2.3	52	77	0	119	32	16	18	32	1.94
1119752--1119877	51	2.4	52	85	3	166	31	16	19	31	1.94
1119669--1119847	82	2.2	83	88	5	274	31	18	18	30	1.95
1119785--1119822	21	1.9	19	85	15	51	26	15	26	31	1.96
1119785--1119827	21	2.1	20	82	4	50	30	16	23	30	1.96
1119837--1119930	21	4.5	22	89	7	117	24	13	25	36	1.93

Tables:   1   2   3   4