genome.fa.s12.2.7.7.80.10.50.1000.16.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  16  of  18  ( 2130 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)
6561081--6561117	18	2.1	18	89	0	56	67	2	0	29	1.04
6562811--6562848	17	2.2	17	86	9	51	28	0	7	63	1.23
6563294--6563331	17	2.2	18	85	4	51	60	2	2	34	1.24
6563615--6563640	2	13.0	2	100	0	52	0	50	0	50	1.00
6564085--6564165	43	1.9	43	82	9	105	33	0	3	62	1.12
6564377--6564422	22	2.1	22	84	8	58	34	2	2	60	1.21
6564663--6564726	26	2.5	25	80	14	85	60	0	1	37	1.06
6565401--6565425	9	2.8	9	100	0	50	20	0	0	80	0.72
6571246--6571273	2	14.0	2	100	0	56	50	0	0	50	1.00
6582363--6582411	20	2.4	21	80	19	59	55	6	0	38	1.25
6582405--6582465	30	2.1	29	81	3	68	37	1	1	59	1.17
6582658--6582730	29	2.6	28	80	10	78	60	0	0	39	0.97
6583994--6584021	2	14.0	2	100	0	56	0	50	0	50	1.00
6585035--6585088	18	3.0	18	75	20	51	38	0	3	57	1.17
6605709--6605756	20	2.3	21	89	7	71	33	4	0	62	1.14
6624516--6624554	19	2.0	19	85	5	51	30	25	23	20	1.98
6637026--6637080	28	2.0	28	92	0	92	23	1	12	61	1.40
6647217--6647252	2	18.0	2	94	0	63	0	47	0	52	1.00
6662801--6662870	32	2.2	32	82	10	81	52	4	14	28	1.60
6669847--6669907	27	2.3	27	88	5	88	6	14	45	32	1.71
6669896--6669949	21	2.6	21	96	0	99	5	18	46	29	1.72
6671834--6671879	14	3.4	13	85	14	58	69	0	4	26	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6671829--6671879	18	2.8	18	85	8	59	68	0	5	25	1.12
6677498--6677526	12	2.3	13	94	5	51	58	0	0	41	0.98
6679869--6679898	2	15.0	2	100	0	60	50	0	0	50	1.00
6682902--6682939	15	2.6	14	88	8	58	63	2	2	31	1.22
6692467--6692497	15	2.1	15	93	0	53	32	9	9	48	1.69
6693050--6693109	18	3.5	17	82	14	79	46	6	1	45	1.39
6693241--6693313	25	3.3	21	79	14	60	47	6	4	41	1.49
6693258--6693313	25	2.2	25	93	0	94	48	8	3	39	1.52
6693293--6693352	26	2.5	23	78	17	68	48	11	1	38	1.50
6693263--6693360	25	4.0	24	75	18	71	46	12	3	37	1.57
6704696--6704778	42	2.0	42	85	0	112	48	10	12	28	1.74
6709603--6709721	60	2.0	60	93	0	202	32	8	11	47	1.70
6709922--6709969	25	2.0	25	84	11	66	56	0	0	43	0.99
6709910--6709970	25	2.6	24	80	14	65	52	0	0	47	1.00
6709955--6710027	20	3.8	18	73	14	58	63	1	4	31	1.22
6713852--6713903	27	2.0	27	88	7	81	28	0	1	69	0.99
6716179--6716235	23	2.5	22	75	10	62	63	0	0	36	0.95
6731044--6731088	20	2.1	20	84	12	54	64	0	4	31	1.13
6738813--6738882	30	2.3	31	80	14	83	54	5	11	28	1.59
6749634--6749680	22	2.1	22	84	7	60	36	6	8	48	1.59
6750588--6750624	4	9.2	4	100	0	74	24	0	0	75	0.80
6755535--6755578	22	2.0	23	82	13	56	43	4	31	20	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6756383--6756428	11	4.0	12	81	15	53	45	0	0	54	0.99
6756408--6756447	18	2.2	18	86	8	55	52	0	0	47	1.00
6760126--6760240	55	2.1	55	93	0	194	33	21	18	26	1.96
6760455--6760492	20	2.0	20	85	10	53	57	0	2	39	1.12
6760483--6760541	29	2.1	29	81	12	70	35	0	0	64	0.94
6766927--6766981	29	1.9	29	85	3	76	58	0	1	40	1.09
6774399--6774449	2	25.5	2	87	0	66	49	7	0	43	1.32
6779523--6779577	25	2.2	25	81	15	69	34	3	7	54	1.46
6780048--6780085	17	2.2	17	86	9	51	50	0	5	44	1.24
6780054--6780085	17	1.9	17	93	6	57	50	0	6	43	1.27
6783781--6783970	96	2.0	96	92	0	317	40	12	21	25	1.88
6788620--6788676	20	2.8	21	78	7	55	45	3	7	43	1.48
6790411--6790488	29	2.6	29	78	11	86	50	15	8	25	1.73
6791671--6791744	28	2.6	28	100	0	148	27	6	31	35	1.83
6794619--6794644	4	6.5	4	100	0	52	23	0	0	76	0.78
6802077--6802105	13	2.1	14	93	6	51	27	0	6	65	1.18
6802294--6802319	3	8.7	3	100	0	52	69	0	0	30	0.89
6802903--6802988	38	2.3	38	86	4	113	52	4	0	43	1.22
6808480--6808516	18	2.1	18	100	0	74	54	13	10	21	1.69
6808905--6808929	13	1.9	13	100	0	50	64	4	0	32	1.12
6809308--6809347	12	3.3	12	85	0	53	42	22	7	27	1.80
6809985--6810013	15	1.9	15	100	0	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6809985--6810023	14	2.7	14	88	11	53	41	0	0	58	0.98
6811351--6811434	42	2.0	41	88	2	123	35	1	11	51	1.47
6811351--6811406	14	4.1	13	70	20	51	33	0	14	51	1.42
6819830--6819898	1	69.0	1	100	0	138	0	100	0	0	0.00
6828968--6829001	2	17.0	2	100	0	68	0	50	0	50	1.00
6830689--6830715	14	1.9	14	100	0	54	29	18	14	37	1.91
6840056--6840151	48	2.0	47	95	2	174	51	1	25	22	1.55
6844830--6844873	19	2.3	19	84	0	52	27	2	6	63	1.31
6851830--6851935	53	2.0	53	98	0	203	34	16	16	31	1.92
6857605--6857638	2	17.0	2	100	0	68	50	0	50	0	1.00
6862387--6862467	25	3.6	25	65	25	79	30	13	9	45	1.76
6868815--6868849	18	1.9	18	88	0	52	2	25	2	68	1.17
6880295--6880483	63	3.0	63	83	3	265	28	22	13	35	1.92
6881940--6882006	29	2.3	29	97	0	125	25	19	8	46	1.79
6883242--6883309	32	2.2	32	97	2	129	41	13	14	30	1.84
6892560--6892661	27	3.7	27	70	10	73	42	6	9	41	1.65
6892587--6892690	55	1.9	55	81	0	127	43	7	9	39	1.66
6892648--6892792	55	2.6	56	81	2	157	43	5	8	42	1.57
6892672--6892775	28	3.8	27	88	7	147	43	3	6	46	1.48
6892648--6892781	28	4.8	28	81	5	137	41	5	8	44	1.59
6893972--6894011	20	2.0	20	85	9	55	50	0	0	50	1.00
6908547--6908586	19	2.2	19	90	4	64	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6908530--6908589	31	2.0	29	87	6	84	60	0	0	40	0.97
6909258--6909296	19	2.0	20	85	10	53	53	2	0	43	1.14
6909321--6909392	30	2.4	30	88	0	99	44	1	1	52	1.18
6909473--6909523	22	2.2	24	86	6	70	52	1	3	41	1.31
6910179--6910262	20	4.2	21	76	15	97	67	0	0	32	0.91
6910185--6910309	13	8.6	14	75	15	55	67	0	0	31	1.02
6910282--6910344	19	3.2	19	70	12	54	69	0	3	26	1.03
6910190--6910369	20	8.9	19	66	19	80	67	0	1	30	1.04
6910288--6910373	33	2.5	34	88	3	120	69	0	2	27	1.00
6910175--6910368	84	2.3	85	76	16	204	67	0	1	30	1.04
6910182--6910371	89	2.1	88	78	15	205	67	0	1	30	1.03
6910597--6910632	15	2.4	15	95	0	63	36	27	5	30	1.80
6913251--6913287	2	18.5	2	100	0	74	51	0	48	0	1.00
6917138--6917170	15	2.2	16	89	10	52	36	9	3	51	1.49
6923353--6923651	158	1.9	159	82	4	381	35	19	18	25	1.95
6930463--6930504	6	7.3	6	84	10	52	0	61	0	38	0.96
6931702--6931749	24	2.0	23	84	15	62	62	4	2	31	1.26
6932166--6932230	24	2.6	25	75	7	60	15	7	1	75	1.10
6940339--6940520	39	4.7	39	81	4	188	26	14	35	23	1.94
6941990--6942024	17	2.1	17	89	10	54	51	0	45	2	1.16
6954167--6954191	3	8.3	3	100	0	50	68	0	32	0	0.90
6959611--6959679	35	2.0	35	82	5	86	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6959767--6959812	21	2.2	20	82	14	58	47	2	0	50	1.13
6959774--6959819	21	2.3	22	85	14	64	45	0	0	54	0.99
6966721--6966760	21	1.9	21	89	0	62	40	0	10	50	1.36
6974656--6974842	99	1.9	99	83	6	247	43	11	8	36	1.72
6982800--6983319	193	2.9	180	77	9	487	36	14	13	35	1.85
6982937--6983402	193	2.4	193	80	1	540	37	11	13	36	1.82
6991139--6991185	16	2.9	16	87	3	58	63	2	31	2	1.18
6993110--6993282	27	6.4	27	70	7	136	19	17	36	26	1.94
6993131--6993299	54	3.1	54	89	0	257	20	17	39	22	1.93
6996730--6996805	33	2.3	32	88	4	116	18	25	18	38	1.93

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